Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_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: 1596068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:9708 original size:18 final size:17
Alignment explanation
Indices: 9663--9726 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 17
9653 TATTACACTT
9663 AAAAA-AAA-AAAAAA-
1 AAAAAGAAAGAAAAAAG
* *
9677 AAAAAAAAAAAAAAAAG
1 AAAAAGAAAGAAAAAAG
* *
9694 AAAAGGAAATGAAAAATG
1 AAAAAGAAA-GAAAAAAG
9712 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
9727 GGAGGGTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.12
15 3 0.07
16 6 0.15
17 13 0.32
18 14 0.34
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAAG
Found at i:9716 original size:1 final size:1
Alignment explanation
Indices: 9663--9697 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
9653 TATTACACTT
*
9663 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9698 GGAAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:10846 original size:87 final size:87
Alignment explanation
Indices: 10648--11195 Score: 838
Period size: 87 Copynumber: 6.3 Consensus size: 87
10638 CCAGACTTCC
* * * *
10648 TCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTTATCACGTAGGAACCGAGTT
1 TCATCACGTAAGAGCCGTGTCAAC-CT--GATAACCAGCCGTCCTCATCACGTAGGAACCGTG-T
10713 ATCACCTCACCTTTAGATGGCCAGATCTCT
62 -T-A--TCACCTTTAGATGGCCAGATCTCT
10743 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
10808 ACCTTTAGATGGCCAGATCTCT
66 ACCTTTAGATGGCCAGATCTCT
10830 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
10895 ACCTTTAGATGGCCAGATCTCT
66 ACCTTTAGATGGCCAGATCTCT
10917 TC-TCACGTAAGAGCCGTGTCAA-CTGA-AACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
10979 ACCTTTAGATGGCCAGATCTCT
66 ACCTTTAGATGGCCAGATCTCT
11001 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
11066 ACCTTTAGATGGCCAGATCTCT
66 ACCTTTAGATGGCCAGATCTCT
* *
11088 TCATCACGTAAGAGCCGTGTCAACCTGATAACCA---GTCCTCATTACGTAGGAACCGAGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
** * * * *
11150 ATCCCTAAAAATGACCAGATTTCC
66 A--CCTTTAGATGGCCAGATCTCT
* *
11174 TCATCACGTAGGAGCCATGTCA
1 TCATCACGTAAGAGCCGTGTCA
11196 CCCTTAGACG
Statistics
Matches: 434, Mismatches: 14, Indels: 19
0.93 0.03 0.04
Matches are distributed among these distances:
84 87 0.20
85 24 0.06
86 59 0.14
87 205 0.47
89 1 0.00
90 1 0.00
91 1 0.00
92 32 0.07
94 1 0.00
95 23 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (87 bp):
TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
ACCTTTAGATGGCCAGATCTCT
Found at i:10983 original size:171 final size:174
Alignment explanation
Indices: 10648--11195 Score: 838
Period size: 171 Copynumber: 3.1 Consensus size: 174
10638 CCAGACTTCC
* * * *
10648 TCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTTATCACGTAGGAACCGAGTT
1 TCATCACGTAAGAGCCGTGTCAAC-CT--GATAACCAGCCGTCCTCATCACGTAGGAACCGTG-T
10713 ATCACCTCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCAG
62 -T-A--TCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCAG
10778 CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
123 CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
10830 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
10895 ACCTTTAGATGGCCAGATCTCTTC-TCACGTAAGAGCCGTGTCAA-CTGA-AACCAGCCGTCCTC
66 ACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTC
10957 ATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
131 ATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
11001 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
11066 ACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCA---GTCCTC
66 ACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTC
* * ** * * * *
11128 ATTACGTAGGAACCGAGTTATCATCCCTAAAAATGACCAGATTTCC
131 ATCACGTAGGAACCGTGTTATCA--CCTTTAGATGGCCAGATCTCT
* *
11174 TCATCACGTAGGAGCCATGTCA
1 TCATCACGTAAGAGCCGTGTCA
11196 CCCTTAGACG
Statistics
Matches: 347, Mismatches: 14, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
171 174 0.50
172 24 0.07
173 59 0.17
174 31 0.09
176 1 0.00
177 1 0.00
178 1 0.00
179 32 0.09
181 1 0.00
182 23 0.07
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (174 bp):
TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
ACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTC
ATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
Found at i:11183 original size:258 final size:264
Alignment explanation
Indices: 10635--11195 Score: 879
Period size: 258 Copynumber: 2.1 Consensus size: 264
10625 CAACATCAAC
* *
10635 TGACCAGACTTCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTTATCACG
1 TGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACA-TA-GATAACCAGCCGTCCTCATCACG
10700 TAGGAACCGAGTTATCACCTCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCA
64 TAGGAACCGAGTTATCA-CTCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCA
10765 ACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
128 ACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCT
*
10830 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
193 TCATCACGTAAGAGCCGTGTCAACCTGATAACCA--CGTCCTCATCACGTAGGAACCGAGTTATC
** *
10895 ACCTTTAGA
256 ACCTAAAAA
* * * *
10904 TGGCCAGATCTCTTC-TCACGTAAGAGCCGTGTCAAC-T-GA-AACCAGCCGTCCTCATCACGTA
1 TGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACATAGATAACCAGCCGTCCTCATCACGTA
*
10965 GGAACCGTG-T-T-A-TCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACC
66 GGAACCGAGTTATCACTCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACC
11026 TGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCTTCA
131 TGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCTTCA
*
11091 TCACGTAAGAGCCGTGTCAACCTGATAACCA-GTCCTCATTACGTAGGAACCGAGTTATCATCCC
196 TCACGTAAGAGCCGTGTCAACCTGATAACCACGTCCTCATCACGTAGGAACCGAGTTATCA--CC
11155 TAAAAA
259 TAAAAA
*
11161 TGACCAGATTTCCTCATCACGTAGGAGCCATGTCA
1 TGACCAGATTTCCTCATCACGTAGGAGCCGTGTCA
11196 CCCTTAGACG
Statistics
Matches: 272, Mismatches: 17, Indels: 17
0.89 0.06 0.06
Matches are distributed among these distances:
255 27 0.10
257 17 0.06
258 162 0.60
260 1 0.00
261 1 0.00
262 1 0.00
263 29 0.11
264 2 0.01
266 1 0.00
268 20 0.07
269 11 0.04
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (264 bp):
TGACCAGATTTCCTCATCACGTAGGAGCCGTGTCAACATAGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACTCACCTTTAGATGGCCAGATCTCTTCATCACGTAAGAGCCGTGTCAACC
TGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCTTCA
TCACGTAAGAGCCGTGTCAACCTGATAACCACGTCCTCATCACGTAGGAACCGAGTTATCACCTA
AAAA
Found at i:11397 original size:3 final size:3
Alignment explanation
Indices: 11391--11444 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
11381 GTTTTTTTCG
*
11391 TTA TTA TTA TTA TTA TTA TTA -TA TTA TCA TATA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
11435 TTA TTTA TTA
1 TTA -TTA TTA
11445 CAATTTTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11608 original size:25 final size:25
Alignment explanation
Indices: 11574--11772 Score: 355
Period size: 25 Copynumber: 8.0 Consensus size: 25
11564 CCAACAACCC
*
11574 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
*
11599 ATCAATTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
11624 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
11649 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
11674 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
11699 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
*
11724 ATCAATTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
*
11749 ATCAATTTAGGGTTTC-AACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
11773 TCCCCTTCCA
Statistics
Matches: 170, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
24 8 0.05
25 162 0.95
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (25 bp):
ATCAGTTTAGGGTTTCAAACCCTAA
Found at i:16577 original size:16 final size:16
Alignment explanation
Indices: 16558--16592 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16548 TATATATATA
16558 TATGTAAACATAAAAT
1 TATGTAAACATAAAAT
* *
16574 TATGTACATATAAAAT
1 TATGTAAACATAAAAT
16590 TAT
1 TAT
16593 ATTTATCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (16 bp):
TATGTAAACATAAAAT
Found at i:16947 original size:5 final size:5
Alignment explanation
Indices: 16931--16974 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
16921 AATCAGGATA
* *
16931 AATAT AAAAT AATAT AATAT AAAAT AATAT ATATTAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT A-A-TAT AATAT AA
16975 ATCTTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 27 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:16971 original size:15 final size:15
Alignment explanation
Indices: 16931--16961 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16921 AATCAGGATA
16931 AATATAAAATAATAT
1 AATATAAAATAATAT
16946 AATATAAAATAATAT
1 AATATAAAATAATAT
16961 A
1 A
16962 TATTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATAAAATAATAT
Found at i:19414 original size:20 final size:21
Alignment explanation
