Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003843.1 Kokia drynarioides strain JFW-HI SEQ_116862, 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: 78409
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:6843 original size:20 final size:21
Alignment explanation
Indices: 6797--6844 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
6787 CAAGTCAAGT
6797 CAGTTGAGCTGCAGTTACAACAG
1 CAGTTGAGCTGCAGTT--AACAG
*
6820 CAGTTGAGCTGCAGTT-ATAG
1 CAGTTGAGCTGCAGTTAACAG
6840 CAGTT
1 CAGTT
6845 ATTATTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
23 16 0.67
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (21 bp):
CAGTTGAGCTGCAGTTAACAG
Found at i:11421 original size:23 final size:23
Alignment explanation
Indices: 11391--11457 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
11381 AAGTCAAGTT
11391 AGTTGAGCTGCAGTTACAGCAAC
1 AGTTGAGCTGCAGTTACAGCAAC
** *
11414 AGTTGAGCTGCAGTTACAATAAT
1 AGTTGAGCTGCAGTTACAGCAAC
11437 AGTTGAGCTGCAGTTACAGCA
1 AGTTGAGCTGCAGTTACAGCA
11458 GTTATTGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
AGTTGAGCTGCAGTTACAGCAAC
Found at i:15004 original size:87 final size:87
Alignment explanation
Indices: 14890--15056 Score: 264
Period size: 87 Copynumber: 1.9 Consensus size: 87
14880 GGATTGCAAG
*
14890 CCACTTGGGAATCCCTCCTCGACTTCATTGAGCTTCTCCTTGACGTCC-CTCATGGACTCTTCAA
1 CCACTTGGGAATCCCTCCTCGACTTCATCGAGCTTCTCCTTGACGTCCTC-CATGGACTCTTCAA
*
14954 GAGTGGCCACTAGATTGTCTAAC
65 GAGTGACCACTAGATTGTCTAAC
* * *
14977 CCACTTGGGAGTCCCTCCTCGACTTCATCGAGCTTCTCCTTGATGTTCTCCATGGACTCTTCAAG
1 CCACTTGGGAATCCCTCCTCGACTTCATCGAGCTTCTCCTTGACGTCCTCCATGGACTCTTCAAG
*
15042 AGTGACCACTCGATT
66 AGTGACCACTAGATT
15057 TTTCAAAGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
87 72 0.99
88 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.31
Consensus pattern (87 bp):
CCACTTGGGAATCCCTCCTCGACTTCATCGAGCTTCTCCTTGACGTCCTCCATGGACTCTTCAAG
AGTGACCACTAGATTGTCTAAC
Found at i:17151 original size:38 final size:37
Alignment explanation
Indices: 17078--17180 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 37
17068 CGTCACAAGT
* **
17078 CAAAAACCACAATTACCCTAGTGGTAATGGATTGAAA
1 CAAAAATCACAATTACCCTAGTGACAATGGATTGAAA
17115 CAAAAATCACAATTAACCCTAGTGACAAT-GAGTTGAAA
1 CAAAAATCACAATT-ACCCTAGTGACAATGGA-TTGAAA
* * *
17153 CAAAAATCATAGTTCACCCTAATGACAA
1 CAAAAATCACAATT-ACCCTAGTGACAA
17181 AGGGTCAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
37 15 0.26
38 42 0.74
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (37 bp):
CAAAAATCACAATTACCCTAGTGACAATGGATTGAAA
Found at i:21126 original size:45 final size:45
Alignment explanation
Indices: 21075--21162 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
21065 CAATAAGCGT
21075 AGACCTTTCTTCTTCTTATTCTTTCCCATTTCTTGTTCTTGTTTC
1 AGACCTTTCTTCTTCTTATTCTTTCCCATTTCTTGTTCTTGTTTC
* * *
21120 AGACCTTTCTTCTTTTTGTTCTTTCCTATTTCTTGTTCTTGTT
1 AGACCTTTCTTCTTCTTATTCTTTCCCATTTCTTGTTCTTGTT
21163 CTCGATTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (45 bp):
AGACCTTTCTTCTTCTTATTCTTTCCCATTTCTTGTTCTTGTTTC
Found at i:21161 original size:23 final size:22
Alignment explanation
Indices: 21080--21164 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 22
21070 AGCGTAGACC
*
21080 TTTCTTCTTCTTATTCTTTCCCA
1 TTTCTTCTTCTTGTTCTTT-CCA
* ***
21103 TTTCTTGTTCTTGTTTCAGACC-
1 TTTCTTCTTCTTG-TTCTTTCCA
*
21125 TTTCTTCTTTTTGTTCTTTCCTA
1 TTTCTTCTTCTTGTTCTTTCC-A
*
21148 TTTCTTGTTCTTGTTCT
1 TTTCTTCTTCTTGTTCT
21165 CGATTTAGGG
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
21 5 0.11
22 11 0.23
23 28 0.60
24 3 0.06
ACGTcount: A:0.06, C:0.24, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTCTTCTTCTTGTTCTTTCCA
Found at i:27564 original size:24 final size:23
Alignment explanation
Indices: 27514--27682 Score: 194
Period size: 23 Copynumber: 7.2 Consensus size: 23
27504 AAAACGCATA
*
27514 AAAAATAACATCAAAACAACAAC
1 AAAAATAACAACAAAACAACAAC
*
27537 AAAAATAACATCAAAACAACAAC
1 AAAAATAACAACAAAACAACAAC
**
27560 AAAAATAACAACAAAAACAACAGT
1 AAAAATAACAAC-AAAACAACAAC
*
27584 AAAAATAACAACAAAATAACAAC
1 AAAAATAACAACAAAACAACAAC
* *
27607 AAAAATAGCAACAAAAATAACAAC
1 AAAAATAACAAC-AAAACAACAAC
* * *
27631 AAAAATAGCAACAAAAATAACAGC
1 AAAAATAACAAC-AAAACAACAAC
* *
27655 AAAAACAACACCAAAACAACAAC
1 AAAAATAACAACAAAACAACAAC
*
27678 CAAAA
1 AAAAA
27683 CAATAAAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 66 0.51
24 64 0.49
ACGTcount: A:0.70, C:0.20, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAAATAACAACAAAACAACAAC
Found at i:27588 original size:47 final size:47
Alignment explanation
Indices: 27514--27682 Score: 207
Period size: 47 Copynumber: 3.6 Consensus size: 47
27504 AAAACGCATA
* * *
27514 AAAAATAACATC-AAAACAACAACAAAAATAACATCAAAACAACAAC
1 AAAAATAACAACAAAAACAACAACAAAAATAACAACAAAATAACAAC
**
27560 AAAAATAACAACAAAAACAACAGTAAAAATAACAACAAAATAACAAC
1 AAAAATAACAACAAAAACAACAACAAAAATAACAACAAAATAACAAC
* * * *
27607 AAAAATAGCAACAAAAATAACAACAAAAATAGCAACAAAAATAACAGC
1 AAAAATAACAACAAAAACAACAACAAAAATAACAAC-AAAATAACAAC
* * *
27655 AAAAACAAC-ACCAAAACAACAACCAAAA
1 AAAAATAACAACAAAAACAACAACAAAAA
27683 CAATAAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
46 11 0.10
47 77 0.73
48 17 0.16
ACGTcount: A:0.70, C:0.20, G:0.02, T:0.07
Consensus pattern (47 bp):
AAAAATAACAACAAAAACAACAACAAAAATAACAACAAAATAACAAC
Found at i:27685 original size:12 final size:12
Alignment explanation
Indices: 27514--27670 Score: 185
Period size: 12 Copynumber: 13.3 Consensus size: 12
27504 AAAACGCATA
*
27514 AAAAATAACATC
1 AAAAATAACAAC
*
27526 -AAAACAACAAC
1 AAAAATAACAAC
*
27537 AAAAATAACATC
1 AAAAATAACAAC
*
27549 -AAAACAACAAC
1 AAAAATAACAAC
27560 AAAAATAACAAC
1 AAAAATAACAAC
* **
27572 AAAAACAACAGT
1 AAAAATAACAAC
27584 AAAAATAACAAC
1 AAAAATAACAAC
27596 -AAAATAACAAC
1 AAAAATAACAAC
*
27607 AAAAATAGCAAC
