Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007425.1 Hibiscus syriacus cultivar Beakdansim tig00020118_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: 140684
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:3297 original size:30 final size:30
Alignment explanation
Indices: 3263--3319 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3253 TTAGCAGATG
*
3263 TGGAA-GCGTGGATCTCTCGGCGTCTTTGCA
1 TGGAAGGC-TGGATATCTCGGCGTCTTTGCA
3293 TGGAAGGCTGGATATCTCGGCGTCTTT
1 TGGAAGGCTGGATATCTCGGCGTCTTT
3320 AACGCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (30 bp):
TGGAAGGCTGGATATCTCGGCGTCTTTGCA
Found at i:3525 original size:23 final size:23
Alignment explanation
Indices: 3499--3542 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3489 TGAGCAGGGG
3499 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGTC
*
3522 CTGCACGTCTTCATGTGGGGG
1 CTGCACGTCTGCATGTGGGGG
3543 GCATGCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.25, G:0.39, T:0.27
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGTC
Found at i:3549 original size:23 final size:22
Alignment explanation
Indices: 3495--3549 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
3485 GGGTTGAGCA
3495 GGGGCTGCACGTCTGCATGTGG
1 GGGGCTGCACGTCTGCATGTGG
* *
3517 GGGTCCTGCACGTCTTCATGTGG
1 GGG-GCTGCACGTCTGCATGTGG
3540 GGGGCATGCA
1 GGGGC-TGCA
3550 ATTGTTGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.11, C:0.24, G:0.42, T:0.24
Consensus pattern (22 bp):
GGGGCTGCACGTCTGCATGTGG
Found at i:3747 original size:40 final size:41
Alignment explanation
Indices: 3687--3769 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
3677 ATAAGAGACT
*
3687 GCTCAGGGCTGAGGTAATTCACAATTACAGAAGCAGTGAGA
1 GCTCAGGGCTGAGGCAATTCACAATTACAGAAGCAGTGAGA
3728 GCTC-GGGCTGAGGCAATTCACAATTACAGAAGCAGTGAGA
1 GCTCAGGGCTGAGGCAATTCACAATTACAGAAGCAGTGAGA
3768 GC
1 GC
3770 CTGAGAGGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (41 bp):
GCTCAGGGCTGAGGCAATTCACAATTACAGAAGCAGTGAGA
Found at i:4300 original size:173 final size:173
Alignment explanation
Indices: 4011--4370 Score: 596
Period size: 173 Copynumber: 2.1 Consensus size: 173
4001 TTGTAAAGTT
* * ** *
4011 TTAGGGACCGTTTTGTAAAATTTTTGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
*
4076 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
* *
4140 GGATTAAATTGCTAAGTTTGAAAATGTTGAGAACCAACTAGTAA
131 -GATTAAATTGCAAAGTTTGAAAATGTTGAGAACCAAATAGTAA
* *
4184 TTAGGGATCATTTTGTAAAATTTGAGGAATTTAAGGAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
*
4249 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
*
4314 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAAGTTTGAAAATGTTGAGAACCAAATAGTAA
4357 TTAGGGATCATTTT
1 TTAGGGATCATTTT
4371 ATATTTGATG
Statistics
Matches: 174, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 173 0.99
174 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (173 bp):
TTAGGGATCATTTTGTAAAATTTGAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAAGTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:6108 original size:6 final size:6
Alignment explanation
Indices: 6101--6149 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
6091 CAAGAAGGAC
* * *
6101 TGGGAC TGGGAG TGGGAG TGGGAG CGGGAG TGGGAG TGGGAG TAGGAG
1 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG
6149 T
1 T
6150 TCTTCTCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.04, G:0.61, T:0.16
Consensus pattern (6 bp):
TGGGAG
Found at i:6652 original size:42 final size:42
Alignment explanation
Indices: 6603--6994 Score: 263
Period size: 37 Copynumber: 9.7 Consensus size: 42
6593 ATATATTTAC
* *
6603 TATTATTATATCAGTAAGTA-TAAATCATTAAAGTCAAGTAAT
1 TATTATTAAATCATTAA-TATTAAATCATTAAAGTCAAGTAAT
* * *
6645 TATTATTAAATCATTAAAATTAAATCATTAAAATTAAGTAAT
1 TATTATTAAATCATTAATATTAAATCATTAAAGTCAAGTAAT
* * *
6687 TATTATTAAATTATTAAAATTAAATCATTAAAGT-AA-TTA-
1 TATTATTAAATCATTAATATTAAATCATTAAAGTCAAGTAAT
6726 T-TTATTAAATCATTAAATCATTAAATCATTAAA-TCATTAAAGTAAT
1 TATTATTAAATCATT-AAT-ATTAAATCATTAAAGTC----AAGTAAT
*
6772 TATTATTAAAGCATTAA-AGTTAAATCATTAAAGTC-----AT
1 TATTATTAAATCATTAATA-TTAAATCATTAAAGTCAAGTAAT
* * *
6809 TATTATTAAATCATTAA-AGTAATTATTATTAAAG-C-ATTAAAGT
1 TATTATTAAATCATTAATATTAA--ATCATTAAAGTCAAGT-AA-T
* *
6852 TAAATCATTAAATCATTAAAATTAAATCATT--A---AAGTAAT
1 T--ATTATTAAATCATTAATATTAAATCATTAAAGTCAAGTAAT
* *
6891 TATTATTAAATCATTAAAATTAAATC-----AGTAAAGTAAT
1 TATTATTAAATCATTAATATTAAATCATTAAAGTCAAGTAAT
6928 TATTATTAAATCATTAA-AGTTAAATCATT--A---AAGTAAT
1 TATTATTAAATCATTAATA-TTAAATCATTAAAGTCAAGTAAT
*
6965 TATTATTAAATCATTAA-AGTTAAATAATTA
1 TATTATTAAATCATTAATA-TTAAATCATTA
6995 TTATTAAATC
Statistics
Matches: 296, Mismatches: 21, Indels: 70
0.76 0.05 0.18
Matches are distributed among these distances:
34 1 0.00
36 4 0.01
37 110 0.37
38 21 0.07
39 6 0.02
40 19 0.06
41 5 0.02
42 69 0.23
43 2 0.01
44 8 0.03
45 30 0.10
46 9 0.03
47 12 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (42 bp):
TATTATTAAATCATTAATATTAAATCATTAAAGTCAAGTAAT
Found at i:6660 original size:14 final size:14
Alignment explanation
Indices: 6643--7045 Score: 87
Period size: 14 Copynumber: 29.9 Consensus size: 14
6633 AAGTCAAGTA
6643 ATTATTATTAAATC
1 ATTATTATTAAATC
**
6657 ATTAAAATTAAATC
1 ATTATTATTAAATC
** * *
6671 ATTAAAATTAAGTA
1 ATTATTATTAAATC
*
6685 ATTATTATTAAATT
1 ATTATTATTAAATC
**
6699 ATTAAAATTAAATC
1 ATTATTATTAAATC
* * *
6713 ATTA-AAGT-AATT
1 ATTATTATTAAATC
6725 A-T-TTATTAAATC
1 ATTATTATTAAATC
*
6737 ATTAAATCATTAAATC
1 ATT--ATTATTAAATC
* *
6753 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
*
6770 ATTATTATTAAAGC
1 ATTATTATTAAATC
*
6784 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
*
6798 ---ATTA--AAGTC
1 ATTATTATTAAATC
6807 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
6821 ---ATTA--AAGTA
1 ATTATTATTAAATC
*
6830 ATTATTATTAAAGC
1 ATTATTATTAAATC
*
6844 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
*
6858 ATTAAATCATTAAA--
1 ATT--ATTATTAAATC
* *
6872 ATTAAATCATTAAAGTA
1 ATT--ATTATTAAA-TC
6889 ATTATTATTAAATC
1 ATTATTATTAAATC
**
6903 ATTAAAATTAAATC
1 ATTATTATTAAATC
* * *
6917 ---AGTA--AAGTA
1 ATTATTATTAAATC
6926 ATTATTATTAAATC
1 ATTATTATTAAATC
*
6940 ATTA-AAGTTAAATC
1 ATTATTA-TTAAATC
* *
6954 ---ATTA--AAGTA
1 ATTATTATTAAATC
6963 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
6977 ATTA-AAGTTAAATA
1 ATTATTA-TTAAATC
6991 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
7005 ATTA-AAGTTAAATA
1 ATTATTA-TTAAATC
* *
7019 ATTA-AATTTAAATA
1 ATTATTA-TTAAATC
7033 ATTATTATTAAAT
1 ATTATTATTAAAT
7046 ATGTACTCGA
Statistics
Matches: 288, Mismatches: 59, Indels: 84
0.67 0.14 0.19
Matches are distributed among these distances:
9 13 0.05
11 11 0.04
12 25 0.09
13 9 0.03
14 175 0.61
15 18 0.06
16 29 0.10
17 8 0.03
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (14 bp):
ATTATTATTAAATC
Found at i:6708 original size:9 final size:8
Alignment explanation
Indices: 6646--7045 Score: 83
