Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold378
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: 305097
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:1370 original size:26 final size:27
Alignment explanation
Indices: 1332--1392 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
1322 CGTCTTTCAA
1332 ATTTAT-TATTTAT-TTTTTAAAATAT
1 ATTTATATATTTATATTTTTAAAATAT
*
1357 -TTTATATATTTTATATTTTTAATATAT
1 ATTTATATA-TTTATATTTTTAAAATAT
*
1384 ATATATATA
1 ATTTATATA
1393 CATTAATCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 5 0.17
27 11 0.37
28 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTATATATTTATATTTTTAAAATAT
Found at i:2460 original size:21 final size:22
Alignment explanation
Indices: 2431--2471 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2421 TTATTTTTAG
*
2431 ATTTCAATTAT-TTAAATTTTT
1 ATTTAAATTATCTTAAATTTTT
*
2452 ATTTAAATTATCTTGAATTT
1 ATTTAAATTATCTTAAATTT
2472 AACTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAAATTATCTTAAATTTTT
Found at i:4785 original size:19 final size:20
Alignment explanation
Indices: 4733--4787 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
4723 AAAGTTAATT
*
4733 ATATATATATAAA-ATA-CAA
1 ATATA-ATATAAATATATGAA
4752 ATATAATATAAATATATGAA
1 ATATAATATAAATATATGAA
4772 AT-TAAT-TAATATATAT
1 ATATAATATAA-ATATAT
4788 CCGAACTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.31
19 18 0.56
20 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATAATATAAATATATGAA
Found at i:5239 original size:31 final size:31
Alignment explanation
Indices: 5179--5245 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
5169 TGAACACGAT
*
5179 ATAAAAATAATTAAAATATAATACAATACAAA
1 ATAAAAATAATTAAAATATAATAAAATAC-AA
*
5211 ATAAAAAT-ATTAACAT-TAATAAATATACAA
1 ATAAAAATAATTAAAATATAATAAA-ATACAA
5241 ATAAA
1 ATAAA
5246 TCAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 13 0.41
31 11 0.34
32 8 0.25
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (31 bp):
ATAAAAATAATTAAAATATAATAAAATACAA
Found at i:12596 original size:1 final size:1
Alignment explanation
Indices: 12592--12625 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
12582 TTTTTTTTTT
* *
12592 GGGGGGGGGGGGGGGGGGGGGTGGGGGCGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
12626 TCTTTTGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.94, T:0.03
Consensus pattern (1 bp):
G
Found at i:14199 original size:22 final size:23
Alignment explanation
Indices: 14174--14217 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
14164 TTATATAAAA
* *
14174 TAAACGTGACATA-AAATAATTT
1 TAAACATGACACAGAAATAATTT
*
14196 TAAATATGACACAGAAATAATT
1 TAAACATGACACAGAAATAATT
14218 AAATCATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
TAAACATGACACAGAAATAATTT
Found at i:14446 original size:16 final size:16
Alignment explanation
Indices: 14425--14458 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
14415 GCGTTATGTG
14425 TAAATAGTAT-AAATAA
1 TAAATA-TATCAAATAA
14441 TAAATATATCAAATAA
1 TAAATATATCAAATAA
14457 TA
1 TA
14459 TACAATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAATATATCAAATAA
Found at i:15293 original size:2 final size:2
Alignment explanation
Indices: 15286--15328 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15276 TAGATTGGAA
15286 AT AT 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 AT AT
15328 A
1 A
15329 ATAAGAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17403 original size:13 final size:13
Alignment explanation
Indices: 17385--17410 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17375 CAATGTATAT
17385 ACGGCCAGAACCC
1 ACGGCCAGAACCC
17398 ACGGCCAGAACCC
1 ACGGCCAGAACCC
17411 GAATATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.23, T:0.00
Consensus pattern (13 bp):
ACGGCCAGAACCC
Found at i:17762 original size:2 final size:2
Alignment explanation
Indices: 17757--17795 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17747 TTATAGTGTG
17757 TA TA 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 TA TA T
17796 CTGTAGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18220 original size:17 final size:17
Alignment explanation
Indices: 18194--18228 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18184 TGTATCCACC
18194 ACTCACACTCAAATCTA
1 ACTCACACTCAAATCTA
*
18211 ACTCATACTCAAATCTA
1 ACTCACACTCAAATCTA
18228 A
1 A
18229 GTAACATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (17 bp):
ACTCACACTCAAATCTA
Found at i:18819 original size:2 final size:2
Alignment explanation
Indices: 18812--18837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18802 TCTAAATCAA
18812 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
18838 GTTAAACCAG
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:25348 original size:17 final size:17
Alignment explanation
Indices: 25328--25360 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25318 TTTAATTTAT
*
25328 TTATAAAATTAAAAAAA
1 TTATAAAAATAAAAAAA
25345 TTATAAAAATAAAAAA
1 TTATAAAAATAAAAAA
25361 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TTATAAAAATAAAAAAA
Found at i:25745 original size:12 final size:11
Alignment explanation
Indices: 25700--25747 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
25690 TTTGTTTATT
25700 TTTA-TTTAAA
1 TTTATTTTAAA
*
25710 TTTATGTTAAA
1 TTTATTTTAAA
* *
25721 TTAATTTAAAA
1 TTTATTTTAAA
25732 TTTATTTTATAA
1 TTTATTTTA-AA
25744 TTTA
1 TTTA
25748 AAATAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 4 0.13
11 20 0.67
12 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:25747 original size:40 final size:39
Alignment explanation
Indices: 25694--25777 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
25684 AAAGAATTTG
* * * *
25694 TTTATTTTTATTTAAATTTATGTTAAATTAA-TTTAAAA
1 TTTATTTTTATTTAAAATAATATTAAAATAATTTTAAAA
25732 TTTATTTTATAATTTAAAATAATATTAAAATAATTTTAAAA
1 TTTATTTT-T-ATTTAAAATAATATTAAAATAATTTTAAAA
*
25773 ATTAT
1 TTTAT
25778 AATAATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 8 0.21
39 1 0.03
40 18 0.47
41 11 0.29
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTATTTTTATTTAAAATAATATTAAAATAATTTTAAAA
Found at i:25767 original size:29 final size:30
Alignment explanation
Indices: 25716--25795 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
25706 TAAATTTATG
* * * *
25716 TTAAATTAAT-TTAAAATTTATTTTATAAT
1 TTAAAATAATATTAAAATTAATTTTAAAAA
25745 TTAAAATAATATTAAAA-TAATTTTAAAAA
1 TTAAAATAATATTAAAATTAATTTTAAAAA
* *
25774 TTATAATAATATTTATAATTAA
1 TTAAAATAATA-TTAAAATTAA
25796 ATCATCAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 28 0.67
30 11 0.26
31 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAAAATAATATTAAAATTAATTTTAAAAA
Found at i:26202 original size:18 final size:18
Alignment explanation
Indices: 26179--26226 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
26169 AATAATATGT
26179 ATATATAATTTTTAATAA
1 ATATATAATTTTTAATAA
*
26197 ATATATACAATTTTAATAA
1 ATATATA-ATTTTTAATAA
26216 A-AT-TAATTTTT
1 ATATATAATTTTT
26227 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 2 0.07
18 9 0.33
19 11 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATATAATTTTTAATAA
Found at i:26463 original size:55 final size:54
Alignment explanation
Indices: 26401--26506 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
26391 TCTTAAACAT
* **
26401 TTATTTTTAAAATAGTTGTTCAAGATTTAATATAAAATATTTTATAATTTTTTTA
1 TTATTTTT-AAATAATAATTCAAGATTTAATATAAAATATTTTATAATTTTTTTA
* * *
26456 TTATTTTTAAATAATAATTTAAGATTTAATATAAAATATTTTTTTATTTTT
1 TTATTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTATAATTTTT
26507 AAAGATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
54 37 0.82
55 8 0.18
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (54 bp):
TTATTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTATAATTTTTTTA
