Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008575.1 Hibiscus syriacus cultivar Beakdansim tig00111504_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: 896659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:5868 original size:17 final size:18
Alignment explanation
Indices: 5836--5869 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5826 TAATTAAATA
5836 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
5854 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
5870 ACCTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:15912 original size:16 final size:16
Alignment explanation
Indices: 15867--15913 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
15857 TGAAACAAAA
15867 CTGCCTCCCCCTTC--
1 CTGCCTCCCCCTTCTT
**
15881 CT-CCTCCCCCGCCTT
1 CTGCCTCCCCCTTCTT
15896 CTGCCTCCCCCTTCTT
1 CTGCCTCCCCCTTCTT
15912 CT
1 CT
15914 TCCCCTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 2 0.08
16 13 0.50
ACGTcount: A:0.00, C:0.62, G:0.06, T:0.32
Consensus pattern (16 bp):
CTGCCTCCCCCTTCTT
Found at i:15917 original size:13 final size:14
Alignment explanation
Indices: 15871--15930 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
15861 ACAAAACTGC
*
15871 CTCCCCCTTCCTC-
1 CTCCCCCTTCTTCT
**
15884 CTCCCCCGCCTTCT
1 CTCCCCCTTCTTCT
15898 GCCTCCCCCTTCTTCT
1 --CTCCCCCTTCTTCT
15914 -T-CCCCTTCTTCT
1 CTCCCCCTTCTTCT
15926 CTCCC
1 CTCCC
15931 ATCATTGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 11 0.30
13 12 0.32
14 2 0.05
16 12 0.32
ACGTcount: A:0.00, C:0.62, G:0.03, T:0.35
Consensus pattern (14 bp):
CTCCCCCTTCTTCT
Found at i:21706 original size:16 final size:16
Alignment explanation
Indices: 21687--21775 Score: 72
Period size: 16 Copynumber: 5.5 Consensus size: 16
21677 AATTTAGTGA
21687 AACCGAAATTAACCCG
1 AACCGAAATTAACCCG
*
21703 AACCGAAATTAATCCG
1 AACCGAAATTAACCCG
* *
21719 AACCGAATTTTAACTCG
1 AACCGAA-ATTAACCCG
* * **
21736 ATCCTAAAGCAACCCG
1 AACCGAAATTAACCCG
* *
21752 AACTGAATTTAACCC-
1 AACCGAAATTAACCCG
21767 AACCCGAAA
1 AA-CCGAAA
21776 GCAACCCAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
15 2 0.04
16 40 0.75
17 11 0.21
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (16 bp):
AACCGAAATTAACCCG
Found at i:21882 original size:18 final size:19
Alignment explanation
Indices: 21843--21898 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
21833 TAATAAATTA
*
21843 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
21861 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
21879 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
21898 A
1 A
21899 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:21979 original size:31 final size:31
Alignment explanation
Indices: 21941--22003 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21931 ATTGTAAGAT
21941 TGAAAACAATAATAAATAAAGTTTACTTATC
1 TGAAAACAATAATAAATAAAGTTTACTTATC
21972 TGAAAACAATAATAAATAAAGTTTACTTATC
1 TGAAAACAATAATAAATAAAGTTTACTTATC
22003 T
1 T
22004 TACTTGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (31 bp):
TGAAAACAATAATAAATAAAGTTTACTTATC
Found at i:24819 original size:28 final size:27
Alignment explanation
Indices: 24788--24857 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 27
24778 TAAAACCCAG
*
24788 AAAAGATGAACATCAATTCTCTCAAAA
1 AAAAAATGAACATCAATTCTCTCAAAA
24815 AAAAAATAAGAACATCAATTCTCTCAAAA
1 AAAAAAT--GAACATCAATTCTCTCAAAA
*
24844 AAAAATAAGAACAT
1 AAAAA-ATGAACAT
24858 GCAGTGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 6 0.16
28 6 0.16
29 25 0.66
30 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAAATGAACATCAATTCTCTCAAAA
Found at i:24827 original size:29 final size:28
Alignment explanation
Indices: 24795--24857 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
24785 CAGAAAAGAT
24795 GAACATCAATTCTCTCAAAAAAAAAATAA
1 GAACATCAATTCTCTC-AAAAAAAAATAA
24824 GAACATCAATTCTCTCAAAAAAAAATAA
1 GAACATCAATTCTCTCAAAAAAAAATAA
24852 GAACAT
1 GAACAT
24858 GCAGTGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (28 bp):
GAACATCAATTCTCTCAAAAAAAAATAA
Found at i:38237 original size:31 final size:30
Alignment explanation
Indices: 38167--38270 Score: 93
Period size: 31 Copynumber: 3.5 Consensus size: 30
38157 ACTAGTGATT
* * *
38167 TTTAAATATAATATCAATTTTACTTTAAAA
1 TTTAAATAAAATATTAATTTAACTTTAAAA
* *
38197 TTTACATAAAATATTAATTTAACTCTTAAAC
1 TTTAAATAAAATATTAATTTAACT-TTAAAA
* * * *
38228 TTTATATAAATTATTAATTTGACATT-AAA
1 TTTAAATAAAATATTAATTTAACTTTAAAA
**
38257 TCCAAATAAAATAT
1 TTTAAATAAAATAT
38271 ACGTAGTTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 12 0.20
30 22 0.37
31 25 0.42
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (30 bp):
TTTAAATAAAATATTAATTTAACTTTAAAA
Found at i:45684 original size:15 final size:15
Alignment explanation
Indices: 45660--45699 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
45650 TCATTTTTGG
45660 GTTTTCTATTTTAATT
1 GTTTT-TATTTTAATT
45676 -TTTGTTATTTTAATT
1 GTTT-TTATTTTAATT
45691 GTTTTTATT
1 GTTTTTATT
45700 GTGTTACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (15 bp):
GTTTTTATTTTAATT
Found at i:49325 original size:13 final size:13
Alignment explanation
Indices: 49307--49333 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49297 AAAGTTGAAA
49307 CAGTCTTCATATG
1 CAGTCTTCATATG
49320 CAGTCTTCATATG
1 CAGTCTTCATATG
49333 C
1 C
49334 GTGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:55949 original size:27 final size:26
Alignment explanation
Indices: 55904--55954 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
55894 ACATTTCATG
*
55904 CATTTTTGCATTTTGCATATACATTT
1 CATTTTTGCATTTTGCATAAACATTT
55930 CATTTTTAAGCATTTT-CATAAACAT
1 CATTTTT--GCATTTTGCATAAACAT
55955 GGAATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (26 bp):
CATTTTTGCATTTTGCATAAACATTT
Found at i:57137 original size:30 final size:30
Alignment explanation
Indices: 57102--57176 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
57092 CAATCATAAC
* *
57102 AAAAACAAAAGAAAAAAG-AAAAGAAGCAAA
1 AAAAACAAAAGAAAAAAGCAAAAAAAAC-AA
*
57132 AAAAACAAAAGAAAAGAGCAAAAAAAACAA
1 AAAAACAAAAGAAAAAAGCAAAAAAAACAA
*
57162 AAAGA-AAAAGAAAAA
1 AAAAACAAAAGAAAAA
57177 GGGACAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.23
30 23 0.59
31 7 0.18
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (30 bp):
AAAAACAAAAGAAAAAAGCAAAAAAAACAA
Found at i:57151 original size:22 final size:23
Alignment explanation
Indices: 57114--57176 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
57104 AAACAAAAGA
57114 AAAAAGAAAAGAAGCAAAAAAAAC
1 AAAAAGAAAAG-AGCAAAAAAAAC
57138 -AAAAGAAAAGAGCAAAAAAAAC
1 AAAAAGAAAAGAGCAAAAAAAAC
57160 AAAAAGAAAA-AG-AAAAA
1 AAAAAGAAAAGAGCAAAAA
57177 GGGACAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.13
22 14 0.37
23 19 0.50
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAGAGCAAAAAAAAC
Found at i:57166 original size:18 final size:20
Alignment explanation
Indices: 57107--57161 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
57097 ATAACAAAAA
57107 CAAAAGAAAA-AAGAAAAGAAG
1 CAAAA-AAAACAAGAAAAG-AG
57128 CAAAAAAAACAAAAGAAAAGAG
1 CAAAAAAAAC--AAGAAAAGAG
57150 CAAAAAAAACAA
1 CAAAAAAAACAA
57162 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.19
21 5 0.16
22 12 0.39
23 8 0.26
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (20 bp):
CAAAAAAAACAAGAAAAGAG
Found at i:57177 original size:30 final size:29
Alignment explanation
Indices: 57099--57186 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
57089 TTTCAATCAT
* *
57099 AACAAAAACAAAAGAAAAA-AG-AAAAGA
1 AACAAAAAAAAAAGAAAAAGAGCAAAAAA
* *
57126 AGCAAAAAAAACAAAAGAAAAGAGCAAAAAA
1 AACAAAAAAAA-AAGA-AAAAGAGCAAAAAA
*
57157 AACAAAAAGAAAAAGAAAAAGGGACAAAAA
1 AACAAAAA-AAAAAGAAAAAGAG-CAAAAA
57187 GTACATGCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
27 9 0.19
28 3 0.06
29 4 0.08
30 8 0.17
31 21 0.44
32 3 0.06
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (29 bp):
AACAAAAAAAAAAGAAAAAGAGCAAAAAA
Found at i:58720 original size:106 final size:106
Alignment explanation
Indices: 58532--59611 Score: 1822
Period size: 106 Copynumber: 10.2 Consensus size: 106
58522 TCGAGAGTAG
* * *
58532 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAAC
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
58597 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
58638 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
58703 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
58744 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
58809 TTTAACTTCACAGCGAATGATATTGGACT-CATGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCA-GACAACGCA
*
58850 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
58915 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
58956 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAAAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
59021 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
59062 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCGATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
59127 TTTAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
59168 AGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
59233 TTCAACTTCACAGCGAATGATATTGGACT-CATGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCA-GACAACGCA
*
59274 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
59339 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
59380 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * *
59445 TTTAACTGCACAACGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * *
59486 AGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
59551 TTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
59592 AGTTCAACTTCACGACGAAG
1 AGTTCAACTTCACGACGAAG
59612 TGGCCATCCA
Statistics
Matches: 918, Mismatches: 52, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
105 4 0.00
106 910 0.99
107 4 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:59933 original size:36 final size:36
Alignment explanation
Indices: 59880--59995 Score: 133
Period size: 36 Copynumber: 3.2 Consensus size: 36
59870 AATTTGCTCA
* *
59880 AAACAAAGTTCTGTCTCTCTTGAGATAGTTTCTCATG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCATG
* * * * *
59917 TAACACATTTTGTCTCTCTTGAGACAATTACTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATG
* * *
59953 AAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATG
59989 AAACAAA
1 AAACAAA
59996 ACCTTTGAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
36 61 0.92
37 5 0.08
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCATG
Found at i:60500 original size:3 final size:3
Alignment explanation
Indices: 60483--60535 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
60473 TATATATGTG
* *
60483 TTA TTA TAA TAA TTA TTA TTTA TTA TTA TTA TTAA TTA TTA TTAA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA TT-A TTA
60530 TTA TTA
1 TTA TTA
60536 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:60509 original size:10 final size:9
Alignment explanation