Period size: 8 Copynumber: 52.2 Consensus size: 8
6636 TCAAGTAATT
6646 ATTATTAA
1 ATTATTAA
*
6654 ATCATTAA
1 ATTATTAA
6662 A--ATTAA
1 ATTATTAA
*
6668 ATCATTAAA
1 ATTATT-AA
*
6677 ATTAAGTAA
1 ATT-ATTAA
6686 TTATTATTAA
1 --ATTATTAA
6696 ATTATTAA
1 ATTATTAA
6704 A--ATTAA
1 ATTATTAA
*
6710 ATCATTAA
1 ATTATTAA
*
6718 AGTAATT-A
1 A-TTATTAA
*
6726 TTTATTAA
1 ATTATTAA
*
6734 ATCATTAA
1 ATTATTAA
*
6742 ATCATTAA
1 ATTATTAA
*
6750 ATCATTAA
1 ATTATTAA
*
6758 ATCATTAA
1 ATTATTAA
*
6766 AGTAATT--
1 A-TTATTAA
6773 ATTATTAA
1 ATTATTAA
**
6781 AGCATTAA
1 ATTATTAA
*
6789 A--GTTAA
1 ATTATTAA
*
6795 ATCATTAA
1 ATTATTAA
*
6803 AGTCATT--
1 A-TTATTAA
6810 ATTATTAA
1 ATTATTAA
*
6818 ATCATTAA
1 ATTATTAA
*
6826 AGTAATT--
1 A-TTATTAA
6833 ATTATTAA
1 ATTATTAA
**
6841 AGCATTAA
1 ATTATTAA
*
6849 A--GTTAA
1 ATTATTAA
*
6855 ATCATTAA
1 ATTATTAA
*
6863 ATCATTAA
1 ATTATTAA
6871 A--ATTAA
1 ATTATTAA
*
6877 ATCATTAA
1 ATTATTAA
*
6885 AGTAATT--
1 A-TTATTAA
6892 ATTATTAA
1 ATTATTAA
*
6900 ATCATTAA
1 ATTATTAA
6908 A--ATTAA
1 ATTATTAA
* *
6914 ATCAGTAA
1 ATTATTAA
*
6922 AGTAATT--
1 A-TTATTAA
6929 ATTATTAA
1 ATTATTAA
*
6937 ATCATTAA
1 ATTATTAA
*
6945 A--GTTAA
1 ATTATTAA
*
6951 ATCATTAA
1 ATTATTAA
*
6959 AGTAATT--
1 A-TTATTAA
6966 ATTATTAA
1 ATTATTAA
*
6974 ATCATTAA
1 ATTATTAA
*
6982 AGTTAAATAA
1 A-TT-ATTAA
6992 TTATTATTAA
1 --ATTATTAA
*
7002 ATCATTAA
1 ATTATTAA
*
7010 A--GTTAA
1 ATTATTAA
*
7016 ATAATTAA
1 ATTATTAA
7024 A-T-TTAA
1 ATTATTAA
*
7030 ATAATT--
1 ATTATTAA
7036 ATTATTAA
1 ATTATTAA
7044 AT
1 AT
7046 ATGTACTCGA
Statistics
Matches: 299, Mismatches: 45, Indels: 96
0.68 0.10 0.22
Matches are distributed among these distances:
6 78 0.26
7 10 0.03
8 156 0.52
9 35 0.12
10 14 0.05
11 5 0.02
12 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (8 bp):
ATTATTAA
Found at i:6734 original size:16 final size:17
Alignment explanation
Indices: 6704--6966 Score: 106
Period size: 14 Copynumber: 17.3 Consensus size: 17
6694 AAATTATTAA
6704 AATTAAATCATTAAAGT
1 AATTAAATCATTAAAGT
* *
6721 AATT-ATTTATTAAA-T
1 AATTAAATCATTAAAGT
*
6736 CATTAAATCATTAAA-T
1 AATTAAATCATTAAAGT
*
6752 CATTAAATCATTAAAGT
1 AATTAAATCATTAAAGT
*
6769 AATT--ATTATTAAAG-
1 AATTAAATCATTAAAGT
* *
6783 CATTAAA--GTTAAA-T
1 AATTAAATCATTAAAGT
*
6797 CATTAAAGTCATT--A-T
1 AATTAAA-TCATTAAAGT
*
6812 TATTAAATCATTAAAGT
1 AATTAAATCATTAAAGT
*
6829 AATT--ATTATTAAAG-
1 AATTAAATCATTAAAGT
* *
6843 CATTAAA--GTTAAA-T
1 AATTAAATCATTAAAGT
*
6857 CATTAAATCATT-AA--
1 AATTAAATCATTAAAGT
6871 AATTAAATCATTAAAGT
1 AATTAAATCATTAAAGT
*
6888 AATT--ATTATTAAA-T
1 AATTAAATCATTAAAGT
*
6902 CATTAAA--ATTAAA-T
1 AATTAAATCATTAAAGT
* * *
6916 CAGTAAAGTAATT--A-T
1 AATTAAA-TCATTAAAGT
*
6931 TATTAAATCATTAAAG-
1 AATTAAATCATTAAAGT
6947 --TTAAATCATTAAAGT
1 AATTAAATCATTAAAGT
6962 AATTA
1 AATTA
6967 TTATTAAATC
Statistics
Matches: 193, Mismatches: 23, Indels: 60
0.70 0.08 0.22
Matches are distributed among these distances:
14 81 0.42
15 49 0.25
16 39 0.20
17 24 0.12
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.39
Consensus pattern (17 bp):
AATTAAATCATTAAAGT
Found at i:6803 original size:37 final size:37
Alignment explanation
Indices: 6737--6994 Score: 329
Period size: 37 Copynumber: 6.7 Consensus size: 37
6727 TTATTAAATC
*
6737 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATT
* *
6776 ATTAAAGCATTAAAGTTAAATCATTAAAGTCATTATT
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
* *
6813 ATTAAATCATTAAAG-TAATTATTATTAAAGCATTAAAGTTAAATC
1 ATTAAATCATTAAAGTTAA--ATCATTAAAG---T-AA-TT--ATT
*
6858 ATTAAATCATTAAAATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
* *
6895 ATTAAATCATTAAAATTAAATCAGTAAAGTAATTATT
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
6932 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
*
6969 ATTAAATCATTAAAGTTAAATAATTA
1 ATTAAATCATTAAAGTTAAATCATTA
6995 TTATTAAATC
Statistics
Matches: 195, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
36 3 0.02
37 133 0.68
38 9 0.05
39 15 0.08
40 2 0.01
41 2 0.01
42 1 0.01
43 2 0.01
44 9 0.05
45 16 0.08
46 3 0.02
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (37 bp):
ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATT
Found at i:6817 original size:23 final size:23
Alignment explanation
Indices: 6745--6947 Score: 121
Period size: 23 Copynumber: 8.7 Consensus size: 23
6735 TCATTAAATC
*
6745 ATTAAATCATTAAA-TCATTA-A
1 ATTAAATCATTAAAGTCATTATT
* * *
6766 AGTAATTATTATTAAAG-CATTA-A
1 ATTAA--ATCATTAAAGTCATTATT
6789 AGTTAAATCATTAAAGTCATTATT
1 A-TTAAATCATTAAAGTCATTATT
*
6813 ATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTCATTATT
* * * *
6836 ATTAAAGCATTAAAGTTA-AATC
1 ATTAAATCATTAAAGTCATTATT
* * *
6858 ATTAAATCATTAAAATTAAATCATT
1 ATTAAATCATT-AAAGT-CATTATT
* * **
6883 AAAGTAATTATTATTAAA-TCATTAAA
1 --ATTAA--ATCATTAAAGTCATTATT
* *
6909 ATTAAATCAGTAAAGTAATTATT
1 ATTAAATCATTAAAGTCATTATT
6932 ATTAAATCATTAAAGT
1 ATTAAATCATTAAAGT
6948 TAAATCATTA
Statistics
Matches: 140, Mismatches: 28, Indels: 26
0.72 0.14 0.13
Matches are distributed among these distances:
21 4 0.03
22 28 0.20
23 81 0.58
24 9 0.06
25 2 0.01
26 3 0.02
27 5 0.04
28 3 0.02
29 5 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.39
Consensus pattern (23 bp):
ATTAAATCATTAAAGTCATTATT
Found at i:6825 original size:60 final size:60
Alignment explanation
Indices: 6730--7012 Score: 342
Period size: 60 Copynumber: 4.6 Consensus size: 60
6720 TAATTATTTA
*
6730 TTAAATCATTAAA-TCATTAAATCATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
1 TTAAATCATTAAAGTCATT--ATTATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
6791 TTAAATCATTAAAGTCATTATTATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
1 TTAAATCATTAAAGTCATTATTATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
** * *
6851 TTAAATCATTAAA-TCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAA
1 TTAAATCATTAAAGTCATTATTATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
* * * * *
6910 TTAAATCAGTAAAGTAATTATTATTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATTA-
1 TTAAATCATTAAAGTCATTATTATTAAATCATTAAAG-TAATTATTATTAAAG-CATTA-AAG
*
6970 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGT
1 TTAAATCATTAAAG-----TCATTATTATTAAATCATTAAAGT
7013 TAAATAATTA
Statistics
Matches: 198, Mismatches: 14, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
59 62 0.31
60 90 0.45
61 17 0.09
62 5 0.03
64 1 0.01
65 23 0.12
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (60 bp):
TTAAATCATTAAAGTCATTATTATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAG
Found at i:6994 original size:119 final size:118
Alignment explanation
Indices: 6680--6994 Score: 413
Period size: 119 Copynumber: 2.6 Consensus size: 118
6670 CATTAAAATT
* *
6680 AAGTAATTATTATTAAATTATTAAAATTAAATCATTAAAGTAATTATTTATTAAATCATTAAATC
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTA-TTATTAAATCATT-AA--
* * *
6745 ATTAAATCATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAGTTAAATCATTA
62 ATTAAATAATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAATTAAATCAGTA
* * * *
6802 AAGTCATTATTATTAAATCATTAAAG-TAATTATTATTAAAG-CATTA-AAGTTAAATCATTAAA
1 AAGTAATTATTATTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATTA-TTAAATCATTAAA
* *
6864 TCATTAA-AATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCAGTA
63 T--TAAATAATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAATTAAATCAGTA
6921 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA-TT
6986 AAATAATTA
65 AAATAATTA
6995 TTATTAAATC
Statistics
Matches: 167, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
118 14 0.08
119 93 0.56
120 11 0.07
121 13 0.08
122 27 0.16
123 9 0.05
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (118 bp):
AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAATTA
AATAATTAAATCATTAAAGTAATTATTATTAAAGCATTAAAATTAAATCAGTA
Found at i:7029 original size:28 final size:27
Alignment explanation
Indices: 6859--7036 Score: 110
Period size: 23 Copynumber: 6.9 Consensus size: 27
6849 AGTTAAATCA
* *
6859 TTAAATCATTAAAATTAAATCATTAAAG
1 TTAAATAATT-AATTTAAATCATTAAAG
* *
6887 -T-AATTATT-A-TTAAATCATTAAAA
1 TTAAATAATTAATTTAAATCATTAAAG
* * ** *
6910 TTAAATCAGTAAAGT-AATTATT--A-
1 TTAAATAATTAATTTAAATCATTAAAG
* *
6933 TTAAATCATTAAAGTTAAATCATTAAAG
1 TTAAATAATT-AATTTAAATCATTAAAG
*
6961 -T-AATTATT-A-TTAAATCATTAAAG
1 TTAAATAATTAATTTAAATCATTAAAG
*
6984 TTAAATAATTATTATTAAATCATTAAAG
1 TTAAATAATTAAT-TTAAATCATTAAAG
*
7012 TTAAATAATTAAATTTAAATAATTA
1 TTAAATAATT-AATTTAAATCATTA
7037 TTATTAAATA
Statistics
Matches: 120, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
23 36 0.30
24 8 0.07
25 17 0.14
26 19 0.16
27 4 0.03
28 34 0.28
29 2 0.02
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (27 bp):
TTAAATAATTAATTTAAATCATTAAAG
Found at i:7046 original size:14 final size:13
Alignment explanation
Indices: 6858--7046 Score: 90
Period size: 14 Copynumber: 14.6 Consensus size: 13
6848 AAGTTAAATC
*
6858 ATTAAATCATTAAA
1 ATTAAATAATT-AA
*
6872 ATTAAATCATTAA
1 ATTAAATAATTAA
* *
6885 AGT-AATTATT--
1 ATTAAATAATTAA
*
6895 ATTAAATCATTAAA
1 ATTAAATAATT-AA
* *
6909 ATTAAATCAGTAA
1 ATTAAATAATTAA
* *
6922 AGT-AATTATT--
1 ATTAAATAATTAA
*
6932 ATTAAATCATTAA
1 ATTAAATAATTAA
*
6945 AGTTAAATCATTAA
1 A-TTAAATAATTAA
* *
6959 AGT-AATTATT--
1 ATTAAATAATTAA
*
6969 ATTAAATCATTAA
1 ATTAAATAATTAA
*
6982 AGTTAAATAATTATT
1 A-TTAAATAATTA-A
*
6997 ATTAAATCATTAA
1 ATTAAATAATTAA
7010 AGTTAAATAATTAA
1 A-TTAAATAATTAA
*
7024 ATTTAAATAATTATT
1 A-TTAAATAATTA-A
7039 ATTAAATA
1 ATTAAATA
7047 TGTACTCGAG
Statistics
Matches: 139, Mismatches: 21, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
10 6 0.04
11 18 0.13
12 17 0.12
13 12 0.09
14 84 0.60
15 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (13 bp):
ATTAAATAATTAA
Found at i:13210 original size:60 final size:58
Alignment explanation
Indices: 13075--13223 Score: 149
Period size: 59 Copynumber: 2.6 Consensus size: 58
13065 TACCTTAACT
* ** * * * *
13075 TTTTAATATTCTAATTTCATCCTTAAACTATGACTATTGATATGAATTAGTCCTTAAAA
1 TTTTAATATTCCAATTTCATCCCCAAACTAT-AATATTCATATAAATTAGTCCCTAAAA
* * * * *
13134 TTTGAATATTTCAATTTCTTCCCCAAACTATAATATTCATTCTAAATTTGTCCCTAAATA
1 TTTTAATATTCCAATTTCATCCCCAAACTATAATATTCA-TATAAATTAGTCCCTAAA-A
13194 TTTTAATATTCCAATTTCAT-CCC-AACTATA
1 TTTTAATATTCCAATTTCATCCCCAAACTATA
13224 TGTGTATACT
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
58 13 0.18
59 42 0.58
60 18 0.25
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (58 bp):
TTTTAATATTCCAATTTCATCCCCAAACTATAATATTCATATAAATTAGTCCCTAAAA
Found at i:13522 original size:59 final size:60
Alignment explanation
Indices: 13346--13525 Score: 183
Period size: 59 Copynumber: 3.0 Consensus size: 60
13336 TTGGATGAAC
* **
13346 TTGGGGATAAAATTGGAAA-ATTCAAAAGTTTGGGGGACCAATTTAGAAT--GAGTCATAGT
1 TTGGGGATGAAATT-GAAATATTCAAAAGTTT-AAGGACCAATTTAGAATAAGAGTCATAGT
** * * * *
13405 TTATGGATGGAATTGAAATATT-AAAAATATAAGGACTAATTTAGAATGAA-AGTCATAGT
1 TTGGGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAAT-AAGAGTCATAGT
* * *
13464 TTGGGGATGAAATTAAAATATTCAAAAGTTTAAGGACCAATTTAAAATAAGAAT-ATAGT
1 TTGGGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATAAGAGTCATAGT
13523 TTG
1 TTG
13526 AAAACATATT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
57 14 0.14
58 10 0.10
59 50 0.52
60 23 0.24
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (60 bp):
TTGGGGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATAAGAGTCATAGT
Found at i:25884 original size:5 final size:5
Alignment explanation
Indices: 25874--25898 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25864 TTCCATCAAC
25874 TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
25899 CTTTAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:33312 original size:21 final size:21
Alignment explanation
Indices: 33288--33348 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
33278 AACTTTGAAA
33288 AAATAGTTTTCAAAGTTTGGT
1 AAATAGTTTTCAAAGTTTGGT
*
33309 AAAT-G-TTTC----TTT-GA
1 AAATAGTTTTCAAAGTTTGGT
*
33323 AAATGGTTTTCAAAGTTTGGT
1 AAATAGTTTTCAAAGTTTGGT
33344 AAATA
1 AAATA
33349 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (21 bp):
AAATAGTTTTCAAAGTTTGGT
Found at i:33394 original size:36 final size:36
Alignment explanation
Indices: 33280--33398 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
33270 TGGTAACCAA
33280 CTTTGAAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTCAAAGTTTGGTAAATGTTT
* *
33317 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
* *
33352 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAATAG-TTTTCAAAGTTTGGTAAATGTTT
*
33389 -GTTGAAAAAT
1 CTTTGAAAAAT
33399 GATAATGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 33 0.45
36 15 0.21
37 25 0.34
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:37938 original size:21 final size:21
Alignment explanation
Indices: 37914--37974 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
37904 AACTTTGAAA
37914 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
37935 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
37949 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
37970 AAATG
1 AAATG
37975 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:38020 original size:36 final size:36
Alignment explanation
Indices: 37906--38025 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
37896 TGGTAACCAA
37906 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
37943 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
37978 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
38015 -GTTGAAAAATG
1 CTTTGAAAAATG
38026 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:49802 original size:168 final size:168
Alignment explanation
Indices: 49537--50367 Score: 1356
Period size: 168 Copynumber: 4.9 Consensus size: 168
49527 AGGCTACTGC
*
49537 GTCCAAGGAGGAAGAAGCTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
1 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
*