Indices: 19366--19420 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
19356 GAGTAGCTCG
* *
19366 TTAATTTTTTTTATAATTTTA
1 TTAATTTATTTTATAAATTTA
*
19387 GTAA-TTATTTTA-AAATTTA
1 TTAATTTATTTTATAAATTTA
*
19406 TTAATTTATTATATA
1 TTAATTTATTTTATA
19421 TAATGAAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 9 0.33
20 14 0.52
21 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTAATTTATTTTATAAATTTA
Found at i:20380 original size:17 final size:19
Alignment explanation
Indices: 20353--20395 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
20343 TAATTAAAAG
20353 ATAAT-TATTAAAATT-TA
1 ATAATATATTAAAATTCTA
*
20370 A-AATATATTAATATTCTA
1 ATAATATATTAAAATTCTA
20388 ATAATATA
1 ATAATATA
20396 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 3 0.14
19 6 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATATATTAAAATTCTA
Found at i:20441 original size:51 final size:45
Alignment explanation
Indices: 20380--20506 Score: 125
Period size: 51 Copynumber: 2.7 Consensus size: 45
20370 AAATATATTA
*
20380 ATATTCTAATAATATAATATATATTTTTAATATTATAATAAATAATCAATT
1 ATATTATAATAATATAATATATATTTTT--TATT-TAAT-AATAAT-AA-T
*
20431 ATATTATAATAATATAAGATATTAATTTTTTATTTAATAATAATAAT
1 ATATTATAATAATATAATATA-T-ATTTTTTATTTAATAATAATAAT
* *
20478 A-AATATAATAA-A-AATTTATATTTTTTATT
1 ATATTATAATAATATAATATATATTTTTTATT
20507 AATTTCGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
42 10 0.14
43 1 0.01
44 4 0.06
45 1 0.01
46 9 0.13
47 2 0.03
48 2 0.03
49 6 0.09
50 4 0.06
51 23 0.33
52 1 0.01
53 6 0.09
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (45 bp):
ATATTATAATAATATAATATATATTTTTTATTTAATAATAATAAT
Found at i:20631 original size:22 final size:23
Alignment explanation
Indices: 20592--20635 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
20582 TATAATATTT
20592 TAATAAATATATTTAAAATATAC
1 TAATAAATATATTTAAAATATAC
*
20615 TAATTAATAT-TTTAAAATATA
1 TAATAAATATATTTAAAATATA
20636 ATATACACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAAATATATTTAAAATATAC
Found at i:21219 original size:57 final size:60
Alignment explanation
Indices: 21092--21240 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 60
21082 ATTTAAAGTG
* ** *
21092 GTCCCTAAACTTTTGAATATTTTAATTTCATCCTCAAACTATGACTCGCCTTCTAAATTA
1 GTCCCCAAACTTTTGAATATTCAAATTTCATCATCAAACTATGACTCGCCTTCTAAATTA
* ** * * * * *
21152 TTCCTTAAAC-TTTG-ATTTTCAAATTTCATCATTAAACTA-GACTCTCTTTCTAAATTG
1 GTCCCCAAACTTTTGAATATTCAAATTTCATCATCAAACTATGACTCGCCTTCTAAATTA
*
21209 GTCCCCAAACTTTTGAATATTCCAATTTCATC
1 GTCCCCAAACTTTTGAATATTCAAATTTCATC
21241 CCAAAATTCC
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
57 22 0.31
58 24 0.33
59 18 0.25
60 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (60 bp):
GTCCCCAAACTTTTGAATATTCAAATTTCATCATCAAACTATGACTCGCCTTCTAAATTA
Found at i:21487 original size:59 final size:59
Alignment explanation
Indices: 21390--21533 Score: 146
Period size: 59 Copynumber: 2.4 Consensus size: 59
21380 GAATGTTCAA
* * * * * **
21390 AAAAGTTTAGGGACCAATTTAGAATGAAAGTCATAGTTTGGGGTA-AAATTGAAATGTCT
1 AAAAGTTTA-GGACCAATTTAAAATCAAAGTCATAGTTTAGGGAAGAAATTAAAACATCT
* * * * *
21449 GAAAGTTTGAGGACTAATTTAAAATCATAGTCGTAGTTTAGGGAAGAAATTAAAACATTT
1 AAAAGTTT-AGGACCAATTTAAAATCAAAGTCATAGTTTAGGGAAGAAATTAAAACATCT
21509 AAAAGTTTAAGGACCAATTTAAAAT
1 AAAAGTTT-AGGACCAATTTAAAAT
21534 GAAGTTCATA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
59 35 0.51
60 33 0.49
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (59 bp):
AAAAGTTTAGGACCAATTTAAAATCAAAGTCATAGTTTAGGGAAGAAATTAAAACATCT
Found at i:23228 original size:20 final size:20
Alignment explanation
Indices: 23203--23249 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
23193 CATTGGTTAT
23203 TTTTCCCCTGAGTTAGATTC
1 TTTTCCCCTGAGTTAGATTC
23223 TTTTCCCCTGAGTTAGATTC
1 TTTTCCCCTGAGTTAGATTC
23243 TTTTCCC
1 TTTTCCC
23250 AATAAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.28, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTTCCCCTGAGTTAGATTC
Found at i:25751 original size:13 final size:12
Alignment explanation
Indices: 25731--25771 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
25721 CTTTTAAATT
25731 TATAAAAATTTA
1 TATAAAAATTTA
25743 TATATAAAATTTA
1 TATA-AAAATTTA
*
25756 T-TAAAAA-GTA
1 TATAAAAATTTA
25766 TATAAA
1 TATAAA
25772 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 3 0.12
11 8 0.31
12 6 0.23
13 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TATAAAAATTTA
Found at i:25767 original size:23 final size:23
Alignment explanation
Indices: 25726--25769 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25716 TTTATCTTTT
*
25726 AAATTTATAAAAATTTATATATA
1 AAATTTATAAAAATGTATATATA
25749 AAATTTATTAAAAA-GTATATA
1 AAATTTA-TAAAAATGTATATA
25770 AATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATTTATAAAAATGTATATATA
Found at i:26220 original size:41 final size:42
Alignment explanation
Indices: 26175--26337 Score: 109
Period size: 42 Copynumber: 3.9 Consensus size: 42
26165 ATAATCTTTT
* * *
26175 TTTTATCTTTATAATAGAG-GTCCTATTTTTTTAATCCCACC
1 TTTTATCTTTATAATAGAGACTCCTAATTTTTCAATCCCACC
* * * *
26216 TTTTA-CATTTATAATTGAGACTCTTAATTTTTCAATCCCGCT
1 TTTTATC-TTTATAATAGAGACTCCTAATTTTTCAATCCCACC
* * ** * *
26258 TTTTATATTTATAATTGATTC-CCTTAATTTTTTTC-ATCTCACT
1 TTTTATCTTTATAATAGAGACTCC-TAA--TTTTTCAATCCCACC
* * * *
26301 TTTTACCTTTATGATTGAGACCCCTAATTTTTCAATC
1 TTTTATCTTTATAATAGAGACTCCTAATTTTTCAATC
26338 ATATTTTTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 23 0.24
42 39 0.41
43 25 0.26
44 8 0.08
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (42 bp):
TTTTATCTTTATAATAGAGACTCCTAATTTTTCAATCCCACC
Found at i:26247 original size:42 final size:42
Alignment explanation
Indices: 26201--26372 Score: 150
Period size: 42 Copynumber: 4.1 Consensus size: 42
26191 GAGGTCCTAT
* * *
26201 TTTTTTAATCCCACCTTTTACATTTATAATTGAGACTCTTAA
1 TTTTTCAATCCCACTTTTTACATTTATAATTGAGACCCTTAA
* * **
26243 TTTTTCAATCCCGCTTTTTATATTTATAATTGATTCCCTTAA
1 TTTTTCAATCCCACTTTTTACATTTATAATTGAGACCCTTAA
* * * *
26285 TTTTTTTC-ATCTCACTTTTTACCTTTATGATTGAGACCCCTAA
1 --TTTTTCAATCCCACTTTTTACATTTATAATTGAGACCCTTAA
** * * * *
26328 TTTTTCAATCATATTTTTTTACTTTTATAATT-AGGCCCATAA
1 TTTTTCAATCCCA-CTTTTTACATTTATAATTGAGACCCTTAA
26370 TTT
1 TTT
26373 CATCATTTTT
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 6 0.06
42 50 0.48
43 42 0.40
44 6 0.06
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (42 bp):
TTTTTCAATCCCACTTTTTACATTTATAATTGAGACCCTTAA
Found at i:26304 original size:43 final size:43
Alignment explanation
Indices: 26199--26332 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
26189 TAGAGGTCCT
* * *
26199 ATTTTTTTAATCCCACCTTTTACATTTATAATTGAGACTCTTA
1 ATTTTTTTCATCCCACTTTTTACATTTATAATTGAGACCCTTA
* * **
26242 A--TTTTTCAATCCCGCTTTTTATATTTATAATTGATTCCCTTA
1 ATTTTTTTC-ATCCCACTTTTTACATTTATAATTGAGACCCTTA
* * * *
26284 ATTTTTTTCATCTCACTTTTTACCTTTATGATTGAGACCCCTA
1 ATTTTTTTCATCCCACTTTTTACATTTATAATTGAGACCCTTA
26327 ATTTTT
1 ATTTTT
26333 CAATCATATT
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 5 0.07
42 29 0.40
43 33 0.45
44 6 0.08
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (43 bp):
ATTTTTTTCATCCCACTTTTTACATTTATAATTGAGACCCTTA
Found at i:26371 original size:85 final size:85
Alignment explanation
Indices: 26174--26372 Score: 199
Period size: 85 Copynumber: 2.4 Consensus size: 85
26164 TATAATCTTT
* * *
26174 TTTTTATCTTTATAATAGAGGTCC-T-ATTTTTTTAATCCCACCTTTTACATTTATAATTGAGAC
1 TTTTTATATTTATAATTGAGGCCCATAATTTTTTTAATCCCACCTTTTACATTTATAATTGAGAC
* * *
26237 TCTTAATTTTTCAATCCCGC
66 CCCTAATTTTTCAATCCAGC
** * * * * * *
26257 TTTTTATATTTATAATTGATTCCCTTAATTTTTTTCATCTCACTTTTTACCTTTATGATTGAGAC
1 TTTTTATATTTATAATTGAGGCCCATAATTTTTTTAATCCCACCTTTTACATTTATAATTGAGAC
**
26322 CCCTAATTTTTCAAT-CATA
66 CCCTAATTTTTCAATCCAGC
*
26341 TTTTTTTACTTTTATAATT-AGGCCCATAATTT
1 TTTTTATA--TTTATAATTGAGGCCCATAATTT
26373 CATCATTTTT
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
83 19 0.20
84 9 0.10
85 56 0.60
86 9 0.10
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (85 bp):
TTTTTATATTTATAATTGAGGCCCATAATTTTTTTAATCCCACCTTTTACATTTATAATTGAGAC
CCCTAATTTTTCAATCCAGC
Found at i:27066 original size:24 final size:24
Alignment explanation
Indices: 27030--27087 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
27020 ACGGTCAATA
27030 ATGTTGGGTGTTCGGTCGATTGACG
1 ATGTT-GGTGTTCGGTCGATTGACG
27055 ATGTTGGTGTTCGGTCGATTGACG
1 ATGTTGGTGTTCGGTCGATTGACG
**
27079 GCGTTGGTG
1 ATGTTGGTG
27088 GCGGCTGACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.10, C:0.12, G:0.41, T:0.36
Consensus pattern (24 bp):
ATGTTGGTGTTCGGTCGATTGACG
Found at i:29443 original size:124 final size:125
Alignment explanation
Indices: 29214--29461 Score: 385
Period size: 124 Copynumber: 2.0 Consensus size: 125
29204 ATAACAACAA
*
29214 CTTCGAGAATATGTTCATGAACATAGGCATAATTAACATGTCTATGAAAAAATAAAAATCCGTTA
1 CTTCGAGAATATGTTCATGAACATAAGCATAATTAACATGTCTATGAAAAAATAAAAATCCGTTA
*
29279 TGTTAGGAATTTGTAAGCGAAAAAATTAATAAAATCGATATCAACGTAG-ATGATACATC
