Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007883.1 Hibiscus syriacus cultivar Beakdansim tig00110263_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: 1590433
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:5562 original size:15 final size:15
Alignment explanation
Indices: 5544--5623 Score: 160
Period size: 15 Copynumber: 5.3 Consensus size: 15
5534 CGAGGGTTCT
5544 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
5559 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
5574 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
5589 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
5604 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
5619 GTAGT
1 GTAGT
5624 GGTCCTACGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 65 1.00
ACGTcount: A:0.14, C:0.25, G:0.34, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:7899 original size:19 final size:19
Alignment explanation
Indices: 7854--7898 Score: 76
Period size: 17 Copynumber: 2.5 Consensus size: 19
7844 AAAGCGCTAT
7854 TGATTTTTTATTTTTCTAC
1 TGATTTTTTATTTTTCTAC
7873 TGATTTTTTA-TTTT-TAC
1 TGATTTTTTATTTTTCTAC
7890 TGATTTTTT
1 TGATTTTTT
7899 TATTATTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 12 0.46
18 4 0.15
19 10 0.38
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (19 bp):
TGATTTTTTATTTTTCTAC
Found at i:14007 original size:42 final size:43
Alignment explanation
Indices: 13954--14087 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
13944 ATTACCTATT
* * *
13954 TATTGCGACATTTATAGGGAAAACGCCACTAGATGTATGAACC
1 TATTGCGACATTTATAAGAAAAACGCCACTAAATGTATGAACC
* * *
13997 TATTGC-ACATTTGTAAGAAAAACTCCTCTAAATGTATGAACC
1 TATTGCGACATTTATAAGAAAAACGCCACTAAATGTATGAACC
* * * * ** * *
14039 TATTGTGGCATTTGTAAAAAAAACTTCAATAAATGTCTGAACC
1 TATTGCGACATTTATAAGAAAAACGCCACTAAATGTATGAACC
14082 TATTGC
1 TATTGC
14088 AGCATTTTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 35 0.46
43 41 0.54
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (43 bp):
TATTGCGACATTTATAAGAAAAACGCCACTAAATGTATGAACC
Found at i:14072 original size:43 final size:42
Alignment explanation
Indices: 13986--14094 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
13976 ACGCCACTAG
* **
13986 ATGTATGAACCTATTGCACATTTGTAAGAAAAACTCCTCTAA
1 ATGTATGAACCTATTGCACATTTGTAAAAAAAACTCCAATAA
** *
14028 ATGTATGAACCTATTGTGGCATTTGTAAAAAAAACTTCAATAA
1 ATGTATGAACCTATTG-CACATTTGTAAAAAAAACTCCAATAA
*
14071 ATGTCTGAACCTATTGCAGCATTT
1 ATGTATGAACCTATTGCA-CATTT
14095 TTATATACAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 16 0.29
43 40 0.71
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (42 bp):
ATGTATGAACCTATTGCACATTTGTAAAAAAAACTCCAATAA
Found at i:19681 original size:23 final size:23
Alignment explanation
Indices: 19650--19718 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
19640 CACCACAACT
*
19650 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCAAAGTGCCA
* *
19673 CGTAGAATTGCACCAGAGTGCCG
1 CGTAGAATTGCACCAAAGTGCCA
**
19696 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCAAAGTGCCA
19719 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCAAAGTGCCA
Found at i:19913 original size:103 final size:103
Alignment explanation
Indices: 19734--20049 Score: 551
Period size: 103 Copynumber: 3.1 Consensus size: 103
19724 TAATGTCCAT
* * * *
19734 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
**
19799 GACTTCACACATGTTCCAAAGAATACATATATGTTTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
19837 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTAACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
19902 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
19940 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
20005 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
20043 AAGGACC
1 AAGGACC
20050 GCGTAGACCC
Statistics
Matches: 202, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 202 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:25030 original size:22 final size:23
Alignment explanation
Indices: 24982--25049 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
24972 CACCACAACT
* *
24982 CGTATAATTGAACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
25005 CGTAGAATTGCACCGGA-TGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
25027 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
25050 TATAATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:25236 original size:103 final size:103
Alignment explanation
Indices: 25065--25380 Score: 569
Period size: 103 Copynumber: 3.1 Consensus size: 103
25055 TAATGTCCAT
* * * *
25065 AAGGACCACATATCATTCCTTAAGAATCATATAGATATTCTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
25130 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
25168 AAGGACCACATATCATTCCTTAAGAATCATATTCATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
25233 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
25271 AAAGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
25336 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
25374 AAGGACC
1 AAGGACC
25381 GCGTAGACCC
Statistics
Matches: 204, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 204 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:29589 original size:35 final size:34
Alignment explanation
Indices: 29504--29590 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
29494 AAAATAATTT
*
29504 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
29538 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
29576 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
29591 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:31922 original size:16 final size:16
Alignment explanation
Indices: 31897--31946 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
31887 TTTATATCTG
* *
31897 TAAAAAATTAATTAAA
1 TAAAATATTAAATAAA
* *
31913 TAAAATATTAAACAAT
1 TAAAATATTAAATAAA
31929 TAAAATAATTAAATAAA
1 TAAAAT-ATTAAATAAA
31946 T
1 T
31947 TACTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATATTAAATAAA
Found at i:34627 original size:21 final size:21
Alignment explanation
Indices: 34603--34642 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34593 AACCACTCCA
34603 TTAGTAACAAG-TTCAACATCC
1 TTAG-AACAAGATTCAACATCC
*
34624 TTAGAACAAGATTCCACAT
1 TTAGAACAAGATTCAACAT
34643 TAGAATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (21 bp):
TTAGAACAAGATTCAACATCC
Found at i:36423 original size:15 final size:16
Alignment explanation
Indices: 36385--36425 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
36375 ACAGAACATC
36385 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
*
36401 TGAATCATTCAGCGTT
1 TGAATCATTCAGCATT
36417 T-AATCATTC
1 TGAATCATTC
36426 TGAAGTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:36592 original size:16 final size:17
Alignment explanation
Indices: 36571--36604 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36561 TTTTCTTATC
36571 TTTTGAATT-AATTTAA
1 TTTTGAATTAAATTTAA
*
36587 TTTTGAGTTAAATTTAA
1 TTTTGAATTAAATTTAA
36604 T
1 T
36605 CATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTGAATTAAATTTAA
Found at i:38223 original size:21 final size:22
Alignment explanation
Indices: 38197--38243 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
38187 ACTAATATAT
38197 AAAAAAAA-TTCAATTAATACC
1 AAAAAAAATTTCAATTAATACC
38218 AAAAAAAATTTCAATTAATACC
1 AAAAAAAATTTCAATTAATACC
38240 AAAA
1 AAAA
38244 GTAGTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAAAATTTCAATTAATACC
Found at i:38991 original size:30 final size:30
Alignment explanation
Indices: 38955--39013 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
38945 AACTTTGAAG
*
38955 TTTATAATACCATTTTTCAATATTTTGGAT
1 TTTATAATACCATCTTTCAATATTTTGGAT
*
38985 TTTATAATATCATCTTTCAATATTTTGGA
1 TTTATAATACCATCTTTCAATATTTTGGA
39014 GTTTGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (30 bp):
TTTATAATACCATCTTTCAATATTTTGGAT
Found at i:39195 original size:13 final size:13
Alignment explanation
Indices: 39177--39201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39167 GGATTGAAGT
39177 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
39190 TTTTTGTTTTTT
1 TTTTTGTTTTTT
39202 TTGACTAAGG
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:41834 original size:11 final size:11
Alignment explanation
Indices: 41818--41845 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
41808 AGTGTTGTAT
41818 AAGCTTAAGGA
1 AAGCTTAAGGA
41829 AAGCTTAAGGA
1 AAGCTTAAGGA
41840 AAGCTT
1 AAGCTT
41846 GTAAGGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (11 bp):
AAGCTTAAGGA
Found at i:45933 original size:24 final size:23
Alignment explanation
Indices: 45905--45957 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
45895 CCACTAGGGG
*
45905 CACATAGGATTTGTCCCGAAGGAC
1 CACATA-GACTTGTCCCGAAGGAC
45929 CACAT--ACTTGTCCCGAAGGAC
1 CACATAGACTTGTCCCGAAGGAC
45950 CACATAGA
1 CACATAGA
45958 ACCCTCGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 20 0.77
23 1 0.04
24 5 0.19
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACATAGACTTGTCCCGAAGGAC
Found at i:45941 original size:21 final size:21
Alignment explanation
Indices: 45915--45955 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45905 CACATAGGAT
45915 TTGTCCCGAAGGACCACATAC
1 TTGTCCCGAAGGACCACATAC
45936 TTGTCCCGAAGGACCACATA
1 TTGTCCCGAAGGACCACATA
45956 GAACCCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACATAC
Found at i:51172 original size:14 final size:14
Alignment explanation
Indices: 51153--51183 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
51143 TTACCCTCTC
51153 TCCCCTTTCTCCCT
1 TCCCCTTTCTCCCT
51167 TCCCCTTTCTCCCT
1 TCCCCTTTCTCCCT