Indices: 60483--60535 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
60473 TATATATGTG
*
60483 TTATTATAA
1 TTATTATTA
*
60492 TAATTATTA
1 TTATTATTA
60501 TTTATTATTA
1 -TTATTATTA
60511 TTATTAATTA
1 TTATT-ATTA
60521 TTATTAATT-
1 TTATT-ATTA
60530 TTATTA
1 TTATTA
60536 ATTTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 1 0.03
9 17 0.44
10 21 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTATTATTA
Found at i:60512 original size:13 final size:13
Alignment explanation
Indices: 60494--60535 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
60484 TATTATAATA
60494 ATTATTATTTATT
1 ATTATTATTTATT
*
60507 ATTATTATTAATT
1 ATTATTATTTATT
*
60520 ATTATTAATT-TT
1 ATTATTATTTATT
60532 ATTA
1 ATTA
60536 ATTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATTTATT
Found at i:60525 original size:19 final size:20
Alignment explanation
Indices: 60483--60538 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
60473 TATATATGTG
* *
60483 TTATTATAATAATT-ATTAT
1 TTATTATTATTATTAATTAT
60502 TTATTATTATTATTAATTA-
1 TTATTATTATTATTAATTAT
60521 TTATTAATT-TTATTAATT
1 TTATT-ATTATTATTAATT
60539 TTTTTTTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTATTATTATTAATTAT
Found at i:60541 original size:10 final size:10
Alignment explanation
Indices: 60501--60541 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
60491 ATAATTATTA
60501 TTTATT-ATT
1 TTTATTAATT
*
60510 ATTATTAATT
1 TTTATTAATT
*
60520 ATTATTAA-T
1 TTTATTAATT
60529 TTTATTAATT
1 TTTATTAATT
60539 TTT
1 TTT
60542 TTTTCAGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATTAATT
Found at i:68497 original size:29 final size:29
Alignment explanation
Indices: 68416--68515 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
68406 TATTTTGAGA
68416 ACCTAAAGTATTTTTTGGTC-AAATAAGT
1 ACCTAAAGTATTTTTTGGTCAAAATAAGT
* * *
68444 ACCCAAAATTATCTTTTTGGTCAAAATAGGT
1 A-CCTAAAGTAT-TTTTTGGTCAAAATAAGT
*
68475 ACCTAAAGTATTTTTTGGTCAAAATACGT
1 ACCTAAAGTATTTTTTGGTCAAAATAAGT
*
68504 ACCTAAAATATT
1 ACCTAAAGTATT
68516 CAAAAAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.02
29 36 0.58
30 17 0.27
31 8 0.13
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (29 bp):
ACCTAAAGTATTTTTTGGTCAAAATAAGT
Found at i:69418 original size:59 final size:59
Alignment explanation
Indices: 69355--69466 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
69345 AAATGGTCCC
*
69355 CTGACTATAG-GATGCTACTTTATT-AGTCTCTT-ATCTATTAAAAGTTACAAAATAATCCT
1 CTGACTATAGAG-TGCTACTTTATTGAGTC-CTTCAACTATT-AAAGTTACAAAATAATCCT
* * *
69414 CTGACTATAGAGTGTTGCTTTGTTGAGTCCTTCAACTATTAAAGTTACAAAAT
1 CTGACTATAGAGTGCTACTTTATTGAGTCCTTCAACTATTAAAGTTACAAAAT
69467 GATCACTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
59 35 0.76
60 11 0.24
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (59 bp):
CTGACTATAGAGTGCTACTTTATTGAGTCCTTCAACTATTAAAGTTACAAAATAATCCT
Found at i:71075 original size:70 final size:70
Alignment explanation
Indices: 70962--71097 Score: 238
Period size: 70 Copynumber: 1.9 Consensus size: 70
70952 AATATTGATA
*
70962 TTTAACTAGTACTGATGAATAAGAGCTTTGTATTGAGTTAGTGTTTGTAAATATTTAGGCAGTGT
1 TTTAACTAGTACTGATGAATAAGAGCTTTGTATTGAGTGAGTGTTTGTAAATATTTAGGCAGTGT
71027 GTTGT
66 GTTGT
*
71032 TTTAACTAGTACTGATGATTAAGAGCTTAT-TATTGAGTGAGTGTTTGTAAATATTTAGGCAGTG
1 TTTAACTAGTACTGATGAATAAGAGCTT-TGTATTGAGTGAGTGTTTGTAAATATTTAGGCAGTG
71096 TG
65 TG
71098 GGCATTGGGG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 62 0.98
71 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (70 bp):
TTTAACTAGTACTGATGAATAAGAGCTTTGTATTGAGTGAGTGTTTGTAAATATTTAGGCAGTGT
GTTGT
Found at i:73645 original size:100 final size:100
Alignment explanation
Indices: 73472--73672 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 100
73462 TGATTAACCA
*
73472 TTAAAGTTATAATTACGGATTTTGATAACGTTAATAAATTTAAATTTATAATTATGTTTTAGGGA
1 TTAAAGTTACAATTACGGATTTTGATAACGTTAATAAATTTAAATTTATAATTATGTTTTAGGGA
73537 AATTACTAAGAATTAAAAATTAGAGAAGACTTTGG
66 AATTACTAAGAATTAAAAATTAGAGAAGACTTTGG
*
73572 TTAAAGTTACAATTACGGATTTTGATACCGTTAATAAATTTAAATTTATAATTATGTTTTAGGGA
1 TTAAAGTTACAATTACGGATTTTGATAACGTTAATAAATTTAAATTTATAATTATGTTTTAGGGA
*
73637 AATTACTAAGAATTGAAAATTAGAGAAGACTTTGG
66 AATTACTAAGAATTAAAAATTAGAGAAGACTTTGG
73672 T
1 T
73673 GATCTGGTTG
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (100 bp):
TTAAAGTTACAATTACGGATTTTGATAACGTTAATAAATTTAAATTTATAATTATGTTTTAGGGA
AATTACTAAGAATTAAAAATTAGAGAAGACTTTGG
Found at i:76655 original size:18 final size:19
Alignment explanation
Indices: 76620--76656 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
76610 CACGAAATGT
76620 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
76640 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
76657 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:83407 original size:15 final size:15
Alignment explanation
Indices: 83370--83420 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
83360 TTTATCAAAA
83370 ATTTTAAA-TTAAAT
1 ATTTTAAATTTAAAT
* * * *
83384 ACATATAAATTTTATT
1 A-TTTTAAATTTAAAT
83400 ATTTTAAATTTAAAT
1 ATTTTAAATTTAAAT
83415 ATTTTA
1 ATTTTA
83421 TCCCTCTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
14 1 0.04
15 21 0.78
16 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTAAATTTAAAT
Found at i:85899 original size:11 final size:11
Alignment explanation
Indices: 85883--85916 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
85873 AAAGAACGTA
85883 TAATTATAAAT
1 TAATTATAAAT
85894 TAATTATAAAT
1 TAATTATAAAT
85905 TAATTATAAAT
1 TAATTATAAAT
85916 T
1 T
85917 TAACGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:89532 original size:33 final size:30
Alignment explanation
Indices: 89466--89535 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
89456 TTTAGTATCG
* * *
89466 TGTTTGTGATCGTTTATTTATTTTTGAAGA
1 TGTTCGTGATCGTTTATTTATTTTAGAACA
*
89496 TGTTCGTGTTCGTTTATTTATTATTCGAGAACA
1 TGTTCGTGATCGTTTATTTATT-TT--AGAACA
89529 TGTTCGT
1 TGTTCGT
89536 TGTGTTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 20 0.61
31 2 0.06
33 11 0.33
ACGTcount: A:0.19, C:0.09, G:0.20, T:0.53
Consensus pattern (30 bp):
TGTTCGTGATCGTTTATTTATTTTAGAACA
Found at i:89893 original size:30 final size:30
Alignment explanation
Indices: 89840--89899 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
89830 TAGTCTATAA
* * * *
89840 ATGAGCTCATTAACGAGCTTATAAATGAGT
1 ATGAACTCATAAACAAGCATATAAATGAGT
89870 ATGAACTCATAAACAAGCATATAAATGAGT
1 ATGAACTCATAAACAAGCATATAAATGAGT
89900 TTGTTCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (30 bp):
ATGAACTCATAAACAAGCATATAAATGAGT
Found at i:93162 original size:124 final size:124
Alignment explanation
Indices: 92944--93299 Score: 507
Period size: 124 Copynumber: 2.8 Consensus size: 124
92934 TTAACTAGGT
* * * * * *
92944 TTGAATGGAGATGGAAACTCTTTGATCTTGTTTCAAGTTTCTTATGGCTCCTAATTGGATTGATC
1 TTGAATAGATATGGAAACTCTTTGATCTTGTTTCAAG-TTCTTATGGCTGCTATTTAGACTGATC
* *
93009 GATGAAGTCGGATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGG
65 GTTGATGTCGGATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGG
93069 TTGAATAGATATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCG
1 TTGAATAGATATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCG
93134 TTGATGTCGGATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGG
66 TTGATGTCGGATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGG
* *
93193 TTGAATAGATATGGAAACTCTTTGTTCTTGTTTCAAGTTATTCATGGGTGGCTGCTATTTAGACT
1 TTGAATAGATATGGAAACTCTTTGATCTTGTTTCAAGTTCTT-A----TGGCTGCTATTTAGACT
** * * *
93258 GATTATTGTTGTCGGATCATAA-TTTCCAGCATTAGTCTAGTT
61 GATCGTTGATGTCGGATCATAACTTT-GAGCATTAGTTTAGTT
93300 TGTTGTTCAT
Statistics
Matches: 210, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
124 121 0.58
125 36 0.17
128 3 0.01
129 50 0.24
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (124 bp):
TTGAATAGATATGGAAACTCTTTGATCTTGTTTCAAGTTCTTATGGCTGCTATTTAGACTGATCG
TTGATGTCGGATCATAACTTTGAGCATTAGTTTAGTTAGTTTAGTTTTCTTGACCATGG
Found at i:97511 original size:20 final size:20
Alignment explanation
Indices: 97483--97534 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
97473 TCGCATTGCG
*
97483 ATCGCAACGCGAATATGA-AA
1 ATCGCAACGCGAACAT-ATAA
*
97503 ATCGTAACGCGAACATATAA
1 ATCGCAACGCGAACATATAA
97523 ATCGCAACGCGA
1 ATCGCAACGCGA
97535 TTCTTACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAACATATAA
Found at i:97669 original size:41 final size:41
Alignment explanation
Indices: 97646--97917 Score: 270
Period size: 41 Copynumber: 6.7 Consensus size: 41
97636 GATTCTGACT
* * *
97646 ATCGCAACGAGTATCCGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
97687 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
97728 ATCGCAACGAGAATATGTAAAATCGTAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
97769 ATCGCAACGAGAATACGTAAAATTGCAACGCG-ATTC-TGATT
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT-A-A
* * * * * *
97810 ATCGCAACCAGAATACGT-TAATCACAACGAGAATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
97850 ATCGCAACGATAATCCAT-AAATCGCAACG-ATAATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGT-ATCCGTAA
97890 ATCGCAACGAGAAT-CTGT-AAATCGCAAC
1 ATCGCAACGAGAATAC-GTAAAATCGCAAC
97918 ACTTAAATTT
Statistics
Matches: 192, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.01
40 67 0.35
41 122 0.64
42 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:97712 original size:102 final size:103
Alignment explanation
Indices: 97520--97736 Score: 373
Period size: 102 Copynumber: 2.1 Consensus size: 103
97510 CGCGAACATA
* *
97520 TAAATCGCAACGCGATTCTTACTATCGCAACGAGTATTCGTAAAAATCGCAACGCGTATCCGTAA
1 TAAATCGCAACGCGATTCTGACTATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAA
* *
97585 ATTGCAACGACAATACGTAAAATCGCAATGCGTATCCG
66 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
*
97623 TAAATCGCAACGCGATTCTGACTATCGCAACGAGTATCCGT-AAAATCGTAACGCGTATCCGTAA
1 TAAATCGCAACGCGATTCTGACTATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAA
*
97687 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCG
66 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
97725 TAAATCGCAACG
1 TAAATCGCAACG
97737 AGAATATGTA
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 69 0.64
103 39 0.36
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (103 bp):
TAAATCGCAACGCGATTCTGACTATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAA
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
Found at i:97730 original size:61 final size:61
Alignment explanation
Indices: 97600--97736 Score: 179
Period size: 61 Copynumber: 2.2 Consensus size: 61
97590 AACGACAATA
* * **
97600 CGTAAAATCGCAATGCGTATCCGTAAATCGCAACGCGATTCTGACTATCGCAACGAGTATC
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCAATTCTGAAAATCGCAACGAGTATC
* * *
97661 CGTAAAATCGTAACGCGTATCCGTAAATCGCAACGACAA-TATGTAAAATCGCAACGCGTATC
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACG-CAATTCTG-AAAATCGCAACGAGTATC
97723 CGT-AAATCGCAACG
1 CGTAAAATCGCAACG
97737 AGAATATGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 46 0.70
62 20 0.30