Found at i:26516 original size:42 final size:44
Alignment explanation
Indices: 26450--26541 Score: 152
Period size: 42 Copynumber: 2.1 Consensus size: 44
26440 TTTTATAATT
*
26450 TTTTTATTATTTTTAAATAATAATTTAAGATTTAATATAAAATA
1 TTTTTATTATTTTTAAATAATAATTTAAAATTTAATATAAAATA
*
26494 TTTTT-TTATTTTTAAA-GATAATTTAAAATTTAATATAAAATA
1 TTTTTATTATTTTTAAATAATAATTTAAAATTTAATATAAAATA
26536 TTTTTA
1 TTTTTA
26542 ATCTTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 29 0.64
43 11 0.24
44 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (44 bp):
TTTTTATTATTTTTAAATAATAATTTAAAATTTAATATAAAATA
Found at i:26557 original size:102 final size:103
Alignment explanation
Indices: 26341--26557 Score: 229
Period size: 102 Copynumber: 2.1 Consensus size: 103
26331 TAAAATTATT
**
26341 TTTTATTTTGTTATTATTTTTAAATAATAATTTGGGATTTAAAATAAAATTCTTAAACATTTATT
1 TTTTATTTT-TTATTATTTTTAAATAATAATTTAAGATTTAAAATAAAATTCTT--A-ATTTATT
* *
26406 TTTAAAATAGTTGTTCAAGATTTAATATAAAATATTTTATAA
62 TTTAAAATAGATGTTCAAAATTTAATATAAAATATTTTATAA
* *
26448 ---T-TTTTTTATTATTTTTAAATAATAATTTAAGATTTAATATAAAATAT-TT-TTTTATTTTT
1 TTTTATTTTTTATTATTTTTAAATAATAATTTAAGATTTAAAATAAAAT-TCTTAATTTATTTTT
26507 AAAGATA-AT-TT-AAAATTTAATATAAAATATTTT-TAA
65 AAA-ATAGATGTTCAAAATTTAATATAAAATATTTTATAA
26543 TCTTTTATTATTTTA
1 --TTTTATT-TTTTA
26558 AAAGAGTACT
Statistics
Matches: 95, Mismatches: 6, Indels: 23
0.77 0.05 0.19
Matches are distributed among these distances:
95 3 0.03
96 21 0.22
97 2 0.02
98 13 0.14
99 3 0.03
100 1 0.01
101 2 0.02
102 44 0.46
103 5 0.05
104 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (103 bp):
TTTTATTTTTTATTATTTTTAAATAATAATTTAAGATTTAAAATAAAATTCTTAATTTATTTTTA
AAATAGATGTTCAAAATTTAATATAAAATATTTTATAA
Found at i:26834 original size:35 final size:35
Alignment explanation
Indices: 26775--26850 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
26765 TATTTTATAA
* *
26775 ATTTTTAAATAATAATTCGTGATTTAATATAAAAT
1 ATTTTTAAAAAATAATTCGAGATTTAATATAAAAT
* *
26810 ATTTTTAAAAAATTATTTGAGATTTAATATAAAAT
1 ATTTTTAAAAAATAATTCGAGATTTAATATAAAAT
26845 ATTTTT
1 ATTTTT
26851 TATTTTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (35 bp):
ATTTTTAAAAAATAATTCGAGATTTAATATAAAAT
Found at i:27169 original size:65 final size:63
Alignment explanation
Indices: 27044--27181 Score: 145
Period size: 65 Copynumber: 2.1 Consensus size: 63
27034 TTTTTATAAA
* * * * *
27044 TTAATTAAATTTAAAAAATTTAAGAAATAATAATATATTAATTATTATTTTTAATAAAAAATAT
1 TTAATTAAATTTAAAAAATTTAAGAAAT-ATAAAATATTAATGATTATTTTGAAAAAAAAAAAT
* *
27108 TTAATTAAGTTTAAAAAATCTATTAATAAAT-TAAAATATTAATGATT-TTTTGAAAACAAAAAA
1 TTAATTAAATTTAAAAAA--T-TTAAGAAATATAAAATATTAATGATTATTTTGAAAA-AAAAAA
27171 AT
62 AT
*
27173 TTAAATAAA
1 TTAATTAAA
27182 AAAATGTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
64 24 0.39
65 28 0.46
66 1 0.02
67 8 0.13
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (63 bp):
TTAATTAAATTTAAAAAATTTAAGAAATATAAAATATTAATGATTATTTTGAAAAAAAAAAAT
Found at i:27391 original size:131 final size:131
Alignment explanation
Indices: 27175--27436 Score: 386
Period size: 131 Copynumber: 2.0 Consensus size: 131
27165 AAAAAAATTT
* * *
27175 AAATAAAAAAATGTTTATTATTATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTA
1 AAATAAAAAAAGGATTATTATTATTAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTA
*
27240 AAAAAATTATATAAACAAATTAAAATATTAATTATTATGTTTTTATAAAAATAAAAATTTTAAAA
66 AAAAAATTACATAAACAAATTAAAATATTAATTATTAT-TTTTT-TAAAAA-AAAAATTTTAAAA
27305 TAAA
128 TAAA
27309 AAATAAAAAAAGGATT-TTATTA-TAATTTTTAATAAAAT-AAAAATAATATTTAATTAAGTTTA
1 AAATAAAAAAAGGATTATTATTATTAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTA
** * * * *
27371 AAAATTTTACATTAATAAATTAAAATATTAATTATTATTTTTTTAAATAAAAAATTTTAAATTAA
66 AAAAAATTACATAAACAAATTAAAATATTAATTATTATTTTTTTAAAAAAAAAATTTTAAAATAA
27436 A
131 A
27437 TAGTTTTTAT
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
128 16 0.14
129 5 0.04
130 5 0.04
131 57 0.48
132 15 0.13
133 6 0.05
134 14 0.12
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (131 bp):
AAATAAAAAAAGGATTATTATTATTAATTTTTAATAAAATAAAAAATAATATTTAATTAAGTTTA
AAAAAATTACATAAACAAATTAAAATATTAATTATTATTTTTTTAAAAAAAAAATTTTAAAATAA
A
Found at i:27769 original size:38 final size:39
Alignment explanation
Indices: 27677--27827 Score: 137
Period size: 39 Copynumber: 3.9 Consensus size: 39
27667 TTTAGTGTTA
* * ** *
27677 ATTAAAATCTAAAAGATATGACTAATGCATAAATTTTTT
1 ATTAGAATTTAAAAGATATGACTAATATATAAATTATTT
* * * *
27716 ATTAGATTTTGAAAGATATTACTAAT-TATAGATTATTT
1 ATTAGAATTTAAAAGATATGACTAATATATAAATTATTT
*
27754 ATTAGAATTTAAAAGATGTGACTAATATATAAA--ATTT
1 ATTAGAATTTAAAAGATATGACTAATATATAAATTATTT
* * * *
27791 TTTAGATTTTTCAAAAGATATGACTGATATATGAATT
1 ATTAGA-ATTT-AAAAGATATGACTAATATATAAATT
27828 TTGTTTTCGA
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
37 9 0.10
38 34 0.38
39 46 0.52
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (39 bp):
ATTAGAATTTAAAAGATATGACTAATATATAAATTATTT
Found at i:28358 original size:175 final size:171
Alignment explanation
Indices: 28154--28489 Score: 460
Period size: 171 Copynumber: 1.9 Consensus size: 171
28144 ATGCATGGAT
* * * *
28154 TATAAATGTCAGATTATAAAGATTAGATTAATGCATAAATTATATCTGAGAA-TCATATTCTTTT
1 TATAAATGTCAGACTACAAAGATTAGATTAATGCATAAATTATATCTAAGAATTCA-ATTCCTTT
* * * * *
28218 TTATAGAAAAAAAAGTTGATTGAGTGTAAATGTTATATTGTAATGATTAGACTAATGCATGAATT
65 TTATAG--AAAAAA-TTGATTGAGTGT-AATGTCAGACTATAAGGATTAGACTAATGCATGAATT
* *
28283 ATAT-TAGATAATCAGATTTTTTTTTATAGAAAAAAAGTTGATTAAG
126 ATATCTA-AGAATCAGATTCTTTTTTATAGAAAAAAAGTTGATTAAG
* * *
28329 TATAAATGTCAGACTACAAAGATTAGATTAATGCATGAATTATATTTAAGAATTGAATTCCTTTT
1 TATAAATGTCAGACTACAAAGATTAGATTAATGCATAAATTATATCTAAGAATTCAATTCCTTTT
*
28394 TATAGAAAAAATTGATTGATTGTAATGTCAGACTATAAGGATTAGACTAATGCATGAATTATATC
66 TATAGAAAAAATTGATTGAGTGTAATGTCAGACTATAAGGATTAGACTAATGCATGAATTATATC
*
28459 TAAGAATCGGATTCTTTTTTATAGAAAAAAA
131 TAAGAATCAGATTCTTTTTTATAGAAAAAAA
28490 AAGACTGTAA
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
171 62 0.43
172 13 0.09
173 6 0.04
175 60 0.42
176 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (171 bp):
TATAAATGTCAGACTACAAAGATTAGATTAATGCATAAATTATATCTAAGAATTCAATTCCTTTT
TATAGAAAAAATTGATTGAGTGTAATGTCAGACTATAAGGATTAGACTAATGCATGAATTATATC
TAAGAATCAGATTCTTTTTTATAGAAAAAAAGTTGATTAAG
Found at i:28361 original size:87 final size:87
Alignment explanation
Indices: 28154--28489 Score: 403
Period size: 87 Copynumber: 3.9 Consensus size: 87
28144 ATGCATGGAT
* * * * *
28154 TATAAATGTCAGATTATAAAGATTAGATTAATGCATAAATTATATCTGAGAATCATATTCTTTTT
1 TATAAATGTCAGACTATAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAGATTCTTTTT
28219 TATAGAAAAAAAAGTTGATTGAG
66 TATAG-AAAAAAAGTTGATTGAG
* * * * * * * *
28242 TGTAAATGTTATATTGTAATGATTAGACTAATGCATGAATTATAT-TAGATAATCAGATTTTTTT
1 TATAAATGTCAGACTATAAAGATTAGACTAATGCATGAATTATATCTA-AGAATCAGATTCTTTT
*
28306 TTATAGAAAAAAAGTTGATTAAG
65 TTATAGAAAAAAAGTTGATTGAG
* * * * *
28329 TATAAATGTCAGACTACAAAGATTAGATTAATGCATGAATTATATTTAAGAAT-TGAATTCCTTT
1 TATAAATGTCAGACTATAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAG-ATTCTTTT
*
28393 TTATAG-AAAAAA-TTGATTGAT
65 TTATAGAAAAAAAGTTGATTGAG
* * *
28414 TGT-AATGTCAGACTATAAGGATTAGACTAATGCATGAATTATATCTAAGAATCGGATTCTTTTT
1 TATAAATGTCAGACTATAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAGATTCTTTTT
28478 TATAGAAAAAAA
66 TATAGAAAAAAA
28490 AAGACTGTAA
Statistics
Matches: 210, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
84 58 0.28
85 16 0.08
86 7 0.03
87 70 0.33
88 59 0.28
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (87 bp):
TATAAATGTCAGACTATAAAGATTAGACTAATGCATGAATTATATCTAAGAATCAGATTCTTTTT
TATAGAAAAAAAGTTGATTGAG
Found at i:28546 original size:68 final size:67
Alignment explanation