66 TGTTAGGAATTTGTAAGCGAAAAAATTAATAAAATCGATATCAACATAGAATGATACATC
* **
29338 CTTCGAGAATATGTTCA-GAACATAAGTATAATTAAACATGTCTATGAAAAAATAAAAATTTGTT
1 CTTCGAGAATATGTTCATGAACATAAGCATAATT-AACATGTCTATGAAAAAATAAAAATCCG-T
* * *
29402 TATGTTAGGAATTTGTAAGCGAAAAAA-TAATCAAATTGATATCAATATAGAATGATACAT
64 TATGTTAGGAATTTGTAAGCGAAAAAATTAATAAAATCGATATCAACATAGAATGATACAT
29462 GCACAAGAGA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
123 14 0.12
124 62 0.55
125 37 0.33
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (125 bp):
CTTCGAGAATATGTTCATGAACATAAGCATAATTAACATGTCTATGAAAAAATAAAAATCCGTTA
TGTTAGGAATTTGTAAGCGAAAAAATTAATAAAATCGATATCAACATAGAATGATACATC
Found at i:29711 original size:150 final size:150
Alignment explanation
Indices: 29425--29728 Score: 465
Period size: 150 Copynumber: 2.0 Consensus size: 150
29415 TGTAAGCGAA
* *
29425 AAAATAATCAAATTGATATCAATATAGAATGATACATGCACAAGAGATAAATTTAACGTGGTTCG
1 AAAATAATCAAATTGATATCAACATAGAATGATACATGCACAAGAGAAAAATTTAACGTGGTTCG
* *
29490 ATCTTTCAATCTCCATAATGAAAAAAAAAATCCACTATAATGTATAGATCATGGAAAATATAAAT
66 ATCTTTCAATCTCCATAATGAAAAAAAAAATCCACTATAATATATAGATCATGAAAAATATAAAT
*
29555 ACATGATATCTAA-GTATCC
131 ACATGATATATAATGTATCC
29574 AAAATAATC-AA-TGATATCAACATAGAATGATACATGCACAAGAGACAAAATTTAACGTGGTTC
1 AAAATAATCAAATTGATATCAACATAGAATGATACATGCACAAGAGA-AAAATTTAACGTGGTTC
* *
29637 GAT-TTTACCAATCTCCATAAATGAAAAAACAAATTTCACTATAA-ATATAGATCATGAAAAATA
65 GATCTTT--CAATCTCCAT-AATGAAAAAA-AAAATCCACTATAATATATAGATCATGAAAAATA
29700 TAAATACATGATATATAATGTATCC
126 TAAATACATGATATATAATGTATCC
29725 AAAA
1 AAAA
29729 CTACTCTCCC
Statistics
Matches: 142, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
147 36 0.25
148 21 0.15
149 19 0.13
150 44 0.31
151 22 0.15
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (150 bp):
AAAATAATCAAATTGATATCAACATAGAATGATACATGCACAAGAGAAAAATTTAACGTGGTTCG
ATCTTTCAATCTCCATAATGAAAAAAAAAATCCACTATAATATATAGATCATGAAAAATATAAAT
ACATGATATATAATGTATCC
Found at i:30193 original size:24 final size:23
Alignment explanation
Indices: 30156--30205 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
30146 AGTTAGTTTC
* * *
30156 ATATTTATAATAAAAAATTATTT
1 ATATTTAAAATAAAAAAATAATT
30179 ATATTATAAAATAAAAAAATAATT
1 ATATT-TAAAATAAAAAAATAATT
30203 ATA
1 ATA
30206 AAATTCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATTTAAAATAAAAAAATAATT
Found at i:39029 original size:2 final size:2
Alignment explanation
Indices: 39022--39052 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39012 AACATCTCTG
39022 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 T
39053 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39366 original size:45 final size:45
Alignment explanation
Indices: 39315--39404 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
39305 TATATATAGA
39315 GATATTATTGTAATTATTCCTAAATATAAGGTAAAATTATATTTT
1 GATATTATTGTAATTATTCCTAAATATAAGGTAAAATTATATTTT
* *
39360 GATATTATTGTAATTATTCTTAAATATAAGTTAAAATTATATTTT
1 GATATTATTGTAATTATTCCTAAATATAAGGTAAAATTATATTTT
39405 TTGGGGTGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (45 bp):
GATATTATTGTAATTATTCCTAAATATAAGGTAAAATTATATTTT
Found at i:39386 original size:22 final size:22
Alignment explanation
Indices: 39316--39386 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
39306 ATATATAGAG
*
39316 ATATTATTGTAATTATTCCTAA
1 ATATTATTGTAATTATTCTTAA
** **
39338 ATA-TAAGGTAAAATTATAT-TTTG
1 ATATTATTGT--AATTAT-TCTTAA
39361 ATATTATTGTAATTATTCTTAA
1 ATATTATTGTAATTATTCTTAA
39383 ATAT
1 ATAT
39387 AAGTTAAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 5 0.14
22 15 0.43
23 10 0.29
24 5 0.14
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (22 bp):
ATATTATTGTAATTATTCTTAA
Found at i:39398 original size:23 final size:23
Alignment explanation
Indices: 39326--39399 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
39316 ATATTATTGT
* *
39326 AATTATTCCTAAATATAAGGTAA
1 AATTATTCTTAAATATAAGTTAA
** * **
39349 AATTATAT-TTTGATATTA-TTGT
1 AATTAT-TCTTAAATATAAGTTAA
39371 AATTATTCTTAAATATAAGTTAA
1 AATTATTCTTAAATATAAGTTAA
39394 AATTAT
1 AATTAT
39400 ATTTTTTGGG
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
21 1 0.03
22 14 0.39
23 20 0.56
24 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (23 bp):
AATTATTCTTAAATATAAGTTAA
Found at i:45872 original size:16 final size:16
Alignment explanation
Indices: 45831--45884 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
45821 TTCCTTTTGT
45831 TTATTTTT-T-TATTA
1 TTATTTTTATATATTA
*
45845 TT-TTTTTA-ATATTG
1 TTATTTTTATATATTA
*
45859 TTATTTTTATATATTT
1 TTATTTTTATATATTA
45875 TTATTTTTAT
1 TTATTTTTAT
45885 TTTTGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 6 0.18
16 15 0.44
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTATATATTA
Found at i:47017 original size:14 final size:14
Alignment explanation
Indices: 46998--47215 Score: 60
Period size: 14 Copynumber: 15.2 Consensus size: 14
46988 TTTTATCCTT
46998 TTTTTATTTATTTA
1 TTTTTATTTATTTA
*
47012 TTTTTATTTATATA
1 TTTTTATTTATTTA
* * * *
47026 TATATATATATCGTA
1 TTTTTATTTAT-TTA
* *
47041 GTTTTATTTTTTTA
1 TTTTTATTTATTTA
*
47055 -TTTTATTT-TCTA
1 TTTTTATTTATTTA
47067 TTTTTTAATTT-TTTAA
1 -TTTTT-ATTTATTT-A
*
47083 TTTTTTAATTT-TCTA
1 -TTTTT-ATTTATTTA
* * *
47098 TTTTCTGTTTTTTTG
1 TTTT-TATTTATTTA
47113 TTTTT-TGTT-TTT-
1 TTTTTAT-TTATTTA
* *
47125 TGTTTATTTTTTTA
1 TTTTTATTTATTTA
* *
47139 -TTTTATTTCTGTTT
1 TTTTTATTTAT-TTA
*
47153 TGTTTTGTTTTATTTA
1 T-TTTT-ATTTATTTA
* *
47169 -TTTTATCTATTTTG
1 TTTTTATTTA-TTTA
47183 TTTTTATTGTACTTTA
1 TTTTTATT-TA-TTTA
47199 -TTTTATGTTATTTA
1 TTTTTAT-TTATTTA
47213 TTT
1 TTT
47216 CATTACTTTC
Statistics
Matches: 154, Mismatches: 30, Indels: 39
0.69 0.13 0.17
Matches are distributed among these distances:
12 9 0.06
13 27 0.18
14 50 0.32
15 38 0.25
16 26 0.17
17 4 0.03
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:47053 original size:8 final size:8
Alignment explanation
Indices: 47042--47174 Score: 72
Period size: 8 Copynumber: 15.8 Consensus size: 8
47032 TATATCGTAG
47042 TTTTATTT
1 TTTTATTT
47050 TTTTATTTT
1 TTTTA-TTT
*
47059 ATTTTCTATT
1 -TTTTAT-TT
*
47069 TTTTAATT
1 TTTTATTT
*
47077 TTTTAATT
1 TTTTATTT
*
47085 TTTTAATT
1 TTTTATTT
*
47093 TTCTA-TT
1 TTTTATTT
* *
47100 TTCTGTTT
1 TTTTATTT
*
47108 TTTTGTTT
1 TTTTATTT
*
47116 TTTGTTTTT
1 TTT-TATTT
47125 TGTTTATTT
1 T-TTTATTT
47134 TTTTATTT
1 TTTTATTT
*
47142 TATTTCTGTT
1 T-TTTAT-TT
*
47152 TTGTT-TTG
1 TT-TTATTT
47160 TTTTATTT
1 TTTTATTT
47168 ATTTTAT
1 -TTTTAT
47175 CTATTTTGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
7 8 0.08
8 52 0.50
9 30 0.29
10 13 0.13
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:47058 original size:7 final size:7
Alignment explanation
Indices: 47042--47146 Score: 67
Period size: 7 Copynumber: 15.1 Consensus size: 7
47032 TATATCGTAG
47042 TTTTATT
1 TTTTATT
*
47049 TTTT-TA
1 TTTTATT
47055 TTTTATT
1 TTTTATT
*
47062 TTCTATT
1 TTTTATT
47069 TTTTAATT
1 TTTT-ATT
47077 TTTTAATT
1 TTTT-ATT
47085 TTTTAATT
1 TTTT-ATT
*
47093 TTCTATT
1 TTTTATT
* *
47100 TTCTGTT
1 TTTTATT
47107 TTTT-TGT
1 TTTTAT-T
*
47114 TTTT-TG
1 TTTTATT
47120 TTTT-TT
1 TTTTATT
*
47126 GTTTATT
1 TTTTATT
*
47133 TTTT-TA
1 TTTTATT
47139 TTTTATT
1 TTTTATT
47146 T
1 T
47147 CTGTTTTGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
6 19 0.24
7 39 0.49
8 22 0.28
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:47060 original size:48 final size:47
Alignment explanation
Indices: 46965--47069 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 47
46955 TCACATAACG
* * **
46965 TTTTATTTATATGTATATATATTTTTTATCCTTTTTTTATTTATTTAT
1 TTTTATTTATATATATATATATATCGTAT-CTTTTTTTATTTATTTAT
47013 TTTTATTTATATATATATATATATCGTAGT-TTTATTTT-TTTATTTTAT
1 TTTTATTTATATATATATATATATCGTA-TCTTT-TTTTATTTA-TTTAT
47061 TTTCTATTT
1 TTT-TATTT
47070 TTTAATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
47 7 0.14
48 36 0.73
49 6 0.12
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.70
Consensus pattern (47 bp):
TTTTATTTATATATATATATATATCGTATCTTTTTTTATTTATTTAT
Found at i:47118 original size:31 final size:30
Alignment explanation
Indices: 47041--47118 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
47031 ATATATCGTA
* *
47041 GTTTTATTTTTTTATTTTATTTTCTATTTTTT
1 GTTTT-TTTTTTT-TTTAATTTTCTATTTTCT
* **
47073 AATTTTTTAATTTTTTAATTTTCTATTTTCT
1 -GTTTTTTTTTTTTTTAATTTTCTATTTTCT
*
47104 GTTTTTTTGTTTTTT
1 GTTTTTTTTTTTTTT
47119 GTTTTTTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 12 0.32
31 16 0.43
32 5 0.14
33 4 0.11
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (30 bp):
GTTTTTTTTTTTTTTAATTTTCTATTTTCT
Found at i:47169 original size:30 final size:28
Alignment explanation
Indices: 47122--47204 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
47112 GTTTTTTGTT
* *
47122 TTTTGTTTATTTT-TTTATTTTATTTCTG
1 TTTTGTTTTTTTTATTTATTTTA-TTCTA
47150 TTTTGTTTTGTTTTATTTATTTTA-TCTA
1 TTTTGTTTT-TTTTATTTATTTTATTCTA
47178 TTTTGTTTTTATTGTACTTTATTTTAT
1 TTTTGTTTTT-TT-TA-TTTATTTTAT
47205 GTTATTTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