1 AAAAATAACAAC
27619 AAAAATAACAAC
1 AAAAATAACAAC
*
27631 AAAAATAGCAAC
1 AAAAATAACAAC
*
27643 AAAAATAACAGC
1 AAAAATAACAAC
* *
27655 AAAAACAACACC
1 AAAAATAACAAC
27667 AAAA
1 AAAA
27671 CAACAACCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
11 29 0.24
12 93 0.76
ACGTcount: A:0.71, C:0.19, G:0.03, T:0.08
Consensus pattern (12 bp):
AAAAATAACAAC
Found at i:27711 original size:21 final size:20
Alignment explanation
Indices: 27676--27765 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
27666 CAAAACAACA
* **
27676 ACCAAAACAATAAAAAAAGC
1 ACCAAAACAGTAAAAAAAAT
27696 ACCAAAACAGTAAAAAACAAT
1 ACCAAAACAGTAAAAAA-AAT
27717 ACCAAAACAGTAAAAAAAAT
1 ACCAAAACAGTAAAAAAAAT
*
27737 ACCAAAACAGTAAAAAAAGT
1 ACCAAAACAGTAAAAAAAAT
*
27757 ACTAAAACA
1 ACCAAAACA
27766 ACAACTATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 46 0.72
21 18 0.28
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.09
Consensus pattern (20 bp):
ACCAAAACAGTAAAAAAAAT
Found at i:27721 original size:41 final size:41
Alignment explanation
Indices: 27667--27766 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
27657 AAACAACACC
* *
27667 AAAACAACAACCAAAACAATAAAAAAAGCACCAAAACAGTAA
1 AAAACAA-TACCAAAACAATAAAAAAAACACCAAAACAGTAA
* *
27709 AAAACAATACCAAAACAGTAAAAAAAATACCAAAACAGTAA
1 AAAACAATACCAAAACAATAAAAAAAACACCAAAACAGTAA
* *
27750 AAAA-AGTACTAAAACAA
1 AAAACAATACCAAAACAA
27767 CAACTATTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 10 0.20
41 34 0.67
42 7 0.14
ACGTcount: A:0.69, C:0.18, G:0.05, T:0.08
Consensus pattern (41 bp):
AAAACAATACCAAAACAATAAAAAAAACACCAAAACAGTAA
Found at i:31696 original size:58 final size:57
Alignment explanation
Indices: 31629--31793 Score: 210
Period size: 57 Copynumber: 2.9 Consensus size: 57
31619 GATTATTGTT
31629 ATTA-ATTTTAATAAGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTATATTTTAATAA-ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* * * *
31686 ATTATATTTTAACAAAATTATTAGTAAATACAATTTAAT-AAAATAATATATAATTTA
1 ATTATATTTTAA-TAAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* *
31743 ATAATATTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTATATTTTAATA-AATTATTATT-AAATAT-AATTTAATAAAAATAATAA
31794 TATATAATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 41 0.45
58 38 0.41
59 12 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (57 bp):
ATTATATTTTAATAAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
Found at i:31802 original size:57 final size:56
Alignment explanation
Indices: 31633--31795 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 56
31623 ATTGTTATTA
*
31633 ATTTTAATAAGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTAT
1 ATTTTAATAA-ATTATTATTAAATATAATTTAATAAAAATAAT-AATAATTTAATAAT
* * *
31691 ATTTTAACAAAATTATTAGTAAATACAATTTAAT-AAAATAATATATAATTTAATAAT
1 ATTTTAA-TAAATTATTATTAAATATAATTTAATAAAAATAATA-ATAATTTAATAAT
*
31748 ATTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATA
1 ATTTTAATA-AATTATTATT-AAATAT-AATTTAATAAAAATAATAATA
31796 TATAATATTA
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
56 2 0.02
57 36 0.40
58 41 0.45
59 12 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (56 bp):
ATTTTAATAAATTATTATTAAATATAATTTAATAAAAATAATAATAATTTAATAAT
Found at i:35543 original size:19 final size:19
Alignment explanation
Indices: 35515--35551 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35505 CTAGTGATAC
* *
35515 TTCTATTATAAACATCTAA
1 TTCTACTATAAAAATCTAA
35534 TTCTACTATAAAAATCTA
1 TTCTACTATAAAAATCTA
35552 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTACTATAAAAATCTAA
Found at i:35585 original size:29 final size:30
Alignment explanation
Indices: 35553--35616 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
35543 AAAAATCTAT
* * *
35553 TTAAATTAAAT-TTTCTATTATTAAATAGA
1 TTAAATTAAATCTTTATACTATTAAATAAA
*
35582 TT-AATTTAATCTTTATACTATTAAATAAA
1 TTAAATTAAATCTTTATACTATTAAATAAA
35611 TTAAAT
1 TTAAAT
35617 AATATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 7 0.24
29 19 0.66
30 3 0.10
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAAATTAAATCTTTATACTATTAAATAAA
Found at i:44950 original size:22 final size:22
Alignment explanation
Indices: 44908--44951 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44898 GTTCAAAGAA
* *
44908 AATAGAATTTAACTAATTTTTC
1 AATAGAATTTAACAAAGTTTTC
44930 AATA-AATTTCAACAAAGTTTTC
1 AATAGAATTT-AACAAAGTTTTC
44952 TCTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
AATAGAATTTAACAAAGTTTTC
Found at i:47847 original size:46 final size:46
Alignment explanation
Indices: 47780--47872 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
47770 AAGATAAATT
47780 TATGTACATTCTTATCAAAATCCTAATAGAGTGAATATTTAATCGA
1 TATGTACATTCTTATCAAAATCCTAATAGAGTGAATATTTAATCGA
*
47826 TATGTACATTCTTATCAAAATCTTAATAGAGTGAATATTTAATCGA
1 TATGTACATTCTTATCAAAATCCTAATAGAGTGAATATTTAATCGA
47872 T
1 T
47873 CATTGAATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (46 bp):
TATGTACATTCTTATCAAAATCCTAATAGAGTGAATATTTAATCGA
Found at i:54656 original size:28 final size:28
Alignment explanation
Indices: 54625--54686 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
54615 AAAATGTGAT
* * *
54625 TTTTGGATACTCGGGGGTAAAATGGTAA
1 TTTTGGATACTCGAGGGCAAAATGATAA
54653 TTTTGGATACTCGAGGGCAAAATGATAA
1 TTTTGGATACTCGAGGGCAAAATGATAA
54681 TTTTGG
1 TTTTGG
54687 GAAAGTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TTTTGGATACTCGAGGGCAAAATGATAA
Found at i:54798 original size:59 final size:59
Alignment explanation
Indices: 54695--55103 Score: 309
Period size: 59 Copynumber: 6.9 Consensus size: 59
54685 GGGAAAGTTT
* * * *
54695 AGGGTTAAAAATAGAATTTTAGGCA-TTCGGGGGTAAAATGGTAATATTTAGAAAAATCG
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAAT-TTTAGAAAAATCG
* * * *
54754 A-GGTTAAAAATGTAATTTTGGGAAGTTTGGGGGTAAATTGGTAATTTTATTAAAAAT-T