51181 TCC
1 TCC
51184 ATGGTCACTG
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:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (14 bp):
TCCCCTTTCTCCCT
Found at i:51767 original size:10 final size:10
Alignment explanation
Indices: 51752--51780 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
51742 ATGATTTTAT
51752 TATTAAAAAA
1 TATTAAAAAA
51762 TATTAAAAAA
1 TATTAAAAAA
51772 -ATTAAAAAA
1 TATTAAAAAA
51781 ATATAACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:51775 original size:9 final size:9
Alignment explanation
Indices: 51753--51782 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
51743 TGATTTTATT
51753 ATTAAAAAA
1 ATTAAAAAA
51762 TATTAAAAAA
1 -ATTAAAAAA
51772 ATTAAAAAA
1 ATTAAAAAA
51781 AT
1 AT
51783 ATAACGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:53927 original size:21 final size:20
Alignment explanation
Indices: 53903--53941 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
53893 ATCGCACAAA
*
53903 ATCATAATTTAATATTTAAAT
1 ATCAAAATTTAA-ATTTAAAT
53924 ATCAAAATTTAAATTTAA
1 ATCAAAATTTAAATTTAA
53942 TTTAGATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
ATCAAAATTTAAATTTAAAT
Found at i:55064 original size:48 final size:48
Alignment explanation
Indices: 54950--55068 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
54940 AGATCAGGAA
* * *
54950 TACTATAGCACCGTCAACATATATGTGCTATATAATGTATCCTGAGAG
1 TACTATAGCACCATCAACATATATGTACTATATAATGTATCCTAAGAG
* * * *
54998 TA-TGATAGTACCACCAACATATATGTACTATCTAATGTA-CTCTAAGTG
1 TACT-ATAGCACCATCAACATATATGTACTATATAATGTATC-CTAAGAG
*
55046 TACTATAACACCATCAACATATA
1 TACTATAGCACCATCAACATATA
55069 CTTACTACGT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
47 2 0.03
48 55 0.95
49 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (48 bp):
TACTATAGCACCATCAACATATATGTACTATATAATGTATCCTAAGAG
Found at i:55923 original size:15 final size:15
Alignment explanation
Indices: 55903--55931 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55893 TATTCAAGAG
55903 TCACTTCTTACCAAT
1 TCACTTCTTACCAAT
55918 TCACTTCTTACCAA
1 TCACTTCTTACCAA
55932 AGTAACTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (15 bp):
TCACTTCTTACCAAT
Found at i:58777 original size:21 final size:21
Alignment explanation
Indices: 58701--58778 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
58691 CCTTCAGGAT
*
58701 ATATATGTAATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * * *
58722 ATATATGCGGTTCTTCGGGAC
1 ATATATGTGATCCTTTGGAAC
* * * *
58743 ACATATTTGGTCCTTTGGAAT
1 ATATATGTGATCCTTTGGAAC
58764 ATATATGTGATCCTT
1 ATATATGTGATCCTT
58779 AAGGAGTGGT
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:62525 original size:18 final size:18
Alignment explanation
Indices: 62463--62526 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
62453 TTTATTGAAA
* *
62463 AACCGATAAACCGAACCG
1 AACCGAAAAACTGAACCG
62481 AACCGAAAAACTTGAACCG
1 AACCGAAAAAC-TGAACCG
62500 TTAA---AAAAACTGAACCG
1 --AACCGAAAAACTGAACCG
62517 AACCGAAAAA
1 AACCGAAAAA
62527 GCCGATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 7 0.18
18 21 0.55
19 6 0.16
21 2 0.05
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (18 bp):
AACCGAAAAACTGAACCG
Found at i:62838 original size:21 final size:22
Alignment explanation
Indices: 62814--62862 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
62804 TTGGTTTATT
*
62814 TTAATCATCCACCGTTAAAA-A
1 TTAATCATCCACCATTAAAAGA
*
62835 TTAACTTATCCACCATTAAAAGA
1 TTAA-TCATCCACCATTAAAAGA
62858 TTAAT
1 TTAAT
62863 AGAATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 15 0.62
23 5 0.21
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAATCATCCACCATTAAAAGA
Found at i:74627 original size:118 final size:117
Alignment explanation
Indices: 74489--74715 Score: 368
Period size: 118 Copynumber: 1.9 Consensus size: 117
74479 ACTCAATTAA
*
74489 AACTTAAAAATTAATTCATTAATTATTAAAAAAATTA-AATTATTTAAATTTTATTTTATAACTT
1 AACTTAAAAATTAATCCATTAATTATTAAAAAAATTATAATTATTTAAATTTT-TTTTATAAC-T
*
74553 AAAATTTTATTTGAAA-TTTTTTGAATTGAGTTTTAAAAAATTACATTTAGTTAG
64 AAAACTTTATTT-AAATTTTTTTGAATTGAGTTTTAAAAAATTACATTTAGTTAG
* *
74607 AACTTAAAAATTAATCCATTAATTATTAAAAAAATTATAGTTATTTAAATTTTTTTTATAACTCA
1 AACTTAAAAATTAATCCATTAATTATTAAAAAAATTATAATTATTTAAATTTTTTTTATAACTAA
*
74672 AACTTTATTTAAATTTTTTTGAATTGAGTTTTAAGAAATTACAT
66 AACTTTATTTAAATTTTTTTGAATTGAGTTTTAAAAAATTACAT
74716 GTCATGTCAG
Statistics
Matches: 102, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
116 3 0.03
117 40 0.39
118 45 0.44
119 14 0.14
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (117 bp):
AACTTAAAAATTAATCCATTAATTATTAAAAAAATTATAATTATTTAAATTTTTTTTATAACTAA
AACTTTATTTAAATTTTTTTGAATTGAGTTTTAAAAAATTACATTTAGTTAG
Found at i:78959 original size:27 final size:27
Alignment explanation
Indices: 78914--78965 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
78904 TAGTAGTTTA
78914 TTTCTTTCATATTTCTTCTATTATTACT
1 TTTCTTTCATATTTCTTCTA-TATTACT
* *
78942 TTTC-TTCATTTTTTTTCTATATTA
1 TTTCTTTCATATTTCTTCTATATTA
78966 ATCATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 13 0.59
28 4 0.18
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTCTTTCATATTTCTTCTATATTACT
Found at i:83716 original size:20 final size:20
Alignment explanation
Indices: 83687--83736 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
83677 ATAAGTTCCT
* *
83687 AAACTTAAATCTCTAAC-CTA
1 AAACTCAAATCCCTAACTC-A
83707 AAACTCAAATCCCTAACTCA
1 AAACTCAAATCCCTAACTCA
*
83727 AATCTCAAAT
1 AAACTCAAAT
83737 TTATCATTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
AAACTCAAATCCCTAACTCA
Found at i:85297 original size:16 final size:14
Alignment explanation
Indices: 85254--85288 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
85244 TATGCACTTA
*
85254 ACATCTAAACATAT
1 ACATCTAATCATAT
*
85268 ACATTTAATCATAT
1 ACATCTAATCATAT
85282 ACATCTA
1 ACATCTA
85289 GCATCATATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
ACATCTAATCATAT
Found at i:85705 original size:21 final size:22
Alignment explanation
Indices: 85678--85731 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
85668 CGATGTTCCC
*
85678 TGGTATCGATACC-C-TCTATA
1 TGGTATCGATACCTCTTCCATA
85698 TAGGTATCGATACCTCTTCCATA
1 T-GGTATCGATACCTCTTCCATA
85721 TGGTATCGATA
1 TGGTATCGATA
85732 TTGTTCATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 12 0.40
22 11 0.37
23 6 0.20
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (22 bp):
TGGTATCGATACCTCTTCCATA
Found at i:86518 original size:23 final size:23
Alignment explanation
Indices: 86507--86573 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
86497 TGAACTGCCA
*
86507 CGTAGAATTGCACCAAAGTGCAG
1 CGTAGAATTGCACCGAAGTGCAG
86530 CGTAGAATTGCACCGAAGTGCAG
1 CGTAGAATTGCACCGAAGTGCAG
86553 CGTAGAATTGCACCGAAGTGC
1 CGTAGAATTGCACCGAAGTGC
86574 CATATAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCAG
Found at i:91525 original size:23 final size:23
Alignment explanation
Indices: 91507--91567 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
91497 CTCGTATAAA
*
91507 TGCACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
91530 TGCACCAAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
91553 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
91568 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:92428 original size:22 final size:22
Alignment explanation
Indices: 92381--92434 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
92371 TAATTCAATT
*
92381 TCATATAACTCCTATAGTCTTC
1 TCATATAACTCCTATAGTCTTA
* *
92403 TCATATCACTCC-ATAGTTTTTA
1 TCATATAACTCCTATAG-TCTTA
*
92425 TCATACAACT
1 TCATATAACT
92435 AATGTATCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.41
Consensus pattern (22 bp):
TCATATAACTCCTATAGTCTTA
Found at i:93157 original size:20 final size:20
Alignment explanation
Indices: 93122--93159 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93112 TTCCCATTGA
*
93122 AGTGCATCGGTACATTCTAC
1 AGTGCATCGATACATTCTAC
*
93142 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
93160 TTAACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:94970 original size:2 final size:2
Alignment explanation
Indices: 94963--94994 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94953 TAATTATTTC
94963 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
94995 GACTCAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99278 original size:13 final size:12
Alignment explanation
Indices: 99247--99307 Score: 63
Period size: 13 Copynumber: 5.0 Consensus size: 12
99237 CAATCATAAC
99247 AAAA-AGAAAAA
1 AAAAGAGAAAAA
*
99258 AAATGAGAAAAA
1 AAAAGAGAAAAA
*
99270 GCAAAGAGAAAATA
1 -AAAAGAGAAAA-A
99284 AAAAGAGAAAAA
1 AAAAGAGAAAAA
99296 AACAA-AGAAAAA
1 AA-AAGAGAAAAA
99308 TTGAAGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.07
12 17 0.40
13 21 0.50
14 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAGAGAAAAA
Found at i:99493 original size:69 final size:68
Alignment explanation
Indices: 99383--99516 Score: 241
Period size: 69 Copynumber: 2.0 Consensus size: 68
99373 TCAAACTATA
*
99383 AGATTGATCATGACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCATCAA
1 AGATTGATCAAGACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCATCAA
99448 ATG
66 ATG
*
99451 AGATTGATCAAGCACAATCATTTTCGAATCATTGAATCACTTCACTCGAAGATCATAGAGCATCA
1 AGATTGATCAAG-ACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCATCA
99516 A
65 A
99517 GAGAGGGACA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
68 11 0.17
69 52 0.83
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (68 bp):
AGATTGATCAAGACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCATCAA
ATG
Found at i:100471 original size:32 final size:32
Alignment explanation