27 1 0.02
28 22 0.47
29 6 0.13
30 18 0.38
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (28 bp):
TTTTGTTTTTTTTATTTATTTTATTCTA
Found at i:47173 original size:5 final size:5
Alignment explanation
Indices: 47134--47215 Score: 53
Period size: 5 Copynumber: 16.6 Consensus size: 5
47124 TTGTTTATTT
* * * * *
47134 TTTTA TTTTA TTTCTG TTTTG TTTTG TTTTA -TTTA TTTTA -TCTA TTTTGT
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A
* * *
47184 TTTTA TTGTA CTTTA TTTTA TGTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
47216 CATTACTTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 10 0.17
5 42 0.70
6 8 0.13
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:47173 original size:35 final size:35
Alignment explanation
Indices: 47115--47216 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 35
47105 TTTTTTTGTT
* *
47115 TTTTGTTTTTTGTTTATTT-TTTTATTTTATTTCTG
1 TTTTGTTTTGTATTTATTTATTTTA-TTTATTTCTG
*
47150 TTTTGTTTTGT-TTTATTTATTTTATCTATTT-TG
1 TTTTGTTTTGTATTTATTTATTTTATTTATTTCTG
* *
47183 TTTT-TATTGTACTTTATTTTATGTTATTTATTTC
1 TTTTGTTTTGTA-TTTA-TTTATTTTATTTATTTC
47217 ATTACTTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
32 5 0.09
33 6 0.11
34 17 0.30
35 29 0.51
ACGTcount: A:0.13, C:0.04, G:0.08, T:0.75
Consensus pattern (35 bp):
TTTTGTTTTGTATTTATTTATTTTATTTATTTCTG
Found at i:51649 original size:21 final size:21
Alignment explanation
Indices: 51607--51649 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51597 TTTCTGGGCT
*
51607 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
51628 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
51649 A
1 A
51650 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:51702 original size:20 final size:20
Alignment explanation
Indices: 51677--51714 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51667 GAACGCTAGA
*
51677 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
51697 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
51715 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:58440 original size:21 final size:21
Alignment explanation
Indices: 58398--58440 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58388 TTTCTGGGCT
*
58398 AGGGAAATCGATACCCATTCA
1 AGGGAAATCGATACCCACTCA
* *
58419 AGGGGAATCGATACCCCCTCA
1 AGGGAAATCGATACCCACTCA
58440 A
1 A
58441 ATGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.28, G:0.21, T:0.16
Consensus pattern (21 bp):
AGGGAAATCGATACCCACTCA
Found at i:59154 original size:23 final size:23
Alignment explanation
Indices: 59121--59183 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
59111 ATTATTATAT
59121 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* *
59144 GGCACTCCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
59167 GGCACTTAGGTGCAATT
1 GGCACTTCGGTGCAATT
59184 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:69708 original size:17 final size:17
Alignment explanation
Indices: 69659--69708 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
69649 TTTGTATACT
69659 TTTTTTCTTCCTTTTTTA
1 TTTTTT-TTCCTTTTTTA
**
69677 -TTTTTTTAATATTTTTA
1 TTTTTTTTCCT-TTTTTA
69694 TTTTTTTTCCTTTTT
1 TTTTTTTTCCTTTTT
69709 GTGTTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 8 0.31
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTTCCTTTTTTA
Found at i:69724 original size:34 final size:34
Alignment explanation
Indices: 69659--69726 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
69649 TTTGTATACT
69659 TTTTTTCTTCCTTTTTTATTTTTTTAATATTTTTA
1 TTTTTTCTTCCTTTTTTATTTTTTT-ATATTTTTA
*
69694 TTTTTT-TTCCTTTTTGTGTTTTTTGT-TATTTTT
1 TTTTTTCTTCCTTTTT-TATTTTTT-TATATTTTT
69727 CTTCTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 16 0.53
35 13 0.43
36 1 0.03
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.79
Consensus pattern (34 bp):
TTTTTTCTTCCTTTTTTATTTTTTTATATTTTTA
Found at i:69842 original size:24 final size:24
Alignment explanation
Indices: 69809--69968 Score: 72
Period size: 24 Copynumber: 6.8 Consensus size: 24
69799 TATATAGTAG
69809 TTTT-TTTAATTT-TTTTTCTATT
1 TTTTATTTAATTTATTTTTCTATT
*
69831 TTTTAATTTAATTTAATTTTT-T-TG
1 TTTT-ATTTAATTT-ATTTTTCTATT
* * *
69855 TTTT-GTT-GTTT-TGTTTCT-TT
1 TTTTATTTAATTTATTTTTCTATT
*
69875 TTTTATTTAATCTTCTTTTTCTTATTTT
1 TTTTATTTAAT-TTATTTTTC-TA--TT
* * *
69903 ATTTTATTTTATTTCTATTTCTATT
1 -TTTTATTTAATTTATTTTTCTATT
*
69928 TTTTATTT-A-TT-TTTATCTATTT
1 TTTTATTTAATTTATTTTTCTA-TT
*
69950 TTTTATTGTACTTTATTTT
1 TTTTATT-TAATTTATTTT
69969 ATGTTATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
19 4 0.04
20 6 0.06
21 11 0.10
22 18 0.17
23 4 0.04
24 26 0.25
25 6 0.06
26 8 0.08
27 2 0.02
28 10 0.10
29 10 0.10
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.76
Consensus pattern (24 bp):
TTTTATTTAATTTATTTTTCTATT
Found at i:69906 original size:5 final size:5
Alignment explanation
Indices: 69896--69981 Score: 66
Period size: 5 Copynumber: 16.2 Consensus size: 5
69886 CTTCTTTTTC
*
69896 TTATT TTATT TTATT TTATT TCTATT TCTATT TTTTAT TTATTT TTATCT
1 TTATT TTATT TTATT TTATT T-TATT T-TATT TTAT-T TTA-TT TTAT-T
* * * *
69946 ATTTTT TTATT GTACT TTATT TTATG TTA-T TTATT T
1 -TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
69982 CATTACTTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
4 3 0.05
5 38 0.58
6 20 0.31
7 4 0.06
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:69915 original size:34 final size:33
Alignment explanation
Indices: 69875--69940 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
69865 TTGTTTCTTT
69875 TTTTATTT-AATCTTCT-TTTTCTTATTTTATTTTA
1 TTTTATTTCAAT-TTCTATTTT-TTA-TTTATTTTA
*
69909 TTTTATTTCTATTTCTATTTTTTATTTATTTT
1 TTTTATTTCAATTTCTATTTTTTATTTATTTT
69941 TATCTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 8 0.28
34 15 0.52
35 6 0.21
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTTATTTCAATTTCTATTTTTTATTTATTTTA
Found at i:69931 original size:19 final size:17
Alignment explanation
Indices: 69863--69939 Score: 70
Period size: 17 Copynumber: 4.5 Consensus size: 17
69853 TGTTTTGTTG
*
69863 TTTTGTTTCTTTTTTTA
1 TTTTATTTCTTTTTTTA
*
69880 TTTAATCTTCTTTTTCTTA
1 TTTTAT-TTCTTTTT-TTA
*
69899 TTTTA-TT-TTATTTTA
1 TTTTATTTCTTTTTTTA
69914 TTTCTATTTCTATTTTTTA
1 TTT-TATTTCT-TTTTTTA
69933 -TTTATTT
1 TTTTATTT
69940 TTATCTATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 13 0.27
18 11 0.22
19 13 0.27
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTATTTCTTTTTTTA
Found at i:69956 original size:29 final size:29
Alignment explanation
Indices: 69890--69970 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
69880 TTTAATCTTC
*
69890 TTTTTCTTATTTTATTTTATTTTATTTCTA
1 TTTTT-TTATTTTATTTTATTTTATATCTA
*
69920 TTTCTATT-TTTTA-TTTATTTT-TATCTA
1 TTT-TTTTATTTTATTTTATTTTATATCTA
* *
69947 TTTTTTTATTGTACTTTATTTTAT
1 TTTTTTTATTTTATTTTATTTTAT
69971 GTTATTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.07
27 12 0.28
28 16 0.37
29 6 0.14
30 5 0.12
31 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTTTTTATTTTATTTTATTTTATATCTA
Found at i:69964 original size:22 final size:21
Alignment explanation
Indices: 69922--69965 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
69912 TATTTCTATT
*
69922 TCTATTTTTTATTTATTTTTA
1 TCTATTTTTTATTTATCTTTA
69943 TCTATTTTTTTATTGTA-CTTTA
1 TCTA-TTTTTTATT-TATCTTTA
69965 T
1 T
69966 TTTATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
TCTATTTTTTATTTATCTTTA
Found at i:69980 original size:14 final size:13
Alignment explanation
Indices: 69900--69981 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 13
69890 TTTTTCTTAT
69900 TTTATTTTATTTTA
1 TTTA-TTTATTTTA
*
69914 TTTCTATTTCTATTT-
1 -TT-TATTTAT-TTTA
69929 TTTATTTATTTTTA
1 TTTATTTA-TTTTA
*
69943 TCTATTT-TTTTA
1 TTTATTTATTTTA
69955 TTGTACTTTATTTTA
1 TT-TA-TTTATTTTA
69970 TGTTATTTATTT
1 T-TTATTTATTT
69982 CATTACTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
12 6 0.11
13 10 0.18
14 19 0.35
15 14 0.25
16 6 0.11
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:70560 original size:18 final size:18
Alignment explanation
Indices: 70537--70583 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
70527 ATTCTCAAAA
70537 TAATATTATTTATGT-ATT
1 TAATATTATTTAT-TAATT
*
70555 TAATATTAATATATTAATT
1 TAATATT-ATTTATTAATT
70574 TAAT-TTATTT
1 TAATATTATTT
70584 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATATTATTTATTAATT
Found at i:70594 original size:29 final size:26
Alignment explanation
Indices: 70533--70595 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 26
70523 ATAAATTCTC
70533 AAAATAATATTATTTATGTATTTAATA
1 AAAAT-ATATTATTTATGTATTTAATA
** *
70560 TTAATATATTAATTTAATTTATTTTAATA
1 AAAATATATT-ATTT-ATGTA-TTTAATA
70589 AAAATAT
1 AAAATAT
70596 TAATTATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 5 0.18
27 7 0.25
28 4 0.14
29 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AAAATATATTATTTATGTATTTAATA
Found at i:70674 original size:13 final size:13
Alignment explanation
Indices: 70652--70704 Score: 79
