Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006844.1 Hibiscus syriacus cultivar Beakdansim tig00017403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 127696
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:10557 original size:27 final size:27
Alignment explanation
Indices: 10509--10571 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10499 AATATCAAAG
* *
10509 ACAAC-GCAG-AGCAGCAGCAGGAACC
1 ACAACAGCAGCAGAAGCAACAGGAACC
10534 ACAACAGCAGCAGAAGCAACAGGAACC
1 ACAACAGCAGCAGAAGCAACAGGAACC
*
10561 ACAGCAGCAGC
1 ACAACAGCAGC
10572 TGCCGCGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 24 0.73
ACGTcount: A:0.43, C:0.32, G:0.25, T:0.00
Consensus pattern (27 bp):
ACAACAGCAGCAGAAGCAACAGGAACC
Found at i:11812 original size:21 final size:21
Alignment explanation
Indices: 11783--11882 Score: 94
Period size: 21 Copynumber: 4.8 Consensus size: 21
11773 ATCCCCATGG
11783 GACAGATCCCCATATGC-CTGT
1 GACAGATCCCCATATGCTCT-T
* *
11804 GAGAGATCCCCATATACTCTT
1 GACAGATCCCCATATGCTCTT
* *
11825 GACAAATCCCCATATGCTCAT
1 GACAGATCCCCATATGCTCTT
* ** * *
11846 GATAGATCCCTGTATACTCAT
1 GACAGATCCCCATATGCTCTT
*
11867 GAGAGATCCCCATATG
1 GACAGATCCCCATATG
11883 ATCGAAGCTG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
21 61 0.97
22 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (21 bp):
GACAGATCCCCATATGCTCTT
Found at i:11853 original size:42 final size:42
Alignment explanation
Indices: 11783--11882 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
11773 ATCCCCATGG
* *
11783 GACAGATCCCCATATGCCTGTGAGAGATCCCCATATACTCTT
1 GACAGATCCCCATATGCCTATGAGAGATCCCCATATACTCAT
* * **
11825 GACAAATCCCCATATG-CTCATGATAGATCCCTGTATACTCAT
1 GACAGATCCCCATATGCCT-ATGAGAGATCCCCATATACTCAT
*
11867 GAGAGATCCCCATATG
1 GACAGATCCCCATATG
11883 ATCGAAGCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
GACAGATCCCCATATGCCTATGAGAGATCCCCATATACTCAT
Found at i:20230 original size:19 final size:20
Alignment explanation
Indices: 20141--20231 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
20131 AACGCGATTT
20141 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
*
20161 T-TAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
*
20180 TGAAAAAAACGTGTTGTTGCAATAG
1 TG--AAAAA--TG-TGTTGCGATAG
20205 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
20224 TGAAAAAT
1 TGAAAAAT
20232 CTAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 35 0.58
20 2 0.03
22 4 0.07
23 5 0.08
24 2 0.03
25 12 0.20
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.30
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:20685 original size:20 final size:20
Alignment explanation
Indices: 20660--20783 Score: 214
Period size: 20 Copynumber: 6.2 Consensus size: 20
20650 TTGTATTAAA
20660 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
20680 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
20700 TGCGATAGTCAGAATCGCAT
1 TGCGATAGTCAGAATCGCGT
20720 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
20740 TGTGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
20760 TGCGATAGT-AAAATCGCGT
1 TGCGATAGTCAGAATCGCGT
20779 TGCGA
1 TGCGA
20784 ATCTTGAAAC
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
19 14 0.14
20 85 0.86
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:20712 original size:40 final size:39
Alignment explanation
Indices: 20660--20843 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
20650 TTGTATTAAA
20660 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGT-AGAATCGCGT
*
20700 TGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGT-AGAATCGCGT
* *
20740 TGTGATAGTCAGAATCGCGTTGCGATAGTAAAATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTAGAATCGCGT
* * ** * * *
20779 TGCGA-A-TCTTGAAACTGATTTGCGATACTGGAGATTGCGT
1 TGCGATAGTC-AGAATC-GCGTTGCGATAGTAGA-ATCGCGT
*
20819 TGCGATAGTCAAAATCGCGTTGCGA
1 TGCGATAGTCAGAATCGCGTTGCGA
20844 ATCTGGAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
