Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008020.1 Hibiscus syriacus cultivar Beakdansim tig00110488_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: 406994
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:1660 original size:22 final size:21
Alignment explanation
Indices: 1634--1684 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
1624 CAAGAAGATG
1634 CATGTGCATTCATATAGGTTTC
1 CATGTGCATTCATATAGG-TTC
*
1656 CATGTGCATTCATATAGGTTG
1 CATGTGCATTCATATAGGTTC
1677 CATGTGCA
1 CATGTGCA
1685 CACCATGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (21 bp):
CATGTGCATTCATATAGGTTC
Found at i:6158 original size:19 final size:20
Alignment explanation
Indices: 6134--6176 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6124 AGAATTTATC
*
6134 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
6153 TTCATTAAAAATCATGTATT
1 TTCATTAAAAATCATGTATT
6173 TTCA
1 TTCA
6177 AAGGGGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:7669 original size:59 final size:59
Alignment explanation
Indices: 7576--7696 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
7566 GGAGGGTTGG
* * *
7576 TTAGAGTCATATTATCGAGTTTGCCTTTTTATTACAACTAGGAGGGCTCGATATGACAC
1 TTAGAGTCATATTATCGAGTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
* * *
7635 TTAGAGTCATATTATC-ATGTTTTCCTTTTCATTACTACTAGAAGGGTTCGATATGAAAC
1 TTAGAGTCATATTATCGA-GTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
7694 TTA
1 TTA
7697 TCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 54 0.98
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (59 bp):
TTAGAGTCATATTATCGAGTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
Found at i:15495 original size:24 final size:24
Alignment explanation
Indices: 15463--15526 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
15453 TTATTTTTGG
*
15463 TATTATTATA-TTTAATTTTTAAAA
1 TATTTTTATATTTTAA-TTTTAAAA
*
15487 TATTTTTATATTTTAATTTTAACA
1 TATTTTTATATTTTAATTTTAAAA
* *
15511 TATTTATATTTTTTAA
1 TATTTTTATATTTTAA
15527 AAATAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTATATTTTAATTTTAAAA
Found at i:15669 original size:21 final size:21
Alignment explanation
Indices: 15644--15693 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15634 CGTAGATCAC
* *
15644 CACATCAGCTTCATAAAGCGT
1 CACATCAACATCATAAAGCGT
* *
15665 CACATCAACATCGTAAAGTGT
1 CACATCAACATCATAAAGCGT
15686 CACATCAA
1 CACATCAA
15694 TATCGTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (21 bp):
CACATCAACATCATAAAGCGT
Found at i:15698 original size:21 final size:21
Alignment explanation
Indices: 15657--15701 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15647 ATCAGCTTCA
15657 TAAAGCGTCACATCAACATCG
1 TAAAGCGTCACATCAACATCG
* *
15678 TAAAGTGTCACATCAATATCG
1 TAAAGCGTCACATCAACATCG
15699 TAA
1 TAA
15702 TGGCCAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (21 bp):
TAAAGCGTCACATCAACATCG
Found at i:16204 original size:12 final size:12
Alignment explanation
Indices: 16185--16222 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
16175 TTTCCTCACC
16185 AAAAAATAAAA-
1 AAAAAATAAAAT
16196 AAGAAAATAAAAT
1 AA-AAAATAAAAT
16209 AAAAAATAATAAT
1 AAAAAATAA-AAT
16222 A
1 A
16223 TTTATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 16 0.67
13 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:17948 original size:14 final size:14
Alignment explanation
Indices: 17929--17959 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
17919 ATGGCCCCAA
17929 TTCCAGCCCCTATT
1 TTCCAGCCCCTATT
17943 TTCCAGCCCCTATT
1 TTCCAGCCCCTATT
17957 TTC
1 TTC
17960 TAGCAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.42, G:0.06, T:0.39
Consensus pattern (14 bp):
TTCCAGCCCCTATT
Found at i:20659 original size:5 final size:5
Alignment explanation
Indices: 20649--20678 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
20639 AATACCTCAC
20649 ATAAA ATAAA ATAAA AT-AA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
20679 AACCAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:20669 original size:14 final size:14
Alignment explanation
Indices: 20652--20678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20642 ACCTCACATA
20652 AAATAAAATAAAAT
1 AAATAAAATAAAAT
20666 AAATAAAATAAAA
1 AAATAAAATAAAA
20679 AACCAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:26194 original size:38 final size:38
Alignment explanation
Indices: 26143--26221 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
26133 CCCCACAGGG
*
26143 GAATCGATACCCCCTTGGGGTTCTGGTTTTATTGGGCA
1 GAATCGATACCCCCTTGGGGTTCTGGTTTTATTGGGAA
26181 GAATCGATACCCCCTTGGGGTTCTGGTTTTATTGGGAA
1 GAATCGATACCCCCTTGGGGTTCTGGTTTTATTGGGAA
26219 GAA
1 GAA
26222 CCATTATTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (38 bp):
GAATCGATACCCCCTTGGGGTTCTGGTTTTATTGGGAA
Found at i:33245 original size:35 final size:35
Alignment explanation
Indices: 33200--33312 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
33190 TAATGGGATG
* *
33200 GTGATTATATAGGCGTGAAATGGTGATAGAAGATA
1 GTGATGATATAGGCGTGAAATGGTGATAGAAAATA
* * * *
33235 TTGATGATATAGGCGTGCAATGGTGATGGAAAATG
1 GTGATGATATAGGCGTGAAATGGTGATAGAAAATA
* * * * * *
33270 GTGATGTTATAGGTGTGAAAATGATGTTGGAAAATG
1 GTGATGATATAGGCGTG-AAATGGTGATAGAAAATA
33306 GTGATGA
1 GTGATGA
33313 ACATATAGTA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 43 0.67
36 21 0.33
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.30
Consensus pattern (35 bp):
GTGATGATATAGGCGTGAAATGGTGATAGAAAATA
Found at i:33271 original size:13 final size:13
Alignment explanation
Indices: 33253--33311 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
33243 ATAGGCGTGC
33253 AATGGTGATGGAA
1 AATGGTGATGGAA
**
33266 AATGGTGATGTTA
1 AATGGTGATGGAA
*
33279 TA-GGTG-T-GAA
1 AATGGTGATGGAA
* *
33289 AATGATGTTGGAA
1 AATGGTGATGGAA
33302 AATGGTGATG
1 AATGGTGATG
33312 AACATATAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
10 2 0.06
11 4 0.12
12 5 0.15
13 23 0.68
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (13 bp):
AATGGTGATGGAA
Found at i:37710 original size:36 final size:35
Alignment explanation
Indices: 37606--37721 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
37596 ATGGTAGTAG
*
37606 GATGGTGAT-TATATAGGCGTGAAATGGTGATAGAA
1 GATGGTGATGT-TATAGGCGTGAAATGGTGATGGAA
** * * *
37641 GATATTGATGATATAGGTGTGCAATGGTGATGGAA
1 GATGGTGATGTTATAGGCGTGAAATGGTGATGGAA
* *
37676 GATGGTGATGTTATAGGCATGAAAATGGCGATGGAA
1 GATGGTGATGTTATAGGCGTG-AAATGGTGATGGAA
37712 GATGGTGATG
1 GATGGTGATG
37722 AACAAATAGT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
35 44 0.67
36 22 0.33
ACGTcount: A:0.32, C:0.03, G:0.36, T:0.28
Consensus pattern (35 bp):
GATGGTGATGTTATAGGCGTGAAATGGTGATGGAA
Found at i:39555 original size:20 final size:22
Alignment explanation
Indices: 39523--39575 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
39513 TGGTTAAGGT
* *
39523 AGTATTGACACTCT-ATG-TTG
1 AGTATCGATACTCTGATGCTTG
*
39543 AGTATCGATACTCTGGTGCTTG
1 AGTATCGATACTCTGATGCTTG
*
39565 GGTATCGATAC
1 AGTATCGATAC
39576 ATGCCTGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
21 2 0.07
22 13 0.48
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (22 bp):
AGTATCGATACTCTGATGCTTG
Found at i:50793 original size:27 final size:27
Alignment explanation
Indices: 50763--50816 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
50753 TCATGAATGT
50763 CCTATGCCTTCTATACGATAATTCATA
1 CCTATGCCTTCTATACGATAATTCATA
50790 CCTATGCCTTCTATACGATAATTCATA
1 CCTATGCCTTCTATACGATAATTCATA
50817 TCTCATATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (27 bp):
CCTATGCCTTCTATACGATAATTCATA
Found at i:53994 original size:10 final size:10
Alignment explanation
Indices: 53964--53988 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53954 AGCATAGCAA
53964 CTCACACTAG
1 CTCACACTAG
53974 CTCACACTAG
1 CTCACACTAG
53984 CTCAC
1 CTCAC
53989 CTTAGCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.44, G:0.08, T:0.20
Consensus pattern (10 bp):
CTCACACTAG
Found at i:58087 original size:22 final size:22
Alignment explanation
Indices: 58061--58112 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
58051 CAAGAAGACG
*
58061 CATGTGCATTCATATAGGTTTC
1 CATGTGCATTCATATAGGTTGC
58083 CATGTGCATTCATATAGGTTGC
1 CATGTGCATTCATATAGGTTGC
58105 CATGTGCA
1 CATGTGCA
58113 CACCATGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (22 bp):
CATGTGCATTCATATAGGTTGC
Found at i:59173 original size:24 final size:24
Alignment explanation
Indices: 59120--59173 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
59110 TTTTGAGTAC
59120 AAAAAGAAAAGAAAAAAAAGAAAT
1 AAAAAGAAAAGAAAAAAAAGAAAT
** *
59144 TCAAAGAAAAAGAATAAAAAG-AAT
1 AAAAAG-AAAAGAAAAAAAAGAAAT
59168 AAAAAG
1 AAAAAG
59174 TTGAAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (24 bp):
AAAAAGAAAAGAAAAAAAAGAAAT
Found at i:62616 original size:19 final size:20
Alignment explanation
Indices: 62592--62634 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
62582 AGCATTTATC
*
62592 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
62611 TTCATTAAAAATCATGTATT