Period size: 13 Copynumber: 3.9 Consensus size: 13
70642 CTAACCAATG
*
70652 AAAATGATTTTCA
1 AAAATAATTTTCA
70665 AAAATAATTTTCTCA
1 AAAATAA-TTT-TCA
70680 AAAATAATTTTCA
1 AAAATAATTTTCA
70693 AAAATAATTTTC
1 AAAATAATTTTC
70705 TCAAAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 21 0.57
14 6 0.16
15 10 0.27
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (13 bp):
AAAATAATTTTCA
Found at i:70682 original size:15 final size:15
Alignment explanation
Indices: 70662--70713 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
70652 AAAATGATTT
70662 TCAAAAATAATTTTC
1 TCAAAAATAATTTTC
70677 TCAAAAATAA-TTT-
1 TCAAAAATAATTTTC
70690 TCAAAAATAATTTTC
1 TCAAAAATAATTTTC
70705 TCAAAAATA
1 TCAAAAATA
70714 TAATTCATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.29
14 6 0.17
15 19 0.54
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
TCAAAAATAATTTTC
Found at i:70689 original size:28 final size:28
Alignment explanation
Indices: 70652--70713 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
70642 CTAACCAATG
*
70652 AAAATGATTTTCAAAAATAATTTTCTCA
1 AAAATAATTTTCAAAAATAATTTTCTCA
70680 AAAATAATTTTCAAAAATAATTTTCTCA
1 AAAATAATTTTCAAAAATAATTTTCTCA
70708 AAAATA
1 AAAATA
70714 TAATTCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAATAATTTTCAAAAATAATTTTCTCA
Found at i:71482 original size:60 final size:60
Alignment explanation
Indices: 71356--71514 Score: 151
Period size: 60 Copynumber: 2.6 Consensus size: 60
71346 TGAAATGTTC
* * ** * * ** *
71356 AAAAGTTTGGAGACTAATTTAGAATGAGGTTCATAGTTTGGGGATGATTTTTTAATGCTT
1 AAAAGTTTGAAGACTAATTTAGAATAAGGTTCATAGTTTACGAATGAATTTGGAATACTT
* * * * *
71416 ATAAGTTTGTAGACTAATTTAGAATAAGTTTCATTGTTTACGAATGAATTTGGAATATTT
1 AAAAGTTTGAAGACTAATTTAGAATAAGGTTCATAGTTTACGAATGAATTTGGAATACTT
*
71476 AAAAGTTT-AAGAACCAATTTAGAATAAGAG-TCATAGTTT
1 AAAAGTTTGAAG-ACTAATTTAGAATAAG-GTTCATAGTTT
71515 GAGGATGTGT
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
59 2 0.03
60 77 0.97
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (60 bp):
AAAAGTTTGAAGACTAATTTAGAATAAGGTTCATAGTTTACGAATGAATTTGGAATACTT
Found at i:74111 original size:55 final size:55
Alignment explanation
Indices: 74027--74134 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
74017 CACATGTTTT
*
74027 AGAAGAAGAAGAAAGGTTGACGGGAGGTAACGTGTCACGTCAGATAAAACTAACG
1 AGAAGAAGAAGAAAGGTTGACGGGAGGTAACGTGCCACGTCAGATAAAACTAACG
* * *
74082 AGAAGAAGAAGAAAGGTT-AGTGGGAGGTAACGTGCCATGTTAGATAAAACTAA
1 AGAAGAAGAAGAAAGGTTGA-CGGGAGGTAACGTGCCACGTCAGATAAAACTAA
74135 TGGGAGGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.02
55 47 0.98
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.17
Consensus pattern (55 bp):
AGAAGAAGAAGAAAGGTTGACGGGAGGTAACGTGCCACGTCAGATAAAACTAACG
Found at i:75967 original size:155 final size:156
Alignment explanation
Indices: 75748--76033 Score: 540
Period size: 155 Copynumber: 1.8 Consensus size: 156
75738 ATCCTAAAAG
75748 ATATAAATATCTAATTTTTTTTGTGTGAATATTATATTTTTTTTATGATTTATTGATTCTTTAGT
1 ATATAAATATCTAATTTTTTTTGTGTGAATATTATA-TTTTTTTATGATTTATTGATTCTTTAGT
75813 TTTTAAATGCCTTTTTGTTAAAAAAATATTTCAAATATTTTTATACTTTATAAAAAACAATTTTT
65 TTTTAAATGCCTTTTTGTTAAAAAAATATTTCAAATATTTTTATACTTTATAAAAAAC-ATTTTT
75878 TTATAATTTTCTAAAAAATACGATGAAT
129 TTATAATTTTCTAAAAAATACGATGAAT
75906 ATATAAATATCTAA-TTTTTTTGTGTGAATATTATA-TTTTTTATGATTTATTGATTCTTTAGTT
1 ATATAAATATCTAATTTTTTTTGTGTGAATATTATATTTTTTTATGATTTATTGATTCTTTAGTT
75969 TTTAAATGCCTTTTTGTTAAAAAAATATTTCAAATATTTTTATACTTTATAAAAAACATTTTTTT
66 TTTAAATGCCTTTTTGTTAAAAAAATATTTCAAATATTTTTATACTTTATAAAAAACATTTTTTT
76034 CAACCAAAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 8 0.06
155 85 0.66
157 21 0.16
158 14 0.11
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (156 bp):
ATATAAATATCTAATTTTTTTTGTGTGAATATTATATTTTTTTATGATTTATTGATTCTTTAGTT
TTTAAATGCCTTTTTGTTAAAAAAATATTTCAAATATTTTTATACTTTATAAAAAACATTTTTTT
ATAATTTTCTAAAAAATACGATGAAT
Found at i:76115 original size:29 final size:30
Alignment explanation
Indices: 76073--76133 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
76063 AACACACTCT
76073 ATTGACT-AAAAAAATCATTTTAGGCATCA
1 ATTGACTAAAAAAAATCATTTTAGGCATCA
76102 ATTGACTAAAAAAAATCATTTTAGGCATCA
1 ATTGACTAAAAAAAATCATTTTAGGCATCA
76132 AT
1 AT
76134 AGTCGACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (30 bp):
ATTGACTAAAAAAAATCATTTTAGGCATCA
Found at i:97381 original size:18 final size:19
Alignment explanation
Indices: 97358--97400 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
97348 CAGTAATCCT
97358 ATTCC-CTGATAATCTTAC
1 ATTCCACTGATAATCTTAC
97376 ATTCCCACTGATAATCTTAC
1 ATT-CCACTGATAATCTTAC
97396 ATTCC
1 ATTCC
97401 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTCCACTGATAATCTTAC
Found at i:97388 original size:20 final size:20
Alignment explanation
Indices: 97363--97400 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
97353 ATCCTATTCC
97363 CTGATAATCTTACATTCCCA
1 CTGATAATCTTACATTCCCA
97383 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
97401 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:98740 original size:23 final size:20
Alignment explanation
Indices: 98695--98740 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
98685 AATTTATTAG
*
98695 TATAATTTTAAGAAAATATT
1 TATAATTTTAAAAAAATATT
98715 TATAATTTTATAAATAAGATATT
1 TATAATTTTA-AAA-AA-ATATT
98738 TAT
1 TAT
98741 TTACTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 2 0.09
23 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TATAATTTTAAAAAAATATT
Found at i:98965 original size:2 final size:2
Alignment explanation
Indices: 98960--99060 Score: 202
Period size: 2 Copynumber: 50.5 Consensus size: 2
98950 ATATCATCTT
98960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99044 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
99061 TCATGTGCCT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:98993 original size:138 final size:135
Alignment explanation
Indices: 98708--98952 Score: 348
Period size: 138 Copynumber: 1.8 Consensus size: 135
98698 AATTTTAAGA
* *
98708 AAATATTTATAATTTTATAAATAAGATATTTATTTACTTAAAAATACCAGAAAATGAATTCTAGG
1 AAATATATATAATTTTAAAAATAAGATATTTATTTACTTAAAAATACCAGAAAATGAATTCTAGG
* * *
98773 TGCTTTAAGACATCACATTTCTTAATATTAAAAAAACTAAATAAAATATTTCTCTAAAAATAATT
66 TGCTTTAAGACAACACATTTCTTAATATTAAAAAAACTAAATAAAATATTTATATAAAAATAATT
98838 AAAAT
131 AAAAT
* * ** * *
98843 AAATTAATATATAATTTATAAAAATAGGATATTTATTTATTTAAGTATATCAGAAAATGACTTCT
1 AAA-T-ATATATAATTT-TAAAAATAAGATATTTATTTACTTAAAAATACCAGAAAATGAATTCT
*
98908 AGGTGCTTTAAGACAACTCATTTCTTAATATTAAAAAAA-TAAATA
63 AGGTGCTTTAAGACAACACATTTCTTAATATTAAAAAAACTAAATA
98953 TCATCTTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
135 3 0.03
136 1 0.01
137 16 0.16
138 77 0.79
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (135 bp):
AAATATATATAATTTTAAAAATAAGATATTTATTTACTTAAAAATACCAGAAAATGAATTCTAGG
TGCTTTAAGACAACACATTTCTTAATATTAAAAAAACTAAATAAAATATTTATATAAAAATAATT
AAAAT
Found at i:99198 original size:20 final size:22
Alignment explanation
Indices: 99157--99206 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
99147 TAAAAATGAG
99157 ATAAAACAGTAACAAAATTATA
1 ATAAAACAGTAACAAAATTATA
* *
99179 ATTAAACAGTGA-AAAA-TATA
1 ATAAAACAGTAACAAAATTATA
99199 ATAAAACA
1 ATAAAACA
99207 AAAACAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.44
21 4 0.16
22 10 0.40
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (22 bp):
ATAAAACAGTAACAAAATTATA
Found at i:100984 original size:36 final size:36
Alignment explanation
Indices: 100944--101142 Score: 130
Period size: 36 Copynumber: 5.5 Consensus size: 36
100934 AGTGAAACTG
*
100944 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
* * * *** ** **
100980 TCTCAAGTGAGATAAATTGTTGTTTCGGGTGAAACTG
1 TCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAA
* *
101017 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
* * * * ** ** *
101053 TATCAAGTGAGATAAATCGATGTTTCGAGTGAAACTA
1 TCTCAAGCGAGACAAATC-TTGTTTTAAGAAAAACAA
* *
101090 TCTCAAGCGAGACACAGT-TTGTTTTAAGAAAAATAA
1 TCTCAAGCGAGACA-AATCTTGTTTTAAGAAAAACAA
* *
101126 TCTCAAGTGAGATAAAT
1 TCTCAAGCGAGACAAAT
101143 TACTATTTGA
Statistics
Matches: 113, Mismatches: 47, Indels: 7
0.68 0.28 0.04
Matches are distributed among these distances:
35 2 0.02
36 61 0.54
37 48 0.42
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
Found at i:101039 original size:73 final size:73
Alignment explanation
Indices: 100927--101143 Score: 335
Period size: 73 Copynumber: 3.0 Consensus size: 73
100917 TGGAAATTTC
* * * *
100927 TGTTTCTAGTGAAACTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGTGAGA
*
100992 TAAATTGT
66 TAAATTGA
* *
101000 TGTTTCGGGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAATATCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGTGAGA
*
101065 TAAATCGA
66 TAAATTGA
* * *
101073 TGTTTCGAGTGAAACTATCTCAAGCGAGACACAGTTTGTTTTAAGAAAAATAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGTGAGA
101138 TAAATT
66 TAAATT
101144 ACTATTTGAA