49602 TGCAAGAAGCTCTAGAGGAACTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
66 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
* *
49667 GAAACCGAGTTGCGGAGTGTCATTCAAGAGGCTTCCGA
131 GAAACTGAGTTGCAGAGTGTCATTCAAGAGGCTTCCGA
* *
49705 GTCCAAGGAGGAAGAAGCTCGGTTGAAGGATTGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
1 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
49770 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
66 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
* * *
49835 GAAACCGAGTTGCGGAGTGTCATTCAAGAGGCTTCCAA
131 GAAACTGAGTTGCAGAGTGTCATTCAAGAGGCTTCCGA
49873 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
1 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
* * *
49938 TGCAAGAAGCTCTAGGGGAAGTCAAGACTGGGAGCATGAAATTAAAGGAAAGTTTGTTGGATAAA
66 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
* ** *
50003 GAAACTGAGTTGCAGAGTGTTATTCGGGAGGCTTCTGA
131 GAAACTGAGTTGCAGAGTGTCATTCAAGAGGCTTCCGA
* * *
50041 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAATTGAATATAAAGTGATTTATC
1 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
* * * * * * * *
50106 TGCAAGAAGCTCTAGAGAAAGTCAAGGCCGAGAGCATGAAACTAGACGAGAGGTTGTTGGCTAAA
66 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
* *
50171 GAAAATGAGTTGCAGAGTGTCATTCAAGAGGCTTCTGA
131 GAAACTGAGTTGCAGAGTGTCATTCAAGAGGCTTCCGA
*
50209 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTAATTTATC
1 GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
* * * *
50274 TGCAAGAATCTCTAGAGGAAGTCAAGACTGAGAGCACGAAATTAAAGGAGAGTATGTTCGATAAA
66 TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
50339 GAAACTGAGTTGCAGAGTGTCATTCAAGA
131 GAAACTGAGTTGCAGAGTGTCATTCAAGA
50368 AAACGATGAA
Statistics
Matches: 613, Mismatches: 50, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 613 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (168 bp):
GTCCAAGGAGGAAGAAACTCGGTTGAAGGATAGCCTAAAGGAAGTTGAATCTAAGGTGATTTATC
TGCAAGAAGCTCTAGAGGAAGTCAAGACTGAGAGCATGAAATTAAAGGAGAGTTTGTTGGATAAA
GAAACTGAGTTGCAGAGTGTCATTCAAGAGGCTTCCGA
Found at i:53136 original size:2 final size:2
Alignment explanation
Indices: 53131--53158 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53121 TGTGTGTGTG
53131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53159 AAGTACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56125 original size:21 final size:21
Alignment explanation
Indices: 56092--56136 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
56082 AAACCACACA
*
56092 TTTAATACTTAAACTATCAGT
1 TTTAATACCTAAACTATCAGT
* * *
56113 TTTAGTACCTAAACTTTCATT
1 TTTAATACCTAAACTATCAGT
56134 TTT
1 TTT
56137 TTAAAAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTAATACCTAAACTATCAGT
Found at i:59418 original size:30 final size:29
Alignment explanation
Indices: 59380--59444 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
59370 AGACAGGGAA
59380 ATAA-CCCATACAGATGTCAGAACAAGGAT
1 ATAATCCCATACAGATGTCAGAAC-AGGAT
* *
59409 ATAATCCCATGCAGATGTCAGAACGGGAT
1 ATAATCCCATACAGATGTCAGAACAGGAT
59438 ATAATCC
1 ATAATCC
59445 AGGGTCGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (29 bp):
ATAATCCCATACAGATGTCAGAACAGGAT
Found at i:59438 original size:29 final size:30
Alignment explanation
Indices: 59372--59444 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
59362 CAAAATCAAG
*
59372 ACAGGGAAATAA-CCCATACAGATGTCAGA
1 ACAGGGATATAATCCCATACAGATGTCAGA
* *
59401 ACAAGGATATAATCCCATGCAGATGTCAGA
1 ACAGGGATATAATCCCATACAGATGTCAGA
59431 AC-GGGATATAATCC
1 ACAGGGATATAATCC
59445 AGGGTCGGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 21 0.54
30 18 0.46
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (30 bp):
ACAGGGATATAATCCCATACAGATGTCAGA
Found at i:59682 original size:28 final size:28
Alignment explanation
Indices: 59636--59691 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
59626 TAATCTCATA
59636 TAGAATCAGAACGGAAACTATGCCCATG
1 TAGAATCAGAACGGAAACTATGCCCATG
* * *
59664 TAGAATCAGAATGGTAACTATGCTCATG
1 TAGAATCAGAACGGAAACTATGCCCATG
59692 CAAATATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (28 bp):
TAGAATCAGAACGGAAACTATGCCCATG
Found at i:67343 original size:112 final size:112
Alignment explanation
Indices: 67146--67363 Score: 348
Period size: 112 Copynumber: 1.9 Consensus size: 112
67136 AAAAATCTAA
* *
67146 CTTGTCCCGTTGCATTCTCTACTTCTAACCTAATTTTTGTTAAGTCATTTTTTCATATTATTGAG
1 CTTGTCCCATTGCATTCTCTAATTCTAACCTAATTTTTGTTAAGTCATTTTTTCATATTATTGAG
* * *
67211 TTATTTTGAATGTTATTAATGAGGTTTTATGTCGCTTTTGATCAGAT
66 TTATTTTAAATGTTATTAATGAAGTTTTATATCGCTTTTGATCAGAT
* *
67258 CTTGTCCCATTGCCA-TCTCTAATTCTAACCTAATTTTTGTTAAGTCCTTTTTTCATGTTATTGA
1 CTTGTCCCATTG-CATTCTCTAATTCTAACCTAATTTTTGTTAAGTCATTTTTTCATATTATTGA
*
67322 GTTATTTTAAATGTTATTAATGAAGTTTTATATCTCTTTTGA
65 GTTATTTTAAATGTTATTAATGAAGTTTTATATCGCTTTTGA
67364 CGATATGATC
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
112 95 0.98
113 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.50
Consensus pattern (112 bp):
CTTGTCCCATTGCATTCTCTAATTCTAACCTAATTTTTGTTAAGTCATTTTTTCATATTATTGAG
TTATTTTAAATGTTATTAATGAAGTTTTATATCGCTTTTGATCAGAT
Found at i:68481 original size:2 final size:2
Alignment explanation
Indices: 68476--68509 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
68466 TTAAAAATTA
68476 AT AT 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 AT AT
68510 TCGAATATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70147 original size:2 final size:2
Alignment explanation
Indices: 70140--70167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70130 TTTCATGCAG
70140 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
70168 TAATCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71252 original size:6 final size:6
Alignment explanation
Indices: 71238--71276 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
71228 ATAATAATGT
* *
71238 GGAAAA GGAGGA GGAAGA GGAAGA GGAAGA GGAAGA GGA
1 GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGA
71277 GAAAGAAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GGAAGA
Found at i:71264 original size:18 final size:18
Alignment explanation
Indices: 71238--71286 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
71228 ATAATAATGT
*
71238 GGAAAAGGAGGAGGAAGA
1 GGAAAAGGAAGAGGAAGA
*
71256 GGAAGAGGAAGAGGAAGA
1 GGAAAAGGAAGAGGAAGA
71274 GGAGAAA-GAAGAG
1 GGA-AAAGGAAGAG
71287 AACGAAGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (18 bp):
GGAAAAGGAAGAGGAAGA
Found at i:78226 original size:12 final size:12
Alignment explanation
Indices: 78209--78235 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78199 GGTACATTCA
78209 CTTATTAAAATT
1 CTTATTAAAATT
78221 CTTATTAAAATT
1 CTTATTAAAATT
78233 CTT
1 CTT
78236 CCCAACAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTATTAAAATT
Found at i:79255 original size:2 final size:2
Alignment explanation
Indices: 79250--79301 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
79240 TGATTTTTTA