1 TTCATTAAAAATCATGTATT
62631 TTCA
1 TTCA
62635 AAGGGGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:64122 original size:59 final size:59
Alignment explanation
Indices: 64029--64149 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
64019 GGAGGGTTGG
* * *
64029 TTAGAGTCATATTATCGAGTTTGCCTTTTTATTACAACTAGGAGGGCTCGATATGACAC
1 TTAGAGTCATATTATCGAGTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
* * *
64088 TTAGAGTCATATTATC-ATGTTTTCCTTTTCATTACGACTAGAAGGGTTCGATATGAAAC
1 TTAGAGTCATATTATCGA-GTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
64147 TTA
1 TTA
64150 TCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 54 0.98
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (59 bp):
TTAGAGTCATATTATCGAGTTTGCCTTTTCATTACAACTAGAAGGGCTCGATATGAAAC
Found at i:71681 original size:24 final size:24
Alignment explanation
Indices: 71649--71712 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
71639 TTATTTTTGG
*
71649 TATTATTATA-TTTAATTTTTAAAA
1 TATTTTTATATTTTAA-TTTTAAAA
*
71673 TATTTTTATATTTTAATTTTAACA
1 TATTTTTATATTTTAATTTTAAAA
* *
71697 TATTTATATTTTTTAA
1 TATTTTTATATTTTAA
71713 AAATAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTATATTTTAATTTTAAAA
Found at i:71856 original size:21 final size:21
Alignment explanation
Indices: 71831--71880 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
71821 CGTAGATCAC
* *
71831 CACATCAGCTTCATAAAGCGT
1 CACATCAACATCATAAAGCGT
* *
71852 CACATCAACATCGTAAAGTGT
1 CACATCAACATCATAAAGCGT
71873 CACATCAA
1 CACATCAA
71881 TATCGTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (21 bp):
CACATCAACATCATAAAGCGT
Found at i:71885 original size:21 final size:21
Alignment explanation
Indices: 71844--71888 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
71834 ATCAGCTTCA
71844 TAAAGCGTCACATCAACATCG
1 TAAAGCGTCACATCAACATCG
* *
71865 TAAAGTGTCACATCAATATCG
1 TAAAGCGTCACATCAACATCG
71886 TAA
1 TAA
71889 TGGCCAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (21 bp):
TAAAGCGTCACATCAACATCG
Found at i:72604 original size:20 final size:20
Alignment explanation
Indices: 72576--72614 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72566 AAACTTAAGG
* *
72576 GGGGTGAACTAGAATTCTAA
1 GGGGCGAACTAAAATTCTAA
72596 GGGGCGAACTAAAATTCTA
1 GGGGCGAACTAAAATTCTA
72615 GGAGAAACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (20 bp):
GGGGCGAACTAAAATTCTAA
Found at i:76825 original size:5 final size:5
Alignment explanation
Indices: 76815--76844 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
76805 AGTACCTCAC
76815 ATAAA ATAAA ATAAA AT-AA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
76845 AACCAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:76837 original size:14 final size:14
Alignment explanation
Indices: 76818--76844 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76808 ACCTCACATA
76818 AAATAAAATAAAAT
1 AAATAAAATAAAAT
76832 AAATAAAATAAAA
1 AAATAAAATAAAA
76845 AACCAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:80611 original size:16 final size:15
Alignment explanation
Indices: 80584--80615 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
80574 TTAAATAAAG
80584 AAATACAATGGAAAT
1 AAATACAATGGAAAT
80599 AAATACGAATGGAAAT
1 AAATAC-AATGGAAAT
80615 A
1 A
80616 TATGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (15 bp):
AAATACAATGGAAAT
Found at i:86048 original size:22 final size:20
Alignment explanation
Indices: 86005--86061 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 20
85995 ACTATTGAAC
* * *
86005 TATATATAAACTATATAGTT
1 TATATATAAATTATACAATT
86025 TATTAATATAAATTATACAATT
1 TA-T-ATATAAATTATACAATT
*
86047 TATATCTAAATTATA
1 TATATATAAATTATA
86062 TATGAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 16 0.52
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATATAAATTATACAATT
Found at i:86081 original size:21 final size:21
Alignment explanation
Indices: 86038--86097 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
86028 TAATATAAAT
* *
86038 TATACAATTTATATCTAAATTA
1 TATACAACTTATAT-TTAATTA
*
86060 TATATGAA-TTATATTTAATTA
1 TATA-CAACTTATATTTAATTA
86081 TATACAACTTATATTTA
1 TATACAACTTATATTTA
86098 TATATTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 2 0.06
21 19 0.58
22 10 0.30
23 2 0.06
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (21 bp):
TATACAACTTATATTTAATTA
Found at i:86101 original size:2 final size:2
Alignment explanation
Indices: 86090--86472 Score: 83
Period size: 2 Copynumber: 200.0 Consensus size: 2
86080 ATATACAACT
* * *
86090 TA TA TT TA TA TA T- TA TG TA TA -A T- TA TA AA T- 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
* * * * * *
86128 T- TA TG TA TA AA T- TA TA TA -A TT TA TA TA GTT TA AA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
86168 AA CTA TA AA T- TA TA TA TA TA TG TA TA TA -A TA TA AA GTA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
86209 GTA TA TA TA TA TA TA TA TA AA GTA TA -A T- TA TA AA GA CTA AA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* *
86250 GTA TA TA -A CA TA TA -A TA TA AA GTA TA TA -A GTA TA TA -A TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* * * *
86289 TA -A AA TA TA TA -A GTA T- TA AA TA TA -A AA TA TA -A AA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
86327 TA TA TG TA TA -A TA TA TA TA TA TA AA TA TA TG TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
86368 TA -A TA -A TA TA -A AA TA TA TA -A GTA T- TA AA TA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * *
86407 -A T- TA TA AA GA -A TA AA GTA TA TA -A GTA TA TA -A AA 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
* *
86446 TA CA TA TA AA GTA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA
86473 CCATGTATAA
Statistics
Matches: 273, Mismatches: 61, Indels: 94
0.64 0.14 0.22
Matches are distributed among these distances:
1 32 0.12
2 226 0.83
3 15 0.05
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (2 bp):
TA
Found at i:86110 original size:17 final size:17
Alignment explanation
Indices: 86090--86152 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
86080 ATATACAACT
* *
86090 TATATTTATATATTATG
1 TATATTTATAAATTATA
*
86107 TATAATTATAAATTATA
1 TATATTTATAAATTATA
86124 TATATTATGTATAAATTATA
1 TATA-T-T-TATAAATTATA
86144 TA-ATTTATA
1 TATATTTATA
86153 TAGTTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.10
17 19 0.49
18 1 0.03
19 2 0.05
20 13 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:86145 original size:9 final size:9
Alignment explanation
Indices: 86030--86154 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
86020 TAGTTTATTA
86030 ATATAAATT
1 ATATAAATT
* *
86039 ATACAATTT
1 ATATAAATT
86048 ATATCTAAATT
1 ATA--TAAATT
86059 ATATATGAATT
1 ATATA--AATT
*
86070 ATATTTAATT
1 ATA-TAAATT
86080 ATATACAACTT
1 ATATA-AA-TT
86091 ATAT---TT
1 ATATAAATT
86097 ATAT--ATT
1 ATATAAATT
*
86104 ATGTATAA-T
1 ATATA-AATT
86113 -TATAAATT
1 ATATAAATT
*
86121 ATATATATT
1 ATATAAATT
86130 ATGTATAAATT
1 A--TATAAATT
*
86141 ATATAATTT
1 ATATAAATT
86150 ATATA
1 ATATA
86155 GTTTAAATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
6 6 0.07
7 7 0.08
8 4 0.04
9 34 0.38
10 10 0.11
11 28 0.31
12 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (9 bp):
ATATAAATT
Found at i:86207 original size:22 final size:22
Alignment explanation
Indices: 86182--86470 Score: 96
Period size: 22 Copynumber: 13.6 Consensus size: 22
86172 ATAAATTATA
*
86182 TATATATGTATATAATATAAAG
1 TATATAAGTATATAATATAAAG
*
86204 --TATAAGTATAT-ATATATA-
1 TATATAAGTATATAATATAAAG
*
86222 TATATAAAGTATA-ATTATAAAG
1 TATAT-AAGTATATAATATAAAG
*
86244 -ACTA-AAGTATATAACATATAA-
1 TA-TATAAGTATATAATATA-AAG
86265 TATA-AAGTATATAAGTATATAA-
1 TATATAAGTATATAA-TATA-AAG
*
86287 TATA-AAATATATAAGTATTAAA-
1 TATATAAGTATATAA-TA-TAAAG
* *
86309 TATA-AAATATAAAATATATATA-
1 TATATAAGTATATAATATA-A-AG
*
86331 TGTATAA-TATATATATATAAA-
1 TATATAAGTATATA-ATATAAAG
* *
86352 TATAT--GTATACATATATAATAA
1 TATATAAGTATATA-ATATAA-AG
*
86374 TATA-AAATATATAAGTATTAAA-
1 TATATAAGTATATAA-TA-TAAAG
*
86396 TATA-AAGTATA-ATTATAAAG
1 TATATAAGTATATAATATAAAG
*
86416 AATA-AAGTATATAAGTATATAA-
1 TATATAAGTATATAA-TATA-AAG
86438 -A-AT-A-TATATACATATAAAG
1 TATATAAGTATATA-ATATAAAG
86457 TATATATA-TATATA
1 TATATA-AGTATATA
86471 TACCATGTAT
Statistics
Matches: 215, Mismatches: 19, Indels: 65
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.01
19 20 0.09
20 50 0.23
21 43 0.20
22 71 0.33
23 26 0.12
24 3 0.01
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (22 bp):
TATATAAGTATATAATATAAAG
Found at i:86234 original size:27 final size:28
Alignment explanation
Indices: 86182--86472 Score: 136
Period size: 27 Copynumber: 10.4 Consensus size: 28
86172 ATAAATTATA
*
86182 TATATATGTATATAATATAAAGTATAAG
1 TATATATATATATAATATAAAGTATAAG
*
86210 TATATATATATAT-ATATAAAGTATAAT
1 TATATATATATATAATATAAAGTATAAG
* *
86237 TATAAAGACTAAAGTATATAACATATAA-TATAAAG
1 TAT----A-TATA-TATATAATATA-AAGTAT-AAG
*
86272 TATATA-AGTATATAATATAAAATATATAAG
1 TATATATA-TATATAATAT-AAA-GTATAAG
* * *