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 130 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (73 bp):
TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGTGAGA
TAAATTGA
Found at i:101864 original size:22 final size:22
Alignment explanation
Indices: 101839--101934 Score: 165
Period size: 22 Copynumber: 4.4 Consensus size: 22
101829 AATAAAGCTT
*
101839 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
101861 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
101883 TTATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
101905 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
101927 TTATCTTT
1 TCATCTTT
101935 AAAGAATTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:102450 original size:20 final size:21
Alignment explanation
Indices: 102419--102457 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
102409 CTGGTCAATG
102419 AAGCTATTTGTATAATGTTCA
1 AAGCTATTTGTATAATGTTCA
*
102440 AAGCT-TTTGTATGATGTT
1 AAGCTATTTGTATAATGTT
102458 ACAAGACCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (21 bp):
AAGCTATTTGTATAATGTTCA
Found at i:111030 original size:12 final size:12
Alignment explanation
Indices: 111013--111039 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
111003 TTGATTATAA
111013 ATTGTCTCTATT
1 ATTGTCTCTATT
111025 ATTGTCTCTATT
1 ATTGTCTCTATT
111037 ATT
1 ATT
111040 TGAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (12 bp):
ATTGTCTCTATT
Found at i:111116 original size:23 final size:20
Alignment explanation
Indices: 111071--111116 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
111061 AATTTATTAG
*
111071 TATAATTTTAAGAAAATATT
1 TATAATTTTAAAAAAATATT
111091 TATAATTTTATAAATAAGATATT
1 TATAATTTTA-AAA-AA-ATATT
111114 TAT
1 TAT
111117 TTACATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 2 0.09
23 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TATAATTTTAAAAAAATATT
Found at i:112341 original size:16 final size:16
Alignment explanation
Indices: 112320--112363 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
112310 TGTTGTTGTT
112320 GGAAGCTGCTGGAACA
1 GGAAGCTGCTGGAACA
112336 GGAAGCTGCTGGAACA
1 GGAAGCTGCTGGAACA
*
112352 GGGAGCTGCTGG
1 GGAAGCTGCTGG
112364 CGGGTGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.43, T:0.14
Consensus pattern (16 bp):
GGAAGCTGCTGGAACA
Found at i:112513 original size:45 final size:45
Alignment explanation
Indices: 112426--112513 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
112416 CTGGAGCTAA
* * *
112426 AACGTGGGGGGACTACTGGCAGTGCTGGAAGCTACTGGAATTTGC
1 AACGTGGGGGGACTACTGGCAGTGCTCGAAACTACTGAAATTTGC
* *
112471 AACGTGGAGGGG-CTGCTGGCAGTGCTCGAAACTGCTGAAATTT
1 AACGTGG-GGGGACTACTGGCAGTGCTCGAAACTACTGAAATTT
112514 ATAATGTGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (45 bp):
AACGTGGGGGGACTACTGGCAGTGCTCGAAACTACTGAAATTTGC
Found at i:112658 original size:22 final size:20
Alignment explanation
Indices: 112612--112659 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
112602 AACACAACTA
**
112612 TCGCAACGCGAATTTCTTTT
1 TCGCAACGCGAATTTCAATT
112632 TCGCAACGCGAATTCGTCAATT
1 TCGCAACGCGAATT--TCAATT
112654 TCGCAA
1 TCGCAA
112660 TTCAATTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.58
22 10 0.42
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (20 bp):
TCGCAACGCGAATTTCAATT
Found at i:112708 original size:13 final size:14
Alignment explanation
Indices: 112684--112712 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
112674 TAGGTAAACA
112684 CGGTAGAAAAAATC
1 CGGTAGAAAAAATC
112698 CGGTA-AAAAAATC
1 CGGTAGAAAAAATC
112711 CG
1 CG
112713 AATTCAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (14 bp):
CGGTAGAAAAAATC
Found at i:119058 original size:21 final size:21
Alignment explanation
Indices: 119034--119075 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
119024 AGTTTATTTT
119034 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
119055 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
119076 ACTTGGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:119138 original size:32 final size:31
Alignment explanation
Indices: 119064--119139 Score: 116
Period size: 33 Copynumber: 2.4 Consensus size: 31
119054 GTAAACTTTG
*
119064 TTTCAATTATCGACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGACTTGGAAGTATTTAAGTA
*
119095 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCG-ACTTGGAAGTATTTAAGTA
119128 TTTCAATTATCG
1 TTTCAATTATCG
119140 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 5 0.12
32 12 0.30
33 23 0.57
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (31 bp):
TTTCAATTATCGACTTGGAAGTATTTAAGTA
Found at i:120266 original size:16 final size:17
Alignment explanation
Indices: 120242--120274 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
120232 TGAGGTGTCA
120242 CATTGACTTTT-CAAAG
1 CATTGACTTTTACAAAG
*
120258 CATTTACTTTTACAAAG
1 CATTGACTTTTACAAAG
120275 TGAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (17 bp):
CATTGACTTTTACAAAG
Found at i:122928 original size:29 final size:29
Alignment explanation
Indices: 122895--122955 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
122885 AAAGAGAATA
122895 TTATTCTCTTTTTAAGTATGCATAAATTG
1 TTATTCTCTTTTTAAGTATGCATAAATTG
*
122924 TTATTCTCTTTTTAAGTATGCATATATTG
1 TTATTCTCTTTTTAAGTATGCATAAATTG
122953 TTA
1 TTA
122956 ACGACTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (29 bp):
TTATTCTCTTTTTAAGTATGCATAAATTG
Found at i:124753 original size:38 final size:38
Alignment explanation
Indices: 124702--124777 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
124692 TACAAATGCC
124702 GGAATTATTTAAGTTAAGTTGAAACGAAAGAAAAAATT
1 GGAATTATTTAAGTTAAGTTGAAACGAAAGAAAAAATT
*
124740 GGAATTTTTTAAGTTAAGTTGAAACGAAAGAAAAAATT
1 GGAATTATTTAAGTTAAGTTGAAACGAAAGAAAAAATT
124778 AAGGGTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.30
Consensus pattern (38 bp):
GGAATTATTTAAGTTAAGTTGAAACGAAAGAAAAAATT
Found at i:125987 original size:33 final size:33
Alignment explanation
Indices: 125950--126051 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
125940 TAGATAAAAG
125950 AAACAAATTATAATAAACCTTAAGTAAAATTGA
1 AAACAAATTATAATAAACCTTAAGTAAAATTGA
* ** **
125983 AAAC--ATTA-AATCATATGTTAA-T-AAATAAAA
1 AAACAAATTATAAT-AAACCTTAAGTAAAAT-TGA
*
126013 GAAATAAATTATAATAAACCTTAAGTAAAATTGA
1 -AAACAAATTATAATAAACCTTAAGTAAAATTGA
126047 AAACA
1 AAACA
126052 TTAAATCTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
29 4 0.08
30 5 0.10
31 13 0.27
33 18 0.37
34 5 0.10
35 4 0.08
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (33 bp):
AAACAAATTATAATAAACCTTAAGTAAAATTGA
Found at i:126044 original size:64 final size:64
Alignment explanation
Indices: 125943--126076 Score: 250
Period size: 64 Copynumber: 2.1 Consensus size: 64
125933 TAATTTTTAG
125943 ATAAAAGAAACAAATTATAATAAACCTTAAGTAAAATTGAAAACATTAAATCATATGTTAATAA
1 ATAAAAGAAACAAATTATAATAAACCTTAAGTAAAATTGAAAACATTAAATCATATGTTAATAA
* *
126007 ATAAAAGAAATAAATTATAATAAACCTTAAGTAAAATTGAAAACATTAAATCTTATGTTAATAA
1 ATAAAAGAAACAAATTATAATAAACCTTAAGTAAAATTGAAAACATTAAATCATATGTTAATAA
126071 ATAAAA
1 ATAAAA
126077 TATGTATAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (64 bp):
ATAAAAGAAACAAATTATAATAAACCTTAAGTAAAATTGAAAACATTAAATCATATGTTAATAA
Found at i:126897 original size:20 final size:20
Alignment explanation
Indices: 126872--126943 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
126862 TTTTCCCAAT
126872 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
126892 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
126913 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
126933 TCGCAATGCGA
1 TCGCAATGCGA
126944 TATTGACTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:126955 original size:20 final size:19
Alignment explanation
Indices: 126932--127066 Score: 83
Period size: 20 Copynumber: 6.7 Consensus size: 19
126922 GAATAAGTAA
*
126932 ATCGCAATGCGATATTGACT
1 ATCGCAACGCGATATT-ACT
* * *
126952 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATATTAC--T
*
126973 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATA-TTACT
* *
126993 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATA-TTACT
*
127013 TTCGCAACGCGAT-TCTGACT
1 ATCGCAACGCGATAT-T-ACT
* *
127033 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATATTAC-T
*
127053 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
127067 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 4 0.04
20 63 0.67
21 23 0.24
22 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (19 bp):
ATCGCAACGCGATATTACT
Found at i:127575 original size:20 final size:20
Alignment explanation
Indices: 127521--127579 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
127511 GCGATTATCT
**
127521 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
127541 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
127561 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
127580 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:128917 original size:18 final size:18
Alignment explanation