Indices: 100434--100553 Score: 134
Period size: 32 Copynumber: 3.8 Consensus size: 32
100424 GAAACAATGA
*
100434 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGTAGATTCAACATCAAATGTTG
* * *
100466 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCATCTTTGTAGATTCAACATCAAATGTTG
* * * * *
100498 GGGCATTTTTTTAGATTCAAGATCGAATATTG
1 GGGCATCTTTGTAGATTCAACATCAAATGTTG
*
100530 GGGCATCTTTG-GGAATTCAACATC
1 GGGCATCTTTGTAG-ATTCAACATC
100554 CTGATGCAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
31 1 0.01
32 74 0.99
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (32 bp):
GGGCATCTTTGTAGATTCAACATCAAATGTTG
Found at i:101270 original size:106 final size:106
Alignment explanation
Indices: 101131--101452 Score: 432
Period size: 106 Copynumber: 3.0 Consensus size: 106
101121 ATATCGTGCC
* * * *
101131 ACTCAAGACAACACATGTTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
101196 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
101237 ACTCGAGACAACACAAGTTGAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
101302 AATTTCCA-AGCCAATTTCAAATTCACAACGAAGGATATTGG
66 AATTT-CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *** * *
101343 ACTCGAGACAACACAAGCTCAACTTCACAGTAAAGAGG-CGGCTGGCTGTCAACAAACAATTTCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAG-GGACGGCTGGTTGTCAACAAACAATTTCC
* * * * * * *
101407 TAGTTCCAGAGCCAATTTTAACTTCACGGCGGAGGATTTTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
101449 ACTC
1 ACTC
101453 TGAACAATAC
Statistics
Matches: 190, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
105 2 0.01
106 184 0.97
107 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:101796 original size:87 final size:88
Alignment explanation
Indices: 101704--101879 Score: 300
Period size: 87 Copynumber: 2.0 Consensus size: 88
101694 CCTTGAGACA
101704 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATA
1 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATA
*
101769 GTTTCCCTTGAAACGAAAT-TTT
66 GTTTCCCTTGAAACAAAATCTTT
* **
101791 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATA
*
101856 GTTTCTCTTGAAACAAAATCTTT
66 GTTTCCCTTGAAACAAAATCTTT
101879 G
1 G
101880 AATATGTTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 79 0.95
88 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (88 bp):
GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATA
GTTTCCCTTGAAACAAAATCTTT
Found at i:101895 original size:65 final size:65
Alignment explanation
Indices: 101791--101916 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 65
101781 ACGAAATTTT
** * *
101791 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
* * **
101856 GTTTCTCTTGAAACA-AAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGA
1 GTTTCTCTTGAAACATAAA-CATTGAAAACATTTCCCTTGAAACAAATTTCGTCTCCCTTGA
101917 TACATTTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 3 0.06
65 49 0.94
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (65 bp):
GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:101978 original size:167 final size:167
Alignment explanation
Indices: 101791--102212 Score: 758
Period size: 167 Copynumber: 2.5 Consensus size: 167
101781 ACGAAATTTT
*
101791 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
1 GTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
101856 GTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGA-TAC
66 GTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGT-C
101920 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATA
130 ATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATA
*
101958 GTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTTTTGAGATA
1 GTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
*
102023 GTTTCTCTTGAAACAAAATCTTTGAATTTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGTCA
66 GTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGTCA
102088 TTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATA
131 TTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATA
* * *
102125 GTTTCTCTTGAAACATAAACATTTAAAACATTTCCCTTGAAATGAATTTTGTCACTCATGAGATA
1 GTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
*
102190 GTTTCCCTTGAAACAAAAT-TTTG
66 GTTTCTCTTGAAACAAAATCTTTG
102213 TCTCCATTGA
Statistics
Matches: 246, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
166 4 0.02
167 241 0.98
168 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (167 bp):
GTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
GTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGTCA
TTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATA
Found at i:102028 original size:102 final size:102
Alignment explanation
Indices: 101837--102028 Score: 251
Period size: 102 Copynumber: 1.9 Consensus size: 102
101827 TTGAAATGAA
* * * **
101837 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTAAAAACATTTCCCTTGAAACAAA
* *
101902 TTTCGTCTCCCTTGATACATTTTCTTTTGGAACTAAG
66 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
**
101939 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTAAAAACATTTCCCTTGAAATGA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCATTAAAAACATTTCCCTTGAAACAA
* ** *
102003 ATTTTGTCTCTTTTGAGATAGTTTCT
65 ATTTCGTCTCCCTTGAGACAGTTTCT
102029 CTTGAAACAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
102 73 0.96
103 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (102 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTAAAAACATTTCCCTTGAAACAAA
TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
Found at i:102071 original size:65 final size:65
Alignment explanation
Indices: 101939--102084 Score: 177
Period size: 65 Copynumber: 2.2 Consensus size: 65
101929 TGGAACTAAG
**
101939 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAACAAA
* * * ****
102004 TTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACA-AAATCTTTGAATTTGTTTCCCTTGAAACAA
1 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTAAAAACATTTCCCTTGAAACAA
102068 A
65 A
* *
102069 TTTCGTCTCCCTTGAG
1 TTTTGTCTCTCTTGAG
102085 TCATTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 3 0.04
65 65 0.96
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (65 bp):
TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAACAAA
Found at i:102212 original size:102 final size:102
Alignment explanation
Indices: 101988--102273 Score: 278
Period size: 102 Copynumber: 2.8 Consensus size: 102
101978 ATTAAAAACA
* * **
101988 TTTCCCTTGAAA-TGAATTTTGTCTCTTTTGAGATAGTTTCTCTTGAAACA-AAATCTTTGAATT
1 TTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CTTTGAAAA
** * * *
102051 TGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGTCAT
65 CATTTCCCTTGAAACAAATTTCGTCACCCATGAGTCAG
** * *
102089 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTT-AAAA
1 TTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAC-TTTGAAAA
** * *
102153 CATTTCCCTTGAAATGAATTTTGTCACTCATGAGAT-AG
65 CATTTCCCTTGAAACAAATTTCGTCACCCATGAG-TCAG
* **
102191 TTTCCCTTGAAACAAAATTTTGTCTC-CATTGAGACT-GTTTCTCTTGAAGTATAAACTTTGAAA
1 TTTCCCTTGAAACTAAATTTTGTCTCTC-TTGAGA-TAGTTTCTCTTGAAACATAAACTTTGAAA
**
102254 ACAGTTTCATTTGAAACAAA
64 ACA-TTTCCCTTGAAACAAA
102274 ATCTTTGAAT
Statistics
Matches: 149, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
101 13 0.09
102 116 0.78
103 20 0.13
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (102 bp):
TTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACTTTGAAAAC
ATTTCCCTTGAAACAAATTTCGTCACCCATGAGTCAG
Found at i:102224 original size:37 final size:36
Alignment explanation
Indices: 102155--102238 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 36
102145 ATTTAAAACA
**
102155 TTTCCCTTGAAATGAATTTTGTCACTCATGAGA-TAG
1 TTTCCCTTGAAAAAAATTTTGTCACTCATGAGACT-G
*
102191 TTTCCCTTGAAACAAAATTTTGTCTC-CATTGAGACTG
1 TTTCCCTTGAAA-AAAATTTTGTCACTCA-TGAGACTG
*
102228 TTTCTCTTGAA
1 TTTCCCTTGAA
102239 GTATAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 14 0.34
37 26 0.63
38 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAAAAAATTTTGTCACTCATGAGACTG
Found at i:102358 original size:21 final size:21
Alignment explanation
Indices: 102334--102395 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
102324 TTCTTTTGGA
102334 AGTTTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
*
102355 AG----T-T-TCTCTTGAAAC
1 AGTTTTTGTCTCTCTTGAGAC
**
102370 AAATTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
102391 AGTTT
1 AGTTT
102396 CCCTTGAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 1 0.03
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTTTTTGTCTCTCTTGAGAC
Found at i:102384 original size:36 final size:36
Alignment explanation
Indices: 102296--102405 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
102286 GTTCTACGTT
* * * *
102296 AAACAAATCTCGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* **
102332 -GA-AGTTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
102366 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
102402 AAAC
1 AAAC
102406 TTCAATCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
34 26 0.43
35 2 0.03
36 33 0.54
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:102464 original size:33 final size:33
Alignment explanation
Indices: 102424--102510 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 33
102414 TTGAATACAA
*
102424 TTTCTCTTGAAACACAAAAAACCTTTGAAATTG
1 TTTCTCTTGAAACACAAAAAACCTTTGAAAATG
102457 TTTCTCTTGAAATACACACACAAAAAACCTTTGAAAATG
1 TTTCTCTTG----A-A-ACACAAAAAACCTTTGAAAATG
102496 TTTCTCTTGAAACAC
1 TTTCTCTTGAAACAC
102511 CAAACCCTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
33 13 0.28
34 1 0.02
35 1 0.02
37 1 0.02
38 1 0.02
39 30 0.64
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (33 bp):