86302 TAT-TAAATATAAAATATAAAATATATA-
1 TATATATATATATAATATAAAGTATA-AG
* *
86329 TATGTATAATATATATATATAAA-TATATG
1 TATATAT-ATATATA-ATATAAAGTATAAG
*
86358 TATACATATATAATAATATAAA--AT-A-
1 TATATATATAT-ATAATATAAAGTATAAG
*
86383 TATA-AGTAT-TA-AATATAAAGTATAAT
1 TATATA-TATATATAATATAAAGTATAAG
* *
86409 TATAAAGA-ATA-AAGTATATAAGTAT-A-
1 TATATATATATATAA-TATA-AAGTATAAG
*
86435 TA-AAATATATATACATATAAAGTAT-A-
1 TATATATATATATA-ATATAAAGTATAAG
86461 TATATATATATA
1 TATATATATATA
86473 CCATGTATAA
Statistics
Matches: 215, Mismatches: 16, Indels: 65
0.73 0.05 0.22
Matches are distributed among these distances:
22 8 0.04
23 1 0.00
24 4 0.02
25 12 0.06
26 23 0.11
27 45 0.21
28 36 0.17
29 42 0.20
30 17 0.08
31 5 0.02
32 3 0.01
33 5 0.02
34 7 0.03
35 7 0.03
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (28 bp):
TATATATATATATAATATAAAGTATAAG
Found at i:86263 original size:29 final size:29
Alignment explanation
Indices: 86259--86434 Score: 76
Period size: 29 Copynumber: 6.2 Consensus size: 29
86249 AGTATATAAC
86259 ATATAA-TATAAAGTATATAAGTATAT-A
1 ATATAATTATAAAGTATATAAGTATATAA
* *
86286 ATATAAAATATATAAGTAT-TAAATATA-AA
1 ATAT-AATTATA-AAGTATATAAGTATATAA
* *
86315 ATATAAAATATATATATGTATAATATATATATATAA
1 ATAT--AAT-TATA-AAGTAT-ATA-A-GTATATAA
*
86351 ATAT-ATGTATACA-TATATAA-TAATATAA
1 ATATAAT-TATAAAGTATATAAGT-ATATAA
86379 A-AT-A-TAT-AAGTAT-TAA--ATATAA
1 ATATAATTATAAAGTATATAAGTATATAA
*
86401 AGTATAATTATAAAGAATA-AAGTATATAA
1 A-TATAATTATAAAGTATATAAGTATATAA
*
86430 GTATA
1 ATATA
86435 TAAAATATAT
Statistics
Matches: 119, Mismatches: 9, Indels: 41
0.70 0.05 0.24
Matches are distributed among these distances:
22 7 0.06
24 6 0.05
25 7 0.06
26 3 0.03
27 15 0.13
28 13 0.11
29 23 0.19
30 12 0.10
31 13 0.11
33 8 0.07
34 1 0.01
35 5 0.04
36 6 0.05
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.37
Consensus pattern (29 bp):
ATATAATTATAAAGTATATAAGTATATAA
Found at i:86374 original size:109 final size:115
Alignment explanation
Indices: 86213--86472 Score: 274
Period size: 109 Copynumber: 2.3 Consensus size: 115
86203 GTATAAGTAT
* * * * * *
86213 ATATATATATATATAAAGTATA-ATTATAAAGACTAAAGTATATA-ACAT-ATAATATAAAGTAT
1 ATATATATACATATAAAGTATATA-TATAAATA-T-ATGTATACATATATAATAATATAAAATAT
*
86275 ATAAGTA-TATAATATAAA-AT-A-TAT-AAGTATTAAA-TATA-AA-ATATAAA
63 ATAAGTATTA-AATATAAAGATAATTATAAAG-AATAAAGTATATAAGATATAAA
**
86322 ATATATATATGTATAATA-TATATATATAAATATATGTATACATATATAATAATATAAAATATAT
1 ATATATATACATATAA-AGTATATATATAAATATATGTATACATATATAATAATATAAAATATAT
86386 AAGTATTAAATATAAAGTATAATTATAAAGAATAAAGTATATAAGTATATAAA
65 AAGTATTAAATATAAAG-ATAATTATAAAGAATAAAGTATATAAG-ATATAAA
*
86439 ATATATATACATATAAAGTATATATATATATATA
1 ATATATATACATATAAAGTATATATATAAATATA
86473 CCATGTATAA
Statistics
Matches: 126, Mismatches: 10, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
107 7 0.06
108 4 0.03
109 54 0.43
110 4 0.03
111 2 0.02
112 1 0.01
113 8 0.06
114 7 0.06
115 2 0.02
116 1 0.01
117 36 0.29
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (115 bp):
ATATATATACATATAAAGTATATATATAAATATATGTATACATATATAATAATATAAAATATATA
AGTATTAAATATAAAGATAATTATAAAGAATAAAGTATATAAGATATAAA
Found at i:86460 original size:13 final size:13
Alignment explanation
Indices: 86171--86466 Score: 140
Period size: 13 Copynumber: 21.3 Consensus size: 13
86161 ATATAAAAAC
* *
86171 TATAAATTATATA
1 TATAAAGTATAAA
*
86184 TAT-ATGTATATAA
1 TATAAAGTATA-AA
86197 TATAAAGTATAAGTA
1 TATAAAGTATAA--A
* *
86212 TATATA-TATATA
1 TATAAAGTATAAA
*
86224 TATAAAGTATAAT
1 TATAAAGTATAAA
86237 TATAAAG-ACTAAA
1 TATAAAGTA-TAAA
*
86250 GTATATAA-CATATAA
1 -TATA-AAGTATA-AA
86265 TATAAAGTATATAA
1 TATAAAGTATA-AA
86279 GTATATAA-TATAAAA
1 -TATA-AAGTAT-AAA
86294 TATATAAGTATTAAA
1 TATA-AAGTA-TAAA
*
86309 TATAAAATATAAAA
1 TATAAAGTAT-AAA
86323 TATATATATGTATAATA
1 TATA-A-A-GTATAA-A
*
86340 TATATA-TATAAA
1 TATAAAGTATAAA
*
86352 TAT-ATGTATACATA
1 TATAAAGTATA-A-A
*
86366 TATAATAATATAAAA
1 TATAA-AGTAT-AAA
86381 TATATAAGTATTAAA
1 TATA-AAGTA-TAAA
*
86396 TATAAAGTATAAT
1 TATAAAGTATAAA
*
86409 TATAAAGAATAAA
1 TATAAAGTATAAA
86422 GTATATAAGTATATAA
1 -TATA-AAGTATA-AA
* * *
86438 AATATA-TATACA
1 TATAAAGTATAAA
*
86450 TATAAAGTATATA
1 TATAAAGTATAAA
86463 TATA
1 TATA
86467 TATATACCAT
Statistics
Matches: 221, Mismatches: 29, Indels: 66
0.70 0.09 0.21
Matches are distributed among these distances:
12 25 0.11
13 58 0.26
14 58 0.26
15 56 0.25
16 15 0.07
17 9 0.04
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (13 bp):
TATAAAGTATAAA
Found at i:86559 original size:11 final size:11
Alignment explanation
Indices: 86506--86626 Score: 53
Period size: 11 Copynumber: 10.2 Consensus size: 11
86496 ATATGAATAC
*
86506 TAAACTATATA
1 TAAATTATATA
*
86517 TAAACTATATA
1 TAAATTATATA
**
86528 TTTATTAATTATA
1 TAAATT-A-TATA
**
86541 TAGTTTATATA
1 TAAATTATATA
*
86552 TAAATTATATT
1 TAAATTATATA
86563 TAAATATAAAATATA
1 TAAAT-T---ATATA
*
86578 TAAGTGTATATA
1 TAAAT-TATATA
* *
86590 TAAACTATAAA
1 TAAATTATATA
*
86601 TTAACTATATATA
1 -TAAAT-TATATA
*
86614 TAAAGTATATA
1 TAAATTATATA
86625 TA
1 TA
86627 CATATATAAT
Statistics
Matches: 82, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
11 44 0.54
12 17 0.21
13 12 0.15
15 9 0.11
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (11 bp):
TAAATTATATA
Found at i:86847 original size:29 final size:29
Alignment explanation
Indices: 86814--86900 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
86804 TATATATATA
86814 TATATAAAGTATAATTATAAAGACTAAAG
1 TATATAAAGTATAATTATAAAGACTAAAG
* *
86843 TATAT-AAG---CA-TAT-AATA-TAAAG
1 TATATAAAGTATAATTATAAAGACTAAAG
86865 TATATAAAGTATAATTATAAAGACTAAAG
1 TATATAAAGTATAATTATAAAGACTAAAG
86894 TATATAA
1 TATATAA
86901 TATAAAGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
22 10 0.21
23 6 0.13
24 3 0.06
25 1 0.02
26 1 0.02
27 3 0.06
28 6 0.13
29 17 0.36
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (29 bp):
TATATAAAGTATAATTATAAAGACTAAAG
Found at i:86894 original size:20 final size:21
Alignment explanation
Indices: 86852--86907 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
86842 GTATATAAGC
*
86852 ATATAATATAAAGTATATAAAGT
1 ATATAATATAAAG-A-CTAAAGT
*
86875 ATA-ATTATAAAGACTAAAGT
1 ATATAATATAAAGACTAAAGT
86895 ATATAATATAAAG
1 ATATAATATAAAG
86908 TATATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 8 0.28
23 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (21 bp):
ATATAATATAAAGACTAAAGT
Found at i:86913 original size:2 final size:2
Alignment explanation
Indices: 86894--86953 Score: 52
Period size: 2 Copynumber: 29.5 Consensus size: 2
86884 AAGACTAAAG
* *
86894 TA TA TA -A TA TA AA GTA TA TA TA TA TA TA TA AA GTA TA -A GTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA
*
86935 TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
86954 CAACTTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
1 2 0.04
2 42 0.89
3 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
TA
Found at i:86940 original size:19 final size:19
Alignment explanation
Indices: 86212--87303 Score: 238
Period size: 22 Copynumber: 56.7 Consensus size: 19
86202 AGTATAAGTA
86212 TATATATATATATATAAAG
1 TATATATATATATATAAAG
* *
86231 TATA-ATTATAAAGACTAAAG
1 TATATA-TATATATA-TAAAG
*
86251 TATATAACATATAATATAAAG
1 TATAT-ATATAT-ATATAAAG
*
86272 TATATAAGTATATAATATAAAA
1 TATAT-A-TATAT-ATATAAAG
* *
86294 TATATAAGTATTAAATATAAAA
1 TATAT-A-TA-TATATATAAAG
* *
86316 TATA-AAATATATAT-ATG
1 TATATATATATATATAAAG
86333 TATAATATATATATATAAA-
1 TAT-ATATATATATATAAAG
* *
86352 TATATGTATACATATATAA-
1 TATATATATATATATA-AAG
*
86371 TA-ATATA-AAATATATAAG
1 TATATATATATATATA-AAG
86389 --TAT-TA-A-ATATAAAG
1 TATATATATATATATAAAG
* *
86403 TATA-ATTATAAAGAATAAAG
1 TATATA-TATATA-TATAAAG
*
86423 TATATA-A-GTATATAAA-
1 TATATATATATATATAAAG
*
86439 -ATATATATACATATAAAG
1 TATATATATATATATAAAG
*
86457 TATATATATATATATACCATG
1 TATATATATATATATA--AAG
* * *
86478 TATAAACTATAGAGTTATATATG
1 TATATA-TATATA--TATA-AAG
* * *
86501 AATACTAAACTATATATAAAC
1 TATA-TATA-TATATATAAAG
*
86522 TATATAT-T-TAT-T-AAT
1 TATATATATATATATAAAG
*
86537 TATATAGTTTATATATAAA-
1 TATATA-TATATATATAAAG
* * *
86556 T-TATATTTAAATATAAAA
1 TATATATATATATATAAAG
* *
86574 TATATAAGTGTATATATAAAC
1 TATAT-A-TATATATATAAAG
86595 TATAAATTAACTATATATATAAAG
1 TAT--A-T-A-TATATATATAAAG
*
86619 TATATATACATATAT-AA-
1 TATATATATATATATAAAG
*
86636 TA-ATATA-A-AGTGT-AAG
1 TATATATATATA-TATAAAG
86652 -A-ATAT-TATATATAAAG
1 TATATATATATATATAAAG
* * *
86668 TATA-ATTATAAACACTAAAA
1 TATATA-TATATATA-TAAAG
*
86688 TATATAAGTTTATAATATAAA-
1 TATAT-A-TATAT-ATATAAAG
*
86709 -ATATATAAATATATAAAG
1 TATATATATATATATAAAG
*
86727 TATATATACATATAAAGTATAAG
1 TATATAT--ATATATA-TA-AAG
* *
86750 TATGTATATATATATATATG
1 TATATATATATATATA-AAG
* * *
86770 TGTGTGTA-A-ACTATAAAG
1 TATATATATATA-TATAAAG
*
86788 TA-ATAGTGTATATAT--A-
1 TATATA-TATATATATAAAG
86804 TATATATATATATATAAAG
1 TATATATATATATATAAAG
* *
86823 TATA-ATTATAAAGACTAAAG
1 TATATA-TATATATA-TAAAG
*
86843 TATATAAGCATATAATATAAAG
1 TATAT-A-TATAT-ATATAAAG
*
86865 TATATAAAGTATAATTATAAAG
1 TATATATA-TAT-A-TATAAAG
*
86887 -ACTAAAGTATATAATATAAAG