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (61 bp):
CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCAATTCTGAAAATCGCAACGAGTATC
Found at i:97771 original size:102 final size:102
Alignment explanation
Indices: 97543--97917 Score: 345
Period size: 102 Copynumber: 3.7 Consensus size: 102
97533 GATTCTTACT
* *
97543 ATCGCAACGAGTATTCGTAAAAATCGCAACGCGTATCCGTAAATTGCAACGACAATACGTAAAAT
1 ATCGCAACGAGTATCCGT-AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAAT
* * * * **
97608 CGCAATGCGTATCCGTAAATCGCAACGCGATTCTGACT
65 CGCAACGCGTATCCGTAAATCGCAACGAGAATATGAAA
* *
97646 ATCGCAACGAGTATCCGTAAAATCGTAACGCGTATCCGTAAATCGCAACGACAATATGTAAAATC
1 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
97711 GCAACGCGTATCCGTAAATCGCAACGAGAATATGTAAA
66 GCAACGCGTATCCGTAAATCGCAACGAGAATATG-AAA
* * * * * * * * * **
97749 ATCGTAATGCGTATCCGT-AAATCGCAACGAGAATACGTAAAATTGCAACG-CGATTC-TGATTA
1 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGT-AAATCGCAACGACAATACGT-AAAA
* * * * * *
97811 TCGCAAC-CAGAATACGTTAATCACAACGAGAATCTGTAA
64 TCGCAACGC-GTATCCGTAAATCGCAACGAGAATATGAAA
* * *
97850 ATCGCAACGA-TAATCCAT-AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAAT-CTGT-AA
1 ATCGCAACGAGT-ATCCGTAAAATCGCAACGCGT-ATCCGTAAATCGCAACGACAATAC-GTAAA
97910 ATCGCAAC
63 ATCGCAAC
97918 ACTTAAATTT
Statistics
Matches: 222, Mismatches: 41, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
100 20 0.09
101 34 0.15
102 125 0.56
103 43 0.19
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (102 bp):
ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
GCAACGCGTATCCGTAAATCGCAACGAGAATATGAAA
Found at i:97842 original size:20 final size:20
Alignment explanation
Indices: 97810--97917 Score: 135
Period size: 20 Copynumber: 5.4 Consensus size: 20
97800 GATTCTGATT
* * *
97810 ATCGCAACCAGAATACGTTA
1 ATCGCAACGAGAATCCGTAA
* *
97830 ATCACAACGAGAATCTGTAA
1 ATCGCAACGAGAATCCGTAA
* *
97850 ATCGCAACGATAATCCATAA
1 ATCGCAACGAGAATCCGTAA
*
97870 ATCGCAACGATAATCCGTAA
1 ATCGCAACGAGAATCCGTAA
*
97890 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGAGAATCCGTAA
97910 ATCGCAAC
1 ATCGCAAC
97918 ACTTAAATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAGAATCCGTAA
Found at i:97854 original size:40 final size:40
Alignment explanation
Indices: 97563--97917 Score: 232
Period size: 41 Copynumber: 8.8 Consensus size: 40
97553 GTATTCGTAA
* * * * *
97563 AAATCGCAACGCGTATCCGTAAATTGCAACGACAATAC-GT
1 AAATCGCAACGAGAATACGTAAATCGCAACGAGAAT-CTGT
* * * * * *
97603 AAAATCGCAATGCGTATCCGTAAATCGCAACGCGATTCTG-
1 -AAATCGCAACGAGAATACGTAAATCGCAACGAGAATCTGT
* * * * * * *
97643 ACTATCGCAACGAGTATCCGTAAAATCGTAACGCGTATCCGT
1 A-AATCGCAACGAGAATACGT-AAATCGCAACGAGAATCTGT
* * * * *
97685 AAATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATACGT-AAATCGCAACGAGAATCTGT
* * * * * *
97726 AAATCGCAACGAGAATATGTAAAATCGTAATGCGTATCCGT
1 AAATCGCAACGAGAATACGT-AAATCGCAACGAGAATCTGT
* * *
97767 AAATCGCAACGAGAATACGTAAAATTGCAACGCGATTCTG-
1 AAATCGCAACGAGAATACGT-AAATCGCAACGAGAATCTGT
* * * *
97807 ATTATCGCAACCAGAATACGTTAATCACAACGAGAATCTGT
1 A-AATCGCAACGAGAATACGTAAATCGCAACGAGAATCTGT
* * * * *
97848 AAATCGCAACGATAATCCATAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATACGTAAATCGCAACGAGAATCTGT
97888 AAATCGCAACGAGAAT-CTGTAAATCGCAAC
1 AAATCGCAACGAGAATAC-GTAAATCGCAAC
97918 ACTTAAATTT
Statistics
Matches: 261, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.01
40 88 0.34
41 170 0.65
42 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATACGTAAATCGCAACGAGAATCTGT
Found at i:98835 original size:12 final size:12
Alignment explanation
Indices: 98818--98842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98808 ATATAATCCT
98818 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98830 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98842 G
1 G
98843 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:101133 original size:20 final size:19
Alignment explanation
Indices: 101108--101222 Score: 88
Period size: 19 Copynumber: 6.5 Consensus size: 19
101098 TCATTTGACT
101108 ATCGCAACGCGGAAATGAAA
1 ATCGCAACGC-GAAATGAAA
*
101128 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
101147 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
101161 ATCGCAATGCGAAATGAAAA
1 ATCGCAACGCGAAATG-AAA
*
101181 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
* *
101195 ATCACAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
101214 ATCGCAACG
1 ATCGCAACG
101223 AGAGAATCGC
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
14 18 0.24
15 2 0.03
16 5 0.07
17 2 0.03
18 4 0.05
19 27 0.36
20 18 0.24
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:101165 original size:14 final size:14
Alignment explanation
Indices: 101146--101233 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
101136 GCGAAATGAA
101146 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
101160 AATCGCAATGCGAAATGAAA
1 AATCGCAA--CG--A-G-AG
101180 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
101194 AATCACAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
101213 AATCGCAACGAGAG
1 AATCGCAACGAGAG
101227 AATCGCA
1 AATCGCA
101234 CTCGTTGCGA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
14 25 0.44
15 2 0.04
16 5 0.09
17 2 0.04
18 4 0.07
19 10 0.18
20 9 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:101187 original size:34 final size:33
Alignment explanation
Indices: 101127--101233 Score: 196
Period size: 33 Copynumber: 3.2 Consensus size: 33
101117 CGGAAATGAA
101127 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
101160 AATCGCAATGCGAAATGAAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATG-AAAATCGCAACGAGAG
*
101194 AATCACAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
101227 AATCGCA
1 AATCGCA
101234 CTCGTTGCGA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
33 39 0.55
34 32 0.45
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:101452 original size:70 final size:74
Alignment explanation
Indices: 101373--101535 Score: 192
Period size: 82 Copynumber: 2.1 Consensus size: 74
101363 CAATTAAACT
101373 AATCAACTTTTAC-AA-A-T-C-AATTAAACAATAAAAAAATAAGCAATAATTCTTATTTCCTCA
1 AATCAACTTTTACAAACATTACAAATTAAACAATAAAAAAATAAGCAATAATTC-TATTTCCTCA
101433 TATACTATTG
65 TATACTATTG
*
101443 AATCAACTTTTACAAATCATCTTTTACAATCAATTAAACAATCAAAAAATAAGCAATAATTCTAT
1 AATCAACTTTTACAAA-CA----TTAC-A--AATTAAACAATAAAAAAATAAGCAATAATTCTAT
*
101508 TTCCTCATCTACTATTG
58 TTCCTCATATACTATTG
101525 AATCAACTTTT
1 AATCAACTTTT
101536 GTAGTCATAC
Statistics
Matches: 78, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
70 13 0.17
71 2 0.03
73 1 0.01
78 1 0.01
79 1 0.01
82 30 0.38
83 30 0.38
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (74 bp):
AATCAACTTTTACAAACATTACAAATTAAACAATAAAAAAATAAGCAATAATTCTATTTCCTCAT
ATACTATTG
Found at i:101466 original size:14 final size:14
Alignment explanation
Indices: 101443--101475 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
101433 TATACTATTG
101443 AATCAACTTTTACA
1 AATCAACTTTTACA
*
101457 AATCATCTTTTAC-
1 AATCAACTTTTACA
101470 AATCAA
1 AATCAA
101476 TTAAACAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:101535 original size:82 final size:84
Alignment explanation
Indices: 101373--101535 Score: 285
Period size: 83 Copynumber: 2.0 Consensus size: 84
101363 CAATTAAACT
101373 AATCAACTTTTACAAATCAATTAAACAATAAAAAAATAAGCAATAATTCTTATTTCCTCATATAC
1 AATCAACTTTTACAAATCAATTAAACAATAAAAAAATAAGCAATAATTCTTATTTCCTCATATAC
101438 TATTGAATCAACTTTTACA
66 TATTGAATCAACTTTTACA
* * *
101457 AATCATCTTTTAC-AATCAATTAAACAATCAAAAAATAAGCAATAATTC-TATTTCCTCATCTAC
1 AATCAACTTTTACAAATCAATTAAACAATAAAAAAATAAGCAATAATTCTTATTTCCTCATATAC
101520 TATTGAATCAACTTTT
66 TATTGAATCAACTTTT
101536 GTAGTCATAC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 30 0.39
83 34 0.45
84 12 0.16
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (84 bp):
AATCAACTTTTACAAATCAATTAAACAATAAAAAAATAAGCAATAATTCTTATTTCCTCATATAC
TATTGAATCAACTTTTACA
Found at i:102890 original size:21 final size:21
Alignment explanation
Indices: 102866--102935 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
102856 TGACAGTGGC
102866 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGA
* * ** *
102887 CTCTCG-AGGAATGATAGGGGC
1 CTCTTGAACG-ATGGGAGGGGA
* * *
102908 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGATGGGAGGGGA
102929 CTCTTGA
1 CTCTTGA
102936 GGGATGACAG
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGA
Found at i:102909 original size:42 final size:42
Alignment explanation
Indices: 102863--102942 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
102853 TGATGACAGT
* *
102863 GGCCTCTTGAACGATGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
102905 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
102943 CAGGCGAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:103400 original size:19 final size:19
Alignment explanation
Indices: 103376--103459 Score: 79
Period size: 19 Copynumber: 4.7 Consensus size: 19
103366 GCAACGAGAG
*
103376 AATCGCAACGAGAAATGAA
1 AATCGCAACGCGAAATGAA
*
103395 AATCGCAA--CG--AT-AG
1 AATCGCAACGCGAAATGAA
*
103409 AATTGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
**
103428 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATGAA
*
103447 AATTGCAACGCGA
1 AATCGCAACGCGA
103460 TTATAGTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
14 8 0.15
15 2 0.04
16 2 0.04
17 1 0.02
18 2 0.04
19 37 0.71
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:103403 original size:33 final size:33
Alignment explanation
Indices: 103366--103437 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
103356 AATGACTATT
103366 GCAACGAGAGAATCGCAACGAGAAATGAAAATC
1 GCAACGAGAGAATCGCAACGAGAAATGAAAATC
* * *
103399 GCAACGATAGAATTGCAACGCGAAATGAAAATC
1 GCAACGAGAGAATCGCAACGAGAAATGAAAATC
103432 GCAACG
1 GCAACG
103438 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GCAACGAGAGAATCGCAACGAGAAATGAAAATC
Found at i:103478 original size:19 final size:19
Alignment explanation
Indices: 103456--103495 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
103446 AAATTGCAAC
103456 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
103475 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
103494 GC
1 GC
103496 AATTTTGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.30, T:0.42
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:103513 original size:33 final size:33
Alignment explanation
Indices: 103471--103597 Score: 155
Period size: 33 Copynumber: 3.8 Consensus size: 33
103461 TATAGTTTCG
** * * *
103471 CGTTGCGATTTTGGTTTCGCGTTGCAATTTTGT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
*
103504 CGTTGCGATTTTCATTTTGCGTTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
* * * * *
103537 CGTTGTGATTTTTATTTCTCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
103570 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
103598 AGTCATTTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
Found at i:103594 original size:19 final size:19