Indices: 128896--128941 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
128886 CTCCACTTCG
*
128896 AGAGCCATCACCTCGCCC
1 AGAGCCATCACCTCACCC
*
128914 AGAGCTATCACCTCACCC
1 AGAGCCATCACCTCACCC
128932 AGAGCCATCA
1 AGAGCCATCA
128942 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.43, G:0.15, T:0.13
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:129472 original size:19 final size:19
Alignment explanation
Indices: 129421--129493 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
129411 ATATTTACTT
*
129421 TCGCAACACGAAAAT-GCTA
1 TCGCAACGCG-AAATGGCTA
129440 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGGCTA
* ***
129460 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGGCTA
129479 TCGCAACGCGAAATG
1 TCGCAACGCGAAATG
129494 AAATCGCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 33 0.72
20 13 0.28
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGGCTA
Found at i:129494 original size:19 final size:19
Alignment explanation
Indices: 129459--129540 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
129449 GGAAATGGCT
129459 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
129478 ATCGCAACGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
129496 ATCGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
129510 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
129529 ATCGCAATGCGA
1 ATCGCAATGCGA
129541 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.21
16 2 0.04
18 10 0.19
19 30 0.57
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:129511 original size:32 final size:33
Alignment explanation
Indices: 129475--129537 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
129465 ATGCGAAATG
129475 AAAATCGCAACGCGAAATG-AAATCGCAATGAC
1 AAAATCGCAACGCGAAATGAAAATCGCAATGAC
*
129507 AAAATCGCAATGCGAAATGAAAATCGCAATG
1 AAAATCGCAACGCGAAATGAAAATCGCAATG
129538 CGATTTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (33 bp):
AAAATCGCAACGCGAAATGAAAATCGCAATGAC
Found at i:129588 original size:32 final size:33
Alignment explanation
Indices: 129547--129624 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
129537 GCGATTTGTG
129547 TTTCGCGTTGCGATTTTGTCGTTGCG-CTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGACTTTCA
*
129579 TTTCGCGTTGCGA-TTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGACTTTCA
*
129611 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
129625 AGCCATTTCG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
31 12 0.29
32 30 0.71
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGACTTTCA
Found at i:129621 original size:19 final size:19
Alignment explanation
Indices: 129597--129662 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
129587 TGCGATTTGT
**
129597 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
129616 CATTGCGATAGCCATTTCG
1 CGTTGCGATAGTCATTTCG
129635 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
129654 CGTTGCGAT
1 CGTTGCGAT
129663 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:131547 original size:14 final size:14
Alignment explanation
Indices: 131528--131563 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
131518 ATTGTTTAAT
131528 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
131542 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
131556 TGATTTGT
1 TGATTTGT
131564 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:131689 original size:14 final size:14
Alignment explanation
Indices: 131670--131723 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
131660 CGAAATGGCT
131670 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
131684 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
131703 ATCGTAACGAGAAA
1 ATCGCAACGAGAAA
131717 ATCGCAA
1 ATCGCAA
131724 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:131696 original size:33 final size:33
Alignment explanation
Indices: 131651--131728 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
131641 AAAACAGACT
* ***
131651 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
131684 ATCGCAATGCGAAATGAAAATCGTAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
131717 ATCGCAATGCGA
1 ATCGCAATGCGA
131729 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:131772 original size:20 final size:20
Alignment explanation
Indices: 131747--131804 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
131737 TCGCATTGCG
*
131747 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
131767 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
131787 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
131805 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:132910 original size:24 final size:24
Alignment explanation
Indices: 132854--132912 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
132844 AGTCAGTATT
* *
132854 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
132878 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
132902 CGAATTTTGAT
1 CGAAATTTGAT
132913 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:133104 original size:12 final size:12
Alignment explanation
Indices: 133087--133111 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
133077 ATATAATCCT
133087 GAAGAAGAAAAA
1 GAAGAAGAAAAA
133099 GAAGAAGAAAAA
1 GAAGAAGAAAAA
133111 G
1 G
133112 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:135403 original size:19 final size:19
Alignment explanation
Indices: 135381--135439 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
135371 GGAAATTACT
135381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
135400 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
135414 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
135433 ATCGCAA
1 ATCGCAA
135440 CACGAATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
14 8 0.28
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 15 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:135643 original size:14 final size:14
Alignment explanation
Indices: 135624--135660 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
135614 CATCAATTAA
135624 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
135638 ACAAATCACCTTTT
1 ACAAATCAACTTTT
135652 ACAAATCAA
1 ACAAATCAA
135661 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:137084 original size:21 final size:21
Alignment explanation
Indices: 137018--137084 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
137008 GCGAATCGGG
*
137018 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
137038 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
137060 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
137081 CTCT
1 CTCT
137085 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:137103 original size:42 final size:41
Alignment explanation
Indices: 137018--137140 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
137008 GCGAATCGGG
* * * *
137018 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
137060 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
137102 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
137141 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:139184 original size:39 final size:40
Alignment explanation
Indices: 139141--139281 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 40
139131 TCTTTTGGTT
139141 GAAATGAAAATCGCAACGAG-ATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAATAATGAGAATCGCAACGC
** *
139180 GAAATGACTATCGCAACGAGAATCAACGCGAAATGAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAT-AA--TG--A-G-AATCGCAACGC
* *
139227 GAAAT---AATCGCAACGCAACGCA-AATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACG--A-GAATAATGAGAATCGCAACGC
139266 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
139282 TGCGATTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
39 34 0.42
40 2 0.02
41 3 0.04
42 8 0.10
43 2 0.02
44 9 0.11
45 3 0.04
46 2 0.02
47 18 0.22
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (40 bp):
GAAATGAAAATCGCAACGAGAATAATGAGAATCGCAACGC
Found at i:139245 original size:21 final size:21
Alignment explanation
Indices: 139219--139265 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
139209 GAAATGAAAT
139219 CGCAACGCGAAAT-AATCGCAA
1 CGCAACGC-AAATAAATCGCAA
139240 CGCAACGCAAATGAAAATCGCAA
1 CGCAACGCAAAT--AAATCGCAA
139263 CGC
1 CGC
139266 GAAATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
23 11 0.48
ACGTcount: A:0.43, C:0.30, G:0.19, T:0.09
Consensus pattern (21 bp):
CGCAACGCAAATAAATCGCAA
Found at i:139262 original size:23 final size:19
Alignment explanation
Indices: 139141--139286 Score: 111
Period size: 19 Copynumber: 8.1 Consensus size: 19
139131 TCTTTTGGTT
*
139141 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
139160 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
139180 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
139197 G--A-G--AAT--CAACGC
1 GAAATGAAAATCGCAACGC
139209 GAAATG-AAATCGCAACGC
1 GAAATGAAAATCGCAACGC
139227 GAAAT---AATCGCAACGCAAC
1 GAAATGAAAATCGCAACG---C
139246 GCAAATGAAAATCGCAACGC
1 G-AAATGAAAATCGCAACGC
*