37 2 0.02
38 5 0.04
39 24 0.20
40 84 0.69
41 4 0.03
42 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (39 bp):
TGCGATAGTCAGAATCGCGTTGCGATAGTAGAATCGCGT
Found at i:20821 original size:20 final size:20
Alignment explanation
Indices: 20798--20903 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
20788 TGAAACTGAT
20798 TTGCGATACTGGAGATTGCG
1 TTGCGATACTGGAGATTGCG
* ** * *
20818 TTGCGATAGTCAAAATCGCG
1 TTGCGATACTGGAGATTGCG
* **
20838 TTGCGA-ATCTGGAAATTGAT
1 TTGCGATA-CTGGAGATTGCG
*
20858 TTGCGATACTGGAGATCGCG
1 TTGCGATACTGGAGATTGCG
* * * *
20878 TTGCAAT-TTAGAGATTGCA
1 TTGCGATACTGGAGATTGCG
20897 TTGCGAT
1 TTGCGAT
20904 TTTGTTGGTC
Statistics
Matches: 63, Mismatches: 21, Indels: 5
0.71 0.24 0.06
Matches are distributed among these distances:
19 15 0.24
20 47 0.75
21 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (20 bp):
TTGCGATACTGGAGATTGCG
Found at i:20858 original size:60 final size:59
Alignment explanation
Indices: 20753--20881 Score: 222
Period size: 60 Copynumber: 2.2 Consensus size: 59
20743 GATAGTCAGA
*
20753 ATCGCGTTGCGATAGTAAAATCGCGTTGCGAATCTTGAAACTGATTTGCGATACTGGAG
1 ATCGCGTTGCGATAGTAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
* *
20812 ATTGCGTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAATTGATTTGCGATACTGGAG
1 ATCGCGTTGCGATAGT-AAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
20872 ATCGCGTTGC
1 ATCGCGTTGC
20882 AATTTAGAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 15 0.23
60 50 0.77
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (59 bp):
ATCGCGTTGCGATAGTAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAG
Found at i:33688 original size:82 final size:82
Alignment explanation
Indices: 33595--33856 Score: 436
Period size: 82 Copynumber: 3.2 Consensus size: 82
33585 ATTCGCGTTG
* * * *
33595 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGTGATTTTTCATTTCGCGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAA
33659 AAGCGCGTTGCGATTTTC
65 AAGCGCGTTGCGATTTTC
*
33677 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTGTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
33742 AGCGCGTTGCGATTTTC
66 AGCGCGTTGCGATTTTC
*
33759 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGTGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
**
33824 TTCGCGTTGCGATTTTC
66 AGCGCGTTGCGATTTTC
33841 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
33857 TTTCCAAATT
Statistics
Matches: 170, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 169 0.99
83 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (82 bp):
CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
AGCGCGTTGCGATTTTC
Found at i:33868 original size:41 final size:41
Alignment explanation
Indices: 33595--33856 Score: 393
Period size: 41 Copynumber: 6.4 Consensus size: 41
33585 ATTCGCGTTG
* *
33595 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
33636 CATTTCGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * *
33677 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTGTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
*
33718 CATTTCGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
33759 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* *
33800 CATTTCGCGTTGTGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
33841 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
33857 TTTCCAAATT
Statistics
Matches: 199, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.01
41 195 0.98
42 2 0.01
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:33872 original size:19 final size:19
Alignment explanation
Indices: 33828--33912 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
33818 TTGAAATTCG
*
33828 CGTTGCGATTTTCC-ATTT
1 CGTTGCGATTTTCCAAATT
33846 CGCGTTGCGATTTTCCAAATT
1 --CGTTGCGATTTTCCAAATT
* * **
33867 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAAAT-T
33889 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