1 TA-TATA-TATAT-ATATAAAG
86908 TATATATATATATATAAAG
1 TATATATATATATATAAAG
* *
86927 TATA-AGTATGTATATATA-
1 TATATA-TATATATATAAAG
*
86945 TATATATATCA-ACTTTAAAG
1 TATATATAT-ATA-TATAAAG
* *
86965 TAAAAGTATTATTAAACTATAAAGTG
1 T-ATA-TA-TA-TATA-TATAAA--G
* *
86991 TATATATATATATATCAAC
1 TATATATATATATATAAAG
*
87010 T-T-TA-A-A-GTA-AAAG
1 TATATATATATATATAAAG
*
87023 TAT-TAT-TAAACTATAAAG
1 TATATATATATA-TATAAAG
*
87041 TGTATATATATATATAAAG
1 TATATATATATATATAAAG
*
87060 --T-T-T-TA-GTATAAAG
1 TATATATATATATATAAAG
* *
87073 TTTATATACATATAT-AA-
1 TATATATATATATATAAAG
87090 TA-ATATA-A-AGTAT-AAG
1 TATATATATATA-TATAAAG
87106 TATAT-TATATATATAAAG
1 TATATATATATATATAAAG
* * *
87124 TATA-AT-TATAAGGACAAAAA
1 TATATATATAT-A-TA-TAAAG
* *
87144 TATATAAGCATGTAATATAAAG
1 TATAT-A-TATAT-ATATAAAG
* *
87166 TATATAAGTATATAATACAAAA
1 TATAT-A-TATAT-ATATAAAG
*
87188 TATATAAGTATTAAATATAAAG
1 TATAT-A-TA-TATATATAAAG
**
87210 TATATATACGTATAT-AA-
1 TATATATATATATATAAAG
* **
87227 TATATATATATACATACATT
1 TATATATATATATATA-AAG
*
87247 TATAATAATATAAAGTATATAAG
1 TAT-AT-ATATATA-TATA-AAG
*
87270 TATATATATAAACTATAAAG
1 TATATATATATA-TATAAAG
87290 TATATATATATATA
1 TATATATATATATA
87304 CTTATATTAT
Statistics
Matches: 815, Mismatches: 130, Indels: 256
0.68 0.11 0.21
Matches are distributed among these distances:
13 10 0.01
14 12 0.01
15 41 0.05
16 39 0.05
17 88 0.11
18 79 0.10
19 135 0.17
20 96 0.12
21 90 0.11
22 143 0.18
23 39 0.05
24 39 0.05
25 2 0.00
26 2 0.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (19 bp):
TATATATATATATATAAAG
Found at i:87007 original size:52 final size:52
Alignment explanation
Indices: 86939--87056 Score: 236
Period size: 52 Copynumber: 2.3 Consensus size: 52
86929 TAAGTATGTA
86939 TATATATATATATATCAACTTTAAAGTAAAAGTATTATTAAACTATAAAGTG
1 TATATATATATATATCAACTTTAAAGTAAAAGTATTATTAAACTATAAAGTG
86991 TATATATATATATATCAACTTTAAAGTAAAAGTATTATTAAACTATAAAGTG
1 TATATATATATATATCAACTTTAAAGTAAAAGTATTATTAAACTATAAAGTG
87043 TATATATATATATA
1 TATATATATATATA
87057 AAGTTTTAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (52 bp):
TATATATATATATATCAACTTTAAAGTAAAAGTATTATTAAACTATAAAGTG
Found at i:87079 original size:32 final size:33
Alignment explanation
Indices: 87029--87293 Score: 117
Period size: 32 Copynumber: 8.1 Consensus size: 33
87019 AAAGTATTAT
* *
87029 TAAACTATAAAGTGTATATATATATATAAAGT-
1 TAAAGTATAAAGTATATATATATATATAAAGTA
** * * *
87061 TTTAGTATAAAGTTTATATACATATATAATAATA
1 TAAAGTATAAAGTATATATATATATATAA-AGTA
87095 TAAAGTAT-AAGTATAT-TATATATATAAAGTA
1 TAAAGTATAAAGTATATATATATATATAAAGTA
* * * * * * *
87126 T-AATTATAAGGACAAAAATATATAAGCATGTAA-TA
1 TAAAGTATAAAG-TATATATATAT-A-TAT-AAAGTA
* *
87161 TAAAGTATATAAGTATATAATACAAAATATATAAGTA
1 TAAAGTATA-AAGTATAT-ATA-TATATATA-AAGTA
**
87198 TTAAA-TATAAAGTATATATACGTATATAATA-TA
1 -TAAAGTATAAAGTATATATATATATATAA-AGTA
* * *
87231 TATA-TATACA-TACAT-T-TATA-AT-AA-TA
1 TAAAGTATAAAGTATATATATATATATAAAGTA
*
87257 TAAAGTATATAAGTATATATATAAACTATAAAGTA
1 TAAAGTATA-AAGTATATATATATA-TATAAAGTA
87292 TA
1 TA
87294 TATATATATA
Statistics
Matches: 169, Mismatches: 39, Indels: 47
0.66 0.15 0.18
Matches are distributed among these distances:
26 6 0.04
27 5 0.03
28 3 0.02
29 6 0.04
30 7 0.04
31 13 0.08
32 44 0.26
33 19 0.11
34 15 0.09
35 12 0.07
36 22 0.13
37 12 0.07
38 5 0.03
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (33 bp):
TAAAGTATAAAGTATATATATATATATAAAGTA
Found at i:87217 original size:2 final size:2
Alignment explanation
Indices: 87210--87408 Score: 57
Period size: 2 Copynumber: 101.5 Consensus size: 2
87200 AAATATAAAG
** * * *
87210 TA TA TA TA CG TA TA TA -A TA TA TA TA TA TA CA TA CA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
87251 -A TA -A TA TA AA GTA TA TA -A GTA TA TA TA TA AA CTA TA AA GTA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
*
87292 TA TA TA TA TA TA CT- TA TA T- TA TA TA CT- TA TA TA CTT TA T-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * * *
87331 TC TT TA TA -A T- TA TA CTC TC TC TA TA TA TA -A TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
87371 CTT TA TA T- TA T- TA TT TA TG TA TA TA TA TA TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87409 TCTTATACTT
Statistics
Matches: 145, Mismatches: 28, Indels: 48
0.66 0.13 0.22
Matches are distributed among these distances:
1 14 0.10
2 121 0.83
3 10 0.07
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:87314 original size:13 final size:14
Alignment explanation
Indices: 87292--87796 Score: 106
Period size: 14 Copynumber: 36.3 Consensus size: 14
87282 CTATAAAGTA
87292 TATATATATATACT
1 TATATATATATACT
87306 TATAT-TATATACT
1 TATATATATATACT
* *
87319 TATATACTTTATTCT
1 TATATA-TATATACT
87334 T-TATA-ATTATACT
1 TATATATA-TATACT
* *
87347 CTCTCTATATATA--
1 -TATATATATATACT
87360 -ATATACT-TATACT
1 TATATA-TATATACT
*
87373 T-TATAT-TATTATT
1 TATATATATA-TACT
*
87386 TATGTATATATA--
1 TATATATATATACT
*
87398 TATATATATATTCT
1 TATATATATATACT
* *
87412 TATACT-TGTAT-TT
1 TATA-TATATATACT
87425 TATATGTATATATACT
1 TATA--TATATATACT
*
87441 T-TATATTATATACG
1 TATATA-TATATACT
* * *
87455 AATGTACTTTAGT-CT
1 TATATA-TATA-TACT
87470 T-TATA-ATTATA-T
1 TATATATA-TATACT
87482 TATATATATATA-T
1 TATATATATATACT
* *
87495 AAATATACATATAC-
1 -TATATATATATACT
87509 -ATATACT-TATACT
1 TATATA-TATATACT
87522 T-TATAT-TAATTA-T
1 TATATATAT-A-TACT
*
87535 ATATGTATATATACT
1 -TATATATATATACT
*
87550 T-TATACTA-AAACTTT
1 TATATA-TATATAC--T
87565 ATATATATATATACCT
1 -TATATATATATA-CT
*
87581 TTTAATACTTATATACT
1 TAT-ATA--TATATACT
* *
87598 TATATTTA-ATATT
1 TATATATATATACT
* *
87611 TTTATACTTTATA-T
1 TATATA-TATATACT
87625 TATATAATTATATACT
1 TATAT-A-TATATACT
87641 T-TAT-TAT-TACT
1 TATATATATATACT
*
87652 ATATACATATATACAAT
1 -TATATATATATAC--T
*
87669 T-TATACTA-AAACT
1 TATATA-TATATACT
87682 T-TATATATATA--
1 TATATATATATACT
87693 TATATACT-TATACTT
1 TATATA-TATATAC-T
87708 TATATGTATATATACT
1 TATA--TATATATACT
87724 T-TATATTATATACT
1 TATATA-TATATACT
* *
87738 TATATACTTTATTCT
1 TATATA-TATATACT
87753 T-TATA-ATTATACT
1 TATATATA-TATACT
87766 T-TATATATATA-T
1 TATATATATATACT
*
87778 ATATATATATATAAT
1 -TATATATATATACT
87793 TATA
1 TATA
87797 CTTTATAATT
Statistics
Matches: 366, Mismatches: 51, Indels: 148
0.65 0.09 0.26
Matches are distributed among these distances:
11 12 0.03
12 44 0.12
13 92 0.25
14 93 0.25
15 78 0.21
16 22 0.06
17 18 0.05
18 7 0.02
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (14 bp):
TATATATATATACT
Found at i:87326 original size:21 final size:20
Alignment explanation
Indices: 87290--87784 Score: 128
Period size: 20 Copynumber: 24.7 Consensus size: 20
87280 AACTATAAAG
87290 TATATATATATATACTTATAT
1 TATATATATATATACTT-TAT
87311 TATATACT-TATATACTTTAT
1 TATATA-TATATATACTTTAT
* * * *
87331 TCTTTATA-ATTATACTCTCT
1 TATATATATA-TATACTTTAT
87351 CTATATATA-ATATACTTATACT
1 -TATATATATATATACTT-TA-T
87373 T-TATAT-TAT-TA-TTTAT
1 TATATATATATATACTTTAT
*
87389 GTATATATATATATA-TATAT
1 -TATATATATATATACTTTAT
* *
87409 TCT-TATACT-TGTA--TT-T
1 TATATATA-TATATACTTTAT
*
87425 TATATGTATATATACTTTA-
1 TATATATATATATACTTTAT
* *
87444 TATTATATACGAATGTACTTTAGT
1 TA-TATATA--TATATACTTTA-T
*
87468 CTTTATA-AT-TATA-TTATAT
1 -TATATATATATATACTT-TAT
* *
87487 ATATATATAAATATAC-ATA-
1 -TATATATATATATACTTTAT
*
87506 TACATATACT-TATACTTTA-
1 TATATATA-TATATACTTTAT
87525 TAT-TA-AT-TATA---TAT
1 TATATATATATATACTTTAT
* **
87539 GTATATATACTTTATACTAAAACTT
1 -TATATATA-TATATACT-TTA--T
*
87564 TATATATATATATACCTT-T
1 TATATATATATATACTTTAT
87583 TA-ATACT-TATATACTTATAT
1 TATATA-TATATATACTT-TAT
* *
87603 T-TAATATTTTTATACTTTA-
1 TAT-ATATATATATACTTTAT
87622 TATTATATAATTATATACTTTAT
1 TA-TATAT-A-TATATACTTTAT
* * *
87645 TATTACTATATACATA-TATAC
1 TA-TA-TATATATATACTTTAT
* * *
87666 AATTTATACTA-AAACTTTA-
1 TATATATA-TATATACTTTAT
87685 TATATATATATATACTTATACTT
1 TATATATATATATACTT-TA--T
*
87708 TATATGTATATATACTTTA-
1 TATATATATATATACTTTAT
87727 TATTATATACTTATATACTTTAT
1 TA-TATATA--TATATACTTTAT
* *
87750 TCTTTATA-ATTATACTTTAT
1 TATATATATA-TATACTTTAT
87770 ATATATATATATATA
1 -TATATATATATATA
87785 TATATAATTA
Statistics
Matches: 353, Mismatches: 54, Indels: 134
0.65 0.10 0.25
Matches are distributed among these distances:
13 2 0.01
15 3 0.01
16 12 0.03
17 12 0.03
18 42 0.12
19 56 0.16
20 79 0.22
21 54 0.15
22 45 0.13
23 31 0.09
24 15 0.04
25 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATATATATATACTTTAT
Found at i:87622 original size:22 final size:22
Alignment explanation
Indices: 87581--87644 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
87571 ATATATACCT
*
87581 TTTAATACTTATATAC-TTATA
1 TTTAATAATTATATACTTTATA
* *
87602 TTTAATATTTTTATACTTTATA
1 TTTAATAATTATATACTTTATA
87624 -TTATATAATTATATACTTTAT
1 TTTA-ATAATTATATACTTTAT
87645 TATTACTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTAATAATTATATACTTTATA
Found at i:87662 original size:26 final size:22
Alignment explanation
Indices: 87613--87786 Score: 79
Period size: 22 Copynumber: 8.2 Consensus size: 22
87603 TTAATATTTT
*
87613 TATACTTTATATTATATAATTA
1 TATACTTTATATTATATAAATA