Alignment explanation
Indices: 103466--103637 Score: 68
Period size: 19 Copynumber: 9.7 Consensus size: 19
103456 GCGATTATAG
**
103466 TTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTTTCA
*
103485 TTTCGCGTTGC-AATTT--
1 TTTCGCGTTGCGATTTTCA
*
103501 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
103518 TTTTGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
* * *
103534 TAT--CGTTGTGATTTTTA
1 TTTCGCGTTGCGATTTTCA
* *
103551 TTTCTCATTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
103567 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
**
103584 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
* *
103603 TTTTTCACGTTGCGATTTTAA
1 --TTTCGCGTTGCGATTTTCA
*
103624 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
103638 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 22, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
14 23 0.20
15 4 0.04
16 9 0.08
17 9 0.08
18 4 0.04
19 39 0.34
20 11 0.10
21 15 0.13
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:103918 original size:94 final size:92
Alignment explanation
Indices: 103756--103939 Score: 287
Period size: 94 Copynumber: 2.0 Consensus size: 92
103746 AGTTTAGTTT
* * *
103756 AACCAAAAGACAAAACAAAGACAAATAGTATTTAACAGTGTTAAAGAATACACAGTTTAGCAGAA
1 AACCAAAAGACAAAACAAAGACAAATACTACTTAACAGTGTTAAAGAATAAACAGTTTAGCAGAA
103821 TTGGCAGCAACCGAATAAATTTACTTC
66 TTGGCAGCAACCGAATAAATTTACTTC
* *
103848 AACCAAAAGACAAAACAAAAGATAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
1 AACCAAAAGACAAAAC-AAAGACAAATACT-ACTTAACAGTGTTAAAGAATAAACAGTTTAGCAG
* *
103913 TATTGGCAGCAACTGAATAAATTTACT
64 AATTGGCAGCAACCGAATAAATTTACT
103940 AAGCAATCTA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 16 0.19
93 11 0.13
94 56 0.67
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (92 bp):
AACCAAAAGACAAAACAAAGACAAATACTACTTAACAGTGTTAAAGAATAAACAGTTTAGCAGAA
TTGGCAGCAACCGAATAAATTTACTTC
Found at i:105621 original size:33 final size:33
Alignment explanation
Indices: 105581--105688 Score: 155
Period size: 33 Copynumber: 3.3 Consensus size: 33
105571 TCTTTTGGTT
*
105581 GAAATGAAAATCGCAACGAGAGAATCAAAATGC
1 GAAATGAAAATCGCAACGAGAGAATCAAAACGC
*
105614 GAAATGAAAATCGCAACGAGAGAAT-AGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCA-AAACGC
* **
105647 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCAAAACGC
105680 GAAATGAAA
1 GAAATGAAA
105689 TCTAAGTGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
32 1 0.01
33 67 0.99
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCAAAACGC
Found at i:106064 original size:20 final size:20
Alignment explanation
Indices: 106036--106214 Score: 186
Period size: 20 Copynumber: 8.8 Consensus size: 20
106026 GAAAAATAAA
106036 ATACGCGTTGCGATTTACGG
1 ATACGCGTTGCGATTTACGG
* *
106056 ATACTCGTTGCGA--TA-GTC
1 ATACGCGTTGCGATTTACG-G
*
106074 ATAATCGCGTTGCGATTTACGT
1 AT-A-CGCGTTGCGATTTACGG
* *
106096 ATTCTCGTTGCGATTTACGG
1 ATACGCGTTGCGATTTACGG
106116 ATACGCGTTGCGATTTACGG
1 ATACGCGTTGCGATTTACGG
*
106136 ATACGCATTGCGATTTACGG
1 ATACGCGTTGCGATTTACGG
106156 ATACGCGTTGCGATTTTTACGG
1 ATACGCGTTGCGA--TTTACGG
* * * *
106178 ATACTCGTTGCGATAGTAAGA
1 ATACGCGTTGCGAT-TTACGG
106199 AT-CGCGTTGCGATTTA
1 ATACGCGTTGCGATTTA
106215 TATGTTCGCG
Statistics
Matches: 133, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
17 1 0.01
18 4 0.03
19 3 0.02
20 96 0.72
21 5 0.04
22 23 0.17
23 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
ATACGCGTTGCGATTTACGG
Found at i:106223 original size:20 final size:20
Alignment explanation
Indices: 106200--106335 Score: 91
Period size: 20 Copynumber: 6.8 Consensus size: 20
106190 ATAGTAAGAA
*
106200 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
106220 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
** * *
106240 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATT-TTCATAT
* **
106261 TCACAATGCGAATTTGT-ACTA-
1 TCGCGTTGCG-ATTT-TCA-TAT
* *
106282 TCGCATTGCGATTTTTAT-T
1 TCGCGTTGCGATTTTCATAT
* *
106301 TCGCATTGCGATTTTAATAT
1 TCGCGTTGCGATTTTCATAT
106321 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
106336 GTTGGTCATT
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.21
20 50 0.53
21 20 0.21
22 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:106229 original size:82 final size:82
Alignment explanation
Indices: 106035--106252 Score: 196
Period size: 82 Copynumber: 2.7 Consensus size: 82
106025 TGAAAAATAA
* * * * * *
106035 AATACGCGTTGCGATTTACGGATACTCGTTGCGATAGT-CATA-ATCGCGTTGCGA--TTTACGT
1 AATACGCGTTGCGATTTAAGGATACGCATTGCGAT-TTACAGATA-CGCGTTGCGATTTTTACGG
* * *
106096 ATTCTCGTTGCGATTTACG
64 ATACTCGTTGCGATGTAAG
* * *
106115 GATACGCGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGATTTTTACGGAT
1 AATACGCGTTGCGATTTAAGGATACGCATTGCGATTTACAGATACGCGTTGCGATTTTTACGGAT
106180 ACTCGTTGCGATAGTAAG
66 ACTCGTTGCGAT-GTAAG
* * * * * *
106198 AAT-CGCGTTGCGATTTATATG-TTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 AATACGCGTTGCGATTTA-AGGATACGCATTGCGATTTACAGATACGCGTTGCGATT
106253 CTGGAAAATC
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 44 0.39
81 1 0.01
82 61 0.54
83 6 0.05
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (82 bp):
AATACGCGTTGCGATTTAAGGATACGCATTGCGATTTACAGATACGCGTTGCGATTTTTACGGAT
ACTCGTTGCGATGTAAG
Found at i:106306 original size:19 final size:20
Alignment explanation
Indices: 106282--106335 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
106272 ATTTGTACTA
*
106282 TCGCATTGCGATTTTTAT-T
1 TCGCATTGCGATTTTAATAT
106301 TCGCATTGCGATTTTAATAT
1 TCGCATTGCGATTTTAATAT
*
106321 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
106336 GTTGGTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (20 bp):
TCGCATTGCGATTTTAATAT
Found at i:107270 original size:37 final size:37
Alignment explanation
Indices: 107158--107276 Score: 150
Period size: 37 Copynumber: 3.1 Consensus size: 37
107148 TCCTTATTGA
* *
107158 TTTACTGAACTTTAATCTCTTTCGATCGAGTCTTCTC
1 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
*
107195 TTTATTGAA-TTTAATAGTAACCTCTTTCGATCGGGTCTTCTC
1 TTTATTGAACTTT-AT--T---CTCTTTCGATCGAGTCTTCTC
107237 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
1 TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
107274 TTT
1 TTT
107277 TATTATTTAC
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
36 3 0.04
37 32 0.45
39 1 0.01
40 1 0.01
42 31 0.44
43 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (37 bp):
TTTATTGAACTTTATTCTCTTTCGATCGAGTCTTCTC
Found at i:116497 original size:24 final size:24
Alignment explanation
Indices: 116462--116533 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
116452 GATACATTAC
116462 CTGAATTCTATTCTGATTTCTGAT
1 CTGAATTCTATTCTGATTTCTGAT
* * *
116486 CTGGATTTTATTCTGATATCTGAT
1 CTGAATTCTATTCTGATTTCTGAT
* *
116510 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTATTCTGATTTCTGAT
116534 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.51
Consensus pattern (24 bp):
CTGAATTCTATTCTGATTTCTGAT
Found at i:118290 original size:13 final size:13
Alignment explanation
Indices: 118247--118293 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
118237 TTTTTTTAGG
118247 AATTATTATTTAA
1 AATTATTATTTAA
*
118260 AACTATCT-TTTAAA
1 AATTAT-TATTT-AA
*
118274 AATTATTATTTAG
1 AATTATTATTTAA
118287 AATTATT
1 AATTATT
118294 TCTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (13 bp):
AATTATTATTTAA
Found at i:120219 original size:24 final size:24
Alignment explanation
Indices: 120192--120239 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
120182 AAAAATGCAT
120192 GGTTAGGCTGTTAAGTAAATCTGA
1 GGTTAGGCTGTTAAGTAAATCTGA
120216 GGTTAGGCTGTTAAGTAAATCTGA
1 GGTTAGGCTGTTAAGTAAATCTGA
120240 CCAATCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (24 bp):
GGTTAGGCTGTTAAGTAAATCTGA
Found at i:123291 original size:32 final size:32
Alignment explanation
Indices: 123206--123283 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 32
123196 GGTTAATATC
**
123206 GGGTCAGGTCAATACCAGATTTGTTGATTTTT
1 GGGTCAGGTCAATACCAGATCGGTTGATTTTT
*
123238 GGGTC-GGATTAATACCAGATCGGTTAGA-TTTT
1 GGGTCAGG-TCAATACCAGATCGGTT-GATTTTT
123270 GGGTCAGGTCAATA
1 GGGTCAGGTCAATA
123284 TCGGATCGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.05
32 33 0.85
33 4 0.10
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (32 bp):
GGGTCAGGTCAATACCAGATCGGTTGATTTTT
Found at i:124039 original size:116 final size:116
Alignment explanation
Indices: 123780--124037 Score: 455
Period size: 116 Copynumber: 2.2 Consensus size: 116
123770 TGTTTTATAC
* * *
123780 TATTTTTATTATAAATCTAATATTTTTATAACAAGTAAGATAAGTCAACTTTATTTATTCATGTT
1 TATTTTTATTATAAATCTAATATTTTTATAACAAGTAAGATAAGTAAACTTTATTTATTAATATT
*
123845 TTCAATCTTACAATTAGATTCTTACTTTTATATTCTTCTTAAACATTCTAT
66 TTCAATCTTACAATTAGATTCTTACTTTTATATTCCTCTTAAACATTCTAT
123896 TATTTTTATTATAAATCTAATATTTTTATAACAAGTAAGATAAGTAAACTTTATTTATTAATATT
1 TATTTTTATTATAAATCTAATATTTTTATAACAAGTAAGATAAGTAAACTTTATTTATTAATATT
* *
123961 TTCAATCTTACAATTAGATTCTTACTTTTATATTCCTCTTAAACTTTTTAT
66 TTCAATCTTACAATTAGATTCTTACTTTTATATTCCTCTTAAACATTCTAT
124012 TA-TTTTATTATAAATCTAATATTTTT
1 TATTTTTATTATAAATCTAATATTTTT
124038 TAATAAATTA
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 24 0.18
116 112 0.82
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (116 bp):
TATTTTTATTATAAATCTAATATTTTTATAACAAGTAAGATAAGTAAACTTTATTTATTAATATT
TTCAATCTTACAATTAGATTCTTACTTTTATATTCCTCTTAAACATTCTAT
Found at i:124190 original size:33 final size:32
Alignment explanation
Indices: 124139--124241 Score: 118
Period size: 32 Copynumber: 3.2 Consensus size: 32
124129 GGTTTCGGGT
**
124139 CGGGTTAAATTCAATTTGGGTTGCTTTCAG-A
1 CGGGTTAAATTCGGTTTGGGTTGCTTTCAGTA
* *
124170 TTGGGTTAAAATTCGGTTTGGGTTTCTTTCAGTA
1 -CGGGTT-AAATTCGGTTTGGGTTGCTTTCAGTA
* * *
124204 CGGGTTAATTTCGGTTTGGGTTGCTTTCGGTT
1 CGGGTTAAATTCGGTTTGGGTTGCTTTCAGTA
124236 CGGGTT
1 CGGGTT
124242 GCTTTTGTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
32 33 0.55
33 26 0.43
34 1 0.02
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.44
Consensus pattern (32 bp):
CGGGTTAAATTCGGTTTGGGTTGCTTTCAGTA
Found at i:124224 original size:16 final size:16
Alignment explanation
Indices: 124170--124241 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
124160 TGCTTTCAGA
*
124170 TTGGGTTAAAATTCGGT
1 TTGGGTT-AATTTCGGT
** *
124187 TTGGGTTTCTTTCAGT
1 TTGGGTTAATTTCGGT
**
124203 ACGGGTTAATTTCGGT
1 TTGGGTTAATTTCGGT
**
124219 TTGGGTTGCTTTCGGT
1 TTGGGTTAATTTCGGT
*
124235 TCGGGTT
1 TTGGGTT
124242 GCTTTTGTTC
Statistics
Matches: 41, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
16 34 0.83
17 7 0.17
ACGTcount: A:0.11, C:0.11, G:0.32, T:0.46
Consensus pattern (16 bp):
TTGGGTTAATTTCGGT
Found at i:124253 original size:15 final size:16
Alignment explanation
Indices: 124181--124255 Score: 71
Period size: 16 Copynumber: 4.8 Consensus size: 16
124171 TGGGTTAAAA
* *
124181 TTCGGTTTGGGTTTCT
1 TTCGGTTCGGGTTGCT
* * **
124197 TTCAGTACGGGTTAAT
1 TTCGGTTCGGGTTGCT
*
124213 TTCGGTTTGGGTTGCT