139266 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
139285 GA
1 GA
139287 TTTTTGTTTC
Statistics
Matches: 105, Mismatches: 6, Indels: 32
0.73 0.04 0.22
Matches are distributed among these distances:
10 3 0.03
12 4 0.04
14 2 0.02
15 2 0.02
16 13 0.12
17 2 0.02
18 11 0.10
19 35 0.33
20 23 0.22
23 10 0.10
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:139318 original size:19 final size:19
Alignment explanation
Indices: 139282--139326 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
139272 AAAATCGCAA
*
139282 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
139301 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
139320 TGCGATT
1 TGCGATT
139327 CTCTCGTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:139880 original size:20 final size:20
Alignment explanation
Indices: 139852--139904 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
139842 GCGCTATGTA
139852 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
*
139872 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
139892 TATCTCGTTGCGA
1 AATCACGTTGCGA
139905 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:139944 original size:20 final size:20
Alignment explanation
Indices: 139919--139966 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
139909 GTATTATTGT
139919 ATTGCGATAGTAAGTATCGC
1 ATTGCGATAGTAAGTATCGC
*
139939 ATTGCGATAGTCAGTATCGC
1 ATTGCGATAGTAAGTATCGC
139959 ATTGCGAT
1 ATTGCGAT
139967 TTTCCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTAAGTATCGC
Found at i:140077 original size:21 final size:21
Alignment explanation
Indices: 140037--140077 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
140027 ACTGTATACC
**
140037 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
140058 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
140078 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:140107 original size:20 final size:20
Alignment explanation
Indices: 140084--140129 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
140074 CAACGCGAAT
*
140084 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
140104 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
140123 TTGCGAT
1 TTGCGAT
140130 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:140358 original size:17 final size:17
Alignment explanation
Indices: 140336--140382 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
140326 AAACATTGTC
140336 ATTTTAAATAAAAATTA
1 ATTTTAAATAAAAATTA
*
140353 ATTTTAAATGAAAATTA
1 ATTTTAAATAAAAATTA
*
140370 ATTTTAATTAAAA
1 ATTTTAAATAAAA
140383 CAACAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTTTAAATAAAAATTA
Found at i:143718 original size:214 final size:214
Alignment explanation
Indices: 143263--144449 Score: 1729
Period size: 214 Copynumber: 5.5 Consensus size: 214
143253 ATCTTGGTGA
* ** * * * * * * *
143263 AAAACATCCTGCCCGAAGGTCTTATGGATGATCCAAAAGATTTATTC-TCTTGCTCGAGAGACTC
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA-TCATCTTGCTCTAAAGGCTT
*
143327 ACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATA
*
143392 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
130 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
**
143457 TTCATTTTCAAATTCAAATG
195 TTCATTTTCAAATTCATGTG
* * *
143477 AAAACATCTTACCCGAAGGTCTTATGGAT-G-CCGAAGGACTTGTCATCTTGCTCAAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * * * *
143540 CATATGACTCGAAGGATTTAAACATCCTGCTCGAAAGACTTACTGATGGCCCAAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
*
143605 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA--TT
143670 TTTCATTTTCAAATTCATGTG
194 TTTCATTTTCAAATTCATGTG
*
143691 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
143756 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
* * *
143821 ATTATGAAATTTTGAAAATTGCATTTTTCGTTTT-AATAAATTTCATCTTCTTAAAACATCATTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAA-AAATTTCATCTTCTTAAAACATCATTT
*
143885 TTCATTTTTAAATTCATGTG
195 TTCATTTTCAAATTCATGTG
* * * *
143905 AAAACATCCTACCCGAAGGTTTTACGGATGACTCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
143970 TAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
* * * * *
144035 ATTATGAAATTTTGAAAATTGCATTTTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
144100 TCATTTTCAAATTCATGTG
196 TCATTTTCAAATTCATGTG
* * * * *
144119 AAAACATCCTACTCGAAGGTTTTACGGATGGCCCGAAGGACTTATCCTCTTGCTTTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
144184 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACT-
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTA-TA
** * * * * * * *
144248 AAGCGCGAAATTTTGGAGATCGCCTTCTTAC-TTTTCAAAGATTTCGTTTTCTTAAAACATCATT
130 AATTGTGAAATTTTGAAAATCGCATTCTT-CGTTTTCAAAAATTTCATCTTCTTAAAACATCATT
144312 TTCTCATTCTTCAAATTCATGTG
194 TT-TCATT-TTCAAATTCATGTG
* *
144335 AAAACATCCTACCTGAATGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
144400 TAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGC
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGC
144450 ACTTACCAAT
Statistics
Matches: 888, Mismatches: 74, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
211 2 0.00
212 140 0.16
214 470 0.53
215 12 0.01
216 264 0.30
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (214 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
TCATTTTCAAATTCATGTG
Found at i:143798 original size:42 final size:41
Alignment explanation
Indices: 143717--143817 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
143707 AGGTTTTATG
* * * *
143717 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
143758 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
*
143800 GATGGCTCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
143818 TAAATTATGA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:144237 original size:42 final size:41
Alignment explanation
Indices: 144140--144245 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 41
144130 CTCGAAGGTT
* * * * ** *
144140 TTACGGATGGCCCGAAGGACTTATCCTCTTGCTTTAAAGGC
1 TTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
* *
144181 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTACAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGAC
*
144223 TTACTGATGGCCCGAAGGACTTA
1 TTACAGATGGCCCGAAGGACTTA
144246 CTAAGCGCGA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:144412 original size:41 final size:42
Alignment explanation
Indices: 144355--144447 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
144345 ACCTGAATGT
* * * * * *
144355 CTTATGGATGGCCCGAAGGACTT-ATCATCTTGCTCTAAAGG
1 CTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGAAAGA
*
144396 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGAAAGA
*
144438 CTTATTGATG
1 CTTATAGATG
144448 GCACTTACCA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
CTTATAGATGACCCGAAGGACTTAAGCATCATGCTCGAAAGA
Found at i:145544 original size:126 final size:126
Alignment explanation
Indices: 145227--145534 Score: 476
Period size: 126 Copynumber: 2.5 Consensus size: 126
145217 AGTTGCGAGA
* *
145227 CTCATTCTCAATAACTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTG-C
1 CTCATTCTCAATGACTACTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCC
*
145291 CCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
66 CCCAACATTATCTTATACCGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
* * * * *
145352 CTCATTCTTC-ATGCCTCCGTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTTAGTCGTGC
1 CTCATTC-TCAATGACTACTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGC
*
145416 CCCCAACATTATTTTATACCGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
65 CCCCAACATTATCTTATACCGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
* * * *
145478 CTCATTCTCAATGTCTACTTGTTCTGAATCTGGTCATCTCAACATGATGTGGCTTCA
1 CTCATTCTCAATGACTACTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCA
145535 ACCATGCCCC
Statistics
Matches: 164, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
125 56 0.34
126 108 0.66
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (126 bp):
CTCATTCTCAATGACTACTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCC
CCCAACATTATCTTATACCGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
Found at i:150623 original size:12 final size:12
Alignment explanation
Indices: 150606--150635 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
150596 GCAAAAATAA
150606 AAATGCGAGTGC
1 AAATGCGAGTGC
150618 AAATGCGAGTGC
1 AAATGCGAGTGC
150630 AAATGC
1 AAATGC
150636 ACGAGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (12 bp):
AAATGCGAGTGC
Found at i:155588 original size:13 final size:13
Alignment explanation
Indices: 155572--155620 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
155562 AAAAGCAATG
155572 TGAAAAGGCTAAT
1 TGAAAAGGCTAAT
155585 TGAAAA-GCATGCAAT
1 TGAAAAGGC-T--AAT
155600 GTGAAAAGGCTAAT
1 -TGAAAAGGCTAAT
155614 TGAAAAG
1 TGAAAAG
155621 CATGCAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.06
13 14 0.45
14 3 0.10
15 3 0.10
16 7 0.23
17 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
TGAAAAGGCTAAT
Done.