79250 AT AT AT AT AT AT AT AT AT AT -T A- 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 AT AT AT AT AT AT
79290 AT AT AT AT AT AT
1 AT AT AT AT AT AT
79302 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82298 original size:16 final size:16
Alignment explanation
Indices: 82279--82336 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
82269 TCGTGTTCGT
82279 TTATTTATTTTTGAAG
1 TTATTTATTTTTGAAG
* **
82295 TTATTTATGTTTGTTCG
1 TTATTTATTTTTG-AAG
82312 TTTATTTATTTTTGAAG
1 -TTATTTATTTTTGAAG
82329 TTATTTAT
1 TTATTTAT
82337 ATTTATTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 20 0.59
17 2 0.06
18 12 0.35
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.66
Consensus pattern (16 bp):
TTATTTATTTTTGAAG
Found at i:82315 original size:34 final size:34
Alignment explanation
Indices: 82263--82353 Score: 137
Period size: 34 Copynumber: 2.6 Consensus size: 34
82253 TACAATCAAA
82263 TTATATTCGTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATATT--TGTTCGTTTATTTATTTTTGAAGTTAT
*
82299 TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATATTTGTTCGTTTATTTATTTTTGAAGTTAT
* *
82333 TTATATTTATTCGTTCATTTA
1 TTATATTTGTTCGTTTATTTA
82354 GTGTTTGTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 45 0.88
36 6 0.12
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.63
Consensus pattern (34 bp):
TTATATTTGTTCGTTTATTTATTTTTGAAGTTAT
Found at i:84267 original size:2 final size:2
Alignment explanation
Indices: 84260--84287 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84250 CCAAATTGTT
84260 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
84288 AACCACCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:85510 original size:21 final size:21
Alignment explanation
Indices: 85484--85536 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
85474 TTTACTATTA
85484 TTTAGGGTTTATGA-CTTA-AGG
1 TTTAGGGTTTA-GAGCTTATA-G
* *
85505 TTTAGGGGTTAGAGTTTATAG
1 TTTAGGGTTTAGAGCTTATAG
85526 TTTAGGGTTTA
1 TTTAGGGTTTA
85537 AGGTTTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGAGCTTATAG
Found at i:85967 original size:121 final size:122
Alignment explanation
Indices: 85810--86038 Score: 316
Period size: 121 Copynumber: 1.9 Consensus size: 122
85800 GTATTAAAAT
* * * *
85810 ATCAAAAATGATAGTTTAGGTACTAAATGCGCTAAGTTTTTAATGATGGATACTAAAATACAACA
1 ATCAAAAATAATAGTTTAGGTACTAAATGCACTAAGTTTTTAACGACGGATACTAAAATACAACA
* * * *
85875 AAAACTAAACTTTAGATTTGATTTTGGAA-AAATGAATGTTTAAATGATAAAAACGG
66 AAAACTAAACTTTAAATATAATTTTGAAAGAAATGAATGTTTAAATGATAAAAACGG
* * * * * * *
85931 ATCAAAACTAATAGTTTAGGTGCTAGATGCATTAAGTTTTTAACGGCGGATACTAAAATGCAACC
1 ATCAAAAATAATAGTTTAGGTACTAAATGCACTAAGTTTTTAACGACGGATACTAAAATACAACA
85996 AAAACTAAACTTTAAATATAATTTTGAAAGAAATGAATGTTTA
66 AAAACTAAACTTTAAATATAATTTTGAAAGAAATGAATGTTTA
86039 GGTAATAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
121 79 0.86
122 13 0.14
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (122 bp):
ATCAAAAATAATAGTTTAGGTACTAAATGCACTAAGTTTTTAACGACGGATACTAAAATACAACA
AAAACTAAACTTTAAATATAATTTTGAAAGAAATGAATGTTTAAATGATAAAAACGG
Found at i:87300 original size:51 final size:50
Alignment explanation
Indices: 87220--87319 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
87210 AAAGTCTAGA
* *
87220 GACTAATTTAGAATAAGGGTCATAGTTTGAGGATAAAATTGGAATGTTCAG
1 GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAAT-TTCAG
* * * *
87271 GACTAATTTAGAATGAGTATCATATTTTGAGGATGAAATTAGAATTTCA
1 GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAATTTCA
87320 AAAGTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (50 bp):
GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAATTTCAG
Found at i:89963 original size:16 final size:16
Alignment explanation
Indices: 89944--90006 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
89934 TCGTGTTCGT
*
89944 TTATTTATTTTTGAAG
1 TTATTTATGTTTGAAG
**
89960 TTATTTATGTTTGTTCG
1 TTATTTATGTTTG-AAG
*
89977 TTTATTTATTTTTGAAG
1 -TTATTTATGTTTGAAG
89994 TTATTTATGTTTG
1 TTATTTATGTTTG
90007 TTCATTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 24 0.63
17 2 0.05
18 12 0.32
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.65
Consensus pattern (16 bp):
TTATTTATGTTTGAAG
Found at i:89977 original size:34 final size:34
Alignment explanation
Indices: 89928--90018 Score: 146
Period size: 34 Copynumber: 2.6 Consensus size: 34
89918 TACAATCAAA
89928 TTATGTTCGTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATGTT--TGTTCGTTTATTTATTTTTGAAGTTAT
89964 TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
* *
89998 TTATGTTTGTTCATTCATTTA
1 TTATGTTTGTTCGTTTATTTA
90019 GTGTTTGTGA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
34 46 0.87
36 7 0.13
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.63
Consensus pattern (34 bp):
TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
Found at i:91934 original size:2 final size:2
Alignment explanation
Indices: 91927--91956 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91917 CCAAATTGTT
91927 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
91957 AACCACCCTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:93179 original size:21 final size:21
Alignment explanation
Indices: 93153--93205 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
93143 TTTACTATTA
93153 TTTAGGGTTTATGA-CTTA-AGG
1 TTTAGGGTTTA-GAGCTTATA-G
* *
93174 TTTAGGGGTTAGAGTTTATAG
1 TTTAGGGTTTAGAGCTTATAG
93195 TTTAGGGTTTA
1 TTTAGGGTTTA
93206 AGGTTTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGAGCTTATAG
Found at i:93755 original size:122 final size:120
Alignment explanation
Indices: 93446--93756 Score: 334
Period size: 122 Copynumber: 2.5 Consensus size: 120
93436 CGTCGCCATG
** * *
93446 TTTTGAAAAAATTGAAAATTTAGGTATTAAAATATATCAAAAATGATAGTTTAGGTACTAAATGC
1 TTTTGAAAAAA-TGAATGTTTAGGTATAAAAACATATCAAAAATGATAGTTTAGGTACTAAATGC
** * * * * *
93511 GCTAAGTTTTTAATGATGGATACTAAAATACAACAAAAACTAAACTTTAGATTTGA
65 ATTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
** ** * * * *
93567 TTTTGGAAAAAATGAATGTTTAAATGATAAAAACGGATCAAAACTAATAGTTTAGGTGCTAGATG
1 TTTT-GAAAAAATGAATGTTTAGGT-ATAAAAACATATCAAAAATGATAGTTTAGGTACTAAATG
* * *
93632 CATTAAGTTTTTAACGGCGGATACTAAAATGCAACCAAAACTAAACTTTAAATATAA
64 CATTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
* * ** *
93689 TTTTGAAAGAAATGAATGTTTAGGTAATAAAAACATATCTAAATTGATAGTTTATATATTAAATG
1 TTTTGAAA-AAATGAATGTTTAGGT-ATAAAAACATATCAAAAATGATAGTTTAGGTACTAAATG
93754 CAT
64 CAT
93757 AATTTACCCC
Statistics
Matches: 152, Mismatches: 35, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
121 17 0.11
122 135 0.89
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (120 bp):
TTTTGAAAAAATGAATGTTTAGGTATAAAAACATATCAAAAATGATAGTTTAGGTACTAAATGCA
TTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
Found at i:94971 original size:51 final size:50
Alignment explanation
Indices: 94891--94990 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
94881 AAAGTCTAGA
* *
94891 GACTAATTTAGAATAAGGGTCATAGTTTGAGGATAAAATTGGAATGTTCAG