Indices: 28423--28556 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 67
28413 TTGTAATGTC
*
28423 AGACTATAAGGATTAGACTAATGCATGAATTATATCTAAGAATCGGATTCTTTTTTATAGAAAAA
1 AGACTATAAGGATTAGACTAATGCATGAATTATATCTAAGAATCGAATTCTTTTTTAT-GAAAAA
28488 AAA
65 AAA
* * * *
28491 AGACTGTAAGGATTAGATTAATGCATGAATTATATCTGA-AATCGAATTCTTTTTTTATTAAAAA
1 AGACTATAAGGATTAGACTAATGCATGAATTATATCTAAGAATCGAATTC-TTTTTTATGAAAAA
28555 AA
65 AA
28557 TTGATTGAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
67 16 0.27
68 44 0.73
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (67 bp):
AGACTATAAGGATTAGACTAATGCATGAATTATATCTAAGAATCGAATTCTTTTTTATGAAAAAA
AA
Found at i:28547 original size:152 final size:153
Alignment explanation
Indices: 28349--28643 Score: 409
Period size: 153 Copynumber: 1.9 Consensus size: 153
28339 AGACTACAAA
* *
28349 GATTAGATTAATGCATGAATTATATTTAAGAATTGAATTCCTTTTTA-TAGAAAAAATTGATTGA
1 GATTAGATTAATGCATGAATTATATCTAAGAATCGAATTCCTTTTTATTA-AAAAAATTGATTGA
* * * * * *
28413 TTGT-AATGTCAGACTATAAGGATTAGACTAATGCATGAATTATATCTA-AGAATCGGATTCTTT
65 GTGTAAATATCAAACTACAAAGATTAGACTAATGCATGAATTATATC-AGAGAATCAGATTCTTT
28476 TTTATAGAAAAAAAAAGACTGTAAG
129 TTTATAGAAAAAAAAAGACTGTAAG
* *
28501 GATTAGATTAATGCATGAATTATATCTGA-AATCGAATTCTTTTTTTATTAAAAAAATTGATTGA
1 GATTAGATTAATGCATGAATTATATCTAAGAATCGAATTC-CTTTTTATTAAAAAAATTGATTGA
* * * *
28565 GTGTAAATATTAAATTGCAAAGATTAGACTAATGCATGAATTCTATCAGAGAATCAGATTCTTTT
65 GTGTAAATATCAAACTACAAAGATTAGACTAATGCATGAATTATATCAGAGAATCAGATTCTTTT
28630 TTATAGAAAAAAAA
130 TTATAGAAAAAAAA
28644 GAAAAGTTGT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
151 9 0.07
152 51 0.41
153 65 0.52
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (153 bp):
GATTAGATTAATGCATGAATTATATCTAAGAATCGAATTCCTTTTTATTAAAAAAATTGATTGAG
TGTAAATATCAAACTACAAAGATTAGACTAATGCATGAATTATATCAGAGAATCAGATTCTTTTT
TATAGAAAAAAAAAGACTGTAAG
Found at i:28692 original size:22 final size:22
Alignment explanation
Indices: 28664--28708 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
28654 TGAGTATAAA
28664 TGTCAGACTATAAAGATTAGAC
1 TGTCAGACTATAAAGATTAGAC
* *
28686 TGTCAGACTGTAAGGATTAGAC
1 TGTCAGACTATAAAGATTAGAC
28708 T
1 T
28709 AATGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (22 bp):
TGTCAGACTATAAAGATTAGAC
Found at i:32185 original size:115 final size:113
Alignment explanation
Indices: 31946--32330 Score: 448
Period size: 115 Copynumber: 3.4 Consensus size: 113
31936 TAAATATTAT
* ** *
31946 TTTTGAATATGTTAATACAATTTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAA-
1 TTTT-AATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAT
* * *
32010 ATAATAATAAA--GAATACTTTTTATTTT-TAAAAAATATAATAATTAATA
65 ATAATAAAAAACCTAAT-TTTTTTATTTTAT-AAAAATATAATAATTAATA
*
32058 TTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATT
1 TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAA-T
*
32123 AGAATAAAAAACCTAAATTTTTTTATTTTATAAAAATATAATAATTAATA
65 ATAATAAAAAACCT-AATTTTTTTATTTTATAAAAATATAATAATTAATA
32173 TTTTAATTTGTTAATGTAATTTTTTTAAAACTTAATTAAATATTA-TTTTTATTTTATTAAAAA-
1 TTTTAATTTGTTAATGTAATTTTTTT-AAACTTAATTAAATATTATTTTTTATTTTATTAAAAAT
* * * * **** * *
32236 ATAATAATAACCCT-TTTATTTTTATTTAAT-TTTTTTTAAAAAATTAATA
65 ATAATAAAAAACCTAATT-TTTTTATTTTATAAAAATAT-AATAATTAATA
*
32285 -TTTAATTT-ATAATGTAATTTTTTTAAACTTAATTAAATATTATTTT
1 TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTT
32331 ATTAAAATAA
Statistics
Matches: 241, Mismatches: 22, Indels: 22
0.85 0.08 0.08
Matches are distributed among these distances:
109 18 0.07
110 18 0.07
111 66 0.27
112 25 0.10
113 20 0.08
115 72 0.30
116 22 0.09
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (113 bp):
TTTTAATTTGTTAATGTAATTTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATA
TAATAAAAAACCTAATTTTTTTATTTTATAAAAATATAATAATTAATA
Found at i:32335 original size:25 final size:25
Alignment explanation
Indices: 32314--32363 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
32304 TTTTTAAACT
*
32314 TAATTAA-ATATTATTTTATTAAAA
1 TAATTAATACATTATTTTATTAAAA
32338 TAATTAATACATTATTATTTATTAAA
1 TAATTAATACATTA-T-TTTATTAAA
32364 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 1 0.05
27 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATTAATACATTATTTTATTAAAA
Found at i:32379 original size:98 final size:107
Alignment explanation
Indices: 31964--32381 Score: 278
Period size: 115 Copynumber: 3.8 Consensus size: 107
31954 ATGTTAATAC
* **
31964 AATTTTTTT-AAATTTAATTAAATATTATTTTTTATTTTATTAAAAAATAATAATAAAGAATACT
1 AATTTTTTTAAAACTTAATTAAATATTA-TTTTTA-TTTA-TAAAAAAT-ATAAT-AACCAT--T
* ** * *
32028 TT-TTATT-TTTAAAAAATAT-AATAATTAATATTTTAATTTGTTAATGT
59 TTATT-TTATTTAATATTTTTAAATAATTAATATTTTAATTTGATAATGT
* * *
32075 AAATTTTTT-AAACTTAATTAAATATTATTTTTTATTTTATTAAAAATTAGAATAAAAAACCTAA
1 AATTTTTTTAAAACTTAATTAAATATTA-TTTTTA-TTTA-TAAAAA--A-TAT-AATAACC--A
* * **** *
32139 ATTT-TTTTATTTTATAAAAATATAATAATTAATATTTTAATTTGTTAATGT
57 TTTTATTTTATTTAATATTTTTA-AATAATTAATATTTTAATTTGATAATGT
*
32190 AATTTTTTTAAAACTTAATTAAATATTATTTTTATTTTATTAAAAAATAATAATAACCCTTTTAT
1 AATTTTTTTAAAACTTAATTAAATATTATTTTTA-TTTA-TAAAAAAT-ATAATAACCATTTTA-
* *
32255 TTTTATTTAATTTTTTTTAAAAAATTAATA-TTTAATTT-ATAATGT
62 TTTTATTTAA-TATTTTTAAATAATTAATATTTTAATTTGATAATGT
*
32300 AATTTTTTT-AAACTTAATTAAATATTA-TTTTA-TTA-AAATAAT-TAAT-A-CATTATTA-TT
1 AATTTTTTTAAAACTTAATTAAATATTATTTTTATTTATAAAAAATATAATAACCATT-TTATTT
32357 TA-TTAA-ATTTTTAAATTTAATTAAT
65 TATTTAATATTTTTAAA--TAATTAAT
32382 TTATTAAAAA
Statistics
Matches: 263, Mismatches: 27, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
96 8 0.03
98 11 0.04
99 4 0.02
100 3 0.01
101 4 0.02
102 4 0.02
104 6 0.02
106 3 0.01
108 5 0.02
109 18 0.07
110 18 0.07
111 52 0.20
112 27 0.10
113 25 0.10
114 2 0.01
115 55 0.21
116 18 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (107 bp):
AATTTTTTTAAAACTTAATTAAATATTATTTTTATTTATAAAAAATATAATAACCATTTTATTTT
ATTTAATATTTTTAAATAATTAATATTTTAATTTGATAATGT
Found at i:33545 original size:20 final size:20
Alignment explanation
Indices: 33511--33644 Score: 73
Period size: 18 Copynumber: 7.2 Consensus size: 20
33501 AGATTCAGTA
33511 ATATATA-TATATATA-TAT
1 ATATATATTATATATATTAT
33529 ATAT-TATTATAATTATATT-T
1 ATATATATTAT-A-TATATTAT
*
33549 A-AAATATTATATAT-TTAT
1 ATATATATTATATATATTAT
*
33567 TTA-ATTATTA-ATATATTAAT
1 ATATA-TATTATATATATT-AT
* *
33587 AATTTATATTATATACATT-T
1 -ATATATATTATATATATTAT
33607 ATATAT-TTATAT-TAATT-T
1 ATATATATTATATAT-ATTAT
33625 -T-TATATTATATA-ATTAT
1 ATATATATTATATATATTAT
33642 ATA
1 ATA
33645 ACATTTAAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 37
0.67 0.05 0.28
Matches are distributed among these distances:
16 6 0.07
17 12 0.13
18 27 0.30
19 16 0.18
20 15 0.17
21 7 0.08
22 7 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATATTATATATATTAT
Found at i:33628 original size:35 final size:34
Alignment explanation
Indices: 33509--33644 Score: 107
Period size: 35 Copynumber: 3.8 Consensus size: 34
33499 TTAGATTCAG
* *
33509 TAATATATATATATATATATATATTATTATAATTATATT
1 TAATA-ATTTATAT-TATATA-ATTA-TATATTTATA-T
* * *
33548 TAAAATATTATATATTTATTTAATTAT-TA-ATATAT
1 TAATA-ATT-TATA-TTATATAATTATATATTTATAT
33583 TAATAATTTATATTATATACATTTATATATTTATAT
1 TAATAATTTATATTATATA-A-TTATATATTTATAT
*
33619 TAAT-TTTTATATTATATAATTATATA
1 TAATAATTTATATTATATAATTATATA
33645 ACATTTAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
32 6 0.07
33 12 0.14
34 8 0.10
35 20 0.24
36 13 0.16
37 2 0.02
38 1 0.01
39 11 0.13
40 9 0.11
41 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TAATAATTTATATTATATAATTATATATTTATAT
Found at i:33642 original size:8 final size:8
Alignment explanation
Indices: 33509--33645 Score: 63
Period size: 8 Copynumber: 16.4 Consensus size: 8
33499 TTAGATTCAG
33509 TAATATATA
1 TAAT-TATA
33518 TATATATATA
1 TA-AT-TATA
33528 TATATTATTA