87635 TATACTTTATTATTACTATATACATA
1 TATACTTTA-TATTA-TATA-A-ATA
* * *
87661 TATACAATTTATACTA-A-AACTT
1 TATAC--TTTATATTATATAAATA
* *
87683 TATA-TATATA-TATAT-ACT-
1 TATACTTTATATTATATAAATA
*
87701 TATAC-TT-TA-TATGT--ATA
1 TATACTTTATATTATATAAATA
**
87718 TATACTTTATATTATATACTTA
1 TATACTTTATATTATATAAATA
*
87740 TATACTTTAT-TCTTTAT-AAT-
1 TATACTTTATAT-TATATAAATA
*
87760 TATACTTTATATATATATATATA
1 TATACTTTATAT-TATATAAATA
87783 TATA
1 TATA
87787 TATAATTATA
Statistics
Matches: 117, Mismatches: 16, Indels: 37
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.01
17 11 0.09
18 9 0.08
19 11 0.09
20 14 0.12
21 7 0.06
22 32 0.27
23 10 0.09
24 5 0.04
25 2 0.02
26 7 0.06
27 4 0.03
28 4 0.03
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.52
Consensus pattern (22 bp):
TATACTTTATATTATATAAATA
Found at i:87690 original size:2 final size:2
Alignment explanation
Indices: 87683--87790 Score: 57
Period size: 2 Copynumber: 54.0 Consensus size: 2
87673 ACTAAAACTT
* * *
87683 TA TA TA TA TA TA TA TA CT- TA TA CTT TA TA TG TA TA TA TA CTT
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
87725 TA TA T- TA TA TA CT- TA TA TA CTT TA T- TC TT TA TA -A T- TA TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
87764 CTT 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
87791 ATTATACTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
1 6 0.07
2 70 0.85
3 6 0.07
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:87721 original size:17 final size:16
Alignment explanation
Indices: 87701--87809 Score: 76
Period size: 14 Copynumber: 7.0 Consensus size: 16
87691 TATATATACT
87701 TATACTTTATATGTATA
1 TATACTTTATAT-TATA
87718 TATACTTTATA-T-TA
1 TATACTTTATATTATA
87732 TATACTTATATACTT-TA
1 TATACTT-TATA-TTATA
87749 T-T-CTTTATA--AT-
1 TATACTTTATATTATA
87760 TATACTTTATA-TATA
1 TATACTTTATATTATA
*
87775 TATA-TATATATATATAA
1 TATACTTTATAT-TAT-A
87792 TTATACTTTATAATTATA
1 -TATACTTTAT-ATTATA
87810 CGTTAAGCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 27
0.72 0.02 0.26
Matches are distributed among these distances:
11 1 0.01
12 2 0.03
13 7 0.09
14 20 0.26
15 12 0.16
16 4 0.05
17 16 0.21
18 5 0.07
19 7 0.09
20 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (16 bp):
TATACTTTATATTATA
Found at i:87736 original size:119 final size:119
Alignment explanation
Indices: 87516--87743 Score: 272
Period size: 119 Copynumber: 1.9 Consensus size: 119
87506 TACATATACT
* ** * *
87516 TATACTTTATATTAATTATATATGTATATATACTTTATACTAAAACTTTATATATATATATACCT
1 TATACTTTATATTAACTATATACATATATACAATTTATACTAAAACTTTATATATATATATA-CT
* *
87581 TTTAATACTTATATACTTATATTTAATATTTTTATACTT-TATATTATATAATTA
65 CTTAATACTTATATACTTATATTTAATATTTATATACTTATATATTATATAATTA
87635 TATACTTTATTATT-ACTATATACATATATACAATTTATACTAAAACTTTATATATATATATA-T
1 TATACTTTA-TATTAACTATATACATATATACAATTTATACTAAAACTTTATATATATATATACT
87698 ACTT-ATACTTTATATGTA-TATATACTTT-ATA-TTATATACTTATATA
65 -CTTAATAC-TTATA--TACT-TATA-TTTAATATTTATATACTTATATA
87744 CTTTATTCTT
Statistics
Matches: 94, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
117 5 0.05
118 7 0.07
119 62 0.66
120 17 0.18
121 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (119 bp):
TATACTTTATATTAACTATATACATATATACAATTTATACTAAAACTTTATATATATATATACTC
TTAATACTTATATACTTATATTTAATATTTATATACTTATATATTATATAATTA
Found at i:94226 original size:13 final size:13
Alignment explanation
Indices: 94208--94232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94198 GTTAAGTGAT
94208 TTGAAAGAATTGG
1 TTGAAAGAATTGG
94221 TTGAAAGAATTG
1 TTGAAAGAATTG
94233 ATGAAGAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (13 bp):
TTGAAAGAATTGG
Found at i:97576 original size:45 final size:45
Alignment explanation
Indices: 97513--97793 Score: 382
Period size: 45 Copynumber: 6.2 Consensus size: 45
97503 TATTCATTAT
* * * *
97513 TTTCATTTATGGTATCCTTTCATGCTTTTAATGCACTGTTATCCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* **
97558 TTTTATTTATGGTTTCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* ** * *
97603 TTTCATTTATGACATCCTTTCATGCCTTTAATGCAATGTAATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
97648 TTTCATTTATGGCATCCTTTCATGTCTTTAATACACCGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
97693 TTTCATTTATGACATCTTTTCATGCCTTTAATGCACCGTTATGAA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
97738 TTTAATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATTCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
97783 TTTCATTTATG
1 TTTCATTTATG
97794 TAATGAAAAC
Statistics
Matches: 204, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 204 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:99433 original size:16 final size:16
Alignment explanation
Indices: 99412--99448 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
99402 TCAGGCGTAA
*
99412 TGATATGGGATGGATC
1 TGATATGGGATAGATC
99428 TGATATGGGATAGATC
1 TGATATGGGATAGATC
99444 TGATA
1 TGATA
99449 CGTCCTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.32
Consensus pattern (16 bp):
TGATATGGGATAGATC
Found at i:105518 original size:23 final size:24
Alignment explanation
Indices: 105482--105530 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
105472 TTGCTTTTTA
105482 TTCTTTCTGAGTGCTTTCAATTTC
1 TTCTTTCTGAGTGCTTTCAATTTC
* *
105506 TTCTTT-TGAGTGCTTTTATTTTC
1 TTCTTTCTGAGTGCTTTCAATTTC
105529 TT
1 TT
105531 TGTTGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.61
Consensus pattern (24 bp):
TTCTTTCTGAGTGCTTTCAATTTC
Found at i:105531 original size:20 final size:21
Alignment explanation
Indices: 105473--105531 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
105463 TTTTTTTCTT
*
105473 TGCTTTT-TATTCTTTCTGAG
1 TGCTTTTATTTTCTTTCTGAG
*
105493 TGCTTTCAATTTCTTCTTT-TGAG
1 TGCTTT-TA-TT-TTCTTTCTGAG
105516 TGCTTTTATTTTCTTT
1 TGCTTTTATTTTCTTT
105532 GTTGGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 1 0.03
23 11 0.34
24 6 0.19
ACGTcount: A:0.10, C:0.15, G:0.12, T:0.63
Consensus pattern (21 bp):
TGCTTTTATTTTCTTTCTGAG
Found at i:109260 original size:12 final size:12
Alignment explanation
Indices: 109232--109273 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
109222 TAAAGCTATG
*
109232 GAAGAAAATGGCT
1 GAAG-AAATGGAT
109245 -AAGAAATGGAT
1 GAAGAAATGGAT
109256 GAAG-AATGGAT
1 GAAGAAATGGAT
109267 GAAGAAA
1 GAAGAAA
109274 GGAAGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.14
Consensus pattern (12 bp):
GAAGAAATGGAT
Found at i:115806 original size:20 final size:20
Alignment explanation
Indices: 115777--115815 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
115767 ATTTCACCAC
*
115777 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
115797 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
115816 TACGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:134389 original size:11 final size:11
Alignment explanation
Indices: 134368--134406 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
134358 AGTTCTTTAA
134368 CTTTCTTTCTTT
1 CTTT-TTTCTTT
134380 CTTTTTTCTTT
1 CTTTTTTCTTT
*
134391 GTTTTTTC-TT
1 CTTTTTTCTTT
134401 CTTTTT
1 CTTTTT
134407 GAGTGCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 7 0.28
11 14 0.56
12 4 0.16
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:136611 original size:13 final size:13
Alignment explanation
Indices: 136593--136617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136583 TTTCTTCCAT
136593 TTTATTCATTTTA
1 TTTATTCATTTTA
136606 TTTATTCATTTT
1 TTTATTCATTTT
136618 TTATTACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTCATTTTA
Found at i:138213 original size:21 final size:18
Alignment explanation
Indices: 138171--138219 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
138161 CAGCCAAGAG
*
138171 CATGTATATTCATTAAAT
1 CATGTATTTTCATTAAAT
138189 CATGTATTTTCATTAAAACAT
1 CATGTATTTTCATT--AA-AT
138210 CATGTATTTT
1 CATGTATTTT
138220 TAAATGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.48
20 2 0.07
21 12 0.44
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (18 bp):
CATGTATTTTCATTAAAT
Found at i:138991 original size:18 final size:19
Alignment explanation
Indices: 138964--139006 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
138954 ATGCTGCAAC
*
138964 AAAAAGTAAAAGAA-AGAAG
1 AAAAAGTAAAA-AAGAAAAG
138983 AAAAA-TAAAAAAGAAAAG
1 AAAAAGTAAAAAAGAAAAG
139001 AAAAAG
1 AAAAAG
139007 ACTCCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.10
18 14 0.67
19 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAGTAAAAAAGAAAAG
Found at i:138996 original size:13 final size:13
Alignment explanation
Indices: 138964--139005 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
138954 ATGCTGCAAC
*
138964 AAAAAGTAAAAGA
1 AAAAAGAAAAAGA
* *
138977 AAGAAGAAAAATA
1 AAAAAGAAAAAGA
138990 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
139002 AAAA
1 AAAA
139006 GACTCCTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:142853 original size:18 final size:19
Alignment explanation
Indices: 142826--142868 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