TTTCTCTTGAAACACAAAAAACCTTTGAAAATG
Found at i:118099 original size:229 final size:228
Alignment explanation
Indices: 117578--118295 Score: 1280
Period size: 226 Copynumber: 3.2 Consensus size: 228
117568 TGTTATATTG
* *
117578 AAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTAT
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTAT
*
117642 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCA
66 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCA
* * *
117707 AATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATATGTGGAAAACATGAAACACTATT
130 AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
117772 AAAAAAATTGAAACATAAATTACATAACTTTAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAA
* *
117806 AAAAGTATATATCATTTTTATAAAAGTATCCATACTTATTTCACTGTGGAAAACATATTTATTAT
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTAT
117871 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
66 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
* *
117936 ATAATTTTTTGTATAAATGAAATT-CTAAA-TAATATTGTAGGTGGAAAACATGAAACACTATTA
131 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
117999 AAAAAATTGAAACATAAATTACATAACTTTAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAA
*
118032 AAAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAATATATTTATTAT
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTAT
*
118097 TATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
66 TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
*
118162 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAACACATGAAACACTATTA
131 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
118227 AAAAAAATTGAAACATAAATTACATAACTTTAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAA
118261 AAAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAAGTATATATCATTTTTATAAAAGTGTCCATAC
118296 GTATAAAAGT
Statistics
Matches: 468, Mismatches: 18, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
226 214 0.46
227 8 0.02
228 107 0.23
229 139 0.30
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (228 bp):
AAAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTAT
TATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAA
ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
AAAAAATTGAAACATAAATTACATAACTTTAAA
Found at i:118368 original size:20 final size:19
Alignment explanation
Indices: 118345--118390 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
118335 GATATACCAT
118345 GTAAAAATATGATAAAACCG
1 GTAAAAA-ATGATAAAACCG
118365 GTAACAAAATGATAAAACCG
1 GTAA-AAAATGATAAAACCG
118385 GTAAAA
1 GTAAAA
118391 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GTAAAAAATGATAAAACCG
Found at i:118548 original size:20 final size:19
Alignment explanation
Indices: 118525--118571 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
118515 CGATATAACA
118525 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
118545 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
118565 GATAAAA
1 GGTAAAA
118572 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:118573 original size:17 final size:20
Alignment explanation
Indices: 118534--118576 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
118524 AGGTAAAAAT
118534 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTATCAAA
118554 ATGATAAAACC-G-AT-AAA
1 ATGATAAAACCGGTATCAAA
118571 ATGATA
1 ATGATA
118577 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 1 0.04
20 11 0.48
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGATAAAACCGGTATCAAA
Found at i:120878 original size:16 final size:16
Alignment explanation
Indices: 120846--120879 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
120836 TATCCACAAC
* *
120846 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
120862 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
120878 AA
1 AA
120880 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:121273 original size:23 final size:23
Alignment explanation
Indices: 121242--121314 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
121232 ATAGGTAAAA
*
121242 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
121265 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
121288 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
121311 ATAT
1 ATAT
121315 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:121969 original size:183 final size:184
Alignment explanation
Indices: 121694--122187 Score: 900
Period size: 184 Copynumber: 2.7 Consensus size: 184
121684 GCAATGCTAT
121694 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
121759 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACAATGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACA
*
121824 TTTACACATCGGAACCCATA-ATTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATATTATAATGTAATAGATAATTTTGTAATATAAC
121877 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
121942 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACA
*
122007 TTTACACATCGGAACCCAGATTTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
122061 CGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
122126 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCG
122188 GTAATTTTAA
Statistics
Matches: 301, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 146 0.49
184 155 0.51
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (184 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACA
TTTACACATCGGAACCCAGATATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:124682 original size:25 final size:25
Alignment explanation
Indices: 124654--124718 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
124644 TTATCATTAA
124654 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
124679 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
124704 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
124719 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:125096 original size:23 final size:23
Alignment explanation
Indices: 125065--125137 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
125055 ATAGGTAAAC
*
125065 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
125088 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
125111 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
125134 ATAT
1 ATAT
125138 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:125449 original size:25 final size:25
Alignment explanation
Indices: 125411--125460 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
125401 AAATCAATTA
*
125411 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
125436 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
125461 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:125866 original size:18 final size:18
Alignment explanation
Indices: 125845--125881 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
125835 GTAATTGGAG
125845 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
125863 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
125881 T
1 T
125882 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:125889 original size:24 final size:24
Alignment explanation
Indices: 125837--125883 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
125827 TTTCATATGT
* *
125837 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
125861 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
125884 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:126160 original size:35 final size:35
Alignment explanation
Indices: 126085--126160 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
126075 AATAGCAACT
* *
126085 AAAATCATAAGTCCGAAATGCTTCTGAGTACCACC
1 AAAATCATAAGTCCGAAATACTTCCGAGTACCACC
* * *
126120 CAAATCATAAGTCTGAAATACTTCCGA-TACTCATC
1 AAAATCATAAGTCCGAAATACTTCCGAGTAC-CACC
126155 AAAATC
1 AAAATC
126161 CAAAGCTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATACTTCCGAGTACCACC
Found at i:126195 original size:39 final size:39
Alignment explanation
Indices: 126152--126238 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
126142 TCCGATACTC
*
126152 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
126191 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
126230 ATTAAAATC
1 ATCAAAATC
126239 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:126689 original size:23 final size:23
Alignment explanation
Indices: 126658--126730 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
126648 ATAGGTAAAA
*
126658 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
126681 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
126704 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
126727 ATAT
1 ATAT
126731 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:127120 original size:23 final size:23
Alignment explanation
Indices: 127089--127161 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
127079 ATAGGTAAAA
*
127089 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
127112 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
127135 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
127158 ATAT
1 ATAT
127162 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:127570 original size:21 final size:23
Alignment explanation
Indices: 127520--127590 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
127510 ATAGGTAAAA
*
127520 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
127543 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
127565 -TATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
127587 ATAT
1 ATAT
127591 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 21 0.50
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:127594 original size:21 final size:21