1 TA-ATTA-TA
33538 TAATTATA
1 TAATTATA
33546 T--TTA-A
1 TAATTATA
*
33551 AATATTATA
1 TA-ATTATA
* *
33560 TATTTATT
1 TAATTATA
33568 TAATTAT-
1 TAATTATA
33575 TAATATATTAA
1 TAAT-TA-T-A
33586 TAATT-TA
1 TAATTATA
33593 T-ATTATA
1 TAATTATA
33600 TACATTTATA
1 TA-A-TTATA
*
33610 TATTTATA
1 TAATTATA
*
33618 TTAATT-TT
1 -TAATTATA
33626 TATATTATA
1 TA-ATTATA
33635 TAATTATA
1 TAATTATA
33643 TAA
1 TAA
33646 CATTTAAAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 35
0.70 0.06 0.24
Matches are distributed among these distances:
5 1 0.01
6 6 0.06
7 11 0.11
8 37 0.36
9 19 0.19
10 24 0.24
11 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (8 bp):
TAATTATA
Found at i:33915 original size:30 final size:29
Alignment explanation
Indices: 33844--33930 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
33834 CTAAATTTTA
*
33844 TAATTTTATTTAAGTAAATTTTTATATTT
1 TAATTTTATTTAAATAAATTTTTATATTT
* * *
33873 TTATTATATTTAAATAAATTTTTATGTTT
1 TAATTTTATTTAAATAAATTTTTATATTT
*
33902 TAATTTGTATTTAAATAACTTTTTATATT
1 TAATTT-TATTTAAATAAATTTTTATATT
33931 AAATAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 29 0.59
30 20 0.41
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
TAATTTTATTTAAATAAATTTTTATATTT
Found at i:33984 original size:30 final size:30
Alignment explanation
Indices: 33948--34008 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
33938 AAATTAATTT
*
33948 AAATTAAAGATTTATTTAGATATAAATTAA
1 AAATTAAAGATTTATTTAGATAAAAATTAA
33978 AAATTAAAGATTTATTTAGATAAAAATTAA
1 AAATTAAAGATTTATTTAGATAAAAATTAA
34008 A
1 A
34009 TTGAGGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTAAAGATTTATTTAGATAAAAATTAA
Found at i:34834 original size:28 final size:26
Alignment explanation
Indices: 34787--34838 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
34777 CGAATCATTA
34787 TTAATTTATTAAAATAATATTTTTAT
1 TTAATTTATTAAAATAATATTTTTAT
34813 TTAATTTTAATTATAAA-AATATTTTT
1 TTAA-TTT-ATTA-AAATAATATTTTT
34839 TTAGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 13 0.57
29 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTAATTTATTAAAATAATATTTTTAT
Found at i:35950 original size:22 final size:21
Alignment explanation
Indices: 35889--35950 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
35879 AGCCCTGTAC
35889 ATTTTATTATAAGAATATCAAT
1 ATTTTATTATAA-AATATCAAT
* * *
35911 GTTTTACTATATATATAT-ATAT
1 ATTTTATTATA-AAATATCA-AT
35933 ATTTTATTATAAACATAT
1 ATTTTATTATAAA-ATAT
35951 GCAAGTATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTTTATTATAAAATATCAAT
Found at i:37696 original size:14 final size:14
Alignment explanation
Indices: 37677--37704 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37667 TTTTTTGAAT
37677 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
37691 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
37705 ATTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTTTTA
Found at i:37709 original size:13 final size:14
Alignment explanation
Indices: 37679--37711 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37669 TTTTGAATTT
*
37679 TTAAAATTTTTATT
1 TTAAAATTTTTATA
37693 TTAAAATTTTTA-A
1 TTAAAATTTTTATA
37706 TTAAAA
1 TTAAAA
37712 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAAATTTTTATA
Found at i:49169 original size:28 final size:28
Alignment explanation
Indices: 49138--49193 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
49128 AATTATTATT
49138 TAAAAAT-AATATAAATAAAATATAAATA
1 TAAAAATAAATAT-AATAAAATATAAATA
* **
49166 TAAATATAAATATTTTAAAATATAAATA
1 TAAAAATAAATATAATAAAATATAAATA
49194 ATATAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
TAAAAATAAATATAATAAAATATAAATA
Found at i:49186 original size:22 final size:22
Alignment explanation
Indices: 49135--49193 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
49125 AAAAATTATT
49135 ATTTAAAA-AT-AATATAAATA
1 ATTTAAAATATAAATATAAATA
**
49155 AAATATAAATATAAATATAAATA
1 ATTTA-AAATATAAATATAAATA
*
49178 TTTTAAAATATAAATA
1 ATTTAAAATATAAATA
49194 ATATAAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 13 0.42
23 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTTAAAATATAAATATAAATA
Found at i:49193 original size:6 final size:6
Alignment explanation
Indices: 49145--49178 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
49135 ATTTAAAAAT
49145 AATATA AATA-A AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AATAT
49179 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:49245 original size:14 final size:16
Alignment explanation
Indices: 49215--49278 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 16
49205 TAACCTATTA
49215 AAAT-TTATATAAATAT
1 AAATATTATAT-AATAT
49231 AAATATT-T-TAATAT
1 AAATATTATATAATAT
*
49245 AATTATTATATAATA-
1 AAATATTATATAATAT
*
49260 AAATA-TATA-AAAAT
1 AAATATTATATAATAT
49274 AAATA
1 AAATA
49279 AATGTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
13 3 0.07
14 20 0.49
15 6 0.15
16 10 0.24
17 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTATATAATAT
Found at i:49540 original size:19 final size:21
Alignment explanation
Indices: 49518--49571 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
49508 AATATCCTTC
49518 TTTTAATTTTATAATT-A-TT
1 TTTTAATTTTATAATTAATTT
49537 TTTT-ATATTT-TAATTAATTT
1 TTTTAAT-TTTATAATTAATTT
49557 TTTTAATTTTTATAA
1 TTTTAA-TTTTATAA
49572 AATTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 6 0.21
21 4 0.14
22 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTAATTTTATAATTAATTT
Found at i:49575 original size:20 final size:19
Alignment explanation
Indices: 49518--49577 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
49508 AATATCCTTC
*
49518 TTTTAA-TTTTATAATTATT
1 TTTTAATTTTTATAAAT-TT
* *
49537 TTTTATATTTTAATTAATTT
1 TTTTA-ATTTTTATAAATTT
49557 TTTTAATTTTTATAAAATTT
1 TTTTAATTTTTAT-AAATTT
49577 T
1 T
49578 ATCACACTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 12 0.36
20 14 0.42
21 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTAATTTTTATAAATTT
Found at i:49931 original size:218 final size:217
Alignment explanation
Indices: 49555--49989 Score: 687
Period size: 218 Copynumber: 2.0 Consensus size: 217
49545 TTTAATTAAT
*
49555 TTTTTTAATTTTTATAAAATTTTATCACACTTATTTTAATCAAATACAAATTAATTTAATATAAA
1 TTTTTTAATTTTTATAAAATTTTATCACACTTATTTTAATCAAATAAAAATTAA-TTAATATAAA
* * * *
49620 GTATTAAATATAAATTTAATATTGAGCGATTTAAGGTCGAAGGTTTCATTTTTATTTCGAGATCA
65 GTATTAAATATAAATTTAATATTAAACGATTTAAGGTCGAAGGTTTCATTTTCATTTCGAAATCA
* *
49685 AGGTCGTTGATTAAATTTTTTATTAAAATCAAGCGTAAAATAAATTTGAAT-AA-ATATATAAAG
130 AGGTCATTGATTAAATTTTTTATTAAAATCAAGCGTAAAATAAATTTAAATAAATATATATAAAG
*
49748 ATCGAAGCAAGAAAAAAATTGTA
195 ATAGAAGCAAGAAAAAAATTGTA
*
49771 TTTTTTATTTTTTATAAAATTTTATCACACTTATTTAATTTAATCAAATAAAAATTAA-TAATAT
1 TTTTTTAATTTTTATAAAATTTTATCACACTTA--T--TTTAATCAAATAAAAATTAATTAATAT
49835 AAAGTATTAAATATAAATTTAATATTAAACGATTTAAGGTCGAAGGTTTCATTTTCATTTCGAAA
62 AAAGTATTAAATATAAATTTAATATTAAACGATTTAAGGTCGAAGGTTTCATTTTCATTTCGAAA
* *
49900 TCAATGTCATTGATTAAATTTTTTATTAAAATCAAGTGTAAAATAAATTTAAATAAATATATATA
127 TCAAGGTCATTGATTAAATTTTTTATTAAAATCAAGCGTAAAATAAATTTAAATAAATATATATA
* *
49965 AAGATAGGAGCAAGAAAAGAATTGT
192 AAGATAGAAGCAAGAAAAAAATTGT
49990 CCTGCCCCAC
Statistics
Matches: 200, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
216 32 0.16
218 118 0.59
219 2 0.01
220 48 0.24
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (217 bp):
TTTTTTAATTTTTATAAAATTTTATCACACTTATTTTAATCAAATAAAAATTAATTAATATAAAG
TATTAAATATAAATTTAATATTAAACGATTTAAGGTCGAAGGTTTCATTTTCATTTCGAAATCAA
GGTCATTGATTAAATTTTTTATTAAAATCAAGCGTAAAATAAATTTAAATAAATATATATAAAGA
TAGAAGCAAGAAAAAAATTGTA
Found at i:50282 original size:24 final size:23
Alignment explanation
Indices: 50255--50305 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
50245 AAAAGAAAAG