1 TTCGGTTCGGGTTGCT
124229 TTCGGTTCGGGTTGCT
1 TTCGGTTCGGGTTGCT
*
124245 TT-TGTTCGGGT
1 TTCGGTTCGGGT
124256 AAATTTCAGT
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
15 8 0.17
16 39 0.83
ACGTcount: A:0.05, C:0.13, G:0.33, T:0.48
Consensus pattern (16 bp):
TTCGGTTCGGGTTGCT
Found at i:125305 original size:2 final size:2
Alignment explanation
Indices: 125288--125569 Score: 119
Period size: 2 Copynumber: 141.0 Consensus size: 2
125278 TTAAAACAAT
125288 TA TA -A TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
125327 TA TA TA TA TA TA TA T- TA TA TA CTA TA TA TA AA CTA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* * * * * *
125369 TG TA AA CTA TA TA CTA TA TA AA CTA TG TA -A TT TA TA TT TA TGA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A
* * *
125412 -A CTA TA TA TA AA T- TA TA TA TGA -A CA -A TA TA TA AA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA
* * * *
125451 TA AA TA AA T- TA TA TA GTT TA TA TA TA TA TA CTA TT TA TGA -A
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA T-A TA
* * * *
125492 T- TA TA TA TA GA CTA TA TA GTT TA T- TA -A TA GA AA CTA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * *
125532 -A TT TT TA TA TT TA TA CTA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
125570 AAAACTATAC
Statistics
Matches: 211, Mismatches: 37, Indels: 64
0.68 0.12 0.21
Matches are distributed among these distances:
1 16 0.08
2 175 0.83
3 20 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:125305 original size:10 final size:11
Alignment explanation
Indices: 125286--125635 Score: 97
Period size: 11 Copynumber: 33.0 Consensus size: 11
125276 AATTAAAACA
125286 ATTATA-ATAT
1 ATTATATATAT
125296 ATTA-ATATAT
1 ATTATATATAT
125306 A-TATATATAT
1 ATTATATATAT
125316 A-TATATATAT
1 ATTATATATAT
125326 A-TATATATAT
1 ATTATATATAT
125336 A-TATATTATAT
1 ATTATA-TATAT
* *
125347 ACTATATATAA
1 ATTATATATAT
*
125358 ACTATATA-AT
1 ATTATATATAT
*
125368 ATGTAAACTATAT
1 AT-TATA-TATAT
*
125381 ACTATATA-A-
1 ATTATATATAT
* *
125390 ACTATGTA-AT
1 ATTATATATAT
*
125400 -TTATATTTAT
1 ATTATATATAT
* *
125410 GAACTATATATAA
1 --ATTATATATAT
125423 ATTATATATGA-
1 ATTATATAT-AT
** *
125434 ACAATATATAA
1 ATTATATATAT
* *
125445 ACTATATAAATAA
1 A-T-TATATATAT
*
125458 ATTATATAGTTT
1 ATTATATA-TAT
125470 A-TATATATAT
1 ATTATATATAT
* *
125480 ACTATTTATGA-
1 ATTATATAT-AT
*
125491 ATTATATATAG
1 ATTATATATAT
* *
125502 ACTATATAGTTT
1 ATTATATA-TAT
* *
125514 ATTA-ATAGAA
1 ATTATATATAT
*
125524 ACTATATA-AT
1 ATTATATATAT
125534 -TT-T-TATAT
1 ATTATATATAT
125542 -TTATACTATAT
1 ATTATA-TATAT
125553 A-TATATATAT
1 ATTATATATAT
* *
125563 A-TATATAAAA
1 ATTATATATAT
* *
125573 ACTATACA-AT
1 ATTATATATAT
125583 -TTAT-TA-AT
1 ATTATATATAT
*
125591 GAATTATATATAA
1 --ATTATATATAT
*
125604 ATTATATATAA
1 ATTATATATAT
* *
125615 ACTATTTATAT
1 ATTATATATAT
125626 A-TATATATAT
1 ATTATATATAT
125636 TACATAGTTT
Statistics
Matches: 260, Mismatches: 47, Indels: 66
0.70 0.13 0.18
Matches are distributed among these distances:
7 2 0.01
8 8 0.03
9 20 0.08
10 77 0.30
11 114 0.44
12 20 0.08
13 19 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (11 bp):
ATTATATATAT
Found at i:125325 original size:22 final size:22
Alignment explanation
Indices: 125288--125635 Score: 119
Period size: 22 Copynumber: 16.0 Consensus size: 22
125278 TTAAAACAAT
125288 TATA-ATATAT-TA-ATATATA
1 TATATATATATATATATATATA
125307 TATATATATATATATATATATA
1 TATATATATATATATATATATA
125329 TATATATATATAT-TATATACTA
1 TATATATATATATATATATA-TA
* *
125351 TATATAAACTATATA-ATATGTA
1 TATATATA-TATATATATATATA
* * *
125373 AACTATATACTATATAAACTATGTA
1 TA-TATATA-TATATATA-TATATA
* *
125398 -ATTTATATTTATGA-ACTATATA
1 TATATATATATAT-ATA-TATATA
* *
125420 TAAAT-TATATATGA-ACA-ATA
1 TATATATATATAT-ATATATATA
* * *
125440 TATAAACTATATAAATAAAT-TA
1 TATATA-TATATATATATATATA
* *
125462 TATAGTTTATATATATATACTATT
1 TATA-TATATATATATATA-TATA
*
125486 TATGA-AT-TATATATAGACTATA
1 TAT-ATATATATATATATA-TATA
* * *
125508 TAGTTTAT-TA-ATAGAAACTATA
1 TA-TATATATATATATATA-TATA
* * *
125530 TA-ATTTTTATATTTATACTATA
1 TATATATATATATATATA-TATA
* *
125552 TATATATATATATATATAAAAA
1 TATATATATATATATATATATA
* *
125574 CTATACA-ATTTAT-TA-ATGA-A
1 -TATATATATATATATATAT-ATA
*
125594 T-TATATATAAAT-TATATATA
1 TATATATATATATATATATATA
* *
125614 AACTATTTATATATATATATAT
1 TA-TATATATATATATATATAT
125636 TACATAGTTT
Statistics
Matches: 252, Mismatches: 45, Indels: 60
0.71 0.13 0.17
Matches are distributed among these distances:
18 3 0.01
19 12 0.05
20 19 0.08
21 15 0.06
22 130 0.52
23 60 0.24
24 6 0.02
25 7 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (22 bp):
TATATATATATATATATATATA
Found at i:125363 original size:9 final size:9
Alignment explanation
Indices: 125351--125394 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
125341 TTATATACTA
125351 TATATAAAC
1 TATATAAAC
125360 TATAT-AA-
1 TATATAAAC
*
125367 TATGTAAAC
1 TATATAAAC
125376 TATAT--AC
1 TATATAAAC
125383 TATATAAAC
1 TATATAAAC
125392 TAT
1 TAT
125395 GTAATTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
7 11 0.38
8 4 0.14
9 14 0.48
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:125405 original size:25 final size:23
Alignment explanation
Indices: 125353--125398 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
125343 ATATACTATA
*
125353 TATAAACTATATAATATGTAAAC
1 TATATACTATATAATATGTAAAC
125376 TATATACTATATAAACTATGTAA
1 TATATACTATAT-AA-TATGTAA
125399 TTTATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (23 bp):
TATATACTATATAATATGTAAAC
Found at i:125588 original size:71 final size:68
Alignment explanation
Indices: 125448--125635 Score: 164
Period size: 71 Copynumber: 2.6 Consensus size: 68
125438 TATATAAACT
* * * * * *
125448 ATATAAATAAATTATATAGTTTATA-TATATATACTATTTATGAATTATATATAGACTATATAGT
1 ATATATATAAA-T-TATA-TTTATACTATATATA-TATATAT--A-TATATAAAAACTATACAAT
125512 TTATTAATAGA
59 TTATTAAT-GA
*
125523 A-ACTATATAATTTTTATATTTATACTATATATATATATATATATATAAAAACTATACAATTTAT
1 ATA-TATATAA--ATTATATTTATACTATATATATATATATATATATAAAAACTATACAATTTAT
125587 TAATGA
63 TAATGA
* * *
125593 ATTATATATAAATTATATATAAACTATTTATATATATATATAT
1 A-TATATATAAATTATATTTATACTATATATATATATATATAT
125636 TACATAGTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
69 28 0.29
70 3 0.03
71 30 0.31
72 2 0.02
74 13 0.14
75 19 0.20
76 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (68 bp):
ATATATATAAATTATATTTATACTATATATATATATATATATATAAAAACTATACAATTTATTAA
TGA
Found at i:125613 original size:13 final size:13
Alignment explanation
Indices: 125595--125684 Score: 51
Period size: 13 Copynumber: 6.9 Consensus size: 13
125585 ATTAATGAAT
125595 TATATATAAATTA
1 TATATATAAATTA
125608 TATATA-AACTATT-
1 TATATATAA--ATTA
*
125621 TATATATATA-TA
1 TATATATAAATTA
* **
125633 TATTACATAGTTTA
1 TA-TATATAAATTA
* * *
125647 CATATATGAACTA
1 TATATATAAATTA
*
125660 TATATATAAACTA
1 TATATATAAATTA
*
125673 TATAAATAAATT
1 TATATATAAATT
125685 CAAAGTATAT
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
11 1 0.02
12 5 0.09
13 44 0.77
14 7 0.12
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (13 bp):
TATATATAAATTA
Found at i:125753 original size:20 final size:20
Alignment explanation
Indices: 125730--125767 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
125720 TACTATAGTT
125730 TATA-TTTATATAATATATAC
1 TATAGTTTATAT-ATATATAC
125750 TATAGTTTATATATATAT
1 TATAGTTTATATATATAT
125768 GTGTGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAGTTTATATATATATAC
Found at i:125848 original size:20 final size:20
Alignment explanation
Indices: 125823--125882 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
125813 AAATTCAAAG
125823 TATATACTATAGTTTATA-TT
1 TATATA-TATAGTTTATAGTT
125843 TATATATTATA-TATTATAGTT
1 TATATA-TATAGT-TTATAGTT
125864 TATATTTATATAGTTTATA
1 TATA--TATATAGTTTATA
125883 CTATACGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 6 0.18
22 9 0.26
23 3 0.09
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TATATATATAGTTTATAGTT
Found at i:125855 original size:15 final size:15
Alignment explanation
Indices: 125830--125882 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
125820 AAGTATATAC
125830 TATAGTTTATATTTA
1 TATAGTTTATATTTA
*
125845 TATA--TTATATAT-
1 TATAGTTTATATTTA
125857 TATAGTTTATATTTA
1 TATAGTTTATATTTA
125872 TATAGTTTATA
1 TATAGTTTATA
125883 CTATACGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 4 0.12
13 7 0.21
14 7 0.21
15 15 0.45
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TATAGTTTATATTTA
Found at i:125855 original size:27 final size:28
Alignment explanation
Indices: 125823--125887 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
125813 AAATTCAAAG
125823 TATATACTATAGTTTATATTTATATA-T
1 TATATACTATAGTTTATATTTATATAGT
*
125850 TATATATTATAGTTTATATTTATATAGT
1 TATATACTATAGTTTATATTTATATAGT
125878 T-TATACTATA
1 TATATACTATA
125888 CGAATTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (28 bp):
TATATACTATAGTTTATATTTATATAGT
Found at i:125882 original size:7 final size:6
Alignment explanation
Indices: 125830--125874 Score: 54
Period size: 7 Copynumber: 6.8 Consensus size: 6
125820 AAGTATATAC
125830 TATAGTT TATATT TATATAT TATATAT TATAGTT TATATT TATAT
1 TATA-TT TATATT TATAT-T TATAT-T TATA-TT TATATT TATAT
125875 AGTTTATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 14 0.39
7 21 0.58
8 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (6 bp):
TATATT
Found at i:127455 original size:31 final size:31
Alignment explanation
Indices: 127417--127480 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
127407 CTAAAAATAC
127417 TTTAAATACTTAATATGAACGAATGATATAA
1 TTTAAATACTTAATATGAACGAATGATATAA
*
127448 TTTAAATATTTAATATGAACGAATGATATAA
1 TTTAAATACTTAATATGAACGAATGATATAA
127479 TT
1 TT
127481 CACATGGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (31 bp):
TTTAAATACTTAATATGAACGAATGATATAA
Found at i:127479 original size:18 final size:18
Alignment explanation
Indices: 127427--127479 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
127417 TTTAAATACT
127427 TAATATGAACGAATGATA
1 TAATATGAACGAATGATA
* *
127445 TAAT-T-TA--AAT-ATT
1 TAATATGAACGAATGATA
127458 TAATATGAACGAATGATA
1 TAATATGAACGAATGATA
127476 TAAT
1 TAAT
127480 TCACATGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 6 0.23
14 4 0.15
15 1 0.04
16 1 0.04
17 4 0.15
18 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (18 bp):
TAATATGAACGAATGATA
Found at i:127962 original size:22 final size:22
Alignment explanation
Indices: 127937--127978 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
127927 ATTTGAGGTA
127937 ATGA-TTTTAGGGTTTAAGATTT
1 ATGAGTTTT-GGGTTTAAGATTT
*
127959 ATGAGTTTTGGGTTTGAGAT
1 ATGAGTTTTGGGTTTAAGAT
127979 AAAACGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
ATGAGTTTTGGGTTTAAGATTT
Found at i:135567 original size:22 final size:21
Alignment explanation
Indices: 135542--135583 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
135532 TAAATATGCA
135542 TTTAGTAC-CTAACATGTTAAAT
1 TTTAGTACTCT-ACA-GTTAAAT
135564 TTTAGTACTCTACAGTTAAA