Alignment explanation
Indices: 127526--127595 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
127516 AAAAATATGA
*
127526 TGTAATAGGTAGCGCTTATAT
1 TGTAATAGGTAGTGCTTATAT
* *
127547 AATGTAATAGGTA-TCGTTTATAA
1 --TGTAATAGGTAGT-GCTTATAT
*
127570 TGTAATAGGTAGTGGTTATAT
1 TGTAATAGGTAGTGCTTATAT
127591 TGTAA
1 TGTAA
127596 AGTGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 22 0.55
22 1 0.03
23 17 0.43
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:127979 original size:23 final size:23
Alignment explanation
Indices: 127948--128020 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
127938 ATAGGTAAAA
*
127948 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
127971 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
127994 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGTTT
128017 ATAT
1 ATAT
128021 TGTAAAGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:128168 original size:859 final size:861
Alignment explanation
Indices: 126456--128799 Score: 4484
Period size: 859 Copynumber: 2.7 Consensus size: 861
126446 GTTAATGTTG
* *
126456 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
126520 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
126585 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
126650 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
126715 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
126780 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
126845 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
126910 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
126975 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
521 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
127040 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
586 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
127105 AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
651 AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
* *
127170 GTCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
716 GCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
127235 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
781 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
127300 ACGATATATATTATTA
846 ACGATATATATTATTA
127316 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
127381 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
127446 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
127511 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
127574 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
127639 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
127704 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
127769 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
455 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
*
127834 AGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
520 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
* *
127898 ATCGGTCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
585 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
*
127963 TAGCGTTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
650 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
128028 TGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
715 TGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
128093 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
128158 TACGATATATATTATTA
845 TACGATATATATTATTA
128175 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
128240 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
128305 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
128370 AAGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* * *
128435 TAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTTCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
128500 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
128565 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT-AATTAAAAATTCTAAATATTAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
128629 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
128694 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAGAAGTA
521 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
128758 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
586 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
128800 TAATGTAATA
Statistics
Matches: 1458, Mismatches: 21, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
858 131 0.09
859 584 0.40
860 506 0.35
861 104 0.07
862 133 0.09
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (861 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
GCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTA
Found at i:128236 original size:430 final size:431
Alignment explanation
Indices: 126456--128799 Score: 4470
Period size: 430 Copynumber: 5.5 Consensus size: 431
126446 GTTAATGTTG
* *
126456 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
126520 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
126584 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
126649 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
126714 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
126779 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
126844 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
126885 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
126950 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
127015 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
127080 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
127145 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
127210 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
127275 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
127316 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
127381 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
127446 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
127511 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
127574 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
127639 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
127704 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
127745 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
127810 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
127874 AAATTACATAACTTTAAAAGAAGTATCGGTCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
127939 TAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
128004 ATAGGTAGTGGTTATATTGTAAAGTGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
128069 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
128134 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
128175 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
128240 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
128304 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* *
128369 TAAGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * * *
128434 ATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTTCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
128499 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
128564 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
128605 TT-AATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
128669 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
128734 AAATTACATAACTTT-AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
128798 TA
196 TA
128800 TAATGTAATA
Statistics
Matches: 1886, Mismatches: 24, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
428 130 0.07
429 460 0.24
430 735 0.39
431 561 0.30
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:128409 original size:23 final size:23
Alignment explanation
Indices: 128378--128450 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
128368 ATAAGTAAAA
* *
128378 ATATGATGTATTAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128401 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
128424 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
128447 ATAT
1 ATAT
128451 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:129135 original size:3 final size:3
Alignment explanation
Indices: 129127--129161 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
129117 AACCTACAAA
129127 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
129162 TTTTTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:130026 original size:124 final size:124
Alignment explanation
Indices: 129806--130035 Score: 372
Period size: 124 Copynumber: 1.9 Consensus size: 124
129796 GTCGATCTGT
* * *
129806 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTCGTGAAGTTGAGCC
1 TGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATGGATCATTCATCGTGAAGTTGAGCC
*
129871 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTG
66 TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTG
* * * *
129930 TGGGCACGATATTCTTCATCGTGAAGTTGAAATCGTGGATGGATCCTTCATTGTGAAGTTGAGCC
1 TGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATGGATCATTCATCGTGAAGTTGAGCC
129995 TTGAATTGGATATCATTC-TTCGTGAAGTTGAAATCCAATCT
66 TTGAATTGGATATCATTCGTT-GTGAAGTTGAAATCCAATCT
130036 TGAGTAAGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 2 0.02
124 95 0.98
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (124 bp):
TGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATGGATCATTCATCGTGAAGTTGAGCC
TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTG
Found at i:130248 original size:153 final size:154
Alignment explanation
Indices: 130057--130354 Score: 413
Period size: 156 Copynumber: 1.9 Consensus size: 154
130047 CACCAAATTG
*