50255 TTAATATGCAATACTAAAATATTT
1 TTAATATGCAATACTAAAAT-TTT
* * **
50279 TTAATGTGTAATGTTAAAATTTT
1 TTAATATGCAATACTAAAATTTT
50302 TTAA
1 TTAA
50306 AAATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (23 bp):
TTAATATGCAATACTAAAATTTT
Found at i:51053 original size:21 final size:21
Alignment explanation
Indices: 51029--51100 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 21
51019 TTATTTATTT
51029 TTTAAATATTTATATTCAATA
1 TTTAAATATTTATATTCAATA
* * *
51050 TTTATATAATTT-TTTTAAATA
1 TTTAAAT-ATTTATATTCAATA
*
51071 TATATAAA-ATTTATA-TCCATA
1 T-T-TAAATATTTATATTCAATA
*
51092 TTCAAATAT
1 TTTAAATAT
51101 ACTCATATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 23 0.61
22 6 0.16
23 3 0.08
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAATATTTATATTCAATA
Found at i:54578 original size:18 final size:18
Alignment explanation
Indices: 54532--54579 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
54522 AATATTTTTA
*
54532 AAAAATATAT-ATACTTT
1 AAAAATATATGATACTTG
54549 AAAAATATTATGATA-TGTG
1 AAAAATA-TATGATACT-TG
54568 AAAAATATATGA
1 AAAAATATATGA
54580 GCATGGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 9 0.33
19 11 0.41
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (18 bp):
AAAAATATATGATACTTG
Found at i:55709 original size:20 final size:21
Alignment explanation
Indices: 55686--55737 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
55676 ATTAATATTT
55686 ATAATTTAATTTAAATAAA-A
1 ATAATTTAATTTAAATAAATA
*
55706 ATAATTT-TTATTAAATAAATA
1 ATAATTTAAT-TTAAATAAATA
55727 ATAATTTAATT
1 ATAATTTAATT
55738 CAGATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 9 0.33
22 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATTTAATTTAAATAAATA
Found at i:56195 original size:15 final size:17
Alignment explanation
Indices: 56175--56213 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
56165 TAATTAAAAG
56175 TTATATTATTT-AAT-T
1 TTATATTATTTAAATAT
*
56190 TTATATTTTTTAAATAT
1 TTATATTATTTAAATAT
56207 TTATATT
1 TTATATT
56214 TAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 3 0.14
17 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATTATTTAAATAT
Found at i:56221 original size:15 final size:14
Alignment explanation
Indices: 56180--56239 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
56170 AAAAGTTATA
*
56180 TTATTTAATTTTATAT
1 TTATTTAA-TATAT-T
56196 TT-TTTAA-ATATT
1 TTATTTAATATATT
56208 TATATTTAATATATAT
1 T-TATTTAATATAT-T
56224 TTATTTAATATATT
1 TTATTTAATATATT
56238 TT
1 TT
56240 CTAAGGTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 2 0.05
13 4 0.10
14 8 0.21
15 21 0.54
16 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTAATATATT
Found at i:56223 original size:17 final size:17
Alignment explanation
Indices: 56189--56236 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
56179 ATTATTTAAT
** *
56189 TTTATATTTTTTAAATA
1 TTTATATTTAATATATA
56206 TTTATATTTAATATATA
1 TTTATATTTAATATATA
56223 -TT-TATTTAATATAT
1 TTTATATTTAATATAT
56237 TTTCTAAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 12 0.43
16 2 0.07
17 14 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATTTAATATATA
Found at i:56414 original size:30 final size:31
Alignment explanation
Indices: 56392--56452 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
56382 AAATTAATTT
* * *
56392 AAAAATTTATTTTTTTATTTAAAATAATAAC
1 AAAAAATTATTTTTATATTTAAATTAATAAC
* *
56423 AAAAAATTATTTTTATATTAAAATTTATAA
1 AAAAAATTATTTTTATATTTAAATTAATAA
56453 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
AAAAAATTATTTTTATATTTAAATTAATAAC
Found at i:58899 original size:15 final size:14
Alignment explanation
Indices: 58879--58923 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
58869 GTGATTAATG
*
58879 ATTTATAATGATAGA
1 ATTTATAATCATA-A
58894 ATTTATAATCATAA
1 ATTTATAATCATAA
58908 A-TTAT-AT-ATAA
1 ATTTATAATCATAA
58919 ATTTA
1 ATTTA
58924 ATTTATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 5 0.18
13 4 0.14
14 2 0.07
15 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (14 bp):
ATTTATAATCATAA
Found at i:60883 original size:2 final size:2
Alignment explanation
Indices: 60878--60902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60868 CTCTCTAATT
60878 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 T
60903 TAATAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61778 original size:18 final size:18
Alignment explanation
Indices: 61751--61805 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
61741 AAATTGATAT
*
61751 AAAT-ATAAAATATTTTA
1 AAATAATAAAATATTATA
61768 AAATAATAAAATA-TATA
1 AAATAATAAAATATTATA
61785 AATATAATATAAATA-TATA
1 AA-ATAATA-AAATATTATA
61804 AA
1 AA
61806 TTATCAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.26
18 14 0.41
19 11 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAATAAAATATTATA
Found at i:61779 original size:8 final size:9
Alignment explanation
Indices: 61753--61817 Score: 57
Period size: 8 Copynumber: 7.3 Consensus size: 9
61743 ATTGATATAA
61753 ATATAAAAT
1 ATATAAAAT
*
61762 ATTTTAAAAT
1 A-TATAAAAT
61772 A-ATAAAAT
1 ATATAAAAT
61780 ATAT-AAAT
1 ATATAAAAT
61788 ATAATATAAAT
1 AT-ATA-AAAT
61799 ATAT-AAAT
1 ATATAAAAT
*
61807 -TATCAAAT
1 ATATAAAAT
61815 ATA
1 ATA
61818 GTGAAAAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
7 3 0.06
8 21 0.45
9 7 0.15
10 10 0.21
11 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
ATATAAAAT
Found at i:61798 original size:27 final size:26
Alignment explanation
Indices: 61747--61817 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
61737 ATTAAAATTG
**
61747 ATATAAATATA-AAATATTTTAAAAT
1 ATATAAATATATAAATATAATAAAAT
61772 A-ATAAAATATATAAATATAATATAAAT
1 ATAT-AAATATATAAATATAATA-AAAT
61799 ATATAAAT-TATCAAATATA
1 ATATAAATATAT-AAATATA
61818 GTGAAAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 11 0.28
27 16 0.41
28 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
ATATAAATATATAAATATAATAAAAT
Found at i:62905 original size:3 final size:3
Alignment explanation
Indices: 62899--62928 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
62889 AAAAACATGT
62899 ATA ATA ATTA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA AT
62929 GTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:63938 original size:2 final size:2
Alignment explanation
Indices: 63931--63959 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63921 AAACTTTAGG
63931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63960 ATTAGTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64475 original size:20 final size:20
Alignment explanation
Indices: 64428--64477 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
64418 AATTAATATC
*
64428 ACTAAATCAAATAATATTAA
1 ACTAAATCAAATAACATTAA
* *
64448 ATTGAATCAAATAACATTAA
1 ACTAAATCAAATAACATTAA
64468 ACTAAATCAA
1 ACTAAATCAA
64478 TCATATAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (20 bp):
ACTAAATCAAATAACATTAA
Found at i:65293 original size:22 final size:23
Alignment explanation
Indices: 65268--65313 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
65258 AATTTAAAAT
*
65268 TTTATTTAAATAAATCAA-TAAA
1 TTTAATTAAATAAATCAATTAAA
*
65290 TTTAATTAATTAAATCAATTAAA
1 TTTAATTAAATAAATCAATTAAA
65313 T
1 T
65314 AAGTCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATTAAATAAATCAATTAAA
Found at i:65853 original size:12 final size:13
Alignment explanation
Indices: 65836--65887 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
65826 ATATTTATTT
65836 TTTTAAA-TAAAA
1 TTTTAAATTAAAA
*
65848 TTTTAAATTTAAA
1 TTTTAAATTAAAA
*
65861 TTTTATAAATAAAA
1 TTTTA-AATTAAAA
* *
65875 ATTAAAATTAAAA
1 TTTTAAATTAAAA
65888 AAAATTTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 7 0.22
13 16 0.50
14 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTTAAATTAAAA
Found at i:65864 original size:26 final size:27
Alignment explanation
Indices: 65815--65883 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
65805 TTTATTGGTT
* *
65815 TAAAAAGTTTAATATTT-ATTTTTTTAAA
1 TAAAAA-TTTAA-ATTTAAATTTTATAAA
*
65843 TAAAATTTTAAATTTAAATTTTATAAA
1 TAAAAATTTAAATTTAAATTTTATAAA
*
65870 TAAAAATTAAAATT
1 TAAAAATTTAAATT
65884 AAAAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.11
27 26 0.74
28 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (27 bp):
TAAAAATTTAAATTTAAATTTTATAAA
Found at i:66180 original size:12 final size:12
Alignment explanation
Indices: 66163--66188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66153 TGATGCATAA
66163 ATTATTAAATAT
1 ATTATTAAATAT
66175 ATTATTAAATAT
1 ATTATTAAATAT
66187 AT
1 AT
66189 AAATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATTAAATAT
Found at i:67939 original size:23 final size:23
Alignment explanation
Indices: 67913--67989 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
67903 AAATATGATA
67913 TAAATAAATTGAATTTTTAAAAT
1 TAAATAAATTGAATTTTTAAAAT
* * *
67936 TAAATAAATTG-A-GTGT-ATA-
1 TAAATAAATTGAATTTTTAAAAT
*
67955 TAAATGAATTGAATTTTTAAAAT
1 TAAATAAATTGAATTTTTAAAAT
*
67978 TAAGTAAATTGA
1 TAAATAAATTGA
67990 GTGTAACATC
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 10 0.24
20 3 0.07
21 4 0.10
22 3 0.07
23 21 0.51
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.40
Consensus pattern (23 bp):
TAAATAAATTGAATTTTTAAAAT
Found at i:67965 original size:42 final size:42
Alignment explanation
Indices: 67910--67994 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
67900 AATAAATATG
67910 ATATAAATAAATTGAATTTTTAAAATTAAATAAATTGAGTGT
1 ATATAAATAAATTGAATTTTTAAAATTAAATAAATTGAGTGT
* *
67952 ATATAAATGAATTGAATTTTTAAAATTAAGTAAATTGAGTGT
1 ATATAAATAAATTGAATTTTTAAAATTAAATAAATTGAGTGT
67994 A
1 A
67995 ACATCAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (42 bp):
ATATAAATAAATTGAATTTTTAAAATTAAATAAATTGAGTGT
Found at i:68025 original size:2 final size:2
Alignment explanation
Indices: 68014--68046 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
68004 AGTTACTCTC
68014 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68047 GATAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:68290 original size:31 final size:32
Alignment explanation
Indices: 68231--68290 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
68221 TCTTTTTTTA
68231 TTTTAAATTTAATAATATTAAAAATGAATCTT
1 TTTTAAATTTAATAATATTAAAAATGAATCTT
* * *
68263 TTTTTAATTTAATATTATT-GAAATGAAT
1 TTTTAAATTTAATAATATTAAAAATGAAT
68291 GTTATCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (32 bp):
TTTTAAATTTAATAATATTAAAAATGAATCTT
Found at i:68362 original size:12 final size:13
Alignment explanation
Indices: 68335--68369 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
68325 ATTTCATCTC
68335 AAAATAATTTTAA
1 AAAATAATTTTAA
*
68348 AAAATAGTTTTAA
1 AAAATAATTTTAA
*
68361 AAGATAATT
1 AAAATAATT
68370 ATTATAAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:68518 original size:2 final size:2
Alignment explanation
Indices: 68511--68542 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
68501 AAAAATAACA
68511 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
68543 TAGCAACTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69597 original size:9 final size:10
Alignment explanation
Indices: 69574--69611 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
69564 AAAATTTATC
69574 TTTTAAAAAA
1 TTTTAAAAAA
69584 TTTTAAAAAA
1 TTTTAAAAAA
69594 -TTTAAATTAAA
1 TTTTAAA--AAA
69605 TTTTAAA
1 TTTTAAA
69612 TTTAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.24
10 10 0.40
11 3 0.12
12 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:69775 original size:29 final size:29
Alignment explanation
Indices: 69740--69797 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
69730 GAAAATATGA
*
69740 AAAATAAAATTAAAATGAAGTTAATAGGG
1 AAAATAAAATTAAAATGAAATTAATAGGG
69769 AAAATAAAATTAAAATGAAATTAATAGGG
1 AAAATAAAATTAAAATGAAATTAATAGGG
69798 TGAATTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAATAAAATTAAAATGAAATTAATAGGG
Found at i:71100 original size:44 final size:44
Alignment explanation
Indices: 71051--71186 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
71041 GTTAATTAAA
*
71051 ATGATATTATTTTTATTTTTAATAAAGTTATATCATTTGATTCG
1 ATGATATTATTTTTATTTTTAATAAAGTTATATCATTTAATTCG
* * ** * * *
71095 TTGATATTA--TATAGATTT-ATACAG---TATCAATTAATTAG
1 ATGATATTATTTTTATTTTTAATAAAGTTATATCATTTAATTCG
* *
71133 AAGATATCATTTTTATTTTTAATAAAGTTATATCATTTAATTC-
1 ATGATATTATTTTTATTTTTAATAAAGTTATATCATTTAATTCG
71176 ACTGATATTAT
1 A-TGATATTAT
71187 ATAAATTTAT
Statistics
Matches: 66, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
38 17 0.26
40 6 0.09
41 10 0.15
42 6 0.09
43 1 0.02
44 26 0.39
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (44 bp):
ATGATATTATTTTTATTTTTAATAAAGTTATATCATTTAATTCG
Found at i:71153 original size:82 final size:83
Alignment explanation
Indices: 71027--71197 Score: 254
Period size: 82 Copynumber: 2.1 Consensus size: 83
71017 ATAGTTTATG
* * * * *
71027 TTTATATATTATCAGTTAATTAAAATGATATTATTTTTATTTTTAATAAAGTTATATCATTTGAT
1 TTTATACAGTATCAATTAATTAAAATGATATCATTTTTATTTTTAATAAAGTTATATCATTTAAT
** *
71092 TCGTTGATATTATATAGA
66 TCACTGATATTATATAAA
*
71110 TTTATACAGTATCAATTAATTAGAA-GATATCATTTTTATTTTTAATAAAGTTATATCATTTAAT
1 TTTATACAGTATCAATTAATTAAAATGATATCATTTTTATTTTTAATAAAGTTATATCATTTAAT
71174 TCACTGATATTATATAAA
66 TCACTGATATTATATAAA
71192 TTTATA
1 TTTATA
71198 TACTATTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 58 0.73
83 21 0.27
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (83 bp):
TTTATACAGTATCAATTAATTAAAATGATATCATTTTTATTTTTAATAAAGTTATATCATTTAAT
TCACTGATATTATATAAA
Found at i:71698 original size:106 final size:106
Alignment explanation
Indices: 71512--71724 Score: 390
Period size: 106 Copynumber: 2.0 Consensus size: 106
71502 CGCCGTTTAG
*
71512 ATAGTCCGGCATGGTAGGTTTCCCTCCATGCTTCCAAGGGCACCCAAAGCAAAAACTCTAATTAG
1 ATAGTCCAGCATGGTAGGTTTCCCTCCATGCTTCCAAGGGCACCCAAAGCAAAAACTCTAATTAG
71577 GGTTTGGAACAGTTTATGTGGAATTATTTTGGCAAAGTATT
66 GGTTTGGAACAGTTTATGTGGAATTATTTTGGCAAAGTATT
*
71618 ATAGTCCAGCATGGTAGGTTTCCCTCCATGCTTCCAAGTGCACCCAAAGCAAAAACTCTAATTAG
1 ATAGTCCAGCATGGTAGGTTTCCCTCCATGCTTCCAAGGGCACCCAAAGCAAAAACTCTAATTAG
* *
71683 GGTTTGGAACTGTTTATGTGGAATTATTTTGGCTAAGTATT
66 GGTTTGGAACAGTTTATGTGGAATTATTTTGGCAAAGTATT
71724 A
1 A
71725 AAGTAAGGTA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (106 bp):
ATAGTCCAGCATGGTAGGTTTCCCTCCATGCTTCCAAGGGCACCCAAAGCAAAAACTCTAATTAG
GGTTTGGAACAGTTTATGTGGAATTATTTTGGCAAAGTATT
Found at i:71983 original size:13 final size:13
Alignment explanation
Indices: 71954--72000 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
71944 AAAAATATTT
71954 TAAAT-TTAATTA
1 TAAATATTAATTA
71966 TAAATATTAA-TA
1 TAAATATTAATTA
71978 TAAA-A-TAATT-
1 TAAATATTAATTA
71988 TATAATATTAATT
1 TA-AATATTAATT
72001 TTAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 5 0.17
11 4 0.13
12 12 0.40
13 9 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATTAATTA
Found at i:72012 original size:30 final size:29
Alignment explanation
Indices: 71972--72028 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
71962 ATTATAAATA
*
71972 TTAATATAAAAT-AATTTATAATATTAATT
1 TTAATATAAAATAAATTT-TAAAATTAATT
72001 TTAATAATAAAATAAATTTTAAAATTAA
1 TTAAT-ATAAAATAAATTTTAAAATTAA
72029 CTTAAATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 15 0.60
31 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAATATAAAATAAATTTTAAAATTAATT
Found at i:72526 original size:17 final size:17
Alignment explanation
Indices: 72500--72541 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
72490 TTTGAATTTA
*
72500 AAATAAATATTAAATAT
1 AAATATATATTAAATAT
*