33908 CGTTG
1 CGTTG
33913 TGATAGTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 15 0.29
20 19 0.37
21 8 0.15
22 10 0.19
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:34007 original size:6 final size:6
Alignment explanation
Indices: 33996--34022 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33986 GACACGTATT
33996 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
34023 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:34659 original size:41 final size:41
Alignment explanation
Indices: 34610--34997 Score: 541
Period size: 41 Copynumber: 9.5 Consensus size: 41
34600 GAAAATCGCA
34610 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
*
34651 ATCGCAACGCGAAATGGAAAATCACAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
34692 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
* *
34733 ATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA-ACT
*
34774 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA-ATTTCAACT
* * *
34816 ATCGCAACGCGAAATGGAAAACCACAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
*** * * ***
34857 ATCGCTTTGCGATGATGG-AGATCGCGTTGCG-ATTTCAACT
1 ATCGCAACGCGA-AATGGAAAATCGCAACGCGAATTTCAACT
*
34897 ATCGCAACGCGAAATGGAAAATCGCAACGCG-ATCTCCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAT-TTCAACT
* *
34938 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
*
34979 ATCGCAATGCGAAATGGAA
1 ATCGCAACGCGAAATGGAA
34998 CGTGAATTTG
Statistics
Matches: 308, Mismatches: 32, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.01
40 29 0.09
41 234 0.76
42 40 0.13
43 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
Found at i:34908 original size:20 final size:20
Alignment explanation
Indices: 34885--34990 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
34875 AGATCGCGTT
*
34885 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
34905 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
34925 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
34946 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
34966 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
34987 GCGA
1 GCGA
34991 AATGGAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:46150 original size:17 final size:17
Alignment explanation
Indices: 46130--46163 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46120 AGTGCTCCAA
46130 GTATATGGAGACTCCTC
1 GTATATGGAGACTCCTC
46147 GTATATGGAGACTCCTC
1 GTATATGGAGACTCCTC
46164 ACTAGTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (17 bp):
GTATATGGAGACTCCTC
Found at i:47716 original size:8 final size:8
Alignment explanation
Indices: 47687--47770 Score: 58
Period size: 8 Copynumber: 11.2 Consensus size: 8
47677 GCTTGAAGAA
*
47687 AAAAAAAG
1 AAAAAATG
*
47695 AACAAATG
1 AAAAAATG
47703 -AAAAATG
1 AAAAAATG
47710 AAAAAATG
1 AAAAAATG
47718 --AAAA-G
1 AAAAAATG
47723 AAAAAATG
1 AAAAAATG
47731 --AAAA-G
1 AAAAAATG
*
47736 AAAAAAAG
1 AAAAAATG
*
47744 AAAAAA-A
1 AAAAAATG
47751 AAATGAAATG
1 AAA--AAATG
47761 AAAAAATG
1 AAAAAATG
47769 AA
1 AA
47771 GAGAGAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
5 2 0.03
6 8 0.13
7 17 0.28
8 28 0.46
9 3 0.05
10 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:47725 original size:13 final size:13
Alignment explanation
Indices: 47690--47780 Score: 112
Period size: 13 Copynumber: 6.9 Consensus size: 13
47680 TGAAGAAAAA
*
47690 AAAAGAACAAATG
1 AAAAGAAAAAATG
47703 AAAAATGAAAAAATG
1 -AAAA-GAAAAAATG
47718 AAAAGAAAAAATG
1 AAAAGAAAAAATG
*
47731 AAAAGAAAAAAAG
1 AAAAGAAAAAATG
47744 AAAA-AAAAAATG
1 AAAAGAAAAAATG
*
47756 AAATGAAAAAATG
1 AAAAGAAAAAATG
* *
47769 AAGAGAGAAAAT
1 AAAAGAAAAAAT
47781 CGAGGGTTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
12 10 0.15
13 42 0.62
14 8 0.12
15 8 0.12
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAAGAAAAAATG
Found at i:47749 original size:21 final size:21
Alignment explanation