130057 GCTTTGAGTTGGATATCATTCGTCGTGAAGTTAAAATCCAATATTGAGTAAGTT-TCGCTTCGAG
1 GCTTTGAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATATTGAGTAAGTTATCGCTTCGAG
* * * * *
130121 TTCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATTAAACTGGAAAGTTGTTTGTTGACA
66 TCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTATTGACA
*
130186 GAC-GCTCTTTCTCTGTGAAGTTGA
131 CACAGCT-TTTCTCTGTGAAGTTGA
* * * * * *
130210 GCTTTGAATTGGATATTC-TTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTTACGTTGTTTC
1 GCTTTGAATTGGATA-TCATTCGTCGTGAAGTTAAAATCCAATATTGAGTAAGTTA--TCGCTTC
*
130274 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTTTTTATTG
63 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTATTG
130339 ACACACAGCTTTTCTC
128 ACACACAGCTTTTCTC
130355 GGCTTAAGAT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
153 46 0.37
154 2 0.02
156 75 0.60
157 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (154 bp):
GCTTTGAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATATTGAGTAAGTTATCGCTTCGAG
TCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTATTGACA
CACAGCTTTTCTCTGTGAAGTTGA
Found at i:130926 original size:32 final size:32
Alignment explanation
Indices: 130872--130991 Score: 141
Period size: 32 Copynumber: 3.8 Consensus size: 32
130862 TTCACATCAG
* * *
130872 GATGCTGAATCTCCAAAGATGCCCCAATATTC
1 GATGTTGAATCTCCAAAAATGCCCCAATATTT
* * *
130904 GATGTTGGATCTCCAAAAATGCCCTAACATTT
1 GATGTTGAATCTCCAAAAATGCCCCAATATTT
* *
130936 GATGTTAAATCTCCAAAAATACCCCAATATTT
1 GATGTTGAATCTCCAAAAATGCCCCAATATTT
* * *
130968 GATGTTGAATTTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAAATGCCC
130992 GCATTGTTCC
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAAATGCCCCAATATTT
Found at i:135145 original size:8 final size:8
Alignment explanation
Indices: 135124--135210 Score: 59
Period size: 8 Copynumber: 10.0 Consensus size: 8
135114 AAAATATTAT
135124 ATAATAAAA
1 ATAA-AAAA
135133 CATAAAAAA
1 -ATAAAAAA
135142 ATAAAAAAA
1 AT-AAAAAA
*
135151 GATAAATAA
1 -ATAAAAAA
135160 ATCAAGGGAAAA
1 AT-AA---AAAA
*
135172 ATAAATAA
1 ATAAAAAA
*
135180 ATAAAAAG
1 ATAAAAAA
*
135188 A-AAAAAC
1 ATAAAAAA
135195 ATAAAAAA
1 ATAAAAAA
135203 ATAAAAAA
1 ATAAAAAA
135211 TGTTAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
7 6 0.10
8 27 0.43
9 17 0.27
10 6 0.10
11 2 0.03
12 5 0.08
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:135190 original size:20 final size:19
Alignment explanation
Indices: 135129--135209 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
135119 ATTATATAAT
*
135129 AAAACATAAAAAAATAAAA-
1 AAAA-ATAAATAAATAAAAG
* **
135148 AAAGATAAATAAATCAAGGG
1 AAAAATAAATAAAT-AAAAG
135168 AAAAATAAATAAATAAAAAG
1 AAAAATAAATAAAT-AAAAG
* *
135188 AAAAA-ACATAAA-AAAAT
1 AAAAATAAATAAATAAAAG
135205 AAAAA
1 AAAAA
135210 ATGTTAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
17 9 0.18
18 9 0.18
19 11 0.22
20 21 0.42
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAATAAATAAATAAAAG
Found at i:138049 original size:16 final size:16
Alignment explanation
Indices: 138030--138061 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
138020 AAAATATATG
138030 AAATTATTTGAAAAAT
1 AAATTATTTGAAAAAT
*
138046 AAATTATTTGATAAAT
1 AAATTATTTGAAAAAT
138062 TTAACAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTATTTGAAAAAT
Found at i:138992 original size:18 final size:19
Alignment explanation
Indices: 138969--139012 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
138959 ACATTAATCC
138969 TATTCCC-TGGTAATCTTA
1 TATTCCCATGGTAATCTTA
138987 TATTCCCATTGGTAATCTTA
1 TATTCCCA-TGGTAATCTTA
*
139007 CATTCC
1 TATTCC
139013 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (19 bp):
TATTCCCATGGTAATCTTA
Found at i:142236 original size:3 final size:3
Alignment explanation
Indices: 142230--142299 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
142220 AAAAAATATG
* **
142230 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
142274 TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
142300 CGATAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:142291 original size:38 final size:38
Alignment explanation
Indices: 142230--142305 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
142220 AAAAAATATG
*
142230 TAATAATAAATAATAATAAAATAATAAGATAACGATAA
1 TAATAATAAATAATAATAAAATAATAAAATAACGATAA
142268 TAATAAT-AATAATAATAATAATAATAAAATAACGATAA
1 TAATAATAAATAATAATAA-AATAATAAAATAACGATAA
142306 AAAAAACCCG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 11 0.31
38 25 0.69
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (38 bp):
TAATAATAAATAATAATAAAATAATAAAATAACGATAA
Found at i:142742 original size:130 final size:130
Alignment explanation
Indices: 142509--142807 Score: 474
Period size: 130 Copynumber: 2.3 Consensus size: 130
142499 GGGACATGGT
* * ** * *
142509 TCCTACGTGATGAGGAAATCTGGTCAAGGGTTGACACTGCTCATACGTGATGAAGAGTTCTTGGC
1 TCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGGC
*
142574 CATCTTAAGGTGATAACACGGTTCCTACATAATGAGGACGGCTGGTTATCTACGGTTGACACAGC
66 CATCTAAAGGTGATAACACGGTTCCTACATAATGAGGACGGCTGGTTATCTACGGTTGACACAGC
142639 TCCTACGTGATGAAGAGATCTGGTCTGGGGAATGACACGGCTCATACGTGATGAAGAGTTC-TGG
1 TCCTACGTGATGAAGAGATCTGGTCTGGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTTGG
* * * *
142703 CCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGG
65 CCATCTAAAGGTGATAACACGGTTCCTACATAATGAGGACGGCTGGTTATCTACGGTTGACACAG
142768 C
130 C
*
142769 TCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGG
1 TCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGG
142808 TTCCTACATA
Statistics
Matches: 156, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
129 9 0.06
130 119 0.76
131 28 0.18
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (130 bp):
TCCTACGTGATGAAGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGGC
CATCTAAAGGTGATAACACGGTTCCTACATAATGAGGACGGCTGGTTATCTACGGTTGACACAGC
Found at i:142755 original size:46 final size:45
Alignment explanation
Indices: 142542--142792 Score: 128
Period size: 43 Copynumber: 5.7 Consensus size: 45
142532 TCAAGGGTTG
* * ** **
142542 ACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTTAAGGTGATA
1 ACACGGCTCCTACGTGATGAAGAGAGC-TGGTTATC-TAAGGTGATA
* * * * * *
142589 ACACGGTTCCTACATAATGAGGACG-GCTGGTTATCTACGGT--TG
1 ACACGGCTCCTACGTGATGAAGA-GAGCTGGTTATCTAAGGTGATA
* * * *
142632 ACACAGCTCCTACGTGATGAAGAGATCTGG---TCT--GGGGAATG
1 ACACGGCTCCTACGTGATGAAGAGAGCTGGTTATCTAAGGTG-ATA
* ** **
142673 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAAGAGAGCTGGTTATCT-AAGGTGATA
* * * *
142719 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT--TG
1 ACACGGCTCCTACGTGATGAAGA-GAGCTGGTTATCTAAGGTGATA
* *
142762 ACACGGCTCATACGTGATGAAGAGATCTGGT
1 ACACGGCTCCTACGTGATGAAGAGAGCTGGT
142793 CTGGGGATGA
Statistics
Matches: 156, Mismatches: 35, Indels: 30
0.71 0.16 0.14
Matches are distributed among these distances:
38 2 0.01
40 3 0.02
41 29 0.19
42 2 0.01
43 49 0.31
44 3 0.02
45 9 0.06
46 36 0.23
47 22 0.14
48 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
ACACGGCTCCTACGTGATGAAGAGAGCTGGTTATCTAAGGTGATA
Found at i:142791 original size:89 final size:83
Alignment explanation
Indices: 142671--142831 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
142661 GTCTGGGGAA
* * * *
142671 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG---TCT---GGGGATAACACGGTTCCTACATAA
142736 TGAGGACGGCTGGTTATCTATGGT
60 TGAGGACGGCTGGTTATCTATGGT
*
142760 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTCCTACATAATGAGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATAACACGGTTCCTACATAATGAGGA
142825 CGGCTGG
66 CGGCTGG
142832 CCATCTTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 33 0.49
86 3 0.04
89 31 0.46
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (83 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATAACACGGTTCCTACATAATGAGGA
CGGCTGGTTATCTATGGT
Found at i:142890 original size:28 final size:28
Alignment explanation
Indices: 142870--142931 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
142860 AAACCAAATT
142870 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
142898 AAAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
142926 AAAGAT
1 AAAGAT
142932 GATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:143293 original size:15 final size:15
Alignment explanation
Indices: 143269--143327 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
143259 AAGATGATCT
*
143269 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
143284 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
143299 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
143314 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
143328 CGACTCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:143553 original size:62 final size:63
Alignment explanation
Indices: 143482--143605 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
143472 AATGTGGGTA
* *
143482 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTATTT-CAAAGGAAACAAACTCAAAGATT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTATTTCCAAA-GAAACAAACTCAAAGATT
* * * * *
143544 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCCAAAGAAAGAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTATTTCCAAAGAAACAAACTCAAAGAT
143606 GGATTACATC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 17 0.32
63 32 0.60
64 4 0.08
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (63 bp):
TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTATTTCCAAAGAAACAAACTCAAAGATT
Found at i:143751 original size:30 final size:28
Alignment explanation
Indices: 143700--143756 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
143690 GACAACATTC
* * *