1 TTTAGTACTCTACAGTTAAA
135584 AACTTAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTAGTACTCTACAGTTAAAT
Found at i:136715 original size:25 final size:24
Alignment explanation
Indices: 136661--136715 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
136651 AAAATCACCA
136661 ATTTTTTAAAATAAAAGTCATAATT
1 ATTTTTTAAAATAAAAG-CATAATT
*
136686 ATTTTTTAAAAATAATA-CATAATT
1 ATTTTTT-AAAATAAAAGCATAATT
*
136710 GTTTTT
1 ATTTTT
136716 ACGAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 7 0.26
26 8 0.30
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTTTTAAAATAAAAGCATAATT
Found at i:141796 original size:30 final size:30
Alignment explanation
Indices: 141761--141822 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
141751 ATAAAACTCG
*
141761 AATTTAAATTTAAATTTCTCTTAATTCCAA
1 AATTTAAATTTAAATTTCTCTGAATTCCAA
* *
141791 AATTTAAATTTAAGTTTCTCTGAATTTCAA
1 AATTTAAATTTAAATTTCTCTGAATTCCAA
141821 AA
1 AA
141823 ACCAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTTAAATTTAAATTTCTCTGAATTCCAA
Found at i:151237 original size:39 final size:40
Alignment explanation
Indices: 151175--151260 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
151165 ATAATGAAAA
151175 AAAGAAAACAACGACAAATGATTTGATGATGATGTTAATC
1 AAAGAAAACAACGACAAATGATTTGATGATGATGTTAATC
*
151215 AAAGAAAA-ATCGAC-AATCGATTTGATGATGATGTTAATC
1 AAAGAAAACAACGACAAAT-GATTTGATGATGATGTTAATC
*
151254 GAAGAAA
1 AAAGAAA
151261 GATTTAAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 3 0.07
39 32 0.74
40 8 0.19
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAGAAAACAACGACAAATGATTTGATGATGATGTTAATC
Found at i:153649 original size:41 final size:41
Alignment explanation
Indices: 153592--153686 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
153582 GCGGGCTTTA
*
153592 GCGGGTTTAACGGGTAGCCCGCGGTTATACCCATTAAACCC
1 GCGGGTTTAACGGGTAGCCCGCGCTTATACCCATTAAACCC
*
153633 GCGGGTTTAACGGGTAGCCCGTGCTTATACCCATTAAACCC
1 GCGGGTTTAACGGGTAGCCCGCGCTTATACCCATTAAACCC
153674 GCGGGTTTAACGG
1 GCGGGTTTAACGG
153687 TCCGAGCTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.23
Consensus pattern (41 bp):
GCGGGTTTAACGGGTAGCCCGCGCTTATACCCATTAAACCC
Found at i:154327 original size:22 final size:21
Alignment explanation
Indices: 154299--154358 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 21
154289 AATATGTGAA
154299 GGAATTGAAATCTGAAGGAATT
1 GGAATTG-AATCTGAAGGAATT
*
154321 GGAATTGGAATATGAAGGAATT
1 GGAATT-GAATCTGAAGGAATT
154343 GGAATCTGAATCTGAA
1 GGAAT-TGAATCTGAA
154359 ACCTGTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.27
Consensus pattern (21 bp):
GGAATTGAATCTGAAGGAATT
Found at i:154340 original size:16 final size:16
Alignment explanation
Indices: 154321--154352 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
154311 TGAAGGAATT
154321 GGAATTGGAATATGAA
1 GGAATTGGAATATGAA
*
154337 GGAATTGGAATCTGAA
1 GGAATTGGAATATGAA
154353 TCTGAAACCT
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:0.41, C:0.03, G:0.31, T:0.25
Consensus pattern (16 bp):
GGAATTGGAATATGAA
Found at i:155004 original size:33 final size:33
Alignment explanation
Indices: 154920--155009 Score: 90
Period size: 38 Copynumber: 2.5 Consensus size: 33
154910 TTTTCACCCT
*
154920 AAACCCGAACCCGACCCAAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCAAATACCACACTTAAAA
* * *
154954 AAATCCAATCTAACCCGACCCGAATACCATACTTAAAA
1 AAA-CC---C-GACCCGACCCAAATACCACACTTAAAA
154992 AAACCCGACCCGACCCAA
1 AAACCCGACCCGACCCAA
155010 TCCCGATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
33 10 0.22
34 4 0.09
35 2 0.04
37 2 0.04
38 27 0.60
ACGTcount: A:0.44, C:0.37, G:0.07, T:0.12
Consensus pattern (33 bp):
AAACCCGACCCGACCCAAATACCACACTTAAAA
Found at i:164293 original size:114 final size:114
Alignment explanation
Indices: 163718--165176 Score: 1646
Period size: 114 Copynumber: 12.9 Consensus size: 114
163708 AGGTCGATAT
* * * *
163718 TCGATCGAGCCTTAGCTCAGTTGATATATGT-GTATCGT-AAAAATGGTGGGTTTTCTTGACT-G
1 TCGATCGAGTCTTAGCTCAGTTGATAGAT-TCGGATCGTAAAAAATGGTGGGTTTTCTT-AATAG
* * *
163780 GTTGCTAGAATTGTGTACAATATGTGTGAGCCTAACCCTTTTGATCAATAG
64 ATTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * ** *
163831 TAGATCGAGTCTTAGCTCACTTGATAGATTCGGGTTATAAAAAAATGGTGGGATTTCTTAATAGA
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAAATGGTGGGTTTTCTTAATAGA
*
163896 TTGCTAGAAGCCTAGATTTGTGTTCAATATGTGTAAGCCTAACCCTTCTGATCAATAG
65 TTGCT---AG---A-A-TTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * **
163954 TCGATCGAGTC-TAGCTCAGTTGATAGATTTGGATTGTAAAAAAATGGT-TATTTT-TTAATAGA
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAAATGGTGGGTTTTCTTAATAGA
* * * *
164016 TTGCTAGAACTGTCTACAATATGTGCAAGTCTAACCCTTCTGATC-A-AG
65 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * * *
164064 TTGATCGAGTCTTAGCTCGGTTGATATATTCGGATTGTAAAAAATGGTGGATTTT-TTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
* *
164128 TGCTAG-ACTGTCTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
66 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* **
164176 TCGATCGAGTCTTAGCTCAGTTGATAGATTCAGATAATAAAAAATGGTGGGTTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
* *
164241 TGCTAGAATTGTGTAGAATATGTGTAAGCCTAACTCTTCTGATCAATAG
66 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* **
164290 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGTATTATAAAAAATGGTGGGTTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
** * *
164355 TGCTAGAACTAATGTAGAACATGTGTAAGCCTAA-CCTTCTGATCAATAG
66 TGCTAGAA-TTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * *
164404 TCAATCGAGTCTTAGCTCAGTTGATAGATTCAGATCGT-AAAAATGCTGGGGTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
*
164468 TGCTAGATTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
66 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* **
164517 TCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
* * * *
164582 TACTAGAATTGTGTAGAACATGTGTAAGCCTAACTCTTCTGATCAATAG
66 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * *
164631 TCGATCGAGTCTTAGCTCAGTTGATAGATTTGGGTCGT-AAAAATGGT-GGTTTTTTTAATATAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
** *
164694 TGCTAGAAATAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAATAG
66 TGCTAG-AATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* *
164744 TCAATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
* *
164809 TGCTAGAATTGTGTACAATATGTGTAAACCTAACCCTTATGATCAATAG
66 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * *
164858 TCGATTGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGTGTTTTTTGTAATAGA
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCT-TAATAGA
* * * * * * *
164923 TAGCTAGAACTGTGTACAATATGTGTAAGCCTAACCATACCGGTCAATAA
65 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * * * * * *
164973 TCGATTGAGTCTTA-ATTAATTGATACG-TTCGAATTGT-AAAAATGGTGGGTTTCTTTTACT-G
1 TCGATCGAGTCTTAGCTCAGTTGATA-GATTCGGATCGTAAAAAATGGTGGGTTT-TCTTAATAG
* * * * * *
165034 ATTGCTAGAACTGTG--C-ACA---GTAAGCCTAACCCTACTGGTTAATAA
64 ATTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* ** * * * * * *
165079 TCGATTGAGTCTTAATTCAATTGATACG-TTCGAATTGT-AAAAATGGAGAGTTTCCTTAACT-G
1 TCGATCGAGTCTTAGCTCAGTTGATA-GATTCGGATCGTAAAAAATGGTGGGTTTTCTTAA-TAG
* *
165141 ATTGCTAGAAATGTGTAC---ATGTGTGAGCCTAACCCT
64 ATTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCT
165177 ACAGGTGGAA
Statistics
Matches: 1180, Mismatches: 132, Indels: 71
0.85 0.10 0.05
Matches are distributed among these distances:
106 40 0.03
107 51 0.04
109 3 0.00
110 71 0.06
111 45 0.04
112 137 0.12
113 225 0.19
114 377 0.32
115 128 0.11
117 2 0.00
118 2 0.00
120 13 0.01
121 4 0.00
122 34 0.03
123 48 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (114 bp):
TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGTTTTCTTAATAGAT
TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
Found at i:164482 original size:227 final size:228
Alignment explanation
Indices: 163718--165176 Score: 1666
Period size: 227 Copynumber: 6.4 Consensus size: 228
163708 AGGTCGATAT
* * * * *
163718 TCGATCGAGCCTTAGCTCAGTTGATATATGT-GTATCGTAAAAATGGTGGGTTTTCTTGACT-GG
1 TCGATCGAGTCTTAGCTCAGTTGATAGAT-TCGGATCGTAAAAATGGTGGGTTTTCTT-AATAGA
* * *
163781 TTGCTAGAATTGTGTACAATATGTGTGAGCCTAACCCTTTTGATCAATAGTAGATCGAGTCTTAG
64 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAG
* * *
163846 CTCACTTGATAGATTCGGGTTATAAAAAAATGGTGGGATTTCTTAATAGATTGCTAGAAGCCTAG
129 CTCAGTTGATAGATTCGGATTAT-AAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAA--CTAG
163911 ATTTGT-GTTCAATATGTGTAAGCCTAACCCTTCTGATCAATAG
191 ---TGTAG---AATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * **
163954 TCGATCGAGTC-TAGCTCAGTTGATAGATTTGGATTGTAAAAAAATGGT-TATTTT-TTAATAGA
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT--AAAAATGGTGGGTTTTCTTAATAGA
* * * * *
164016 TTGCTAGAACTGTCTACAATATGTGCAAGTCTAACCCTTCTGATC-A-AGTTGATCGAGTCTTAG
64 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAG
* * * * *
164079 CTCGGTTGATATATTCGGATTGTAAAAAATGGTGGATTTT-TTAATAGATTGCTAG-ACT-GTCT
129 CTCAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAGTGT
*
164141 ACAATATGTGTAAGCCTAACCCTTCTGATCAATAG
194 AGAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* **
164176 TCGATCGAGTCTTAGCTCAGTTGATAGATTCAGATAATAAAAAATGGTGGGTTTTCTTAATAGAT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAATGGTGGGTTTTCTTAATAGAT
* *
164241 TGCTAGAATTGTGTAGAATATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGC
65 TGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGC
* *
164306 TCAGTTGATAGATTCGTATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAATGTA
130 TCAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAGTGTA
*
164371 GAACATGTGTAAGCCTAA-CCTTCTGATCAATAG
195 GAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * *
164404 TCAATCGAGTCTTAGCTCAGTTGATAGATTCAGATCGTAAAAATGCTGGGGTTTCTTAATAGATT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATT
* *
164469 GCTAGATTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCT
66 GCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCT
* *
164534 CAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTACTAGAA-TTGTGTAG
131 CAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAGTGTAG
* *
164598 AACATGTGTAAGCCTAACTCTTCTGATCAATAG
196 AATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * * *
164631 TCGATCGAGTCTTAGCTCAGTTGATAGATTTGGGTCGTAAAAATGGT-GGTTTTTTTAATATATT
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATT
** * *
164695 GCTAGAAATAATGTACAACATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGC
66 GCTAG-AATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGC
** * *
164760 TCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGCTAGAA-TTGTGTA
130 TCAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAGTGTA
* * *
164824 CAATATGTGTAAACCTAACCCTTATGATCAATAG
195 GAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* * *
164858 TCGATTGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGTGTTTTTTGTAATAGA
1 TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGT-AAAAATGGTGGGTTTTCT-TAATAGA
* * * * * * * *
164923 TAGCTAGAACTGTGTACAATATGTGTAAGCCTAACCATACCGGTCAATAATCGATTGAGTCTTA-
64 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAG
* * * * * * *
164987 ATTAATTGATACG-TTCGAATTGT-AAAAATGGTGGGTTTCTTTTACT-GATTGCTAGAAC---T
129 CTCAGTTGATA-GATTCGGATTATAAAAAATGGTGGGTTT-TCTTAATAGATTGCTAGAACTAGT
* * * * * *
165046 GT-GCACA---GTAAGCCTAACCCTACTGGTTAATAA
192 GTAGAATATGTGTAAGCCTAACCCTTCTGATCAATAG
* ** * * * * * *
165079 TCGATTGAGTCTTAATTCAATTGATACG-TTCGAATTGTAAAAATGGAGAGTTTCCTTAACT-GA
1 TCGATCGAGTCTTAGCTCAGTTGATA-GATTCGGATCGTAAAAATGGTGGGTTTTCTTAA-TAGA
* *
165142 TTGCTAGAAATGTGTAC---ATGTGTGAGCCTAACCCT
64 TTGCTAGAATTGTGTACAATATGTGTAAGCCTAACCCT
165177 ACAGGTGGAA
Statistics
Matches: 1072, Mismatches: 128, Indels: 66
0.85 0.10 0.05
Matches are distributed among these distances:
216 16 0.01
219 20 0.02
220 15 0.01
221 51 0.05
222 55 0.05
223 26 0.02
224 51 0.05
225 4 0.00
226 93 0.09
227 416 0.39
228 85 0.08
229 73 0.07
230 13 0.01
231 15 0.01
232 15 0.01
233 34 0.03
234 4 0.00
235 63 0.06
236 14 0.01
237 9 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (228 bp):
TCGATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAATGGTGGGTTTTCTTAATAGATT
GCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCT
CAGTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAGTGTAG
AATATGTGTAAGCCTAACCCTTCTGATCAATAG
Found at i:164535 original size:341 final size:341
Alignment explanation
Indices: 163721--165045 Score: 1723
Period size: 341 Copynumber: 3.9 Consensus size: 341
163711 TCGATATTCG
* * * * * *
163721 ATCGAGCCTTAGCTCAGTTGATATATGT-GTATCGT-AAAAATGGTGGGTTTTCTTGACT-GGTT
1 ATCGAGTCTTAGCTCAGTTGATAGAT-TCGGATCGTAAAAAATGGTGGGGTTTCTT-AATAGATT
* *
163783 GCTAGAATTGTGTACAATATGTGTGAGCCTAACCCTTTTGATCAATAGT-AGATCGAGTCTTAGC
64 GCTAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCA-ATCGAGTCTTAGC
* * *
163847 TCACTTGATAGATTCGGGTTATAAAAAAATGGTGGGATTTCTTAATAGATTGCTAGAAGCCTAGA
128 TCAGTTGATAGATTCGGATTAT-AAAAAATGGTGGGTTTTCTTAATAGATTGCT---AG---A-A
* *
163912 TTTGTGTTCAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTC-TAGCTCAGTTG
185 -TTGTGTACAATATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTG
* * * *
163976 ATAGATTTGGATTGTAAAAAAATGGT--TATTTTTTAATAGATTGCTAGAACT-GTCTACAATAT
249 ATAGATTCGGATTGT--AAAAATGGTGGT-TTTTTTAATAGATTGCTAGAACTAATGTACAACAT
* * **
164038 GTGCAAGTCTAACCCTTCTGATC-A-AGTTG
311 GTGTAAGCCTAACCCTTCTGATCAATAGTCA
* * * * *
164067 ATCGAGTCTTAGCTCGGTTGATATATTCGGATTGTAAAAAATGGT-GGATTTTTTAATAGATTGC
1 ATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGC
* * *
164131 TAG-ACTGTCTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCGATCGAGTCTTAGCTCA
66 TAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCA
* * *
164195 GTTGATAGATTCAGATAATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTAGAAT
131 GTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAAT
*
164260 ATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGTAT
196 ATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGAT
* * *
164325 TATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAACTAATGTAGAACATGTGTAAGCCTAA-
261 TGT-AAAAATGGT-GGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAAC
164389 CCTTCTGATCAATAGTCA
324 CCTTCTGATCAATAGTCA
* *
164407 ATCGAGTCTTAGCTCAGTTGATAGATTCAGATCGT-AAAAATGCTGGGGTTTCTTAATAGATTGC
1 ATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGC
*
164471 TAGATTTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCA
66 TAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCA
* * *
164536 GTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTACTAGAATTGTGTAGAAC
131 GTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAAT
* *
164601 ATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTTGGGT
196 ATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGAT
* * *
164666 CGTAAAAATGGTGGTTTTTTTAATATATTGCTAGAAATAATGTACAACATGTGTAAGCCTAACCC
261 TGTAAAAATGGTGGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCC
164731 TTCTGATCAATAGTCA
326 TTCTGATCAATAGTCA
164747 ATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGC
1 ATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGC
* * * *
164812 TAGAATTGTGTACAATATGTGTAAACCTAACCCTTATGATCAATAGTCGATTGAGTCTTAGCTCA
66 TAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCA
** * * * *
164877 GTTGATAGATTCGGATCGTAAAAAATGGTGTGTTTTTTGTAATAGATAGCTAGAACTGTGTACAA
131 GTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCT-TAATAGATTGCTAGAATTGTGTACAA
* * * * * * * *
164942 TATGTGTAAGCCTAAC-CATACCGGTCAATAATCGATTGAGTCTTA-ATTAATTGATACG-TTCG
195 TATGTGTAAGCCTAACTC-TTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATA-GATTCG
* *
165004 AATTGTAAAAATGGTGGGTTTCTTTTACT-GATTGCTAGAACT
258 GATTGTAAAAATGGT-GGTTT-TTTTAATAGATTGCTAGAACT
165046 GTGCACAGTA
Statistics
Matches: 871, Mismatches: 88, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
336 59 0.07
337 24 0.03
338 33 0.04
339 73 0.08
340 115 0.13
341 329 0.38
342 76 0.09
343 6 0.01
344 30 0.03
345 73 0.08
346 44 0.05
347 9 0.01
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (341 bp):
ATCGAGTCTTAGCTCAGTTGATAGATTCGGATCGTAAAAAATGGTGGGGTTTCTTAATAGATTGC
TAGAATTGTGTACAATATGTGTAAGCCTAACCCTTCTGATCAATAGTCAATCGAGTCTTAGCTCA
GTTGATAGATTCGGATTATAAAAAATGGTGGGTTTTCTTAATAGATTGCTAGAATTGTGTACAAT
ATGTGTAAGCCTAACTCTTCTGATCAATAGTCGATCGAGTCTTAGCTCAGTTGATAGATTCGGAT
TGTAAAAATGGTGGTTTTTTTAATAGATTGCTAGAACTAATGTACAACATGTGTAAGCCTAACCC
TTCTGATCAATAGTCA
Found at i:165089 original size:106 final size:108
Alignment explanation
Indices: 164946--165178 Score: 344
Period size: 107 Copynumber: 2.2 Consensus size: 108
164936 GTACAATATG
*
164946 TGTAAGCCTAACCATACCGGTCAATAATCGATTGAGTCTTAATT-AATTGATACGTTCGAATTGT
1 TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
* * * * *
165010 AAAAATGGTGGGTTTCTTTTACTGATTGCTAGAACTGTGCACA
66 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
* *
165053 -GTAAGCCTAACCCTACTGGTTAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
1 TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
*
165117 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGTACA
66 AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
*
165160 TGTGTGAGCCTAACCCTAC
1 --TGTAAGCCTAACCCTAC
165179 AGGTGGAATG
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
106 40 0.36
107 57 0.51
110 15 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (108 bp):
TGTAAGCCTAACCCTACCGGTCAATAATCGATTGAGTCTTAATTCAATTGATACGTTCGAATTGT
AAAAATGGAGAGTTTCCTTAACTGATTGCTAGAAATGTGCACA
Found at i:176553 original size:29 final size:30
Alignment explanation
Indices: 176501--176572 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
176491 ATTTTAAAAT
* *
176501 TATATTTTATTTTTGTTTTAACTTATTAAA
1 TATATTTTATTTTTGTATAAACTTATTAAA
176531 TATATTTTATTTTT-TATAAACTTATTAAA
1 TATATTTTATTTTTGTATAAACTTATTAAA
176560 TAT-TTTTATTTTT
1 TATATTTTATTTTT
176573 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 10 0.25
29 16 0.40
30 14 0.35
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (30 bp):
TATATTTTATTTTTGTATAAACTTATTAAA
Found at i:176596 original size:29 final size:29
Alignment explanation
Indices: 176496--176625 Score: 111
Period size: 29 Copynumber: 4.4 Consensus size: 29
176486 CTTAAATTTT
*
176496 AAAATTATATTTTATTTTTGTTTTAACTTA
1 AAAAATATATTTTATTTTT-TTTTAACTTA
** * *
176526 TTAAATATATTTTATTTTTTATAAACTTA
1 AAAAATATATTTTATTTTTTTTTAACTTA
**
176555 TTAAATAT-TTTTATTTTTATTTTAA-TTA
1 AAAAATATATTTTATTTTT-TTTTAACTTA
* * ** *
176583 AAAAATATATTTTATCTTATCATCACTTA
1 AAAAATATATTTTATTTTTTTTTAACTTA
176612 AAAATATATATTTT
1 AAAA-ATATATTTT
176626 TAAATATATT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 22 0.27
29 35 0.43
30 25 0.30
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.57
Consensus pattern (29 bp):
AAAAATATATTTTATTTTTTTTTAACTTA
Found at i:176665 original size:29 final size:29
Alignment explanation
Indices: 176627--176696 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
176617 ATATATTTTT
* **
176627 AAATATATTTTATTCTTATCTTCACTTAA
1 AAATATATTTTATTCTTATCTTAAAATAA
* *
176656 AAATATATTTTATTTTTATTTTAAAATAA
1 AAATATATTTTATTCTTATCTTAAAATAA
176685 AAATATATTTTA
1 AAATATATTTTA
176697 CCATTATCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTCTTATCTTAAAATAA
Found at i:177076 original size:2 final size:2
Alignment explanation
Indices: 177071--177096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
177061 CTAAGATACA
177071 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
177097 TATTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:186600 original size:21 final size:21
Alignment explanation
Indices: 186552--186600 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 21
186542 ATAGCATGGA
*
186552 TGATCCTACTAGTTGGAATCTGC
1 TGATCCTACTAGTTGGAA--TAC
186575 TGATCCTAACTAGTTGGAA-AC
1 TGATCCT-ACTAGTTGGAATAC
186596 TGATC
1 TGATC
186601 ATTTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATCCTACTAGTTGGAATAC
Found at i:187515 original size:53 final size:54
Alignment explanation
Indices: 187452--187609 Score: 232
Period size: 53 Copynumber: 2.9 Consensus size: 54
187442 ATTATTTATC
*
187452 GAATGCTTTGTTACTCGTGTTTGATATGTATGTCCGACACCACCTCGAGCT-AG
1 GAATGCTTTGTTACTCGTGTTTGATATGTGTGTCCGACACCACCTCGAGCTGAG
* *
187505 GAATGCTTTGTTACTCGTGTTTGATATGTGTGTCCGACACCACGTCGAGTTTGAG
1 GAATGCTTTGTTACTCGTGTTTGATATGTGTGTCCGACACCACCTCGAG-CTGAG
* *
187560 GAATGCTTTGTTACTCGTGTTCGAT-TCGTGTGTCCGACACCAAC-CGAGCT
1 GAATGCTTTGTTACTCGTGTTTGATAT-GTGTGTCCGACACCACCTCGAGCT
187610 CGAGTTACGT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
53 48 0.51
54 6 0.06
55 41 0.43
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (54 bp):
GAATGCTTTGTTACTCGTGTTTGATATGTGTGTCCGACACCACCTCGAGCTGAG
Found at i:199068 original size:192 final size:193
Alignment explanation
Indices: 198729--199102 Score: 608
Period size: 192 Copynumber: 1.9 Consensus size: 193
198719 CTTTTGTTAG
* *
198729 AGCAATTTAACCCAACGTTTCAATTTTTTGGTCAAAACAGTTCCTGTCGGATGAAAATAGTTAGT
1 AGCAATTTAACCCAACGTTTCAATTTTTTAGTCAAAACAATTCCTGTCGGATGAAAATAGTTAGT
* * * *
198794 TAACCGATAATCAATATGTGTTATTGATATGACATTTTTACATGTATTTAATTGATGGCATGACA
66 TAACCGATAATCAATACGTATTATTGATATGACATTTTCACATGTATTTAATTGATAGCATGACA
* *
198859 TGTGTCAAAATACTCAAAGTTATAATGTCGCATACGTTATATCACCTAAAGTAATGTTTTTAA
131 CGTGTCAAAACACTCAAAGTTATAATGTCGCATACGTTATATCACCTAAAGTAATGTTTTTAA
* *
198922 AGCACTTTAACCCAACGTTTCAA-TTTTTAGTCAAAATAATTCCTGAT-GGATGAAAATAGTTAG
1 AGCAATTTAACCCAACGTTTCAATTTTTTAGTCAAAACAATTCCTG-TCGGATGAAAATAGTTAG
* * *
198985 TTGACTGATAATTAATACGTATTATTGATATGACATTTTCACATGTATTTAATTGATAGCATGAC
65 TTAACCGATAATCAATACGTATTATTGATATGACATTTTCACATGTATTTAATTGATAGCATGAC
199050 ACGTGTCAAAACACTCAAAGTTATAATGTCGCATACGTTATATCACCTAAAGT
130 ACGTGTCAAAACACTCAAAGTTATAATGTCGCATACGTTATATCACCTAAAGT
199103 GACGTTGTGA
Statistics
Matches: 167, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
192 144 0.86
193 23 0.14
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (193 bp):