Indices: 47690--47749 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
47680 TGAAGAAAAA
* *
47690 AAAAGAACAAATG-AAAAATG
1 AAAAGAAAAAAAGAAAAAATG
*
47710 AAAA-AATGAAAAGAAAAAATG
1 AAAAGAA-AAAAAGAAAAAATG
47731 AAAAGAAAAAAAGAAAAAA
1 AAAAGAAAAAAAGAAAAAA
47750 AAAATGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 8 0.24
21 22 0.65
22 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAGAAAAAAAGAAAAAATG
Found at i:48900 original size:136 final size:136
Alignment explanation
Indices: 48649--48996 Score: 563
Period size: 136 Copynumber: 2.6 Consensus size: 136
48639 GGTGAACCAG
* *
48649 CATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * * *
48714 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACACCTTGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGCTTGAGG
*
48779 GATCAG
131 GATCAA
* *
48785 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAGGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
48850 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGCTTGAGG
48915 GATCAA
131 GATCAA
* * * *
48921 CATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGAAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
*
48985 AGAAGAACTTGT
66 AGAAGAGCTTGT
48997 CCAACTTCGC
Statistics
Matches: 196, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
135 31 0.16
136 165 0.84
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (136 bp):
CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGCTTGAGG
GATCAA
Found at i:49035 original size:91 final size:91
Alignment explanation
Indices: 48916--49087 Score: 281
Period size: 91 Copynumber: 1.9 Consensus size: 91
48906 CGCTTGAGGG
* *
48916 ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
48981 AATGAGAAGAACTTGTCCAACTTCGC
66 AATGAGAAGAACTTGTCCAACTTCGC
* * * *
49007 ATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCAATGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
*
49072 AATGAGAAGAGCTTGT
66 AATGAGAAGAACTTGT
49088 TCGACCTATC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (91 bp):
ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTCCAACTTCGC
Found at i:49108 original size:226 final size:224
Alignment explanation
Indices: 48786--49219 Score: 667
Period size: 226 Copynumber: 1.9 Consensus size: 224
48776 AGGGATCAGT
* * *
48786 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAGGAAGTTCATAATGA
1 ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCGACAGAGGAAGAAGAAGTTCATAATGA
48851 GAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGCTT-GAGG
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCG-TTAGAGG
* *
48915 GATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCA
130 GATCAACATTTCCA--AAAGAGTTCATAATGAGAAGAACTCATCC-ACGAGAAAGAAGAAGTTCA
48980 TAATGAGAAGAACTTGTCCAACTTCGCATCAAC
192 TAATGAGAAGAACTTGTCCAACTTCGCATCAAC
* *
49013 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCC-A-ATGAGGAAGAAGAAGTTCATAATG
1 ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCGACA-GAGGAAGAAGAAGTTCATAATG
* * * **
49076 AGAAGAGCTTGTTCGACCTATCACTTGATTCACGACATTTCGAATCAGTGATGCCTCGTTAGAGG
65 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGTTAGAGG
** *
49141 GATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCCACGAGAAAGAATAAGTTCATAA
130 GATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCCACGAGAAAGAAGAAGTTCATAA
49206 TGAGAAGAACTTGT
195 TGAGAAGAACTTGT
49220 TCAATCTAAC
Statistics
Matches: 190, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
223 34 0.18
224 28 0.15
225 3 0.02
226 90 0.47
227 35 0.18
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (224 bp):
ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCGACAGAGGAAGAAGAAGTTCATAATGA
GAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTCGAATAAGTGACACCTCGTTAGAGGG
ATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCCACGAGAAAGAAGAAGTTCATAAT
GAGAAGAACTTGTCCAACTTCGCATCAAC
Found at i:50261 original size:2 final size:2
Alignment explanation