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATTTTA-GAAAAATCG
* * * * **
54812 AGGGTCAAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTAATTCTT-G-AAATTTT
1 AGGGT-TAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATT-TTAGAAAAATCG
* * * * *
54871 AGGGTTGAAAATGTAATTTTGGGAAGTTTGGGGGTGAAATGATAATTTTTGAAAAATTC-
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATTTTAGAAAAA-TCG
* * * * *
54930 AGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAAAGTTG
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAA-TTTTAGAAAAATCG
* * * * * * **
54990 A-GGTAAAAAATGGGATTTTGGAAAGATCGACAGGGTAAAA-GTGTAATTTTTAGAAAGTTC-
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTG--GGGGTAAAATG-GTAA-TTTTAGAAAAATCG
* ** * *
55050 AAGGTTAAAAATGGAATTTTGAAAAGTTTAGGGTTAAAAATGG-AATTTTA-AAAA
1 AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGT-AAAATGGTAATTTTAGAAAA
55104 GTTTGGGGGT
Statistics
Matches: 281, Mismatches: 52, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
57 5 0.02
58 69 0.25
59 105 0.37
60 55 0.20
61 47 0.17
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.33
Consensus pattern (59 bp):
AGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATTTTAGAAAAATCG
Found at i:54859 original size:29 final size:29
Alignment explanation
Indices: 54637--54983 Score: 154
Period size: 29 Copynumber: 11.9 Consensus size: 29
54627 TTGGATACTC
* *
54637 GGGGGTAAAATGGTAA-TTTTGGATA-CTC
1 GGGGGTAAAATGGTAATTTTTGGA-AGTTT
* * * *
54665 GAGGGCAAAATGATAATTTTGGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGG-AAGTTT
* * * * * *
54695 AGGGTTAAAAATAG-AATTTTAGGCA-TTC
1 GGGGGT-AAAATGGTAATTTTTGGAAGTTT
* * ** *
54723 GGGGGTAAAATGGTAATATTTAGAAAAATC
1 GGGGGTAAAATGGTAAT-TTTTGGAAGTTT
* * *
54753 GAGGTTAAAAAT-GTAATTTTGGGAAGTTT
1 GGGGGT-AAAATGGTAATTTTTGGAAGTTT
* ** **
54782 GGGGGTAAATTGGTAATTTTATTAAAAATT
1 GGGGGTAAAATGGTAATTTT-TGGAAGTTT
* *
54812 -AGGGTCAAAAAATGG-AATTTTTGGATGTTT
1 GGGGGT---AAAATGGTAATTTTTGGAAGTTT
* * *
54842 GGGGGTAAAATGGTAATTCTTGAAATTTT
1 GGGGGTAAAATGGTAATTTTTGGAAGTTT
* * *
54871 AGGGTTGAAAAT-GTAATTTTGGGAAGTTT
1 GGGGGT-AAAATGGTAATTTTTGGAAGTTT
* * * * *
54900 GGGGGTGAAATGATAATTTTTGAAAAATTC
1 GGGGGTAAAATGGTAATTTTTG-GAAGTTT
* * *
54930 AGGGTTAAAAATGG-AATTTTTGGAAGTTC
1 GGGGGT-AAAATGGTAATTTTTGGAAGTTT
54959 GGGGGTAAAATGGTAATTTTTGGAA
1 GGGGGTAAAATGGTAATTTTTGGAA
54984 AAGTTGAGGT
Statistics
Matches: 229, Mismatches: 70, Indels: 39
0.68 0.21 0.12
Matches are distributed among these distances:
27 6 0.03
28 44 0.19
29 96 0.42
30 52 0.23
31 25 0.11
32 6 0.03
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
GGGGGTAAAATGGTAATTTTTGGAAGTTT
Found at i:55000 original size:118 final size:117
Alignment explanation
Indices: 54675--55069 Score: 397
Period size: 118 Copynumber: 3.3 Consensus size: 117
54665 GAGGGCAAAA
* * * * * * *
54675 TGATAATTTTGGGAAAGTTTAGGGTTAAAAATAGAATTTTAGGCA-TTCGGGGGTAAAATGGTAA
1 TGATAATTTTTGAAAAATTCAGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAA
* * *
54739 TATTTAGAAAAATCGAGGTTAAAAATGTAATTTTGGGAAGTTTGGGGGTAAAT
66 T-TTTTGAAAAATTGAGGTTAAAAATGTAATTTTGGGAAGTTTGGGGGTAAAG
* * * * *
54792 TGGTAATTTTATTAAAAATT-AGGGTCAAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGT
1 TGATAATTTT-TGAAAAATTCAGGGT-TAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGT
* * * *
54856 AATTCTTG-AAATTTTAGGGTTGAAAATGTAATTTTGGGAAGTTTGGGGGTGAAA-
64 AATTTTTGAAAAATTGA-GGTTAAAAATGTAATTTTGGGAAGTTTGGGGGT-AAAG
54910 TGATAATTTTTGAAAAATTCAGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAA
1 TGATAATTTTTGAAAAATTCAGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAA
* * ** * * * *
54975 TTTTTGGAAAAGTTGAGGTAAAAAATGGGATTTTGGAAAGATCGACAGGGTAAAAG
66 TTTTT-GAAAAATTGAGGTTAAAAATGTAATTTTGGGAAGTTTG--GGGGT-AAAG
* *
55031 TG-TAATTTTT-AGAAAGTTCAAGGTTAAAAATGGAATTTT
1 TGATAATTTTTGA-AAAATTCAGGGTTAAAAATGGAATTTT
55070 GAAAAGTTTA
Statistics
Matches: 230, Mismatches: 36, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
117 68 0.30
118 91 0.40
119 29 0.13
120 40 0.17
121 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (117 bp):
TGATAATTTTTGAAAAATTCAGGGTTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATGGTAA
TTTTTGAAAAATTGAGGTTAAAAATGTAATTTTGGGAAGTTTGGGGGTAAAG
Found at i:55038 original size:90 final size:91
Alignment explanation
Indices: 54929--55098 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 91
54919 TTGAAAAATT
* **
54929 CAGGGTTAAAAATGGAATTTTT-GGAAGTTCGGGGGT-AAAATGGTAATTTTTGGAAAAGTTGA-
1 CAGGGTTAAAAATGGAATTTTTAGAAAGTTCAAGGGTAAAAATGG-AA-TTTT-GAAAAGTTGAG
*
54991 GGTAAAAAATGGGATTTTGGAAAGATCGA
63 GGTAAAAAATGGAATTTTGGAAAGATCGA
* * * *
55020 CAGGG-TAAAAGTGTAATTTTTAGAAAGTTCAAGGTTAAAAATGGAATTTTGAAAAGTTTAGGGT
1 CAGGGTTAAAAATGGAATTTTTAGAAAGTTCAAGGGTAAAAATGGAATTTTGAAAAGTTGAGGGT
*
55084 TAAAAATGGAATTTT
66 AAAAAATGGAATTTT
55099 AAAAAGTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
89 9 0.13
90 34 0.51
91 17 0.25
92 7 0.10
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (91 bp):
CAGGGTTAAAAATGGAATTTTTAGAAAGTTCAAGGGTAAAAATGGAATTTTGAAAAGTTGAGGGT
AAAAAATGGAATTTTGGAAAGATCGA
Found at i:55039 original size:61 final size:61
Alignment explanation
Indices: 54902--55075 Score: 153
Period size: 61 Copynumber: 2.9 Consensus size: 61
54892 GGAAGTTTGG
* * * * * * * *
54902 GGGTGAAATGATAATTTTT-GAAAAATTCAGGGTTAAAAATGGAATTTTTG-GAAGTTCG--G
1 GGGTAAAATGGTAATTTTTAG-AAAGTTCAAGGTAAAAAATGGAA-TTTTGAAAAGATCGACA
* * * *
54961 GGGTAAAATGGTAATTTTTGGAAAAGTT-GAGGTAAAAAATGGGATTTTGGAAAGATCGACA
1 GGGTAAAATGGTAATTTTTAG-AAAGTTCAAGGTAAAAAATGGAATTTTGAAAAGATCGACA
*
55022 GGGTAAAA-GTGTAATTTTTAGAAAGTTCAAGGTTAAAAATGGAATTTTGAAAAG
1 GGGTAAAATG-GTAATTTTTAGAAAGTTCAAGGTAAAAAATGGAATTTTGAAAAG
55076 TTTAGGGTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
58 5 0.05
59 35 0.37
60 14 0.15
61 40 0.43