142816 ATACTGCAAC
*
142826 AAAAAGTAAAAGAA-AGAAG
1 AAAAAGTAAAA-AAGAAAAG
142845 AAAAA-TAAAAAAGAAAAG
1 AAAAAGTAAAAAAGAAAAG
142863 AAAAAG
1 AAAAAG
142869 ACTCCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.10
18 14 0.67
19 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAGTAAAAAAGAAAAG
Found at i:142858 original size:13 final size:13
Alignment explanation
Indices: 142826--142867 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
142816 ATACTGCAAC
*
142826 AAAAAGTAAAAGA
1 AAAAAGAAAAAGA
* *
142839 AAGAAGAAAAATA
1 AAAAAGAAAAAGA
142852 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
142864 AAAA
1 AAAA
142868 GACTCCTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:150634 original size:22 final size:21
Alignment explanation
Indices: 150609--150656 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
150599 CAGTCATCTC
* * *
150609 TATTCATTTTCTTTCATTTCAT
1 TATTCATATTATTCCATTT-AT
*
150631 TATTTATATTATTCCATTTAT
1 TATTCATATTATTCCATTTAT
150652 TATTC
1 TATTC
150657 CATCATTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTCATATTATTCCATTTAT
Found at i:153208 original size:14 final size:15
Alignment explanation
Indices: 153174--153220 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
153164 AATTTGGAGT
153174 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
153189 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
153203 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
153220 G
1 G
153221 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:156969 original size:35 final size:35
Alignment explanation
Indices: 156861--156969 Score: 159
Period size: 36 Copynumber: 3.1 Consensus size: 35
156851 ATACAATCTG
*
156861 TCCATCACC--ATCACGCCTATATCATCACCATCT
1 TCCATCACCATATCACGCCTATATCATCACCATAT
*
156894 TCCATCACCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCA-TATCACGCCTATATCATCACCATAT
* *
156930 TCCATCACCATATCACGCCTATATTATCACCAAAT
1 TCCATCACCATATCACGCCTATATCATCACCATAT
156965 TCCAT
1 TCCAT
156970 TTTTTCATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
33 9 0.13
35 27 0.40
36 32 0.47
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.28
Consensus pattern (35 bp):
TCCATCACCATATCACGCCTATATCATCACCATAT
Found at i:157140 original size:20 final size:20
Alignment explanation
Indices: 157117--157156 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
157107 ATCCATTTCA
157117 ATTCTTTCCTTTTTCCATTT
1 ATTCTTTCCTTTTTCCATTT
157137 ATTCTTTCCTTTTTCCATTT
1 ATTCTTTCCTTTTTCCATTT
157157 CAATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTCTTTCCTTTTTCCATTT
Found at i:163276 original size:20 final size:20
Alignment explanation
Indices: 163241--163289 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
163231 GAAACCCCTT
*
163241 TGAAAA-ACA-TGATTTTTGA
1 TGAAAATACATTGA-TTTTAA
163260 TGAAAATACATTG-TTTTAA
1 TGAAAATACATTGATTTTAA
*
163279 TGAAGATACAT
1 TGAAAATACAT
163290 GCTCTTGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 21 0.81
20 3 0.12
21 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATTGATTTTAA
Found at i:174761 original size:177 final size:177
Alignment explanation
Indices: 174465--174825 Score: 578
Period size: 177 Copynumber: 2.0 Consensus size: 177
174455 ACTGCCATGG
*
174465 TCTACCAAGTAGAATGTGGCTAGAATGCATAGGGACGATGTCACAAAGTACCTTATACTTGTACC
1 TCTACCAAGTAGAATGTGGCTAGAATGCATAGGGACGATGTCACAAAGTACCTTATACTTGCACC
* *
174530 TACCAACTGAAAAAGGTATTAGAACCTGTTTAGTAACGTTTAATTTACCTCCTTTATTGAGCCAT
66 TACCAACTGAAAAAGGAATTAGAACCTGTTTAGTAACGTTTAACTTACCTCCTTTATTGAGCCAT
* *
174595 TGGAGTTTATATTGAGTGGGATGCTTTCATGGTTGCAAACCAAGTTT
131 TGGAGTTTATATGGAGTGGGATGCTTTCATGGGTGCAAACCAAGTTT
* * * * *
174642 TCTACCAAGTAGAATGTGGCTAGCATGCATAGGGATGATGTCATAAAGTACCTTATCCTTGCATC
1 TCTACCAAGTAGAATGTGGCTAGAATGCATAGGGACGATGTCACAAAGTACCTTATACTTGCACC
* * *
174707 TACCAACTGAAAAAGGAATTAGAAGCTGTTTAGTAATGTTTAACTTACCTCCTTTATTGATCCAT
66 TACCAACTGAAAAAGGAATTAGAACCTGTTTAGTAACGTTTAACTTACCTCCTTTATTGAGCCAT
**
174772 TGGAGTTTATATGGAGTGGGATGCTTTGTTGGGTGCAAACCAAGTTT
131 TGGAGTTTATATGGAGTGGGATGCTTTCATGGGTGCAAACCAAGTTT
*
174819 TCAACCA
1 TCTACCA
174826 TAAGAGTGTT
Statistics
Matches: 168, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 168 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (177 bp):
TCTACCAAGTAGAATGTGGCTAGAATGCATAGGGACGATGTCACAAAGTACCTTATACTTGCACC
TACCAACTGAAAAAGGAATTAGAACCTGTTTAGTAACGTTTAACTTACCTCCTTTATTGAGCCAT
TGGAGTTTATATGGAGTGGGATGCTTTCATGGGTGCAAACCAAGTTT
Found at i:177584 original size:18 final size:18
Alignment explanation
Indices: 177561--177609 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
177551 AAAGGAAATC
177561 TTTGATTTTGAAAAACAT
1 TTTGATTTTGAAAAACAT
* *
177579 TTTGATTTTGAAAATCGT
1 TTTGATTTTGAAAAACAT
177597 TTTGATTTTGAAA
1 TTTGATTTTGAAA
177610 CATAAGAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (18 bp):
TTTGATTTTGAAAAACAT
Found at i:181933 original size:14 final size:13
Alignment explanation
Indices: 181901--181943 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
181891 TTGACGAAAC
*
181901 AAAAACAAAATCA
1 AAAAATAAAATCA
*
181914 AAAAATAAAATTA
1 AAAAATAAAATCA
181927 AATAAATAAAAT-A
1 AA-AAATAAAATCA
181940 AAAA
1 AAAA
181944 TATAGTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 2 0.07
13 16 0.59
14 9 0.33
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAATCA
Found at i:192474 original size:35 final size:35
Alignment explanation
Indices: 192390--192505 Score: 126
Period size: 35 Copynumber: 3.3 Consensus size: 35
192380 TGGTTAAGGA
* * * * *
192390 ATGGTGATGATATAAGCATAAAATAGTGTTAGAAG
1 ATGGTGATGATATAGGCATGAAATGGTGATGGAAG
* *
192425 ATGGTGATGTTATAGGCATGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCATGAAATGGTGATGGAAG
* *
192460 ATGGTGATGATATAGGCGTGAAAATGGTTATGCG-AG
1 ATGGTGATGATATAGGCATG-AAATGGTGATG-GAAG
192496 ATGGTGATGA
1 ATGGTGATGA
192506 ACAGATAGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 46 0.68
36 21 0.31
37 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (35 bp):
ATGGTGATGATATAGGCATGAAATGGTGATGGAAG
Found at i:200387 original size:248 final size:248
Alignment explanation
Indices: 199944--200438 Score: 796
Period size: 248 Copynumber: 2.0 Consensus size: 248
199934 AAAGACCCAT
*
199944 ACTTTATATTGCTTCTATAAGAGGTGGTATAAAGGACTTTGACCCACTAGTTATATGAACTAGGA
1 ACTTTATATTGCTTCTATAAGAGGTGGTATAAAGGACTTCGACCCACTAGTTATATGAACTAGGA
*
200009 ACCAAAAGTATCAAGGGGAAGGGGTTGACGCCACAAGTATTAAAAATACTTGATAAATCGATAAA
66 ACCAAAAGTATCAAGGGGAAGGGGTTGACGCCACAAGTATTAAAAATACTTGAGAAATCGATAAA
* * * * *
200074 AGTCATCAGGACTTAAGAAATAAAATAATCTCACTTAATTTAATCAAAAAATGTCTCACTACAAA
131 AGTCACCAAGACTTAAGAAAGAAAATAATCTCACTTAATTTAATAAAAAAATGTATCACTACAAA
* *
200139 TGATATATGCTTTCTTATTTATTGGAAATGGAGAGACATGGCCGAATGATTAG
196 TGATATATGCTTCCTTATTTATAGGAAATGGAGAGACATGGCCGAATGATTAG
* * *
200192 ACTTTATATTGCTTCTTTAAG-GGATGGTATAAAGGACTTCGACCTACTAGTTATATGATCTAGG
1 ACTTTATATTGCTTCTATAAGAGG-TGGTATAAAGGACTTCGACCCACTAGTTATATGAACTAGG
* *
200256 AACCAGAAGTATCAAGGGGAAGGGGTTGACGCCACAAGTATTAAAAATACTTGAGAAGTCGATAA
65 AACCAAAAGTATCAAGGGGAAGGGGTTGACGCCACAAGTATTAAAAATACTTGAGAAATCGATAA
* * *
200321 AAGTCACCAAGACTTAAGAAAGAGAATAATCTCACTT-ATATTAATAAAAAAATGTATGATTACA
130 AAGTCACCAAGACTTAAGAAAGAAAATAATCTCACTTAAT-TTAATAAAAAAATGTATCACTACA
*
200385 AATGATATATGCTTCCTTATTTATAGGAAATGGAGAGGCATGGCCGAATGATTA
194 AATGATATATGCTTCCTTATTTATAGGAAATGGAGAGACATGGCCGAATGATTA
200439 CAAGGAGTTT
Statistics
Matches: 227, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
247 4 0.02
248 223 0.98
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (248 bp):
ACTTTATATTGCTTCTATAAGAGGTGGTATAAAGGACTTCGACCCACTAGTTATATGAACTAGGA
ACCAAAAGTATCAAGGGGAAGGGGTTGACGCCACAAGTATTAAAAATACTTGAGAAATCGATAAA
AGTCACCAAGACTTAAGAAAGAAAATAATCTCACTTAATTTAATAAAAAAATGTATCACTACAAA
TGATATATGCTTCCTTATTTATAGGAAATGGAGAGACATGGCCGAATGATTAG
Found at i:203974 original size:13 final size:13
Alignment explanation
Indices: 203955--204026 Score: 71
Period size: 13 Copynumber: 5.8 Consensus size: 13
203945 ATAGGCGTGC
203955 AATGGTGATGGAA
1 AATGGTGATGGAA
*
203968 GATGGTGAT-G-A
1 AATGGTGATGGAA
* *
203979 TATAGGCG-T-GAA
1 AAT-GGTGATGGAA
203991 AATGGTGATGGAA
1 AATGGTGATGGAA
204004 AATGGTGATGGAA
1 AATGGTGATGGAA
*
204017 GATGGTGATG
1 AATGGTGATG
204027 AACAGATAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
11 8 0.16
12 8 0.16
13 33 0.67
ACGTcount: A:0.33, C:0.01, G:0.40, T:0.25
Consensus pattern (13 bp):
AATGGTGATGGAA
Found at i:204002 original size:36 final size:35
Alignment explanation
Indices: 203908--204013 Score: 149
Period size: 35 Copynumber: 3.0 Consensus size: 35
203898 GAATGGACTA
* * * *
203908 ATATAGGCATGAAATGGTGTTAGAGGATGGTGATG
1 ATATAGGCGTGAAATGGTGATGGAAGATGGTGATG
*
203943 ATATAGGCGTGCAATGGTGATGGAAGATGGTGATG
1 ATATAGGCGTGAAATGGTGATGGAAGATGGTGATG
*
203978 ATATAGGCGTGAAAATGGTGATGGAAAATGGTGATG
1 ATATAGGCGTG-AAATGGTGATGGAAGATGGTGATG
204014 GAAGATGGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 41 0.65
36 22 0.35
ACGTcount: A:0.32, C:0.04, G:0.38, T:0.26
Consensus pattern (35 bp):