Indices: 50254--50283 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50244 TACGTGTATG
50254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50284 TATTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51454 original size:59 final size:59
Alignment explanation
Indices: 51355--51488 Score: 196
Period size: 59 Copynumber: 2.3 Consensus size: 59
51345 TCGAGAGTGA
* * * * *
51355 CTCGAGATCGACTTGATTAAGGTTCGATAAATATTTGGATCGAATGGATTCAACTTGAG
1 CTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGATTCAACTTGAG
*
51414 CTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGATTCGACTTGAG
1 CTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGATTCAACTTGAG
* *
51473 CTCGAGCTCGATTCGA
1 CTCGAGATCGACTCGA
51489 GTTCTTAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (59 bp):
CTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGATTCAACTTGAG
Found at i:55232 original size:215 final size:215
Alignment explanation
Indices: 54852--55264 Score: 628
Period size: 215 Copynumber: 1.9 Consensus size: 215
54842 AAAAATATGG
* *
54852 AACAAACCGAAAGAAAAAACAGTGGTTTATTATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
1 AACAAACCGAAAGAAAAAACAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
** *
54917 ATGACAATGGATCGGTGCTTATTACACGGAAAAGAGCTGGGTACACCGTACAAAATAAGATAAAC
66 ATGACAACAGATCGGTGCTTATTACACGGAAAAGAGATGGGTACACCGTACAAAATAAGATAAAC
* * * * *
54982 AAAATCGAGTTCCCACAAGGGTTTTCCCCTGTGCTACGAAGATGGAGACGGCGACAAAAGCAAGA
131 AAAATCGAGTTCCAACAAGAGCTTTCCCCTGTGCTAAGAAGATGGAGACGGAGACAAAAGCAAGA
55047 GAAGGATCTAATTATGTTGA
196 GAAGGATCTAATTATGTTGA
* * *
55067 AACAAACCGAAAGAAGAAATAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTTG
1 AACAAACCGAAAGAAAAAACAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
* * * *
55132 ATGACAACAGATCGGTGCTTATTACATGGAAAAGATATGGGTGCACCGTACAAAATAAGATAAGC
66 ATGACAACAGATCGGTGCTTATTACACGGAAAAGAGATGGGTACACCGTACAAAATAAGATAAAC
* * * * *
55197 AAAATTGAGTTGCAACAAGAGCTTTGCCTTGTGCTAAGAAGATGGAGATGGAGACAAAAGCAAGA
131 AAAATCGAGTTCCAACAAGAGCTTTCCCCTGTGCTAAGAAGATGGAGACGGAGACAAAAGCAAGA
55262 GAA
196 GAA
55265 ATATCTAAGT
Statistics
Matches: 176, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
215 176 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (215 bp):
AACAAACCGAAAGAAAAAACAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
ATGACAACAGATCGGTGCTTATTACACGGAAAAGAGATGGGTACACCGTACAAAATAAGATAAAC
AAAATCGAGTTCCAACAAGAGCTTTCCCCTGTGCTAAGAAGATGGAGACGGAGACAAAAGCAAGA
GAAGGATCTAATTATGTTGA
Found at i:60879 original size:16 final size:16
Alignment explanation
Indices: 60858--60914 Score: 105
Period size: 16 Copynumber: 3.6 Consensus size: 16
60848 CATTTAATAA
60858 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
60874 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
60890 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
60906 ATAAACGAA
1 ATAAACGAA
60915 TATAAACGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:63409 original size:71 final size:73
Alignment explanation
Indices: 63291--63431 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 73
63281 TCGAGACCTG
**
63291 CATGGGCCATTTTTCCCTCTTTTTGTCCTTCAAGAAAAACGGTGCCGTTTCCTTTCATCTAGTGC
1 CATGGGCCATTTTTCCCTCTTTTTGTCAATCAAGAAAAACGGTGCCGTTTCCTTTCATCTAGTGC
63356 TACTCTAC
66 TACTCTAC
*
63364 CATGGGCCA-TTTTCCC-CTTTTTGTCAATCAAGAAAAACGGTGCCGTTTCCTTTCATTTAGTGC
1 CATGGGCCATTTTTCCCTCTTTTTGTCAATCAAGAAAAACGGTGCCGTTTCCTTTCATCTAGTGC
63427 TACTC
66 TACTC
63432 CACCTTGGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 49 0.75
72 7 0.11
73 9 0.14
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (73 bp):
CATGGGCCATTTTTCCCTCTTTTTGTCAATCAAGAAAAACGGTGCCGTTTCCTTTCATCTAGTGC
TACTCTAC
Found at i:63550 original size:31 final size:31
Alignment explanation
Indices: 63523--63677 Score: 220
Period size: 31 Copynumber: 5.0 Consensus size: 31
63513 TCCAAATAAA
* *
63523 CCCCTTCAGTTTGTCAGTTTATTCAAATGAG
1 CCCCTTCAGTTTATCACTTTATTCAAATGAG