1 GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAAT-TTCAG
* * * *
94942 GACTAATTTAGAATGAGTATCATATTTTGAGGATGAAATTAGAATTTCA
1 GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAATTTCA
94991 AAAGTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (50 bp):
GACTAATTTAGAATAAGGATCATAGTTTGAGGATAAAATTAGAATTTCAG
Found at i:97643 original size:16 final size:16
Alignment explanation
Indices: 97624--97686 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
97614 TCGTGTTCGT
*
97624 TTATTTATTTTTGAAG
1 TTATTTATGTTTGAAG
**
97640 TTATTTATGTTTGTTCG
1 TTATTTATGTTTG-AAG
*
97657 TTTATTTATTTTTGAAG
1 -TTATTTATGTTTGAAG
97674 TTATTTATGTTTG
1 TTATTTATGTTTG
97687 TTCATTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 24 0.63
17 2 0.05
18 12 0.32
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.65
Consensus pattern (16 bp):
TTATTTATGTTTGAAG
Found at i:97657 original size:34 final size:34
Alignment explanation
Indices: 97608--97698 Score: 146
Period size: 34 Copynumber: 2.6 Consensus size: 34
97598 TACAATCAAA
97608 TTATGTTCGTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATGTT--TGTTCGTTTATTTATTTTTGAAGTTAT
97644 TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
1 TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
* *
97678 TTATGTTTGTTCATTCATTTA
1 TTATGTTTGTTCGTTTATTTA
97699 GTGTTTGTGA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
34 46 0.87
36 7 0.13
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.63
Consensus pattern (34 bp):
TTATGTTTGTTCGTTTATTTATTTTTGAAGTTAT
Found at i:99612 original size:2 final size:2
Alignment explanation
Indices: 99605--99630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99595 CCAAATTGTT
99605 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
99631 AACCACCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:100852 original size:21 final size:21
Alignment explanation
Indices: 100826--100878 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
100816 TTTACTATTA
100826 TTTAGGGTTTATGA-CTTA-AGG
1 TTTAGGGTTTA-GAGCTTATA-G
* *
100847 TTTAGGGGTTAGAGTTTATAG
1 TTTAGGGTTTAGAGCTTATAG
100868 TTTAGGGTTTA
1 TTTAGGGTTTA
100879 AGGTTTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGAGCTTATAG
Found at i:101430 original size:122 final size:120
Alignment explanation
Indices: 101121--101431 Score: 325
Period size: 122 Copynumber: 2.5 Consensus size: 120
101111 CGTCGCCATG
** * * * *
101121 TTTTGAAAAAATTGAAAATTTAGGTATTAAAATATATCAAAAATGATAGTTTAGGTACTAAACGC
1 TTTTGAAAAAA-TGAATGTTTAGGTATAAAAACATATCAAAAATGATAGTTTAGATACTAAATGC
** * * * * *
101186 GCTAAGTTTTTAATGATGGATACTAAAATACAACAAAAACTAAACTTTAGATTTGA
65 ATTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
** ** * * * *
101242 TTTTGGAAAAAATGAATGTTTAAATGATAAAAACGGATCAAAACTAATAGTTTAGATGCTAGATG
1 TTTT-GAAAAAATGAATGTTTAGGT-ATAAAAACATATCAAAAATGATAGTTTAGATACTAAATG
* * *
101307 CATTAAGTTTTTAACGGCGGATACTAAAATGCAACCAAAACTAAACTTTAAATATAA
64 CATTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
* * * *
101364 TTTTGAAAGAAATGAATGTTTAGGTAATAAAAACATATCTAAATTGATAGTTTATATATTAAATG
1 TTTTGAAA-AAATGAATGTTTAGGT-ATAAAAACATATCAAAAATGATAGTTTAGATACTAAATG
101429 CAT
64 CAT
101432 AATTTACCCC
Statistics
Matches: 151, Mismatches: 36, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
121 17 0.11
122 134 0.89
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (120 bp):
TTTTGAAAAAATGAATGTTTAGGTATAAAAACATATCAAAAATGATAGTTTAGATACTAAATGCA
TTAAGTTTTTAACGACGGATACTAAAATACAACAAAAACTAAACTTTAAATATAA
Found at i:102648 original size:51 final size:50
Alignment explanation
Indices: 102568--102667 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
102558 AAAGTCTAGA
* * *
102568 GACTAATTTAGAATAAGGGTCATAGTTTGAGGATAAAATTGGAATGTTCAG
1 GACTAATTTAGAATAAGGATCATAATTTGAGGATAAAATTAGAAT-TTCAG
* * *
102619 GACTAATTTAGAATGAGTATCATAATTTGAGGATGAAATTAGAATTTCA
1 GACTAATTTAGAATAAGGATCATAATTTGAGGATAAAATTAGAATTTCA
102668 AAAGTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (50 bp):
GACTAATTTAGAATAAGGATCATAATTTGAGGATAAAATTAGAATTTCAG
Found at i:104070 original size:8 final size:8
Alignment explanation
Indices: 104057--106116 Score: 1761
Period size: 8 Copynumber: 259.1 Consensus size: 8
104047 TCTCGTTCAA
*
104057 GTACGTAC
1 GTACGTAT
*
104065 GTACGTAC
1 GTACGTAT
104073 GTACGTAT
1 GTACGTAT
*
104081 GTATGTAT
1 GTACGTAT
*
104089 GTATGTAT
1 GTACGTAT
104097 GTACGTAT
1 GTACGTAT
104105 GTACGTAT
1 GTACGTAT
104113 GTACGTAT
1 GTACGTAT
104121 GTACGTAT
1 GTACGTAT
104129 GTACGTAT
1 GTACGTAT
*
104137 GTACGTAC
1 GTACGTAT
* *
104145 ATACATAT
1 GTACGTAT
*
104153 GTATGTAT
1 GTACGTAT
104161 GTACGTAT
1 GTACGTAT
*
104169 GTACGTAG
1 GTACGTAT
*
104177 GTACGTAC
1 GTACGTAT
* *
104185 ATACATAT
1 GTACGTAT
*
104193 GTATGTAT
1 GTACGTAT
* *
104201 ATACGTAC
1 GTACGTAT
* *
104209 ATACATAT
1 GTACGTAT
*
104217 ATACGTAT
1 GTACGTAT
*
104225 GTACGTAC
1 GTACGTAT
* *
104233 ATACATAT
1 GTACGTAT
104241 GTACGTAT
1 GTACGTAT
*
104249 GTACGTAC
1 GTACGTAT
*
104257 ATACGTAT
1 GTACGTAT
*
104265 ATA--TAT
1 GTACGTAT
*
104271 GTATGTAT
1 GTACGTAT
*
104279 GTATGTAT
1 GTACGTAT
*
104287 GTATGTAT
1 GTACGTAT
*
104295 GTATGTAT
1 GTACGTAT
*
104303 GTATGTAT
1 GTACGTAT
*
104311 GTATGTAT
1 GTACGTAT
*
104319 GTATGTAT
1 GTACGTAT
*
104327 GTATGTAT
1 GTACGTAT
*
104335 GTATGTAT
1 GTACGTAT
*
104343 GTATGTAT
1 GTACGTAT
*
104351 GTATGTAT
1 GTACGTAT
*
104359 GTATGTAT
1 GTACGTAT
*
104367 GTATGTAT
1 GTACGTAT
*
104375 GTATGTAT
1 GTACGTAT
*
104383 GTATGTAT
1 GTACGTAT
*
104391 GTATGTAT
1 GTACGTAT
*
104399 GTATGTAT
1 GTACGTAT
*
104407 GTATGTAT
1 GTACGTAT
*
104415 GTATGTAT
1 GTACGTAT
*
104423 GTATGTAT
1 GTACGTAT
*
104431 GTATGTAT
1 GTACGTAT
*
104439 GTATGTAT
1 GTACGTAT
*
104447 GTATGTAT
1 GTACGTAT
*
104455 GTATGTAT
1 GTACGTAT
*
104463 GTATGTAT
1 GTACGTAT
*
104471 GTATGTAT
1 GTACGTAT
*
104479 GTATGTAT
1 GTACGTAT
*
104487 GTATGTAT
1 GTACGTAT
*
104495 GTATGTAT
1 GTACGTAT
*
104503 GTATGTAT
1 GTACGTAT
*
104511 GTATGTAT
1 GTACGTAT
*
104519 GTATGTAT
1 GTACGTAT
*
104527 GTATGTAT
1 GTACGTAT
*
104535 GTATGTAT
1 GTACGTAT
*
104543 GTATGTAT
1 GTACGTAT
*
104551 GTATGTAT
1 GTACGTAT
*
104559 GTATGTAT
1 GTACGTAT
*
104567 GTATGTAT
1 GTACGTAT
*
104575 GTATGTAT
1 GTACGTAT
*
104583 GTATGTAT
1 GTACGTAT
*
104591 GTATGTAT
1 GTACGTAT
*
104599 GTATGTAT
1 GTACGTAT
*
104607 GTATGTAT
1 GTACGTAT
*
104615 GTATGTAT
1 GTACGTAT
*
104623 GTATGTAT
1 GTACGTAT
*
104631 GTATGTAT
1 GTACGTAT
*
104639 GTATGTAT
1 GTACGTAT
*
104647 GTATGTAT
1 GTACGTAT
*
104655 GTATGTAT
1 GTACGTAT
*
104663 GTATGTAT
1 GTACGTAT
*
104671 GTATGTAT
1 GTACGTAT
*
104679 GTATGTAT
1 GTACGTAT
*
104687 GTATGTAT
1 GTACGTAT
*
104695 GTATGTAT
1 GTACGTAT
*
104703 GTATGTAT
1 GTACGTAT
*
104711 GTATGTAT
1 GTACGTAT
*
104719 GTATGTAT
1 GTACGTAT
*
104727 GTATGTAT
1 GTACGTAT
*
104735 GTATGTAT
1 GTACGTAT
*
104743 GTATGTAT
1 GTACGTAT
*
104751 GTATGTAT
1 GTACGTAT
*
104759 GTATGTAT
1 GTACGTAT
104767 GT--GTAT
1 GTACGTAT
*
104773 GTATGTAT
1 GTACGTAT