ATATAGGCGTGAAATGGTGATGGAAGATGGTGATG
Found at i:208295 original size:16 final size:16
Alignment explanation
Indices: 208263--208307 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
208253 AAGGTAATGA
208263 AATAAGAAAAGATGAAAG
1 AATAAG-AAA-ATGAAAG
* *
208281 AATAAGGAAATGAAAT
1 AATAAGAAAATGAAAG
208297 AATAAGAAAAT
1 AATAAGAAAAT
208308 TAAGATAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 16 0.67
17 2 0.08
18 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.16
Consensus pattern (16 bp):
AATAAGAAAATGAAAG
Found at i:211404 original size:6 final size:5
Alignment explanation
Indices: 211351--211402 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
211341 TTTGGAGTGC
*
211351 AAAAG -AAAG AAAAG AAAAG AAAAA ATTCAAAG CAAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG A---AAAG -AAAAG AAAAG AAAAG
211399 AAAA
1 AAAA
211403 AGTTGCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 4 0.10
5 28 0.70
6 4 0.10
8 3 0.08
9 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:215190 original size:14 final size:14
Alignment explanation
Indices: 215171--215207 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
215161 TAAGATATTA
215171 TTTCCATCACCATC
1 TTTCCATCACCATC
215185 TTTCCATCACCATC
1 TTTCCATCACCATC
*
215199 -CTCCATCAC
1 TTTCCATCAC
215208 TTTCATGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:216068 original size:17 final size:17
Alignment explanation
Indices: 216027--216098 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
216017 ATTCATGCAT
*
216027 CTAGTTCATTTAATAAA
1 CTAGTTCATTTATTAAA
*
216044 GTTAGTTCATTTATTAAA
1 -CTAGTTCATTTATTAAA
*
216062 CTAGTTCATTCATTAAA
1 CTAGTTCATTTATTAAA
* *
216079 CTTGTTCATCTATTAAA
1 CTAGTTCATTTATTAAA
216096 CTA
1 CTA
216099 ACTCTTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (17 bp):
CTAGTTCATTTATTAAA
Found at i:216093 original size:34 final size:35
Alignment explanation
Indices: 216027--216098 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
216017 ATTCATGCAT
* * *
216027 CTAGTTCATTTAATAAAGTTAGTTCATTTATTAAA
1 CTAGTTCATTCAATAAACTTAGTTCATCTATTAAA
*
216062 CTAGTTCATTCATTAAACTT-GTTCATCTATTAAA
1 CTAGTTCATTCAATAAACTTAGTTCATCTATTAAA
216096 CTA
1 CTA
216099 ACTCTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 16 0.48
35 17 0.52
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (35 bp):
CTAGTTCATTCAATAAACTTAGTTCATCTATTAAA
Found at i:222147 original size:13 final size:14
Alignment explanation
Indices: 222119--222154 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
222109 ATACTATTTT
*
222119 CATCACCATCTTTC
1 CATCACCATCTCTC
222133 CATCACCATC-CTC
1 CATCACCATCTCTC
222146 CATCACCAT
1 CATCACCAT
222155 TCACGCCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.25, C:0.47, G:0.00, T:0.28
Consensus pattern (14 bp):
CATCACCATCTCTC
Found at i:222205 original size:36 final size:36
Alignment explanation
Indices: 222165--222243 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 36
222155 TCACGCCCAT
**
222165 ATCATCATTTTTCCCTTCTCATATCTTCACCATTAA
1 ATCATCATTTTTCCCTTAACATATCTTCACCATTAA
*
222201 ATCATCA---TTCCCTTAACATCTCTTCACCATTAA
1 ATCATCATTTTTCCCTTAACATATCTTCACCATTAA
222234 ATCATCATTT
1 ATCATCATTT
222244 ATTCATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 30 0.81
36 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (36 bp):
ATCATCATTTTTCCCTTAACATATCTTCACCATTAA
Found at i:222665 original size:5 final size:5
Alignment explanation
Indices: 222634--222688 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
222624 TTTGGAGTGC
* * *
222634 AAAAG -AAAG AAAAT AAAAG AAGA- AAAAG AAAAG AAAAAG AAAAG ACAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG
222683 TAAAAG
1 -AAAAG
222689 TTACAAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
4 7 0.17
5 24 0.60
6 9 0.22
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:222669 original size:11 final size:11
Alignment explanation
Indices: 222634--222678 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
222624 TTTGGAGTGC
222634 AAAAG-AAAGA
1 AAAAGAAAAGA
*
222644 AAATAAAAGAAGA
1 AAA-AGAA-AAGA
222657 AAAAGAAAAGA
1 AAAAGAAAAGA
222668 AAAAGAAAAGA
1 AAAAGAAAAGA
222679 CAAGTAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.10
11 16 0.53
12 4 0.13
13 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:227440 original size:14 final size:14
Alignment explanation
Indices: 227421--227448 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
227411 AATGATGGAG
227421 GATGGTGATGGAAA
1 GATGGTGATGGAAA
227435 GATGGTGATGGAAA
1 GATGGTGATGGAAA
227449 TAGTATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (14 bp):
GATGGTGATGGAAA
Found at i:231991 original size:17 final size:17
Alignment explanation
Indices: 231969--232025 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
231959 TTCACGCTTA
*
231969 TATCATCATCCTTCCCT
1 TATCATCATCATTCCCT
* *
231986 TATCATC-TCTTTACCAT
1 TATCATCATCATT-CCCT
*
232003 TA-AATCATCATTCCCT
1 TATCATCATCATTCCCT
232019 TATCATC
1 TATCATC
232026 TCTTCACCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (17 bp):
TATCATCATCATTCCCT
Found at i:232010 original size:33 final size:33
Alignment explanation
Indices: 231973--232042 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
231963 CGCTTATATC
* *
231973 ATCATCCTTCCCTTATCATCTCTTTACCATTAA
1 ATCATCATTCCCTTATCATCTCTTCACCATTAA
232006 ATCATCATTCCCTTATCATCTCTTCACCATTAA
1 ATCATCATTCCCTTATCATCTCTTCACCATTAA
232039 ATCA
1 ATCA
232043 ACCTACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (33 bp):
ATCATCATTCCCTTATCATCTCTTCACCATTAA
Found at i:232055 original size:33 final size:33
Alignment explanation
Indices: 231984--232056 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
231974 TCATCCTTCC
* * * *
231984 CTTATCATCTCTTTACCATTAAATCATCATTCC
1 CTTATCATCTCTTCACCATTAAATCAACATACA
*
232017 CTTATCATCTCTTCACCATTAAATCAACCTACA
1 CTTATCATCTCTTCACCATTAAATCAACATACA
*
232050 TTTATCA
1 CTTATCA
232057 ACAAGTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (33 bp):
CTTATCATCTCTTCACCATTAAATCAACATACA
Found at i:246535 original size:18 final size:19
Alignment explanation
Indices: 246501--246542 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
246491 TCAAGAAAAA
246501 AAATTTAAATCGCTTTT-G
1 AAATTTAAATCGCTTTTAG
*
246519 AAATATTAAAT-GGTTTTAG
1 AAAT-TTAAATCGCTTTTAG
246538 AAATT
1 AAATT
246543 CGGATAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (19 bp):
AAATTTAAATCGCTTTTAG
Found at i:249566 original size:24 final size:24
Alignment explanation
Indices: 249534--249583 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
249524 CCTAGGTAAA
249534 TCCCAATGGACTTTACACTCCACT
1 TCCCAATGGACTTTACACTCCACT
* *
249558 TCCCAATGGATTTTACACTCTACT
1 TCCCAATGGACTTTACACTCCACT
249582 TC
1 TC
249584 TTCTTGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.34
Consensus pattern (24 bp):
TCCCAATGGACTTTACACTCCACT
Found at i:253625 original size:19 final size:19
Alignment explanation
Indices: 253601--253638 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
253591 TTCAACACAT
*
253601 CACATGGCTGAGACTACAC
1 CACATGGCCGAGACTACAC
253620 CACATGGCCGAGACTACAC
1 CACATGGCCGAGACTACAC
253639 TACAAGCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.34, G:0.21, T:0.13
Consensus pattern (19 bp):
CACATGGCCGAGACTACAC
Found at i:256166 original size:17 final size:17
Alignment explanation
Indices: 256134--256165 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
256124 AAATTGGAGT
256134 ACAAAAAGAAAGAAAAG
1 ACAAAAAGAAAGAAAAG
256151 ACAAAAAG-AAGAAAA
1 ACAAAAAGAAAGAAAA
256166 AATTTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (17 bp):
ACAAAAAGAAAGAAAAG
Found at i:256176 original size:11 final size:10
Alignment explanation
Indices: 256162--256187 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
256152 CAAAAAGAAG
256162 AAAAAATTTC
1 AAAAAATTTC
256172 AAAAAATTTC
1 AAAAAATTTC
256182 AAAAAA
1 AAAAAA
256188 GAATCTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:263403 original size:13 final size:13
Alignment explanation
Indices: 263385--263410 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263375 TGGTCAAAGA
263385 TGAAAAGGTATGT
1 TGAAAAGGTATGT
263398 TGAAAAGGTATGT
1 TGAAAAGGTATGT
263411 GAATGGTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:286150 original size:23 final size:22
Alignment explanation
Indices: 286123--286172 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
286113 TTTATCTTTT
*
286123 TTATTTA-TTTCATTTCATTATTA
1 TTATTTATTTTCATTAC-TTA-TA
286146 TTATTTATTTTCATTACTTATA
1 TTATTTATTTTCATTACTTATA
286168 TTATT
1 TTATT
286173 ACCCTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 10 0.40
24 8 0.32
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTATTTTCATTACTTATA
Found at i:286457 original size:14 final size:13
Alignment explanation
Indices: 286440--286489 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
286430 GTGCAAAAAG
286440 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
286454 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