143700 ATTTTTTAAAGAAATAGACTCACAGATG
1 ATTTTTTAAAGAAACAAACTCAAAGATG
143728 ATTTTGTTAAGAGAAACAAACTCAAAGAT
1 ATTTT-TTAA-AGAAACAAACTCAAAGAT
143757 TTTCAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 4 0.17
30 15 0.62
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (28 bp):
ATTTTTTAAAGAAACAAACTCAAAGATG
Found at i:143885 original size:37 final size:37
Alignment explanation
Indices: 143839--143957 Score: 105
Period size: 37 Copynumber: 3.4 Consensus size: 37
143829 GAAACAGATT
*
143839 CAAAGATTTTTTTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAGATTTTGTTTCAAAAGAAA-TATCTTAAGAGAGA
* **
143877 CAAA-ATTTTGTTTCCAAAG-AA-A-C---A-A-ACT
1 CAAAGATTTTGTTTCAAAAGAAATATCTTAAGAGAGA
143905 CAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGA
1 CAAAGA-TTTTGTTTCAAAAGAAA-TATCTTAAGAGAGA
143944 CAAA-ATTTTGTTTC
1 CAAAGATTTTGTTTC
143958 CAAGAAAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 23
0.68 0.08 0.25
Matches are distributed among these distances:
28 5 0.08
29 2 0.03
30 14 0.22
31 2 0.03
33 2 0.03
34 2 0.03
36 2 0.03
37 23 0.37
38 6 0.10
39 5 0.08
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (37 bp):
CAAAGATTTTGTTTCAAAAGAAATATCTTAAGAGAGA
Found at i:143963 original size:66 final size:66
Alignment explanation
Indices: 143786--143964 Score: 231
Period size: 67 Copynumber: 2.7 Consensus size: 66
143776 AAGGATTTAC
* * * * * * *
143786 TTCAAAAGAGACTGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAGATTCAAAGATTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAAACTCAAAGATTT
143848 TTT
64 TTT
*
143851 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
143916 GT
66 -T
143918 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCC-AAGAAA
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAA
143965 AACACCCTCA
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
64 1 0.01
65 31 0.31
66 26 0.26
67 43 0.43
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
T
Found at i:144284 original size:16 final size:16
Alignment explanation
Indices: 144263--144338 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
144253 TGTAACATGC
144263 ATGTATGTGTTGATGT
1 ATGTATGTGTTGATGT
* *
144279 ATGTA--T-AT-ATGC
1 ATGTATGTGTTGATGT
*
144291 ATGTATGAGTTGATGT
1 ATGTATGTGTTGATGT
*
144307 ATGTA--T-AT-ATGT
1 ATGTATGTGTTGATGT
*
144319 ATGTATGAGTTGATGT
1 ATGTATGTGTTGATGT
144335 ATGT
1 ATGT
144339 TTCTCAATCT
Statistics
Matches: 43, Mismatches: 9, Indels: 16
0.63 0.13 0.24
Matches are distributed among these distances:
12 17 0.40
13 2 0.05
14 1 0.02
15 2 0.05
16 21 0.49
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (16 bp):
ATGTATGTGTTGATGT
Found at i:144291 original size:28 final size:28
Alignment explanation
Indices: 144259--144338 Score: 142
Period size: 28 Copynumber: 2.9 Consensus size: 28
144249 ATCATGTAAC
*
144259 ATGCATGTATGTGTTGATGTATGTATAT
1 ATGCATGTATGAGTTGATGTATGTATAT
144287 ATGCATGTATGAGTTGATGTATGTATAT
1 ATGCATGTATGAGTTGATGTATGTATAT
*
144315 ATGTATGTATGAGTTGATGTATGT
1 ATGCATGTATGAGTTGATGTATGT
144339 TTCTCAATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (28 bp):
ATGCATGTATGAGTTGATGTATGTATAT
Found at i:145521 original size:11 final size:11
Alignment explanation
Indices: 145505--145573 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
145495 TCCTCTTTTG
145505 TTCTTTGCTTT
1 TTCTTTGCTTT
*
145516 TTCTTTGATTT
1 TTCTTTGCTTT
* *
145527 TGCTTTGATTT
1 TTCTTTGCTTT
*
145538 TCTCTTTGCTCT
1 T-TCTTTGCTTT
*
145550 TT-GTT--TTT
1 TTCTTTGCTTT
145558 TTCTTTGCTCTT
1 TTCTTTGCT-TT
145570 TTCT
1 TTCT
145574 CTTTGATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
8 4 0.09
9 2 0.04
10 2 0.04
11 23 0.51
12 14 0.31
ACGTcount: A:0.03, C:0.17, G:0.10, T:0.70
Consensus pattern (11 bp):
TTCTTTGCTTT
Found at i:145557 original size:19 final size:19
Alignment explanation
Indices: 145529--145570 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
145519 TTTGATTTTG
145529 CTTTGATTTTCTCTTTGCT
1 CTTTGATTTTCTCTTTGCT
* *
145548 CTTTGTTTTTTTCTTTGCT
1 CTTTGATTTTCTCTTTGCT
145567 CTTT
1 CTTT
145571 TCTCTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.19, G:0.10, T:0.69
Consensus pattern (19 bp):
CTTTGATTTTCTCTTTGCT
Found at i:145562 original size:12 final size:13
Alignment explanation
Indices: 145547--145596 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
145537 TTCTCTTTGC
145547 TCTTTG-TTTTTT
1 TCTTTGATTTTTT
* *
145559 TCTTTGCTCTTTTC
1 TCTTTGAT-TTTTT
145573 TCTTTGATTTTTT
1 TCTTTGATTTTTT
145586 TCTTTG-TTTTT
1 TCTTTGATTTTT
145597 GATTGGATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 11 0.33
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (13 bp):
TCTTTGATTTTTT
Found at i:145575 original size:26 final size:27
Alignment explanation
Indices: 145500--145591 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
145490 CTTTGTCCTC
*
145500 TTTTGTTCTTTGCT-TTT--TCTTTGA
1 TTTTTTTCTTTGCTCTTTGCTCTTTGA
* *
145524 TTTTGCTTTGATTTTCTCTTTGCTCTTTG-
1 TTTT--TTT-CTTTGCTCTTTGCTCTTTGA
*
145553 TTTTTTTCTTTGCTCTTTTCTCTTTGA
1 TTTTTTTCTTTGCTCTTTGCTCTTTGA
145580 TTTTTTTCTTTG
1 TTTTTTTCTTTG
145592 TTTTTGATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
24 4 0.07
26 18 0.33
27 20 0.36
28 3 0.05
29 4 0.07
30 6 0.11
ACGTcount: A:0.03, C:0.15, G:0.11, T:0.71
Consensus pattern (27 bp):
TTTTTTTCTTTGCTCTTTGCTCTTTGA
Found at i:147682 original size:31 final size:32
Alignment explanation
Indices: 147626--147687 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
147616 ATGACAAAAG
147626 ACACAAACAAAGAGAAGAAATAAG-TTAGTAT
1 ACACAAACAAAGAGAAGAAATAAGTTTAGTAT
147657 ACACAAACAAAAGAGGAA-AAA-AAGTTTAGTA
1 ACACAAAC-AAAGA-GAAGAAATAAGTTTAGTA
147688 CATAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 11 0.39
32 14 0.50
33 3 0.11
ACGTcount: A:0.60, C:0.10, G:0.16, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAGAGAAGAAATAAGTTTAGTAT
Found at i:151372 original size:3 final size:3
Alignment explanation
Indices: 151366--151438 Score: 89
Period size: 3 Copynumber: 25.0 Consensus size: 3
151356 AAAAAATATG
* **
151366 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
151410 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
151439 CGATAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 5 0.08
3 52 0.87
4 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:151430 original size:41 final size:41
Alignment explanation
Indices: 151366--151444 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
151356 AAAAAATATG
*
151366 TAATAATAAATAATAATAAAATAATAAGATAACGATAATAA
1 TAATAATAAATAATAATAAAATAATAAAATAACGATAATAA
151407 TAATAAT-AATAATAATAATAATAATAAAATAACGATAA
1 TAATAATAAATAATAATAA-AATAATAAAATAACGATAA
151445 AAAAAACCCG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 11 0.31
41 25 0.69
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (41 bp):
TAATAATAAATAATAATAAAATAATAAAATAACGATAATAA
Found at i:151722 original size:3 final size:3
Alignment explanation
Indices: 151684--151714 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
151674 ATAATTTTAT
151684 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
151715 TTAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:155516 original size:306 final size:305
Alignment explanation
Indices: 154575--155697 Score: 1430
Period size: 306 Copynumber: 3.6 Consensus size: 305
154565 AAACCTACAG
* *
154575 TTGGCCTTGATTGACTATTTAGAATGCAAACACTGATAATGAATCCTAATTGCTACTACTTATGC
1 TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGC
154640 TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAGATGTTTTGT
66 TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAGATGTTTT-T
* *
154705 TGTTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTAAATGTTTGTTCTGTTTT
130 TGTTAGGGTTAACATATTAACAATTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGTTCTGTTTT
*
154770 TTGGAGTTCTTTATACAATTATACTGAAAATTTGTTAGCTTAAAAAT-TAGGATGACACGGGTTA
195 TTAGAGTTCTTTAT-C---TAT--T----A---GTTAGCTTAAAAATCT-GGATGACACGGGTTA
* *
154834 CATTAATAATAATGAATTGTTTAGGTGCAAACCTGC-AGAGTTTTGTAGTATATACATTGT
246 CATTAATAATAATGAATTGTTTAAGTGCAAACCTGCAAG-GTTTTGTAATATATACATTGT
* * * * *
154894 TTGG-AAGTGATTGCCTATTTAGAATGTAAACACTGCTAATGAAGCTTAGTTGCTAGTTGCTACT
1 TTGGCCA-TGATTGACTATTTAGAATGCAAACACTGCTAATG-A----A--TCCTAATTGCTACT
* * *
154958 ACTTATGCTGCCAATGGATCCTATCTGTAGAGAGATTGGCTGATGGGGTTAGTATCTCTGTAAGA
58 ACTTATGCTGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAG-
* * ** * ** * *
155023 AGGTTTTTTGCTAGAATTAACAAATTAACTTTTTTATGGTCAATGAAAACCTTGCAAGTGTTTGT
122 ATGTTTTTTGTTAGGGTTAACATATTAACAATTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGT
* * * *
155088 TCTGTTTTTGAGAGTTCTGTATAT-TGAAAGTTTGTTAGCTTAAAAATCAGGATGACACGTGTTA
187 TCTGTTTTTTAGAGTTCT-T-TATCT---A-TTAGTTAGCTTAAAAATCTGGATGACACGGGTTA
*
155152 CATTAATAATAATGAATTGTTTAAGTGTAAACCTGCAAGGTTTTGTAATATATACATTGT
246 CATTAATAATAATGAATTGTTTAAGTGCAAACCTGCAAGGTTTTGTAATATATACATTGT
* *
155212 TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTTATGAATCCTAATTGCTACTGCTTATGC
1 TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGC
* * * * *
155277 TGCCAATGGATCTTATTTATAGAGAAATTGTCTGATGGGAATAGTATTTCTGTAAGATGGTTTTT
66 TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAGAT-GTTTTT
* * * *
155342 TGTTAGGGTTAACATATTAACAATTTTATGATCAATGAAAGCCTCGTTAGTGTTTCTTCTGTTTT
130 TGTTAGGGTTAACATATTAACAATTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGTTCTG-TTT
*
155407 TTTAGTGTTCTTTATCT-TTAGTTAGCTTAAAAATCTGGATGACACGGGTTACATTAATAATAAT
194 TTTAGAGTTCTTTATCTATTAGTTAGCTTAAAAATCTGGATGACACGGGTTACATTAATAATAAT
*
155471 GAATTGTTTAAGTGCAAACCTGCAAGGTTTTGTAATACATACATTGT
259 GAATTGTTTAAGTGCAAACCTGCAAGGTTTTGTAATATATACATTGT
* *