*
104781 GTATGTAT
1 GTACGTAT
*
104789 GTATGTAT
1 GTACGTAT
*
104797 GTATGTAT
1 GTACGTAT
*
104805 GTATGTAT
1 GTACGTAT
*
104813 GTATGTAT
1 GTACGTAT
*
104821 GTATGTAT
1 GTACGTAT
*
104829 GTATGTAT
1 GTACGTAT
*
104837 GTATGTAT
1 GTACGTAT
*
104845 GTATGTAT
1 GTACGTAT
*
104853 GTATGTAT
1 GTACGTAT
*
104861 GTATGTAT
1 GTACGTAT
*
104869 GTATGTAT
1 GTACGTAT
*
104877 GTATGTAT
1 GTACGTAT
*
104885 GTATGTAT
1 GTACGTAT
*
104893 GTATGTAT
1 GTACGTAT
*
104901 GTATGTAT
1 GTACGTAT
*
104909 GTA--TGT
1 GTACGTAT
*
104915 GTATGTAT
1 GTACGTAT
*
104923 GTATGTAT
1 GTACGTAT
*
104931 GTATGTAT
1 GTACGTAT
*
104939 GTATGTAT
1 GTACGTAT
*
104947 GTATGTAT
1 GTACGTAT
*
104955 GTATGTAT
1 GTACGTAT
*
104963 GTATGTAT
1 GTACGTAT
*
104971 GTATGTAT
1 GTACGTAT
*
104979 GTATGTAT
1 GTACGTAT
*
104987 GTATGTAT
1 GTACGTAT
*
104995 GTATGTAT
1 GTACGTAT
*
105003 GTATGTAT
1 GTACGTAT
*
105011 GTATGTAT
1 GTACGTAT
*
105019 GTATGTAT
1 GTACGTAT
*
105027 GTATGTAT
1 GTACGTAT
*
105035 GTATGTAT
1 GTACGTAT
*
105043 GTATGTAT
1 GTACGTAT
*
105051 GTATGTAT
1 GTACGTAT
*
105059 GTATGTAT
1 GTACGTAT
*
105067 GTATGTAT
1 GTACGTAT
*
105075 GTATGTAT
1 GTACGTAT
*
105083 GTATGTAT
1 GTACGTAT
*
105091 GTATGTAT
1 GTACGTAT
*
105099 GTATGTAT
1 GTACGTAT
*
105107 GTATGTAT
1 GTACGTAT
*
105115 GTATGTAT
1 GTACGTAT
*
105123 GTATGTAT
1 GTACGTAT
*
105131 GTATGTAT
1 GTACGTAT
*
105139 GTATGTAT
1 GTACGTAT
*
105147 GTATGTAT
1 GTACGTAT
*
105155 GTATGTAT
1 GTACGTAT
*
105163 GTATGTAT
1 GTACGTAT
*
105171 GTATGTAT
1 GTACGTAT
*
105179 GTATGTAT
1 GTACGTAT
*
105187 GTATGTAT
1 GTACGTAT
105195 GTA--TAT
1 GTACGTAT
*
105201 GTATGTAT
1 GTACGTAT
*
105209 GTATGTAT
1 GTACGTAT
*
105217 GTATGTAT
1 GTACGTAT
*
105225 GTATGTAT
1 GTACGTAT
*
105233 GTATGTAT
1 GTACGTAT
*
105241 GTATGTAT
1 GTACGTAT
*
105249 GTATGTAT
1 GTACGTAT
*
105257 GTATGTAT
1 GTACGTAT
*
105265 GTATGTAT
1 GTACGTAT
*
105273 GTATGTAT
1 GTACGTAT
*
105281 GTATGTAT
1 GTACGTAT
*
105289 GTATGTAT
1 GTACGTAT
*
105297 GTATGTAT
1 GTACGTAT
*
105305 GTATGTAT
1 GTACGTAT
*
105313 GTATGTAT
1 GTACGTAT
*
105321 GTATGTAT
1 GTACGTAT
*
105329 GTATGTAT
1 GTACGTAT
*
105337 GTATGTAT
1 GTACGTAT
*
105345 GTATGTAT
1 GTACGTAT
*
105353 GTATGTAT
1 GTACGTAT
*
105361 GTATGTAT
1 GTACGTAT
*
105369 GTATGTAT
1 GTACGTAT
*
105377 GTATGTAT
1 GTACGTAT
*
105385 GTATGTAT
1 GTACGTAT
*
105393 GTATGTAT
1 GTACGTAT
*
105401 GTATGTAT
1 GTACGTAT
*
105409 GTATGTAT
1 GTACGTAT
*
105417 GTATGTAT
1 GTACGTAT
*
105425 GTATGTAT
1 GTACGTAT
*
105433 GTATGTAT
1 GTACGTAT
*
105441 GTATGTAT
1 GTACGTAT
*
105449 GTATGTAT
1 GTACGTAT
*
105457 GTATGTAT
1 GTACGTAT
*
105465 GTATGTAT
1 GTACGTAT
*
105473 GTATGTAT
1 GTACGTAT
*
105481 GTATGTAT
1 GTACGTAT
*
105489 GTATGTAT
1 GTACGTAT
*
105497 GTATGTAT
1 GTACGTAT
*
105505 GTATGTAT
1 GTACGTAT
*
105513 GTATGTAT
1 GTACGTAT
*
105521 GTATGTAT
1 GTACGTAT
*
105529 GTATGTAT
1 GTACGTAT
*
105537 GTATGTAT
1 GTACGTAT
*
105545 GTATGTAT
1 GTACGTAT
*
105553 GTATGTAT
1 GTACGTAT
*
105561 GTATGTAT
1 GTACGTAT
*
105569 GTATGTAT
1 GTACGTAT
*
105577 GTATGTAT
1 GTACGTAT
*
105585 GTATGTAT
1 GTACGTAT
*
105593 GTATGTAT
1 GTACGTAT
*
105601 GTATGTAT
1 GTACGTAT
*
105609 GTATGTAT
1 GTACGTAT
*
105617 GTATGTAT
1 GTACGTAT
*
105625 GTATGTAT
1 GTACGTAT
*
105633 GTATGTAT
1 GTACGTAT
*
105641 GTATGTAT
1 GTACGTAT
*
105649 GTATGTAT
1 GTACGTAT
*
105657 GTATGTAT
1 GTACGTAT
*
105665 GTATGTAT
1 GTACGTAT
*
105673 GTATGTAT
1 GTACGTAT
*
105681 GTATGTAT
1 GTACGTAT
*
105689 GTATGTAT
1 GTACGTAT
*
105697 GTATGTAT
1 GTACGTAT
*
105705 GTATGTAT
1 GTACGTAT
*
105713 GTATGTAT
1 GTACGTAT
*
105721 GTATGTAT
1 GTACGTAT
*
105729 GTATGTAT
1 GTACGTAT
*
105737 GTATGTAT
1 GTACGTAT
*
105745 GTATGTAT
1 GTACGTAT
*
105753 GTATGTAT
1 GTACGTAT
*
105761 GTATGTAT
1 GTACGTAT
*
105769 GTATGTAT
1 GTACGTAT
*
105777 GTATGTAT
1 GTACGTAT
*
105785 GTATGTAT
1 GTACGTAT
*
105793 GTATGTAT
1 GTACGTAT
*
105801 GTATGTAT
1 GTACGTAT
*
105809 GTATGTAT
1 GTACGTAT
*
105817 GTATGTAT
1 GTACGTAT
*
105825 GTATGTAT
1 GTACGTAT
105833 GTA-GTAT
1 GTACGTAT
*
105840 GTATGTAT
1 GTACGTAT
*
105848 GTATGTAT
1 GTACGTAT
*
105856 GTATGTAT
1 GTACGTAT
*
105864 GTATGTAT
1 GTACGTAT
*
105872 GTATGTAT
1 GTACGTAT
*
105880 GTATGTAT
1 GTACGTAT
*
105888 GTATGTAT
1 GTACGTAT
*
105896 GTATGTAT
1 GTACGTAT
*
105904 GTATGTAT
1 GTACGTAT
*
105912 GTATGTAT
1 GTACGTAT
*
105920 GTATGTAT
1 GTACGTAT
*
105928 GTATGTAT
1 GTACGTAT
*
105936 GTATGTAT
1 GTACGTAT
*
105944 GTATGTAT
1 GTACGTAT
*
105952 GTA--TGT
1 GTACGTAT
*
105958 GTATGTAT
1 GTACGTAT
*
105966 GTATGTAT
1 GTACGTAT
*
105974 GTATGTAT
1 GTACGTAT
*
105982 GTATGTAT
1 GTACGTAT
*
105990 GTATGTAT
1 GTACGTAT
*
105998 GTATGTAT
1 GTACGTAT
*
106006 GTATGTAT
1 GTACGTAT
*
106014 GTATGTAT
1 GTACGTAT
106022 GT--GTAT
1 GTACGTAT
*
106028 GTATGTAT
1 GTACGTAT
*
106036 GTATGTAT
1 GTACGTAT
*
106044 GTATGTAT
1 GTACGTAT
*
106052 GTATGTAT
1 GTACGTAT
*
106060 GTATGTAT
1 GTACGTAT
*
106068 GTATGTAT
1 GTACGTAT
106076 GTACGTAT
1 GTACGTAT
* *
106084 GTATGTAC
1 GTACGTAT
*
106092 GTATGTAT
1 GTACGTAT
*
106100 GTATGTAT
1 GTACGTAT
*
106108 GTATGTAT
1 GTACGTAT
106116 G
1 G
106117 CTGTTATTAA
Statistics
Matches: 1995, Mismatches: 44, Indels: 26
0.97 0.02 0.01
Matches are distributed among these distances:
6 33 0.02
7 7 0.00
8 1955 0.98
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (8 bp):
GTACGTAT
Found at i:104275 original size:4 final size:4
Alignment explanation
Indices: 104268--106116 Score: 3603
Period size: 4 Copynumber: 465.0 Consensus size: 4
104258 TACGTATATA
104268 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104316 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104364 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104412 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104460 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104508 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104556 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104604 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104652 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104700 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104748 TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104794 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104842 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104890 TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104936 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