286467 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
286478 AAAGAAAAAGAA
1 AAAGAAAAAGAA
286490 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:286486 original size:19 final size:18
Alignment explanation
Indices: 286434--286489 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
286424 ATTGGAGTGC
286434 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
286451 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
286470 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
286489 A
1 A
286490 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:286487 original size:11 final size:11
Alignment explanation
Indices: 286434--286489 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
286424 ATTGGAGTGC
286434 AAAAAG-AAAG
1 AAAAAGAAAAG
286444 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
286458 AAGAAGAAAAG
1 AAAAAGAAAAG
286469 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
286482 AAAAAGAA
1 AAAAAGAA
286490 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:290739 original size:23 final size:22
Alignment explanation
Indices: 290712--290761 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
290702 TCTATCTTTT
*
290712 TTATTTA-TTTCATTTCATTATTA
1 TTATTTATTTTCATTAC-TTA-TA
290735 TTATTTATTTTCATTACTTATA
1 TTATTTATTTTCATTACTTATA
290757 TTATT
1 TTATT
290762 ACCCTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 10 0.40
24 8 0.32
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTATTTTCATTACTTATA
Found at i:291050 original size:11 final size:10
Alignment explanation
Indices: 291026--291075 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
291016 GGAGTGCAAA
291026 AAGAAAGAAA-
1 AAGAAA-AAAG
291036 AAGACAAAAAG
1 AAGA-AAAAAG
291047 AAGAAGAAAAG
1 AAGAA-AAAAG
291058 AAGAAAACAA-
1 AAGAAAA-AAG
291068 AAGAAAAA
1 AAGAAAAA
291076 GAATTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.03
10 17 0.47
11 18 0.50
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:291053 original size:24 final size:23
Alignment explanation
Indices: 291023--291078 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
291013 ATTGGAGTGC
291023 AAAAAGAAAGAA-AAAGACAAAAAG
1 AAAAAGAAAGAAGAAA-AC-AAAAG
*
291047 AAGAAGAAAAGAAGAAAACAAAAG
1 AAAAAG-AAAGAAGAAAACAAAAG
291071 AAAAAGAA
1 AAAAAGAA
291079 TTCAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 15 0.54
25 8 0.29
26 3 0.11
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAGAAGAAAACAAAAG
Found at i:295338 original size:23 final size:22
Alignment explanation
Indices: 295309--295360 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
295299 ACTCTATCTT
*
295309 TTTTATTTA-TTTCATTTCATTA
1 TTTTATTTATTTTCATTAC-TTA
295331 TTATTATTTATTTTCATTACTTA
1 TT-TTATTTATTTTCATTACTTA
295354 TTTTATT
1 TTTTATT
295361 ACCCTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 8 0.30
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTATTTATTTTCATTACTTA
Found at i:295637 original size:19 final size:20
Alignment explanation
Indices: 295613--295663 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
295603 CGGCCAAGAG
*
295613 CATGTATTTTCATT-AAAGT
1 CATGTATTTTCATTAAAAAT
*
295632 CATGTATTTTCGTTAAAAAT
1 CATGTATTTTCATTAAAAAT
*
295652 CATATATTTTCA
1 CATGTATTTTCA
295664 AAGGAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:297874 original size:17 final size:17
Alignment explanation
Indices: 297849--297881 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
297839 ATCCTACCTC
297849 TACCATAACCATTTCTA
1 TACCATAACCATTTCTA
*
297866 TACCCTAACCATTTCT
1 TACCATAACCATTTCT
297882 TTAGTTGACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:298634 original size:21 final size:20
Alignment explanation
Indices: 298606--298646 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
298596 CATGGAATCC
298606 TACAAAAACG-TTGAAGTTGA
1 TACAAAAACGTTTG-AGTTGA
298626 TACAGAAAACGTTTGAGTTGA
1 TACA-AAAACGTTTGAGTTGA
298647 AAATGAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (20 bp):
TACAAAAACGTTTGAGTTGA
Found at i:299552 original size:20 final size:20
Alignment explanation
Indices: 299520--299574 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
299510 TTTATCATTT
* *
299520 ATTT-TATTTGCTCATATGC
1 ATTTATATTAGCTCATAGGC
*
299539 ATTTATATTAGCTCTTAGGC
1 ATTTATATTAGCTCATAGGC
299559 -TTTATGCATTAGCTCA
1 ATTTAT--ATTAGCTCA
299575 CACATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.31
20 12 0.41
21 8 0.28
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTATATTAGCTCATAGGC
Found at i:306098 original size:14 final size:14
Alignment explanation
Indices: 306079--306124 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
306069 TGCTTTCAAC
306079 TTTTCTTTCTT-TTA
1 TTTTCTTT-TTCTTA
306093 TTTTCTTTTTCTTA
1 TTTTCTTTTTCTTA
*
306107 TTTT-TATTTTCTTC
1 TTTTCT-TTTTCTTA
306121 TTTT
1 TTTT
306125 GAGTGATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.10
14 26 0.90
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTTCTTA
Found at i:306104 original size:20 final size:20
Alignment explanation
Indices: 306079--306119 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
306069 TGCTTTCAAC
306079 TTTTCTT-TCTTTTATTTTCT
1 TTTTCTTAT-TTTTATTTTCT
306099 TTTTCTTATTTTTATTTTCT
1 TTTTCTTATTTTTATTTTCT
306119 T
1 T
306120 CTTTTGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTATTTTTATTTTCT
Found at i:309159 original size:19 final size:20
Alignment explanation
Indices: 309135--309185 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
309125 CGGCCAAGAG
*
309135 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
309154 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
*
309174 TATGTATTTTCA
1 CATGTATTTTCA
309186 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:321127 original size:20 final size:20
Alignment explanation
Indices: 321090--321128 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
321080 AGATTGAGTG
* * *
321090 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
321110 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
321129 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:325171 original size:20 final size:21
Alignment explanation
Indices: 325132--325178 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
325122 GAGTTTGTTT
325132 TCATTTTTCAATTTTGAAAAA
1 TCATTTTTCAATTTTGAAAAA
325153 TCATTTTT-ATATTTT-AAAAA
1 TCATTTTTCA-ATTTTGAAAAA
*
325173 TAATTT
1 TCATTT
325179 CTCATAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAAAA
Found at i:332075 original size:5 final size:5
Alignment explanation
Indices: 332065--332095 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
332055 GTGCTTAAAC
332065 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
332096 CTTTTGAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:332137 original size:20 final size:21
Alignment explanation
Indices: 332094--332141 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
332084 TTTTCTTTTC
332094 TTCTTTTGAGTGCTTTCAATTT
1 TTCTTTTGAGTGCTTT-AATTT
332116 TTCTTTTGAGTGCTTT-ATTT
1 TTCTTTTGAGTGCTTTAATTT
332136 TTCTTT
1 TTCTTT
332142 GCTGGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 10 0.38
22 16 0.62
ACGTcount: A:0.10, C:0.12, G:0.12, T:0.65
Consensus pattern (21 bp):
TTCTTTTGAGTGCTTTAATTT
Found at i:338197 original size:16 final size:15
Alignment explanation
Indices: 338178--338221 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
338168 AAAAATAAAG
338178 ATTGAAATAAATGGAA
1 ATTGAAATAAAT-GAA
*
338194 ATTGATATAGAATGAA
1 ATTGAAATA-AATGAA
*
338210 ATGGAAATAAAT
1 ATTGAAATAAAT
338222 TATATCAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 18 0.75
17 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
ATTGAAATAAATGAA
Found at i:349862 original size:45 final size:45
Alignment explanation
Indices: 349798--349967 Score: 200
Period size: 45 Copynumber: 3.8 Consensus size: 45
349788 ATCAAAATAT
* * * *
349798 TTACAATTTAATTCCATAAGTTTGTACGCTTATTTTACCAACATGC
1 TTACCATTT-ATTCCATAAGTTCGTAAGCTTATTTTACCAACATAC
* * * *
349844 TTACCATTTATTTCATAAGTACGTAAGCTTATTTAACTAACATAC
1 TTACCATTTATTCCATAAGTTCGTAAGCTTATTTTACCAACATAC
*
349889 TTACCATTTATTTCATAA-TCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGT-TCGTAAGCTTATTTTACCAACATAC
**
349934 TTATCC-TTTATTCCATAAACTCGTAAGCTTATTT
1 TTA-CCATTTATTCCATAAGTTCGTAAGCTTATTT
349968 GCCAGTTTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 97 0.90
46 10 0.09
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.42
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGTTCGTAAGCTTATTTTACCAACATAC
Found at i:350128 original size:40 final size:40
Alignment explanation
Indices: 350057--350132 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
350047 CAAATGTTGT
* * * *
350057 ACCAAAGTGCTGAGGTTGAGCTTTTCTCACCTAATAATGC
1 ACCAAAGTGCTGAGGTCGAGATTTACCCACCTAATAATGC
* *
350097 ACCATAGTGCTGAGGTCGGGATTTACCCACCTAATA
1 ACCAAAGTGCTGAGGTCGAGATTTACCCACCTAATA
350133 CACCATAGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (40 bp):
ACCAAAGTGCTGAGGTCGAGATTTACCCACCTAATAATGC
Done.