*
63554 CCCCTTCAGTTTATCAGTTTATTCAAATGAG
1 CCCCTTCAGTTTATCACTTTATTCAAATGAG
* * * *
63585 CCCCTTCAGTGTATCAATGTATTCAAATGTG
1 CCCCTTCAGTTTATCACTTTATTCAAATGAG
* *
63616 CCCCTTCAGTTTATTACTTTATTCAAATGAA
1 CCCCTTCAGTTTATCACTTTATTCAAATGAG
*
63647 CCCATTCAGTTTATCACTTTATTCAAATGAG
1 CCCCTTCAGTTTATCACTTTATTCAAATGAG
63678 GCAAGTTTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (31 bp):
CCCCTTCAGTTTATCACTTTATTCAAATGAG
Found at i:63741 original size:28 final size:28
Alignment explanation
Indices: 63710--63768 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
63700 TAAGGGGACA
63710 AGCTTTCCTCGTGTATGATTCATAAGAG
1 AGCTTTCCTCGTGTATGATTCATAAGAG
*
63738 AGCTTTCCTCGTGTATGATTCGTAAGAG
1 AGCTTTCCTCGTGTATGATTCATAAGAG
63766 AGC
1 AGC
63769 AAACTCTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (28 bp):
AGCTTTCCTCGTGTATGATTCATAAGAG
Found at i:64520 original size:100 final size:100
Alignment explanation
Indices: 64343--64543 Score: 339
Period size: 100 Copynumber: 2.0 Consensus size: 100
64333 ATTCACGAAC
*
64343 ACAACAAGGTATTCAAATCCAATCCGAGAGTCTAAAGTAGAGAAGATAATTATAATAACAAATAA
1 ACAACAAGGTATTCAAATCCAATACGAGAGTCTAAAGTAGAGAAGATAATTATAATAACAAATAA
64408 AAGAAAAAAACAATCAAAAGACCGAAAACGTGTTA
66 AAGAAAAAAACAATCAAAAGACCGAAAACGTGTTA
* * *
64443 ACAACAAGGTATTCAAGTCCAATATGAGATTCTAAAGTAGAGAAGATAATTATAATAACAAATAA
1 ACAACAAGGTATTCAAATCCAATACGAGAGTCTAAAGTAGAGAAGATAATTATAATAACAAATAA
* * *
64508 ACGAAAAGAACAATCAAAAGATCGAAAACGTGTTA
66 AAGAAAAAAACAATCAAAAGACCGAAAACGTGTTA
64543 A
1 A
64544 AAATATAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.53, C:0.13, G:0.14, T:0.19
Consensus pattern (100 bp):
ACAACAAGGTATTCAAATCCAATACGAGAGTCTAAAGTAGAGAAGATAATTATAATAACAAATAA
AAGAAAAAAACAATCAAAAGACCGAAAACGTGTTA
Found at i:67416 original size:27 final size:27
Alignment explanation
Indices: 67360--67420 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
67350 TTCAAAACAT
* *
67360 TATTATTTTATATAATTAATATTAATA
1 TATTATTTTATATAATTAATAATAAAA
* *
67387 TATTATTTTGATATCATT-TTAATAAAA
1 TATTATTTT-ATATAATTAATAATAAAA
67414 TATTATT
1 TATTATT
67421 AATATATTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
TATTATTTTATATAATTAATAATAAAA
Found at i:67421 original size:30 final size:27
Alignment explanation
Indices: 67353--67421 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 27
67343 ATAAATATTC
*
67353 AAAACATTATTATTTTATATAATTAAT
1 AAAATATTATTATTTTATATAATTAAT
* *
67380 ATTAATA-TATTATTTTGATATCATTTTAAT
1 A-AAATATTATTATTTT-ATAT-A-ATTAAT
67410 AAAATATTATTA
1 AAAATATTATTA
67422 ATATATTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 10 0.30
28 7 0.21
29 5 0.15
30 11 0.33
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (27 bp):
AAAATATTATTATTTTATATAATTAAT
Found at i:67561 original size:42 final size:42
Alignment explanation
Indices: 67487--67573 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
67477 AATAATATTA
* * *
67487 TTATTTTATTAAGTAATTAATATACTTAATAATATATTAATT
1 TTATTTTAATAAATAATTAATATAATTAATAATATATTAATT
* * *
67529 TTATTTTAATAAATATTTAATATAATGT-ATAATATTTTTATT
1 TTATTTTAATAAATAATTAATATAAT-TAATAATATATTAATT
67571 TTA
1 TTA
67574 ATAAAACATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (42 bp):
TTATTTTAATAAATAATTAATATAATTAATAATATATTAATT
Found at i:67696 original size:21 final size:23
Alignment explanation
Indices: 67678--67734 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
67668 AATATTTAAA
67678 AAATAATATTATTACTTTATTAAT
1 AAATAATATTATTACTTTA-TAAT
*
67702 AAATAATATTATTTATTGGTTATAAT
1 AAATAATATTA-TTACT--TTATAAT
67728 AAATAAT
1 AAATAAT
67735 TTTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 11 0.38
25 4 0.14
26 11 0.38
27 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
AAATAATATTATTACTTTATAAT
Found at i:91523 original size:21 final size:21
Alignment explanation
Indices: 91474--91537 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
91464 CATATGAAAT