72517 AAATATATATTTAATAT
1 AAATATATATTAAATAT
*
72534 AAACATAT
1 AAATATAT
72542 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATATTAAATAT
Found at i:72571 original size:11 final size:11
Alignment explanation
Indices: 72557--72610 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
72547 TTTTATAAAT
72557 TTTTAAATATA
1 TTTTAAATATA
72568 TTTTAAA-A-A
1 TTTTAAATATA
* *
72577 -TTTATATTTA
1 TTTTAAATATA
72587 TATTTAAATATA
1 T-TTTAAATATA
*
72599 TATTAAATATA
1 TTTTAAATATA
72610 T
1 T
72611 CCTGAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
8 5 0.15
9 1 0.03
10 2 0.06
11 17 0.50
12 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:72577 original size:21 final size:21
Alignment explanation
Indices: 72547--72610 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
72537 CATATTTATT
*
72547 TTTTATAAATTTTTAAATATA
1 TTTTAAAAATTTTTAAATATA
* **
72568 TTTTAAAAATTTATATTTATA
1 TTTTAAAAATTTTTAAATATA
* *
72589 -TTTAAATATATATTAAATATA
1 TTTTAAAAAT-TTTTAAATATA
72610 T
1 T
72611 CCTGAATAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAAAATTTTTAAATATA
Found at i:75066 original size:15 final size:14
Alignment explanation
Indices: 75046--75075 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
75036 AACTCCAAAA
75046 TAAATTTAAATTATT
1 TAAATTTAAA-TATT
75061 TAAATTTAAATATT
1 TAAATTTAAATATT
75075 T
1 T
75076 GTATCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTTAAATATT
Found at i:86619 original size:11 final size:11
Alignment explanation
Indices: 86603--86629 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
86593 CCCCACACTT
86603 GTCCTTTGCTC
1 GTCCTTTGCTC
86614 GTCCTTTGCTC
1 GTCCTTTGCTC
86625 GTCCT
1 GTCCT
86630 CAAGCAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.37, G:0.19, T:0.44
Consensus pattern (11 bp):
GTCCTTTGCTC
Found at i:87265 original size:9 final size:9
Alignment explanation
Indices: 87253--87286 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
87243 TTTTTTTTTG
87253 TTTTTTAAA
1 TTTTTTAAA
87262 TTTTTTTAAA
1 -TTTTTTAAA
87272 TTTTTTAAA
1 TTTTTTAAA
87281 TTTTTT
1 TTTTTT
87287 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:87266 original size:10 final size:10
Alignment explanation
Indices: 87253--87287 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
87243 TTTTTTTTTG
87253 TTTTTTAAAT
1 TTTTTTAAAT
87263 TTTTTTAAA-
1 TTTTTTAAAT
87272 TTTTTTAAAT
1 TTTTTTAAAT
87282 TTTTTT
1 TTTTTT
87288 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:87296 original size:12 final size:12
Alignment explanation
Indices: 87281--87312 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
87271 ATTTTTTAAA
87281 TTTTTTTCTTTT
1 TTTTTTTCTTTT
87293 TTTTTTTCTTTT
1 TTTTTTTCTTTT
87305 TTTCTTTT
1 TTT-TTTT
87313 TCAAAGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:92506 original size:159 final size:159
Alignment explanation
Indices: 92256--92607 Score: 551
Period size: 159 Copynumber: 2.2 Consensus size: 159
92246 TACTTACAGG
* *
92256 AATATAAAAGATTAGAAAAAATAATTAAAATTAATTTTGAAAGTATTAATTCAATTTAATTTAAT
1 AATATAAAAGATTAGAAAAAATAATTAAAATTTATTCTGAAAGTATTAATTCAATTTAATTTAAT
* *
92321 TTATTTTTGAAAATACCATTTCATACCTTAATAGAAGCCTAAAAGAATACGAAACGTTTTTGAAA
66 TTATTTTCGAAAATACCATTTCATACCTTAATAGAAGCCCAAAAGAATACGAAACGTTTTTGAAA
*
92386 TCTTTTATACCCATGCAAATGCCCATAGA
131 TCTTTTATACCCATACAAATGCCCATAGA
* *
92415 AATATAAAAGATTAGAAAAAATAATTAAAATTTATTCTGAAAGTATTAATTTAATTTAATTTTAT
1 AATATAAAAGATTAGAAAAAATAATTAAAATTTATTCTGAAAGTATTAATTCAATTTAATTTAAT
* * * *
92480 TTATTTTCGAAAATACCATTTCATACCTTAATGGAAGCCCAAAAGGATATGAAATGTTTTTGAAA
66 TTATTTTCGAAAATACCATTTCATACCTTAATAGAAGCCCAAAAGAATACGAAACGTTTTTGAAA
*** **
92545 TCTTTTATACGTTTACGGATGCCCATAGA
131 TCTTTTATACCCATACAAATGCCCATAGA
*
92574 AATATAAAAGATTAGAAAAAATAATTATAATTTA
1 AATATAAAAGATTAGAAAAAATAATTAAAATTTA
92608 ATTTTACCAC
Statistics
Matches: 176, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
159 176 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (159 bp):
AATATAAAAGATTAGAAAAAATAATTAAAATTTATTCTGAAAGTATTAATTCAATTTAATTTAAT
TTATTTTCGAAAATACCATTTCATACCTTAATAGAAGCCCAAAAGAATACGAAACGTTTTTGAAA
TCTTTTATACCCATACAAATGCCCATAGA
Found at i:93551 original size:18 final size:18
Alignment explanation
Indices: 93502--93558 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
93492 GCTTGGTGTT
93502 TGCTATTTTCGGTTGTTGC
1 TGCT-TTTTCGGTTGTTGC
93521 TGCTTGTTT-GGTTGCTTGC
1 TGCTT-TTTCGGTTG-TTGC
93540 TG-TTTTTCGGTTGTTGC
1 TGCTTTTTCGGTTGTTGC
93557 TG
1 TG
93559 GTGTTGCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.26
18 13 0.37
19 13 0.37
ACGTcount: A:0.02, C:0.14, G:0.30, T:0.54
Consensus pattern (18 bp):
TGCTTTTTCGGTTGTTGC
Found at i:93682 original size:3 final size:3
Alignment explanation
Indices: 93676--93734 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
93666 TTTCTTTTGA
93676 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93724 ATT ATT ATT AT
1 ATT ATT ATT AT
93735 AACTATCCTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:100767 original size:13 final size:13
Alignment explanation
Indices: 100749--100774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100739 ACAAAGATCC
100749 ATGTATCGATACA
1 ATGTATCGATACA
100762 ATGTATCGATACA
1 ATGTATCGATACA
100775 TTGAGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:100850 original size:19 final size:18
Alignment explanation
Indices: 100826--100888 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
100816 AGCGACACAC
100826 TGTATCGATACAACACTTA
1 TGTATCGATACAACA-TTA
100845 TGTATCGAT---ACA-T-
1 TGTATCGATACAACATTA
100858 TGTATCGATACAACAGTTA
1 TGTATCGATACAACA-TTA
100877 TGTATCGATACA
1 TGTATCGATACA
100889 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAACATTA
Found at i:100863 original size:13 final size:13
Alignment explanation
Indices: 100845--100869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100835 ACAACACTTA
100845 TGTATCGATACAT
1 TGTATCGATACAT
100858 TGTATCGATACA
1 TGTATCGATACA
100870 ACAGTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:100867 original size:32 final size:32
Alignment explanation
Indices: 100826--100888 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
100816 AGCGACACAC
100826 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
100858 TGTATCGATACAACAGTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
100889 GTTACTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:100903 original size:21 final size:18
Alignment explanation
Indices: 100826--100910 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
100816 AGCGACACAC
*
100826 TGTATCGATACAACACTT
1 TGTATCGATACAACAGTT
100844 ATGTATCGAT---ACA--T
1 -TGTATCGATACAACAGTT
100858 TGTATCGATACAACAGTT
1 TGTATCGATACAACAGTT
*
100876 ATGTATCGATACAGTTACTGTT
1 -TGTATCGATACA---ACAGTT
100898 TGTATCGATACAA
1 TGTATCGATACAA
100911 ATTGTTGAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 19
0.74 0.01 0.25
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 6 0.11
18 2 0.04
19 21 0.38
21 12 0.21
22 5 0.09
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAACAGTT
Found at i:101841 original size:101 final size:99
Alignment explanation
Indices: 101671--102678 Score: 521
Period size: 87 Copynumber: 10.9 Consensus size: 99
101661 CGAAGAATGA
* * * * **
101671 CAATGTGCTGATTCATA-GCCAGCGATATTAGACGTGAAGAAGAA--TGCCAATGTGCTGAGACA
1 CAATATGCTGATTCA-AGGCCAGCGATATTGGAC-TTAAGATGAAGGTGCCAATGTGCTGATTCA
* * *
101733 AGGCCAACGACATTGGGCTT-AGGAATGCTAAAGATGC
64 AGGCCAGCGACATTGGGCTTAAAG-ATGC-AAAGGTGC
*
101770 CAATACGCTGATTCAAGGCC-GACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCA
1 CAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAA-GATGAAGGTGCCAATGTGCTGATTCA
* ** *
101834 AGGCCAACGACATTGGTTTTAACGA--C-AAGGTGC
64 AGGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* *