155518 TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAACGAATCCTAATTGCTACTGCTTATGC
1 TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGC
* * *
155583 TGCCAATGGATCCTATTTATAGAGAGATTGGCTTATGGGATTAGTATTTCTGTAAGATTTATTTT
66 TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAGATGT-TTTT
* * *
155648 TGTTA-GGTTAACATATTAACCATTTTTTTTGGTCAGTGAAAGCCTTGTAA
130 TGTTAGGGTTAACATATTAA-CA-ATTTTATGGTCAATGAAAGCCTTGTAA
155698 CTTGTAAGTT
Statistics
Matches: 704, Mismatches: 76, Indels: 60
0.84 0.09 0.07
Matches are distributed among these distances:
305 15 0.02
306 216 0.31
307 21 0.03
310 4 0.01
311 124 0.18
312 12 0.02
313 1 0.00
317 1 0.00
318 117 0.17
319 38 0.05
320 1 0.00
323 1 0.00
324 1 0.00
325 1 0.00
326 140 0.20
327 8 0.01
328 3 0.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (305 bp):
TTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGC
TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATTAGTATCTCTGTAAGATGTTTTTT
GTTAGGGTTAACATATTAACAATTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGTTCTGTTTTT
TAGAGTTCTTTATCTATTAGTTAGCTTAAAAATCTGGATGACACGGGTTACATTAATAATAATGA
ATTGTTTAAGTGCAAACCTGCAAGGTTTTGTAATATATACATTGT
Found at i:158588 original size:76 final size:76
Alignment explanation
Indices: 158462--158610 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
158452 ATACCACTAT
* *
158462 CTTCTGATTTAATATAAAAGTTTAATCTTATTTTAAAAAATCTATCAGAAGGATAATATAGTAAA
1 CTTCTAATTTAATATAAAAGGTTAATCTTATTTTAAAAAATCTATCAGAAGGATAATATAGTAAA
158527 ATGTACTCGTG
66 ATGTACTCGTG
* *
158538 CTTCTAATTTAATATAAAAGGTTAATCTTCTTTTAAAAAATCTATCAGAAGGATAATTTAGTAAA
1 CTTCTAATTTAATATAAAAGGTTAATCTTATTTTAAAAAATCTATCAGAAGGATAATATAGTAAA
158603 ATGTACTC
66 ATGTACTC
158611 ATACTTAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (76 bp):
CTTCTAATTTAATATAAAAGGTTAATCTTATTTTAAAAAATCTATCAGAAGGATAATATAGTAAA
ATGTACTCGTG
Found at i:167186 original size:23 final size:24
Alignment explanation
Indices: 167160--167207 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
167150 ACGCTTTGAG
167160 AACTTCATCGATTG-GAACTCCTT
1 AACTTCATCGATTGTGAACTCCTT
167183 AACTTCATCGATTGTGAACTCCTT
1 AACTTCATCGATTGTGAACTCCTT
167207 A
1 A
167208 CAAAGCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (24 bp):
AACTTCATCGATTGTGAACTCCTT
Found at i:171831 original size:27 final size:26
Alignment explanation
Indices: 171790--171841 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
171780 TCATCAAAAT
171790 ACCCCTTACAAGAACCAGAAAACTCAC
1 ACCCCTTACAAGAACCAG-AAACTCAC
* *
171817 ACCCCTTTCATGAACCAGAAACTCA
1 ACCCCTTACAAGAACCAGAAACTCA
171842 AAACAGAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.40, C:0.37, G:0.08, T:0.15
Consensus pattern (26 bp):
ACCCCTTACAAGAACCAGAAACTCAC
Found at i:182878 original size:2 final size:2
Alignment explanation
Indices: 182871--182905 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
182861 CAAACATAAC
182871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
182906 CCTACATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:183304 original size:23 final size:23
Alignment explanation
Indices: 183260--183323 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
183250 CAGCTCATAT
*
183260 AAATACACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * * *
183283 AATTGCACTGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
183306 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
183324 TATAAAATGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:184525 original size:20 final size:21
Alignment explanation
Indices: 184478--184528 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
184468 TCACAGATCT
*
184478 TATCATATAACTTCTCTTTTA
1 TATCATATAACTTCTCTTTCA
184499 TATTCATATAA-TT-TCTTATCA
1 TA-TCATATAACTTCTCTT-TCA
184520 TATCATATA
1 TATCATATA
184529 GTTTATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.41
21 8 0.30
22 8 0.30
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
TATCATATAACTTCTCTTTCA
Found at i:185098 original size:64 final size:62
Alignment explanation
Indices: 184976--185112 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 62
184966 TCTTTAACAT
*
184976 GTGCATCGATGCACTACCAATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCAATGCATCGATACACAAATCA-CTTCGATGTTTCCATTTTAA-GGG
* * * *
185040 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAACTGCA-TT-GATGTTTCCATTTTTAATG
1 GTGCATCGATGCACTACC-AATGCATCGATACAC-AAAT-CACTTCGATGTTTCCA-TTTTAAGG
185102 G
62 G
185103 GTGCATCGAT
1 GTGCATCGAT
185113 ACACACTGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
63 23 0.36
64 36 0.56
65 3 0.05
66 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (62 bp):
GTGCATCGATGCACTACCAATGCATCGATACACAAATCACTTCGATGTTTCCATTTTAAGGG
Found at i:193851 original size:32 final size:34
Alignment explanation
Indices: 193815--193884 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
193805 CCTTACAAAC
* * *
193815 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACTTT
1 TCCCTAGATTTTACACGGGATAAACTAGAACCTT
*
193847 TCCCTAGATTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGATTTTACACGGGATAAACTAGAACCTT
193881 TCCC
1 TCCC
193885 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGATTTTACACGGGATAAACTAGAACCTT
Found at i:194124 original size:20 final size:22
Alignment explanation
Indices: 194099--194138 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
194089 TGTTGTATAT
194099 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
194119 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
194139 TCTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:194325 original size:20 final size:20
Alignment explanation
Indices: 194300--194400 Score: 150
Period size: 20 Copynumber: 4.9 Consensus size: 20
194290 CGGTGTTTGA
194300 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCATG
194320 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCATG
194340 GTGCATGGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCATG
*
194362 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCA-TG
194383 GTGCATGGATGCACTGCA
1 GTGCATGGATGCACTGCA
194401 GGGGTATATG
Statistics
Matches: 76, Mismatches: 0, Indels: 9
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.05
20 34 0.45
21 19 0.25
22 15 0.20
23 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.37, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCATG
Found at i:194375 original size:42 final size:42
Alignment explanation
Indices: 194300--194397 Score: 148
Period size: 43 Copynumber: 2.4 Consensus size: 42
194290 CGGTGTTTGA
*
194300 GTGCATGGATGCAC-TGCATGGTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTTGCATGGTGCATGGATGCACTGCAGGG
194340 GTGCATGGATGCACTAGTGCA-GGTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACT--TGCATGGTGCATGGATGCACTGCAGGG
194383 GTGCATGGATGCACT
1 GTGCATGGATGCACT
194398 GCAGGGGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
40 14 0.26
42 19 0.36
43 20 0.38
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.23
Consensus pattern (42 bp):
GTGCATGGATGCACTTGCATGGTGCATGGATGCACTGCAGGG
Found at i:194387 original size:21 final size:21
Alignment explanation
Indices: 194300--194418 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 21
194290 CGGTGTTTGA
*
194300 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
*
194320 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
194340 GTGCATGGATGCACT--AGTGCAG
1 GTGCATGGATGCACTGCAG-G--G
194362 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
194383 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
**
194404 GTATATGGATGCACT
1 GTGCATGGATGCACT
194419 TTGACACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 11
0.87 0.03 0.11
Matches are distributed among these distances:
18 1 0.01
20 35 0.39
21 35 0.39
22 16 0.18
23 1 0.01
24 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:194412 original size:42 final size:41
Alignment explanation
Indices: 194300--194418 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 41
194290 CGGTGTTTGA
* *
194300 GTGCATGGATGCACTGCA-TGGTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGGGGTGCATGGATGCACTGCAGG
194340 GTGCATGGATGCACT--AGTGCAGGTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAG-G--GGTGCATGGATGCACTGCA-GG
**
194383 GTGCATGGATGCACTGCAGGGGTATATGGATGCACT
1 GTGCATGGATGCACTGCAGGGGTGCATGGATGCACT
194419 TTGACACCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
38 1 0.01
40 15 0.22
42 33 0.49
43 16 0.24
44 1 0.01
45 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (41 bp):
GTGCATGGATGCACTGCAGGGGTGCATGGATGCACTGCAGG
Found at i:194519 original size:29 final size:29
Alignment explanation
Indices: 194498--194555 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
194488 AAACTTTGAA
*
194498 TAAATTCAATT-AAGTTCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
194527 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
194556 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:194550 original size:30 final size:30
Alignment explanation
Indices: 194498--194557 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
194488 AAACTTTGAA
*
194498 TAAATTCAATTAAGTTCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
194527 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
194558 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:195850 original size:19 final size:20
Alignment explanation
Indices: 195807--195854 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
195797 TCTAAATCCT
*
195807 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
195827 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
195846 TTTTCAAAA
1 TTTTCAAAA
195855 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Done.