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (61 bp):
GGGTAAAATGGTAATTTTTAGAAAGTTCAAGGTAAAAAATGGAATTTTGAAAAGATCGACA
Found at i:55075 original size:29 final size:29
Alignment explanation
Indices: 54917--55106 Score: 134
Period size: 29 Copynumber: 6.4 Consensus size: 29
54907 AAATGATAAT
* *
54917 TTTTGAAAAATTCAGGGTTAAAAATGGAA
1 TTTTGAAAAGTTCAAGGTTAAAAATGGAA
* ** *
54946 TTTTTG-GAAGTTCGGGGGT-AAAATGGTAA
1 -TTTTGAAAAGTTCAAGGTTAAAAATGG-AA
* * *
54975 TTTTTGGAAAAGTT-GAGGTAAAAAATGGGA
1 -TTTT-GAAAAGTTCAAGGTTAAAAATGGAA
* * * * *
55005 TTTTGGAAAGATCGACAGGGTAAAAGTGTAA
1 TTTTGAAAAGTTC-A-AGGTTAAAAATGGAA
*
55036 TTTTTAGAAAGTTCAAGGTTAAAAATGGAA
1 TTTTGA-AAAGTTCAAGGTTAAAAATGGAA
* *
55066 TTTTGAAAAGTTTAGGGTTAAAAATGGAA
1 TTTTGAAAAGTTCAAGGTTAAAAATGGAA
*
55095 TTTTAAAAAGTT
1 TTTTGAAAAGTT
55107 TGGGGGTAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
28 13 0.10
29 52 0.42
30 27 0.22
31 27 0.22
32 6 0.05
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTTGAAAAGTTCAAGGTTAAAAATGGAA
Found at i:55107 original size:29 final size:29
Alignment explanation
Indices: 55037--55132 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
55027 AAAGTGTAAT
* * *
55037 TTTTAGAAAGTTCAAGGTTAAAAATGGAA
1 TTTTAAAAAGTTTAGGGTTAAAAATGGAA
*
55066 TTTTGAAAAGTTTAGGGTTAAAAATGGAA
1 TTTTAAAAAGTTTAGGGTTAAAAATGGAA
* * **
55095 TTTTAAAAAGTTTGGGGGTAAAAATATAA
1 TTTTAAAAAGTTTAGGGTTAAAAATGGAA
55124 TTTTAAAAA
1 TTTTAAAAA
55133 AAGTTTGGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (29 bp):
TTTTAAAAAGTTTAGGGTTAAAAATGGAA
Found at i:55143 original size:30 final size:29
Alignment explanation
Indices: 55022--55157 Score: 112
Period size: 29 Copynumber: 4.6 Consensus size: 29
55012 AAGATCGACA
* * * * *
55022 GGGTAAAAGTGTAATTTTTAGAAAGTTCAA
1 GGGTAAAAATATAA-TTTTAAAAAGTTTAG
* ** *
55052 GGTTAAAAATGGAATTTTGAAAAGTTTAG
1 GGGTAAAAATATAATTTTAAAAAGTTTAG
* ** *
55081 GGTTAAAAATGGAATTTTAAAAAGTTTGG
1 GGGTAAAAATATAATTTTAAAAAGTTTAG
55110 GGGTAAAAATATAATTTTAAAAAAAGTTT-G
1 GGGTAAAAATATAATTTT--AAAAAGTTTAG
*
55140 GGGTCAAAATATAATTTT
1 GGGTAAAAATATAATTTT
55158 TGGACAGTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 53 0.58
30 29 0.32
31 9 0.10
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATATAATTTTAAAAAGTTTAG
Found at i:56318 original size:3 final size:3
Alignment explanation
Indices: 56310--56338 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
56300 TTTTTACTAA
56310 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
56339 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:57009 original size:17 final size:16
Alignment explanation
Indices: 56989--57045 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
56979 TATTTTGGTT
*
56989 TTTTAATTTAATATTAA
1 TTTTAATTAAAT-TTAA
* *
57006 TTTTGAAATCAATTTAAA
1 TTTT-AATTAAATTT-AA
57024 TTTTAATTAAATTTAA
1 TTTTAATTAAATTTAA
*
57040 ATTTAA
1 TTTTAA
57046 AGCAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.21
17 14 0.42
18 12 0.36
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTAATTAAATTTAA
Found at i:57046 original size:6 final size:6
Alignment explanation
Indices: 57016--57113 Score: 67
Period size: 6 Copynumber: 16.5 Consensus size: 6
57006 TTTTGAAATC
* **
57016 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTAAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A
** ** * **
57064 AAGATA AATTTA AATTT- AAGGTA AATTTT AATTTA AAAATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
57111 AAT
1 AAT
57114 CAATTTAAAT
Statistics
Matches: 67, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
5 10 0.15
6 53 0.79
8 4 0.06
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:57052 original size:17 final size:17
Alignment explanation
Indices: 57016--57113 Score: 106
Period size: 17 Copynumber: 5.5 Consensus size: 17
57006 TTTTGAAATC
* *
57016 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAGTA
*
57033 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAGTA
57050 AATTTAAATTTAAAAAGATA
1 AATTTAAATTT--AAAG-TA
*
57070 AATTTAAATTTAAGGTA
1 AATTTAAATTTAAAGTA
* *
57087 AATTTTAATTTAAAAATA
1 AATTTAAATTT-AAAGTA
57105 AATTTAAAT
1 AATTTAAAT
57114 CAATTTAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
17 37 0.54
18 15 0.22
19 4 0.06
20 12 0.18
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAGTA
Found at i:57079 original size:37 final size:35
Alignment explanation
Indices: 57016--57113 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 35
57006 TTTTGAAATC
* *
57016 AATTTAAATTT-TAATTAAATTTAAATTTAAAGCA
1 AATTTAAATTTAAAAATAAATTTAAATTTAAAGCA
* *
57050 AATTTAAATTTAAAAAGATAAATTTAAATTTAAGGTA
1 AATTTAAATTT-AAAA-ATAAATTTAAATTTAAAGCA
*
57087 AATTTTAATTTAAAAATAAATTTAAAT
1 AATTTAAATTTAAAAATAAATTTAAAT
57114 CAATTTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
34 11 0.20
35 12 0.21
36 6 0.11
37 27 0.48
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (35 bp):
AATTTAAATTTAAAAATAAATTTAAATTTAAAGCA
Found at i:63678 original size:91 final size:91
Alignment explanation
Indices: 63523--63693 Score: 245
Period size: 91 Copynumber: 1.9 Consensus size: 91
63513 ATGATGATTA
* * *
63523 AAGGGAAAGGTTGAGGTCGCAACGACGAATCCGGTACCTTAGAAGATGTGATGAGAAGGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGATGAGAAGGATTGAG
* *
63588 GTCGCAATGGTGAATTCGGTACCATG
66 GCCGCAACGGTGAATTCGGTACCATG
* * * *
63614 AAGGGAAAGGTTGAGGCCGTAAC-AGTGAACCCGATACCTTAGAAGATGTGGTGGGAAGGATTGA
1 AAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGATACCTTAGAAGATGTGATGAGAAGGATTGA
63678 GGCCGCAACGGTGAAT
65 GGCCGCAACGGTGAAT
63694 CCAATACCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
90 1 0.01
91 69 0.99
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (91 bp):
AAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGATGAGAAGGATTGAG
GCCGCAACGGTGAATTCGGTACCATG
Found at i:63779 original size:49 final size:49