104984 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105080 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105128 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105176 TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105222 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105270 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105318 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105366 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105414 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105462 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105510 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105558 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105606 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105654 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105702 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105750 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105798 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105845 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105893 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105941 TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
105987 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
106033 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
106081 TATG TATG TACG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
106117 CTGTTATTAA
Statistics
Matches: 1830, Mismatches: 4, Indels: 22
0.99 0.00 0.01
Matches are distributed among these distances:
2 10 0.01
3 3 0.00
4 1817 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:106382 original size:165 final size:165
Alignment explanation
Indices: 106110--106440 Score: 653
Period size: 165 Copynumber: 2.0 Consensus size: 165
106100 GTATGTATGT
106110 ATGTATGCTGTTATTAAATTTTGTTGACCATAACCTAAAAATTAAGAAATGGTTAATCACTAACG
1 ATGTATGCTGTTATTAAATTTTGTTGACCATAACCTAAAAATTAAGAAATGGTTAATCACTAACG
106175 ATTAAATGTTATTAACGGTTCGGTTATAGGATAACATATGGTTAATCTATTACATTTTTTTCCAA
66 ATTAAATGTTATTAACGGTTCGGTTATAGGATAACATATGGTTAATCTATTACATTTTTTTCCAA
106240 TCATAACACAACTTAAAATTTTCAAAATTTTATAA
131 TCATAACACAACTTAAAATTTTCAAAATTTTATAA
106275 ATGTATGCTGTTATTAAATTTTGTTGACCATAACCTAAAAATTAAGAAATGGTTAATCACTAACG
1 ATGTATGCTGTTATTAAATTTTGTTGACCATAACCTAAAAATTAAGAAATGGTTAATCACTAACG
*
106340 ATTAAATGTTATTAACGGTTCGGTTATAGGATAACATATGGTTAATCTATTACATTTTTTTTCAA
66 ATTAAATGTTATTAACGGTTCGGTTATAGGATAACATATGGTTAATCTATTACATTTTTTTCCAA
106405 TCATAACACAACTTAAAATTTTCAAAATTTTATAA
131 TCATAACACAACTTAAAATTTTCAAAATTTTATAA
106440 A
1 A
106441 ATTCACGACG
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (165 bp):
ATGTATGCTGTTATTAAATTTTGTTGACCATAACCTAAAAATTAAGAAATGGTTAATCACTAACG
ATTAAATGTTATTAACGGTTCGGTTATAGGATAACATATGGTTAATCTATTACATTTTTTTCCAA
TCATAACACAACTTAAAATTTTCAAAATTTTATAA
Found at i:106691 original size:4 final size:4
Alignment explanation
Indices: 106682--106738 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
106672 TTTAATATAT
* * * * *
106682 TACA TACA TATA TAAA TACA TAGA T-GA TACA TACA TACA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
106729 TACA TACA TA
1 TACA TACA TA
106739 TGTACGTACG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 3 0.07
4 42 0.93
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.30
Consensus pattern (4 bp):
TACA
Found at i:106702 original size:12 final size:12
Alignment explanation
Indices: 106676--106739 Score: 76
Period size: 12 Copynumber: 5.3 Consensus size: 12
106666 ATTTGATTTA
106676 ATATATTACATAC
1 ATATA-TACATAC
*
106689 ATATATAAATAC
1 ATATATACATAC
* *
106701 ATAGAT-GATAC
1 ATATATACATAC
*
106712 ATACATACATAC
1 ATATATACATAC
106724 ATATATACATAC
1 ATATATACATAC
106736 ATAT
1 ATAT
106740 GTACGTACGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 9 0.20
12 30 0.68
13 5 0.11
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (12 bp):
ATATATACATAC
Found at i:107052 original size:16 final size:16
Alignment explanation
Indices: 107039--107087 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
107029 ATTTAATTTT
107039 TAATTAATAAAATTAA
1 TAATTAATAAAATTAA
* *
107055 TAATTAAT-AGATAAA
1 TAATTAATAAAATTAA
*
107070 TTATTTAATAAAATTAA
1 -TAATTAATAAAATTAA
107087 T
1 T
107088 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TAATTAATAAAATTAA
Found at i:107465 original size:16 final size:16
Alignment explanation
Indices: 107444--107477 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
107434 GTAAATTATA
107444 GTCAGGTTCATAACAG
1 GTCAGGTTCATAACAG
*
107460 GTCAGGTTGATAACAG
1 GTCAGGTTCATAACAG
107476 GT
1 GT
107478 TGAATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (16 bp):
GTCAGGTTCATAACAG
Found at i:108611 original size:43 final size:43
Alignment explanation
Indices: 108555--108655 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
108545 GAATATCTCT
* * * *
108555 GTCCTGATTCTGCATAGGATCCTTTACGGAGGGCATAATCCTC
1 GTCCTAATTCTGCATAGAATCCTCTACGGAGGGCACAATCCTC
*
108598 GTCCTAATTCTGCATAGAATCCTCTATGGAGGGCACAATCCTC
1 GTCCTAATTCTGCATAGAATCCTCTACGGAGGGCACAATCCTC
* *
108641 GTCTTAATTTTGCAT
1 GTCCTAATTCTGCAT
108656 GGGACTATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (43 bp):
GTCCTAATTCTGCATAGAATCCTCTACGGAGGGCACAATCCTC
Found at i:108681 original size:30 final size:28
Alignment explanation
Indices: 108647--108725 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 28
108637 CCTCGTCTTA
*
108647 ATTTTGCATGGGACTATGTTCCTCATCCTG
1 ATTTTGCATGGGA-TATGTTCAT-ATCCTG
* * * *
108677 ATTTTGTATGAGATGATATTCATGTCCTG
1 ATTTTGCATGGGAT-ATGTTCATATCCTG
*
108706 ATTCTGCATGGGATTATGTT
1 ATTTTGCATGGGA-TATGTT
108726 TCCCGATCTG
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
29 20 0.53
30 18 0.47
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (28 bp):
ATTTTGCATGGGATATGTTCATATCCTG
Found at i:111193 original size:29 final size:29
Alignment explanation
Indices: 111160--111221 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
111150 CAGTCGGTAT
111160 CCAATATTAAACCCGAGCCAGTTATTGAG
1 CCAATATTAAACCCGAGCCAGTTATTGAG
111189 CCAATATTAAACCCGAGCCAGTTATTGAG
1 CCAATATTAAACCCGAGCCAGTTATTGAG
111218 CCAA
1 CCAA
111222 CTAGTGTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (29 bp):
CCAATATTAAACCCGAGCCAGTTATTGAG
Found at i:118145 original size:2 final size:2
Alignment explanation
Indices: 118138--118232 Score: 163
Period size: 2 Copynumber: 47.5 Consensus size: 2
118128 ATCTTACAGT
118138 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
118180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
118222 TG TA TA TA TA T
1 TA TA TA TA TA T
118233 GAATAGAGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:134857 original size:13 final size:13
Alignment explanation
Indices: 134839--134869 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
134829 AATATAAAAC
134839 AATAAAAAATAAA
1 AATAAAAAATAAA
*
134852 AATAAAAAATATA
1 AATAAAAAATAAA
134865 AATAA
1 AATAA
134870 TCGACAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:135255 original size:30 final size:31
Alignment explanation
Indices: 135214--135284 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
135204 TGAGGGATTA
* *
135214 AAATCGAACGAACTGATAACGTTAG-GACCT
1 AAATCGGACGAACTAATAACGTTAGAGACCT
* *
135244 AAATCGGACGAATTAATAACGTTAGAGACTT
1 AAATCGGACGAACTAATAACGTTAGAGACCT
*
135275 AAATTGGACG
1 AAATCGGACG
135285 GGTCGATAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 22 0.63
31 13 0.37
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AAATCGGACGAACTAATAACGTTAGAGACCT
Done.