AGCAATTTAACCCAACGTTTCAATTTTTTAGTCAAAACAATTCCTGTCGGATGAAAATAGTTAGT
TAACCGATAATCAATACGTATTATTGATATGACATTTTCACATGTATTTAATTGATAGCATGACA
CGTGTCAAAACACTCAAAGTTATAATGTCGCATACGTTATATCACCTAAAGTAATGTTTTTAA
Found at i:201604 original size:13 final size:13
Alignment explanation
Indices: 201586--201612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
201576 CATAGTAGAA
201586 CAGTCTTCATATG
1 CAGTCTTCATATG
201599 CAGTCTTCATATG
1 CAGTCTTCATATG
201612 C
1 C
201613 GCGTCTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:203285 original size:11 final size:11
Alignment explanation
Indices: 203249--203298 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
203239 GAGACTCGAG
203249 CTCGATTCAAA
1 CTCGATTCAAA
*
203260 CACGATTCAAA
1 CTCGATTCAAA
*
203271 CTCGATTCAAG
1 CTCGATTCAAA
*
203282 CTCGAACTCAAA
1 CTCG-ATTCAAA
203294 CTCGA
1 CTCGA
203299 ATTTGAACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (11 bp):
CTCGATTCAAA
Found at i:203380 original size:14 final size:14
Alignment explanation
Indices: 203328--203390 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
203318 TTATATTACA
*
203328 TTTAAAAATAT-AT
1 TTTAATAATATAAT
*
203341 TTTAAAAATTTATAAT
1 TTTAATAA--TATAAT
* *
203357 TATCAATAATATATT
1 T-TTAATAATATAAT
203372 TTTAATAATATAAT
1 TTTAATAATATAAT
203386 TTTAA
1 TTTAA
203391 AAAATCTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
13 8 0.20
14 16 0.39
15 9 0.22
16 3 0.07
17 5 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAATAATATAAT
Found at i:203418 original size:45 final size:44
Alignment explanation
Indices: 203328--203419 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 44
203318 TTATATTACA
* * *
203328 TTTAAAAATATATTTTAAAAATTTATAATTATCAATAATATATT
1 TTTAAAAATATATTTTAAAAATCTAAAATTATCAATAATACATT
*
203372 TTTAATAATATAATTTTAAAAAATCTAAAATTAT-AAT-ATAACATT
1 TTTAAAAATAT-ATTTT-AAAAATCTAAAATTATCAATAAT-ACATT
203417 TTT
1 TTT
203420 TCTAGTAGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 12 0.29
45 15 0.37
46 14 0.34
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (44 bp):
TTTAAAAATATATTTTAAAAATCTAAAATTATCAATAATACATT
Found at i:203420 original size:46 final size:44
Alignment explanation
Indices: 203328--203420 Score: 107
Period size: 46 Copynumber: 2.1 Consensus size: 44
203318 TTATATTACA
* * * *
203328 TTTAAAAATATATTTTAAAAATTTATAATTATCAATAATATATT
1 TTTAAAAATATATTTTAAAAATCTAAAATTATAAATAACATATT
*
203372 TTTAATAATATAATTTTAAAAAATCTAAAATTATAATATAACAT-TT
1 TTTAAAAATAT-ATTTT-AAAAATCTAAAATTATAA-ATAACATATT
203418 TTT
1 TTT
203421 CTAGTAGCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.24
45 5 0.12
46 20 0.49
47 6 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (44 bp):
TTTAAAAATATATTTTAAAAATCTAAAATTATAAATAACATATT
Found at i:206187 original size:2 final size:2
Alignment explanation
Indices: 206180--206207 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
206170 AAACTGAAGC
206180 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
206208 CAAACAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:210906 original size:84 final size:82
Alignment explanation
Indices: 210767--210922 Score: 249
Period size: 84 Copynumber: 1.9 Consensus size: 82
210757 GCCTATCCTA
* *
210767 GGGGTGCCTCATTTTCTCTTTAGTTCATAGTATATATAAATAATGAAGAGCAAGTATACGCTTAT
1 GGGGTGCCTCATTTTCTCTTTAGTTCATAGTATATATAAATAACGAAGACCAAGTATACGCTTAT
210832 ACTAATTTAGTAGTTGT
66 ACTAATTTAGTAGTTGT
* * *
210849 GGGGTGCCTCATTTTTTTTCTTTAGTTCATAGTATATATAAGTAACGAAGACCAAGTATATGCTT
1 GGGGTGCCTCA--TTTTCTCTTTAGTTCATAGTATATATAAATAACGAAGACCAAGTATACGCTT
210914 ATACTAATT
64 ATACTAATT
210923 CTGTTAAGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
82 11 0.16
84 56 0.84
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (82 bp):
GGGGTGCCTCATTTTCTCTTTAGTTCATAGTATATATAAATAACGAAGACCAAGTATACGCTTAT
ACTAATTTAGTAGTTGT
Found at i:214701 original size:2 final size:2
Alignment explanation
Indices: 214690--214720 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
214680 ATTGCACTAC
214690 AT AT -T 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
214721 TTGATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:214759 original size:22 final size:24
Alignment explanation
Indices: 214733--214792 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
214723 GATTTTTTGT
214733 TTTTGTTATTTTTTTTAC-TTT-C
1 TTTTGTTATTTTTTTTACTTTTCC
*
214755 TTTTGTTATTTTCTTTTTCTTTTCC
1 TTTTGTTATTTT-TTTTACTTTTCC
214780 TTTTGTTATTTTT
1 TTTTGTTATTTTT
214793 CATTTGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.35
23 5 0.15
24 4 0.12
25 13 0.38
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (24 bp):
TTTTGTTATTTTTTTTACTTTTCC
Found at i:214791 original size:14 final size:13
Alignment explanation
Indices: 214751--214804 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
214741 TTTTTTTTAC
214751 TTTCTTTTGTTAT
1 TTTCTTTTGTTAT
214764 TTTCTTTT-TCT-T
1 TTTCTTTTGT-TAT
*
214776 TTCCTTTTGTTATT
1 TTTCTTTTGTTA-T
*
214790 TTTCATTTGTTAT
1 TTTCTTTTGTTAT
214803 TT
1 TT
214805 ACAAAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
12 10 0.29
13 13 0.38
14 11 0.32
ACGTcount: A:0.07, C:0.11, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTCTTTTGTTAT
Found at i:229892 original size:230 final size:230
Alignment explanation
Indices: 229443--230150 Score: 867
Period size: 230 Copynumber: 3.0 Consensus size: 230
229433 CCCAGCCCTT
* *
229443 TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCCTGGTACGTTTATCTCAATCTTTGATTCTT
1 TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCGTGGTATGTTTATCTCAATCTTTGATT-TT
* * * *
229508 TTCCCGCTTAATATTTTAGTATTATTAGTTATGTTCGCTTCAAATCATTTGAATTTTATGTGAAT
65 TT-TCGCTTAATATTTTAGTATTATTAGTTAT-TGCGCTTTAAATCATTTGAAATTTATGTGAAT
* * * *
229573 TACGAGTTTTAAAAAGAATGCATATAGGTGACGGTTGTGATAATGAATT-AAGCTTTCTACAAGA
128 TACGAGTTTGAAAAA-AATACATATAGGTGACGGTTGTGATAACGAATTGAAGTTTTCTACAAGA
* *
229637 TACGGTTCCTGTGGATGATAACAATGTTCCAACTGAAGA
192 TACGGTTCCTGTAGATGATAACAATGTTCCAATTGAAGA
* * * * * * *
229676 TGAATTTGACTATCAGTTACCCGATTCTCCATGTCGTGGTATGTTTATCGCGATCTTTGATTTTT
1 TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCGTGGTATGTTTATCTCAATCTTTGATTTTT
* * *
229741 TTGGCTTAATATTGTAGTATTATTAGTTATTGACGCTTTAAATTATTTGAAATTTATGTGAATTA
66 TTCGCTTAATATTTTAGTATTATTAGTTATTG-CGCTTTAAATCATTTGAAATTTATGTGAATTA
*
229806 CGAGTTTGAAAAAAATACATATAGGTGACGGTTGTGATAACGAATTGAA-TTTTCTTCAAGATAC
130 CGAGTTTGAAAAAAATACATATAGGTGACGGTTGTGATAACGAATTGAAGTTTTCTACAAGATAC
229870 GGTTCCTGTAGATGATAACAATGTTCCAATTGAAGA
195 GGTTCCTGTAGATGATAACAATGTTCCAATTGAAGA
229906 TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCGTGGTATGTTTATCTCAATCTTTG--TTTT
1 TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCGTGGTATGTTTATCTCAATCTTTGATTTTT
* * * * *
229969 TTCACTTAATATTTTAGTATTGGTT-GTT-TATGC-TTTTAAATCATTTGCAATTTATATGAATT
66 TTCGCTTAATATTTTAGTATT-ATTAGTTAT-TGCGCTTTAAATCATTTGAAATTTATGTGAATT
* * * * * *
230031 ATGGGATTGAAAAAAATACATATAGGTGACAG--ATGATAACGAGGATGGTGTTGAATTAAACTT
129 ACGAGTTTGAAAAAAATACATATAGGTGACGGTTGTGATAACGA--A-----TTGAAGT----TT
* *
230094 TCTACAAGATACGGTTCCTGTAGATGATAACAATGTTTCAATTGAGGA
183 TCTACAAGATACGGTTCCTGTAGATGATAACAATGTTCCAATTGAAGA
230142 TGAATTTGA
1 TGAATTTGA
230151 GATTCGATGT
Statistics
Matches: 413, Mismatches: 46, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
224 9 0.02
226 54 0.13
227 2 0.00
228 27 0.07
229 2 0.00
230 131 0.32
231 74 0.18
232 5 0.01
233 53 0.13
236 56 0.14
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (230 bp):
TGAATTTGATTCTCAGTTTCCCGATTCTCCTTTTCGTGGTATGTTTATCTCAATCTTTGATTTTT
TTCGCTTAATATTTTAGTATTATTAGTTATTGCGCTTTAAATCATTTGAAATTTATGTGAATTAC
GAGTTTGAAAAAAATACATATAGGTGACGGTTGTGATAACGAATTGAAGTTTTCTACAAGATACG
GTTCCTGTAGATGATAACAATGTTCCAATTGAAGA
Found at i:230891 original size:145 final size:145
Alignment explanation
Indices: 230658--230920 Score: 436
Period size: 145 Copynumber: 1.8 Consensus size: 145
230648 TTTCTATCAC
* * *
230658 TTGTTCATGGTCGGGAATGATTGATTTTCTTGATACGTTGTGGCTCTATTTGAATCAACTACTAT
1 TTGTTCATGGTAGGGAATGATCGACTTTCTTGATACGTTGTGGCTCTATTTGAATCAACTACTAT
* * * *
230723 TTAATGTCTTAGGGGATTAATTGATTTTGGTTTGCGGTTTGATAAACTTTGAACCTGGTAATTTT
66 TTAATGTCTTAGGGGATCAATTGAATTTGATTAGCGGTTTGATAAACTTTGAACCTGGTAATTTT
230788 CTATGGCATGTTCAA
131 CTATGGCATGTTCAA
* *
230803 TTGTTCATGGTAGGGAATGCTCGACTTTCTTGATACGTTGTGGCTCTATTTGATTCAACTACTAT
1 TTGTTCATGGTAGGGAATGATCGACTTTCTTGATACGTTGTGGCTCTATTTGAATCAACTACTAT
*
230868 TTAATGTCTTAGGGGATCAATTGAATTTGATTAGTGGTTTGATAAACTTTGAA
66 TTAATGTCTTAGGGGATCAATTGAATTTGATTAGCGGTTTGATAAACTTTGAA
230921 GCGATTTCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
145 108 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (145 bp):
TTGTTCATGGTAGGGAATGATCGACTTTCTTGATACGTTGTGGCTCTATTTGAATCAACTACTAT
TTAATGTCTTAGGGGATCAATTGAATTTGATTAGCGGTTTGATAAACTTTGAACCTGGTAATTTT
CTATGGCATGTTCAA
Found at i:236111 original size:59 final size:60
Alignment explanation
Indices: 235999--236111 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 60
235989 TCTAGGGCAT
* * *
235999 TACTTTATTGAGTCATCTTACTAATAAAAAGTTATAAAATGATCCCATGACTATAGGTAG
1 TACTTTATTGAGTCATCTTACTAATAAAAAGTTACAAAATAATCCCATAACTATAGGTAG
* * *
236059 TACTTTGTTGAGTCCT-TTGACT-ATTAAAAGTTACAAAATAATCACC-TAACTAT
1 TACTTTATTGAGTCATCTT-ACTAATAAAAAGTTACAAAATAATC-CCATAACTAT
236112 TCATATGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
59 26 0.58
60 19 0.42
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (60 bp):
TACTTTATTGAGTCATCTTACTAATAAAAAGTTACAAAATAATCCCATAACTATAGGTAG
Found at i:240076 original size:2 final size:2
Alignment explanation
Indices: 240069--240103 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
240059 CTTGTATTTC
240069 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
240104 TTGATTAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:244049 original size:28 final size:28
Alignment explanation
Indices: 244016--244073 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
244006 TTTAATACAC
*
244016 ATATTAATACGTAAATTTAGAATAATGA
1 ATATTAATACGTAAATTTAAAATAATGA
244044 ATATTAATACGTAAATTTAAAATAATGA
1 ATATTAATACGTAAATTTAAAATAATGA
244072 AT
1 AT
244074 TCTATGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (28 bp):
ATATTAATACGTAAATTTAAAATAATGA
Found at i:245227 original size:17 final size:17
Alignment explanation
Indices: 245205--245243 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
245195 GACCCATCCA
245205 GCCCAAAATCCAAACCG
1 GCCCAAAATCCAAACCG
*
245222 GCCC-AAATCTAAACCG
1 GCCCAAAATCCAAACCG
*
245238 ACCCAA
1 GCCCAA
245244 CCAGGCCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.41, C:0.41, G:0.10, T:0.08
Consensus pattern (17 bp):
GCCCAAAATCCAAACCG
Found at i:245546 original size:2 final size:2
Alignment explanation
Indices: 245539--245576 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
245529 TTATATTTTA
245539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
245577 TAGGATATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.