Alignment explanation
Indices: 63613--63795 Score: 147
Period size: 49 Copynumber: 3.7 Consensus size: 49
63603 TCGGTACCAT
** * *
63613 GAAGGGAAAGGTTGAGGCCGTAACAGTGAACCCGATACCTTAGAAGATGTG
1 GAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGATACCAT-GAAGAT-TG
* * * * *
63664 G-TGGG-AAGGATTGAGGCCGCAACGGTGAATCCAATACCATGAATA-TG
1 GAAGGGAAAGG-TTGAGGCCACAACGGTGAACCCGATACCATGAAGATTG
* * ** * * *
63711 CGATGAGAAATATTAAGGCCACAACGGTAAACCCGGTACCATGAAGATTG
1 -GAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGATACCATGAAGATTG
* *
63761 GAAGGGAAAGGTTGAGGCCATAATGGTGAACCCGA
1 GAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGA
63796 CATCTTAAAA
Statistics
Matches: 101, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 65 0.64
50 32 0.32
51 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (49 bp):
GAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGATACCATGAAGATTG
Found at i:64188 original size:39 final size:39
Alignment explanation
Indices: 64131--65649 Score: 368
Period size: 39 Copynumber: 39.2 Consensus size: 39
64121 ACTACATCAG
64131 CCAAT-TTCTTACCCCGAGCCTGGGGTC-GATTGCAGCCAT
1 CCAATCTT-TTACCCCGAGCCTGGGG-CAGATTGCAGCCAT
* * * *
64170 CTAATCTTTTACCTCGAGCCTGGGGCAGATTGAAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * *
64209 CCGATCTTTTACCTCGAGCTTGGGACATA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* *
64245 CAGCCAATCTCTTACCCCGTGCCTGGGGCAGATTGCAGCCAT
1 ---CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* ** * * *
64287 CCAATCTTTTACCCCGAGCTTGGGGCAGATCACCGTCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * ** * * *
64326 CCAATATCTTACCCCGAGCCTAGGATAGTTTGAAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * *
64365 CCGATCTTTTACCCCGAGCTTGGGACAGA-T-C-CCCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * *
64401 CAGTCAATCTCTTACCCCGTGCCTAGGGAAAATTACAGCCAT
1 C---CAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
** * * * ** * ** *
64443 CTGATCTTTTACCCTGAGCATGAGGCAGATCACCGTTAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * ** * * **
64482 CCAATCTCTTACCTCGAGTTTGGGACAGATTGAAGTTAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * *
64521 CCGATCTTTTACCTCGAGCCTGGGGCA-AAT-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * *** * * *
64557 CAGCTAATCTCTTATCCCC-TG-CTTAAGTAAATTGTAGCCAT
1 C--C-AATCTTTTA-CCCCGAGCCTGGGGCAGATTGCAGCCAT
* * ** * * *
64598 CCGATCTTTTACCCCGAGCCTAGGGCAGATCACTGTCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* ** **** * *
64637 CCAATCTCTTACCTTGAGCCTCAAACAGATTGAAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
** ** *
64676 CTGATCTTTTACCTAGAGCTTGGGGCAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * ** * * *
64712 CAGCCAATCTTTTATCCCGTGCTTAAGGTAGATGGCAGTCAT
1 ---CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * * ** * * *
64754 TCGATCTTGTACCCCGAGCATGTGGTAGATCACCGTCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * *
64793 CCAATCTCTTACCCCGAGCCTGGGGCAAATTGAAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* *
64832 TCGATCTTTTACCCCGAGCCTGGGGCAGA-T-CA-CCATT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCA-T
* * * * * * *
64869 AGCCAATCTCTTACCTCGTGCTTGAGGTAGATTGTAGCCAT
1 --CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * *
64910 CCGATCTTTTACCCCAAGCCTAGGGCAGA-T-CA-CCGT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * *
64946 -C-ATCTCTTACCCCCAGCCTGGGGTAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * *
64980 CAACTAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCAT
1 C--C-AATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
** * ** * * *
65022 CTGATCTTTTACCTCGAGTTTGGGGTA-AAT-CA-TCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * * *
65058 CAGTCAATCTCTTATCCCAAGTCT-GAGCAAATTACAGCCAT
1 C---CAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * * * *** *
65099 TCGATCTCTTACCCCGATCATGTGGCAAATCATAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * *
65138 TCGATCTTTTACCCTGAGCCTAGGGCAGATCAT-CA-TCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGAT--TGCAGCCAT
* * * * *
65177 CCAATCTCTTACCCCGAGCTTGAGGTAGATTGCAGCTAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * ** * *
65216 CCGATCTTTTACCTCGAGCTTAGGGTAGATCACTA-TCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGC-AGCCAT
* * **
65255 CCAATCTCTTACCCCGAGCCTAGGGCAGATTATAGCCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * ** * * *
65294 CCGATCTTTTACCCCGACCCTAGGGCAGATCCCCGTCAG
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * *
65333 CCAATCTCTTACCCCGAGCTTGGGGTAGA-TGTAGCCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * * ** *
65371 CCGATCTCTTACCTCGATCATGGGGCAAATCACAGTCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * *
65410 CCGATCTTTTACCCCGAGCCTGAGGTAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * ** * *
65446 CAGCCAATCTCTTACTCTTAGCCTGGGGTAGATTACAGCCAT
1 ---CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * ** * * *
65488 TCGATCTTTTACCTCGAGCTTGGGGCAGATCACCGTCAA
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * * *
65527 CCAATCTCTTACCCCAAGCCTAGGGCAGATTGTAACTAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
** *
65566 TTAATCTTTTACCCCGGGCCTGGGGCAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
* * * * *
65602 CAGTTAATCTCTTACCTCGAACCTGGGACAGATTGCAG-CAT
1 C---CAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
65643 CCAATCT
1 CCAATCT
65650 CTCTAAAAAA
Statistics
Matches: 1036, Mismatches: 375, Indels: 139
0.67 0.24 0.09
Matches are distributed among these distances:
34 28 0.03
35 1 0.00
36 28 0.03
37 17 0.02
38 75 0.07
39 822 0.79
40 16 0.02
41 25 0.02
42 24 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
CCAATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCAT
Found at i:64269 original size:78 final size:78
Alignment explanation