91474 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTGTGAA
*
91495 TATGTCCCGAAGGACCTGTGAG
1 T-TGTCCCGAAGGACCTGTGAA
* *
91517 TTGTCCCGAAAGACCTATGAA
1 TTGTCCCGAAGGACCTGTGAA
91538 ACCCTTGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTGTGAA
Found at i:92926 original size:64 final size:63
Alignment explanation
Indices: 92828--92988 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
92818 TAATGAAGGT
* *
92828 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
92891 GG
62 GC
*
92893 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
92957 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
92989 CCTCTGTGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:92998 original size:18 final size:20
Alignment explanation
Indices: 92958--93009 Score: 83
Period size: 18 Copynumber: 2.8 Consensus size: 20
92948 TTTAAATTCA
92958 TGCATCGATGCA-CTGCATG
1 TGCATCGATGCACCTGCATG
92977 TGCATCGATGCACCT-C-TG
1 TGCATCGATGCACCTGCATG
92995 TGCATCGATGCACCT
1 TGCATCGATGCACCT
93010 TAAACAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.53
19 13 0.41
20 2 0.06
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACCTGCATG
Found at i:96306 original size:21 final size:21
Alignment explanation
Indices: 96257--96320 Score: 101
Period size: 22 Copynumber: 3.0 Consensus size: 21
96247 CATATGAAAT
96257 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTGTGAA
*
96278 TATGTCCCGAAGGACCTGTGAG
1 T-TGTCCCGAAGGACCTGTGAA
*
96300 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTGTGAA
96321 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 19 0.49
22 20 0.51
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTGTGAA
Found at i:97707 original size:64 final size:63
Alignment explanation
Indices: 97609--97769 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
97599 TAATGAAGGT
* *
97609 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
97672 GG
62 GC
*
97674 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
97738 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
97770 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:101351 original size:21 final size:21
Alignment explanation
Indices: 101312--101352 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
101302 TTAATTTCAG
*
101312 AATTAGAATTGAAGATTCAAA
1 AATTAGAAGTGAAGATTCAAA
* *
101333 AATTAGAAGTGGAGGTTCAA
1 AATTAGAAGTGAAGATTCAA
101353 CAGTAGCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (21 bp):
AATTAGAAGTGAAGATTCAAA
Found at i:109757 original size:8 final size:8
Alignment explanation
Indices: 109744--109817 Score: 121
Period size: 8 Copynumber: 9.2 Consensus size: 8
109734 CATTCACACG
109744 TACATATA
1 TACATATA
109752 TACATATA
1 TACATATA
109760 TACATATA
1 TACATATA
109768 TACATATA
1 TACATATA
109776 TACATATA
1 TACATATA
109784 TACATATA
1 TACATATA
*
109792 TATATATA
1 TACATATA
*
109800 TATATATA
1 TACATATA
*
109808 TATATATA
1 TACATATA
109816 TA
1 TA
109818 GAGAGAGAGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 65 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (8 bp):
TACATATA
Found at i:109760 original size:2 final size:2
Alignment explanation
Indices: 109747--109817 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
109737 TCACACGTAC
* * * * *
109747 AT AT AT AC AT AT AT AC AT AT AT AC AT AT AT AC AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109818 GAGAGAGAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:110940 original size:30 final size:27
Alignment explanation
Indices: 110901--110958 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
110891 AGATCGATTT
110901 TTATATAAAAAAGTTATTTTAATAATATTA
1 TTATAT-AAAAA--TATTTTAATAATATTA
* *
110931 TTATGTAAAAATATTTTAATAATCTTA
1 TTATATAAAAATATTTTAATAATATTA
110958 T
1 T
110959 AATACTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 16 0.62
29 5 0.19
30 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
TTATATAAAAATATTTTAATAATATTA
Done.