Indices: 64172--65431 Score: 831
Period size: 78 Copynumber: 16.3 Consensus size: 78
64162 GCAGCCATCT
* * * * *
64172 AATCTTTTACCTCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGACAT
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
64237 ATCACCATCAGCC
66 ATCACCATCAGCC
* * * *
64250 AATCTCTTACCCCGTGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
64315 ATCACCGTCAGCC
66 ATCACCATCAGCC
* * ** * *
64328 AATATCTTACCCCGAGCCTAGGATAGTTTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGACAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
* *
64393 ATCCCCATCAGTC
66 ATCACCATCAGCC
* * * * * * * * *
64406 AATCTCTTACCCCGTGCCTAGGGAAAATT-ACAGCCATCTGATCTTTTACCCTGAGCATGAGGCA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGA-AGTCATCCGATCTTTTACCCCGAGCTTGGGGCA
* *
64470 GATCACCGTTAGCC
65 GATCACCATCAGCC
* ** * * * * *
64484 AATCTCTTACCTCGAGTTTGGGACAGATTGAAGTTATCCGATCTTTTACCTCGAGCCTGGGGCAA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
64549 ATCACCATCAGCT
66 ATCACCATCAGCC
* *** * * * * * *
64562 AATCTCTTATCCCC-TG-CTTAAGTAAATTGTAGCCATCCGATCTTTTACCCCGAGCCTAGGGCA
1 AATCTCTTA-CCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCA
**
64625 GATCACTGTCAGCC
65 GATCACCATCAGCC
** **** * **
64639 AATCTCTTACCTTGAGCCTCAAACAGATTGAAGTCATCTGATCTTTTACCTAGAGCTTGGGGCAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
64704 ATCACCATCAGCC
66 ATCACCATCAGCC
* * * * ** * * * * * * * *
64717 AATCTTTTATCCCGTGCTTAAGGTAGATGGCAGTCATTCGATCTTGTACCCCGAGCATGTGGTAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
64782 ATCACCGTCAGCC
66 ATCACCATCAGCC
* * *
64795 AATCTCTTACCCCGAGCCTGGGGCAAATTGAAGTCATTCGATCTTTTACCCCGAGCCTGGGGCAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
64860 ATCACCATTAGCC
66 ATCACCATCAGCC
* * * * * * * * * *
64873 AATCTCTTACCTCGTGCTTGAGGTAGATTGTAGCCATCCGATCTTTTACCCCAAGCCTAGGGCAG
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
64938 ATCA-C--C-GTC
66 ATCACCATCAGCC
* * * * ** * *
64947 -ATCTCTTACCCCCAGCCTGGGGTAGA-TCACCA-TCAACTAATCTCTTACCCTGAGCTTGGGGC
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGA--AGTCATCCGATCTTTTACCCCGAGCTTGGGGC
*
65009 AGATTGCAGCCATCTG--
64 AGA-T-CA-CCATCAGCC
* * ** * * * * * * * *
65025 -ATCTTTTACCTCGAGTTTGGGGTA-AAT-CA-TCATCAGTCAATCTCTTATCCCAAG-TCT-GA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATC---CGATCTTTTACCCCGAGCT-TGGG
* * * **
65084 GCAAATTA-CAGCCATTC
62 GCAGATCACCA-TCAGCC
* * * * * * * * * *
65101 GATCTCTTACCCCGATCATGTGGCA-AATCATAGTCATTCGATCTTTTACCCTGAGCCTAGGGCA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGA-AGTCATCCGATCTTTTACCCCGAGCTTGGGGCA
*
65165 GATCATCATCAGCC
65 GATCACCATCAGCC
* * * * * * *
65179 AATCTCTTACCCCGAGCTTGAGGTAGATTGCAG-CTATCCGATCTTTTACCTCGAGCTTAGGGTA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTC-ATCCGATCTTTTACCCCGAGCTTGGGGCA
*
65243 GATCACTATCAGCC
65 GATCACCATCAGCC
* * * * *
65257 AATCTCTTACCCCGAGCCTAGGGCAGATT-ATAGCCATCCGATCTTTTACCCCGACCCTAGGGCA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGA-AGTCATCCGATCTTTTACCCCGAGCTTGGGGCA
* *
65321 GATCCCCGTCAGCC
65 GATCACCATCAGCC
* * * * * * * * *
65335 AATCTCTTACCCCGAGCTTGGGGTAGA-TGTAGCCATCCGATCTCTTACCTCGATCATGGGGCAA
1 AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
*
65399 ATCA-CAGTCATCC
66 ATCACCA-TCAGCC
* *
65412 GATCTTTTACCCCGAGCCTG
1 AATCTCTTACCCCGAGCCTG
65432 AGGTAGATCA
Statistics
Matches: 908, Mismatches: 239, Indels: 71
0.75 0.20 0.06
Matches are distributed among these distances:
72 1 0.00
73 47 0.05
74 5 0.01
75 8 0.01
76 4 0.00
77 153 0.17
78 674 0.74
79 11 0.01
80 5 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (78 bp):
AATCTCTTACCCCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAG
ATCACCATCAGCC
Found at i:64415 original size:156 final size:156
Alignment explanation
Indices: 64172--65430 Score: 955
Period size: 156 Copynumber: 8.1 Consensus size: 156
64162 GCAGCCATCT
* * * * * *
64172 AATCTTTTACCTCGAGCCTGGGGCAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGACAT
1 AATCTCTTACCCCGAGCCTAGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCAG
** * *
64237 ATCACCATCAGCCAATCTCTTACCCCGTGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCC
66 ATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCCC
*
64302 GAGCTTGGGGCAGATCACCGTCAGCC
131 GAGCATGGGGCAGATCACCGTCAGCC
* * * * *
64328 AATATCTTACCCCGAGCCTAGGATAGTTTGAAGTCATCCGATCTTTTACCCCGAGCTTGGGACAG
1 AATCTCTTACCCCGAGCCTAGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCAG
* * * * * * * *
64393 ATCCCCATCAGTCAATCTCTTACCCCGTGCCTAGGGAAAATTACAGCCATCTGATCTTTTACCCT
66 ATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCCC
* *
64458 GAGCATGAGGCAGATCACCGTTAGCC
131 GAGCATGGGGCAGATCACCGTCAGCC
* ** * * * *
64484 AATCTCTTACCTCGAGTTTGGGACAGATTGAAGTTATCCGATCTTTTACCTCGAGCCTGGGGCAA
1 AATCTCTTACCCCGAGCCTAGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCAG
* * * *
64549 ATCACCATCAGCTAATCTCTTATCCCC-TGCTTAA-GTAAATTGTAGCCATCCGATCTTTTACCC
66 ATCACCATCAGCCAATCTCTTA-CCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCC
* * *
64612 CGAGCCTAGGGCAGATCACTGTCAGCC
130 CGAGCATGGGGCAGATCACCGTCAGCC
** * * *
64639 AATCTCTTACCTTGAGCCTCA-AACAGATTGAAGTCATCTGATCTTTTACCTAGAGCTTGGGGCA
1 AATCTCTTACCCCGAGCCT-AGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCA
* * * * * * *
64703 GATCACCATCAGCCAATCTTTTATCCCGTGCTTAAGGTAGATGGCAGTCATTCGATCTTGTACCC
65 GATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCC
* *
64768 CGAGCATGTGGTAGATCACCGTCAGCC
130 CGAGCATGGGGCAGATCACCGTCAGCC
* * * * * *
64795 AATCTCTTACCCCGAGCCTGGGGCAAATTGAAGTCATTCGATCTTTTACCCCGAGCCTGGGGCAG
1 AATCTCTTACCCCGAGCCTAGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCAG
* * * * *
64860 ATCACCATTAGCCAATCTCTTACCTCGTGCTTGAGGTAGATTGTAGCCATCCGATCTTTTACCCC
66 ATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCCC
* * *
64925 AAGCCTAGGGCAGATCACCGT----C
131 GAGCATGGGGCAGATCACCGTCAGCC
* * ** * * ** *
64947 -ATCTCTTACCCCCAGCCTGGGGTAGA-TCACCA-TCAACTAATCTCTTACC-CTGAGCTTGGGG
1 AATCTCTTACCCCGAGCCTAGGACAGATTGA--AGTCATCCGATCTTTTACCTC-GAGCTTGGGG
* * * * ** ** * * *
65008 CAGATTGCAGCCATCTG---ATCTTTTACCTCGAGTTTGGGGTA-AAT-CA-TCATCAGTCAATC
63 CAGA-T-CA-CCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATC---CGATC
* * * * * * * * **
65067 TCTTATCCCAAGTC-T-GAGCAAATTACAGCCATTC
122 TTTTACCCCGAG-CATGGGGCAGATCACCGTCAGCC
* * * * * * * * *
65101 GATCTCTTACCCCGATCAT-GTGGCA-AATCATAGTCATTCGATCTTTTACC-CTGAGCCTAGGG
1 AATCTCTTACCCCGAGCCTAG-GACAGATTGA-AGTCATCCGATCTTTTACCTC-GAGCTTGGGG
* * * * *
65163 CAGATCATCATCAGCCAATCTCTTACCCCGAGCTTGAGGTAGATTGCAGCTATCCGATCTTTTAC
63 CAGATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTAC
* * * * **
65228 CTCGAGCTTAGGGTAGATCACTATCAGCC
128 CCCGAGCATGGGGCAGATCACCGTCAGCC
* * * * * *
65257 AATCTCTTACCCCGAGCCTAGGGCAGATT-ATAGCCATCCGATCTTTTACCCCGACCCTAGGGCA
1 AATCTCTTACCCCGAGCCTAGGACAGATTGA-AGTCATCCGATCTTTTACCTCGAGCTTGGGGCA
* * * * ** * * *
65321 GATCCCCGTCAGCCAATCTCTTACCCCGAGCTTGGGGTAGA-TGTAGCCATCCGATCTCTTACCT
65 GATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCC
* * * *
65385 CGATCATGGGGCAAATCACAGTCATCC
130 CGAGCATGGGGCAGATCACCGTCAGCC
* *
65412 GATCTTTTACCCCGAGCCT
1 AATCTCTTACCCCGAGCCT
65431 GAGGTAGATC
Statistics
Matches: 885, Mismatches: 184, Indels: 69
0.78 0.16 0.06
Matches are distributed among these distances:
148 4 0.00
149 1 0.00
150 14 0.02
151 83 0.09
152 9 0.01
153 4 0.00
154 14 0.02
155 263 0.30
156 480 0.54
157 10 0.01
158 3 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (156 bp):
AATCTCTTACCCCGAGCCTAGGACAGATTGAAGTCATCCGATCTTTTACCTCGAGCTTGGGGCAG
ATCACCATCAGCCAATCTCTTACCCCGTGCCTAAGGTAGATTGCAGCCATCCGATCTTTTACCCC
GAGCATGGGGCAGATCACCGTCAGCC
Found at i:64964 original size:34 final size:34
Alignment explanation
Indices: 64913--64977 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
64903 TAGCCATCCG
*
64913 ATCTTTTACCCCAAGCCTAGGGCAGATCACCGTC
1 ATCTCTTACCCCAAGCCTAGGGCAGATCACCGTC
* * *
64947 ATCTCTTACCCCCAGCCTGGGGTAGATCACC
1 ATCTCTTACCCCAAGCCTAGGGCAGATCACC
64978 ATCAACTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (34 bp):
ATCTCTTACCCCAAGCCTAGGGCAGATCACCGTC
Found at i:65210 original size:194 final size:195
Alignment explanation
Indices: 64748--65310 Score: 498
Period size: 194 Copynumber: 2.9 Consensus size: 195
64738 GGTAGATGGC
* * * * * *
64748 AGTCATTCGATCTTGTACCCCGAGCAT-GTGGTAGATCACCGTCAGCCAATCTCTTACCCCGAGC
1 AGTCATTCGATCTTTTACCCTGAGCCTAG-GGCAGATCACCATCAACCAATCTCTTACCCCGAGC
* * * * * * * * * * * * *
64812 CTGGGGCAAATTGAAGTCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATTAGCCAATC
65 TTGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAAATCACTATCAGCCAATC
* ** * * * ** * * * * *
64877 TCTTACCTCGTG-CTTGAGGTAGATTGTAGCCATCCGATCTTTTACCCCAAGCCTAG-GGCAGAT
130 TCTTACCCCAAGCCTAGA-GCAAATTACAGCCATCCGATCTCTTACCCCGATCAT-GTGGCAAAT
*
64940 CAC
193 CAT
* ** * * * *
64943 CGTCA-TC--TC--TTACCCCCAGCCTGGGGTAGATCACCATCAACTAATCTCTTACCCTGAGCT
1 AGTCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCT
* * * * *
65003 TGGGGCAGATTGCAGCCATCTGATCTTTTACCTCGAGTTTGGGGTAAATCA-TCATCAGTCAATC
66 TGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAAATCACT-ATCAGCCAATC
* * *
65067 TCTTATCCCAAGTCT-GAGCAAATTACAGCCATTCGATCTCTTACCCCGATCATGTGGCAAATCA
130 TCTTACCCCAAGCCTAGAGCAAATTACAGCCATCCGATCTCTTACCCCGATCATGTGGCAAATCA
65131 T
195 T
* *
65132 AGTCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCT
1 AGTCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCT
* * *
65197 TGAGGTAGATTGCAGCTATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACTATCAGCCAATCT
66 TGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAAATCACTATCAGCCAATCT
* * * * *
65262 CTTACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTACCCCGA
131 CTTACCCCAAGCCTAGAGCAAATTACAGCCATCCGATCTCTTACCCCGA
65311 CCCTAGGGCA
Statistics
Matches: 295, Mismatches: 62, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
188 1 0.00
189 39 0.13
190 103 0.35
191 3 0.01
192 4 0.01
194 111 0.38
195 34 0.12
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (195 bp):
AGTCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCT
TGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAAATCACTATCAGCCAATCT
CTTACCCCAAGCCTAGAGCAAATTACAGCCATCCGATCTCTTACCCCGATCATGTGGCAAATCAT
Found at i:65302 original size:272 final size:272
Alignment explanation
Indices: 64595--65617 Score: 757
Period size: 272 Copynumber: 3.8 Consensus size: 272
64585 AAATTGTAGC
** ** *
64595 CATCCGATCTTTTACCCCGAGCCT-AGGGCAGATCACTGTCAGCCAATCTCTTACCTTGAGCCTC
1 CATCCGATCTTTTACCCCGAGCCTGA-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTG
*** * * * * * * *
64659 AAACAGATTGA-AGTCATCTGATCTTTTACCTAGAGCTTGGGGCAGATCACCATCAGCCAATCTT
65 AGGTAGATT-ACAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACCATCAACCAATCTC
* * * * * ** * * * * * * *
64723 TTATCCCGTGCTTAAGGTAGATGGCAGTCATTCGATCTTGTACCCCGAGCAT-GTGGTAGATCAC
129 TTACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGACCCTAG-GGCAAATCAC
* * * * * * * * * *
64787 CGTCAGCCAATCTCTTACCCCGAGCCTGGGGCAAATTGAAGTCATTCGATCTTTTACCCCGAGCC
193 CATCAGCCAATCTCTTACCCCAAGCTTGGAGCAAA-TGTAGCCATCCGATCTCTTACCCCGATCA
*
64852 TGGGGCAGATCACCA-T
257 TGGGGCAAATCA-CAGT
* * * * * * * * * * * *
64868 TAGCCAATCTCTTACCTCGTGCTTGAGGTAGATTGTAGCCAT---CCGATCTTTTACCCCAAGCC
1 CATCCGATCTTTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAGCCAATCTCTTACCCCGAGCC
* * * * * * * *
64930 T-AGGGCAGA-T-CA-CCGT-C-ATCTCTTACCCCCAGCCTGGGGTAGATCACCATCAACTAATC
63 TGA-GGTAGATTACAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACCATCAACCAATC
* * * * * * *** * *
64989 TCTTACCCTGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCTCGAGTTTGGGGTAAATCA
127 TCTTACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGACCCTAGGGCAAATCA
* * * *
65054 TCATCAGTCAATCTCTTATCCCAAG-TCT-GAGCAAAT-TACAGCCATTCGATCTCTTACCCCGA
192 CCATCAGCCAATCTCTTACCCCAAGCT-TGGAGCAAATGT--AGCCATCCGATCTCTTACCCCGA
* *
65116 TCATGTGGCAAATCATAGT
254 TCATGGGGCAAATCACAGT
* * * *
65135 CATTCGATCTTTTACCCTGAGCCT-AGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCTTG
1 CATCCGATCTTTTACCCCGAGCCTGA-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTG
* * * *
65199 AGGTAGATTGCAGCTATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACTATCAGCCAATCTCT
65 AGGTAGATTACAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACCATCAACCAATCTCT
* * * *
65264 TACCCCGAGCCTAGGGCAGATTATAGCCATCCGATCTTTTACCCCGACCCTAGGGCAGATCCCCG
130 TACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGACCCTAGGGCAAATCACCA
* * * * *
65329 TCAGCCAATCTCTTACCCCGAGCTTGGGGTAGATGTAGCCATCCGATCTCTTACCTCGATCATGG
195 TCAGCCAATCTCTTACCCCAAGCTTGGAGCAAATGTAGCCATCCGATCTCTTACCCCGATCATGG
65394 GGCAAATCACAGT
260 GGCAAATCACAGT
* * ** *
65407 CATCCGATCTTTTACCCCGAGCCTGAGGTAGATCACCATCAGCCAATCTCTTACTCTTAGCCTGG
1 CATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGA
* * * *
65472 GGTAGATTACAGCCATTCGATCTTTTACCTCGAGCTTGGGGCAGATCACCGTCAACCAATCTCTT
66 GGTAGATTACAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACCATCAACCAATCTCTT
* ** * * *** ** * *
65537 ACCCCAAGCCTAGGGCAGATTGTAACTATTTAATCTTTTACCCCGGGCCTGGGGCAGATCACCAT
131 ACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGACCCTAGGGCAAATCACCAT
**
65602 CAGTTAATCTCTTACC
196 CAGCCAATCTCTTACC
65618 TCGAACCTGG
Statistics
Matches: 581, Mismatches: 144, Indels: 51
0.75 0.19 0.07
Matches are distributed among these distances:
264 3 0.01
265 1 0.00
266 4 0.01
267 81 0.14
268 104 0.18
269 3 0.01
270 4 0.01
271 2 0.00
272 324 0.56
273 49 0.08
274 3 0.01
275 1 0.00
276 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (272 bp):
CATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGA
GGTAGATTACAGCCATCCGATCTTTTACCTCGAGCTTAGGGTAGATCACCATCAACCAATCTCTT
ACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCCCGACCCTAGGGCAAATCACCAT
CAGCCAATCTCTTACCCCAAGCTTGGAGCAAATGTAGCCATCCGATCTCTTACCCCGATCATGGG
GCAAATCACAGT
Found at i:66232 original size:6 final size:6
Alignment explanation
Indices: 66221--66261 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
66211 ACCCAAACAG
*
66221 AATTTA AATTTA AATTT- -ATTTGA AATTTA AGTTTA AATTTA
1 AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
66262 TTAATGTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:66248 original size:17 final size:16
Alignment explanation
Indices: 66222--66255 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
66212 CCCAAACAGA
66222 ATTTAAATTTAAATTT
1 ATTTAAATTTAAATTT
*
66238 ATTTGAAATTTAAGTTT
1 ATTT-AAATTTAAATTT
66255 A
1 A
66256 AATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTTAAATTTAAATTT
Found at i:66469 original size:19 final size:19
Alignment explanation
Indices: 66447--66495 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
66437 TTCACCAACT
*
66447 TGCCACTGCCATACCACCA
1 TGCCACTGACATACCACCA
*
66466 TGCCTCTGACATACCACCA
1 TGCCACTGACATACCACCA
* *
66485 CGCCTCTGACA
1 TGCCACTGACA
66496 CAACGTCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.45, G:0.12, T:0.18
Consensus pattern (19 bp):
TGCCACTGACATACCACCA
Found at i:70577 original size:33 final size:33
Alignment explanation
Indices: 70501--70577 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 33
70491 CCTATTTGCT
* * * ** *
70501 TAAAATAAATAATTTTAGTCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
70534 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
70566 TAAAATAAACAA
1 TAAAATAAACAA
70578 CTTTGACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:75634 original size:33 final size:33
Alignment explanation
Indices: 75558--75634 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 33
75548 CCTATTTACT
* * * ** *
75558 TAAAATAAATAATTTTAGTCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
75591 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
75623 TAAAATAAACAA
1 TAAAATAAACAA
75635 CTTTGACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:76667 original size:22 final size:22
Alignment explanation
Indices: 76625--76668 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
76615 GATAAAAGAA
* *
76625 AATAGAATTTAACTAATTTTTC
1 AATAGAATTTAACAAAGTTTTC
76647 AATA-AATTTCAACAAAGTTTTC
1 AATAGAATTT-AACAAAGTTTTC
76669 TCTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
AATAGAATTTAACAAAGTTTTC
Found at i:77794 original size:17 final size:17
Alignment explanation
Indices: 77772--77858 Score: 86
Period size: 17 Copynumber: 5.1 Consensus size: 17
77762 CATACTCCCT
77772 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
*
77789 TTAAATTT-GTTTAAAA
1 TTAAATTTATTTTAAAA
* *
77805 TTTAAATATATTTTAAAT
1 -TTAAATTTATTTTAAAA
* **
77823 TTAAATTTAATTTAAGT
1 TTAAATTTATTTTAAAA
* *
77840 TTAAAATTATTTTCAAA
1 TTAAATTTATTTTAAAA
77857 TT
1 TT
77859 TAAAATTTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
16 7 0.12
17 43 0.77
18 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:77809 original size:34 final size:34
Alignment explanation
Indices: 77771--77868 Score: 108
Period size: 34 Copynumber: 2.8 Consensus size: 34
77761 CCATACTCCC
*
77771 TTTAAATTTATTTTAAAATTAAATTT-GTTTAAAA
1 TTTAAATTTATTTTAAAATTAAATTTAATTT-AAA
* * *
77805 TTTAAATATATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAAATTAAATTTAATTTAAA
* *
77839 TTTAAAATTATTTTCAAATTTAAAATTTAA
1 TTTAAATTTATTTT-AAAATT-AAATTTAA
77869 AATAAAACCC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 38 0.69
35 9 0.16
36 8 0.15
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (34 bp):
TTTAAATTTATTTTAAAATTAAATTTAATTTAAA
Done.