101867 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T----T--A--TGCCAATATGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
* * *
101923 GCCAGCGACATTGGTCTTAGAGATGACAAAGGCGC
66 GCCAGCGACATTGGGCTTAAAGATG-CAAAGGTGC
* * * * *
101958 CAATATGCTGATTTAAGGCCAGTGATATTGGATTTAAAGATGAAGGTGCCAATGTACTGATTAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
** *
102023 GGCCAGCGACATTGGATTTAAAGATGACAAAGGCGC
65 GGCCAGCGACATTGGGCTTAAAGATG-CAAAGGTGC
102059 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T----T----GTGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
* * * **
102115 GCCAGCAACATTGGTCTTGAAGATGGTTAAGGTGC
66 GCCAGCGACATTGGGCTTAAAGAT-GCAAAGGTGC
* * * * * * * *
102150 CAATGTGTTGATTCAAGGCCAACAATATCGGTCTTAAAGACGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
*
102215 GGCCAGCGATATTGGGC-T-----T------GTGC
65 GGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* * ** ** *
102238 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
* *
102303 GGCCAACGATATTGGGC-T-----T------GTGC
65 GGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* * * * * * *
102326 CAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
*
102390 GGCCAGCGATATTGGGC-T-----T----A--TGC
65 GGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* * * * * *
102413 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
* *
102477 GGCCAGCAATATTGGGCTT----AT------GT--
65 GGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* * * ** * *
102500 CAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
* *
102564 GGCCAGCGATATTGGAC-T-----T--AAAGGTGC
65 GGCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
* * * * * * *
102591 CAATGTGCTGATTCAAGGCCAGCGACATCGGTCTCAAAGATGAAGGTGCCAATATGCTGATTCCA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACT-TAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
102656 GGCCAGCGATATTGGACTTAAAG
65 GGCCAGCGACATTGGGCTTAAAG
102679 GTGCCACGGA
Statistics
Matches: 778, Mismatches: 82, Indels: 100
0.81 0.09 0.10
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 235 0.30
88 120 0.15
89 5 0.01
90 1 0.00
91 143 0.18
92 42 0.05
93 1 0.00
95 2 0.00
96 1 0.00
97 36 0.05
98 6 0.01
99 33 0.04
100 2 0.00
101 147 0.19
102 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (99 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
GCCAGCGACATTGGGCTTAAAGATGCAAAGGTGC
Found at i:101918 original size:39 final size:39
Alignment explanation
Indices: 101864--101941 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
101854 AACGACAAGG
*
101864 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
*
101903 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
101942 GAGATGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:101988 original size:52 final size:52
Alignment explanation
Indices: 101904--102090 Score: 256
Period size: 52 Copynumber: 3.7 Consensus size: 52
101894 TTGGGCTTAT
*
101904 GCCAATATGCTGATTCAAGGCCAGCGACATTGG-TCTTAGAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGAT-TTAAAGATGACAAAGGC
* * * *
101956 GCCAATATGCTGATTTAAGGCCAGTGATATTGGATTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATGACAAAGGC
* * *
102005 GCCAATGTACTGATTAAAGGCCAGCGACATTGGATTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATGACAAAGGC
*
102057 GCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGA
102091 CTTGTGCCAA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 43 0.37
52 72 0.62
53 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (52 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATGACAAAGGC
Found at i:102100 original size:140 final size:136
Alignment explanation
Indices: 101956--102586 Score: 559
Period size: 140 Copynumber: 4.7 Consensus size: 136
101946 TGACAAAGGC
* * * * * *
101956 GCCAATATGCTGATTTAAGGCCAGTGATATTGGATTTAAAGATGAAGGTGCCAATGTACTGATTA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTAAAGATGAAGGTGCCAATGTGCTGATTC
* *
102021 AAGGCCAGCGACATTGGAT-TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
65 AAGGCCAACGATATTGG-TCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
102085 ATTGGACTTGT
126 ATTGGACTTGT
* * *
102096 GCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTGAAGATGGTTAAGGTGCCAATGTGTTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGT-TTAAAGAT-G--AAGGTGCCAATGTGCTGA
* * * *
102161 TTCAAGGCCAACAATATCGGTCTTAAAGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
62 TTCAAGGCCAACGATATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATA
*
102226 TTGGGCTTGT
127 TTGGACTTGT
** *
102236 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTAAAGATGAAGGTGCCAATGTGCTGATTC
* * * * * *
102301 AAGGCCAACGATATTGGGCTT----------GTGCCAATGTGCTGATTTAAGGCTAGCGACATTG
65 AAGGCCAACGATATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTG
*
102356 GTCTTAAAGACAAGGT
130 GACTT---------GT
* * * *
102372 GCCAATATGCTGATTCAAGGCCAGCGATATTGG------GCT-TA--TGCCAATGTGCTGATTCA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* * *
102428 AGGCCAACGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
66 AGGCCAACGATATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
* *
102492 GCTTAT
131 ACTTGT
* * * *
102498 GTCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGA-CAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTAAAGATGAAGGTGCCAATGTGCTGATTC
* *
102562 AAGGCCAGCGATATTGGACTTAAAG
65 AAGGCCAACGATATTGGTCTTAAAG
102587 GTGCCAATGT
Statistics
Matches: 402, Mismatches: 55, Indels: 73
0.76 0.10 0.14
Matches are distributed among these distances:
126 65 0.16
127 34 0.08
129 2 0.00
133 2 0.00
135 71 0.18
136 33 0.08
137 35 0.09
139 2 0.00
140 119 0.30
141 3 0.01
142 3 0.01
143 33 0.08
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (136 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTAAAGATGAAGGTGCCAATGTGCTGATTCA
AGGCCAACGATATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
ACTTGT
Found at i:102128 original size:39 final size:39
Alignment explanation
Indices: 102057--102133 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
102047 TGACAAAGGC
* *
102057 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
1 GCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTGT
* *
102096 GCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTG
1 GCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTG
102134 AAGATGGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTGT
Found at i:102128 original size:192 final size:187
Alignment explanation
Indices: 101714--102229 Score: 626
Period size: 192 Copynumber: 2.7 Consensus size: 187
101704 GTGAAGAAGA
** * * * *
101714 ATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAG-GAATGCTAAAGATGCCAATACGC
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAG-ATGC-AAAGGTGCCAATATGC
* * *
101778 TGATTCAAGGCC-GACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAAGGCCAAC
64 TGATTCAAGGCCAG-CGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* * *
101842 GACATTGGTTTTAACGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
128 GACATTGGTTTAAACGACAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
101902 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATGACAAAGGCGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATG-CAAAGGTGCCAATATGCT
* * * *
101967 GATTTAAGGCCAGTGATATTGGATTTAAAGATGAAGGTGCCAATGTACTGATTAAAGGCCAGCGA
65 GATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
*
102032 CATTGGATTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
130 CATTGG-TTT-AA-ACGAC-AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * ** * *
102094 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT-GAAGATGGTTAAGGTGCCAATGTGT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAG-AGAT-GCAAAGGTGCCAATATGC
* * * * *
102158 TGATTCAAGGCCAACAATATCGG-TCTTAAAGACGAAGGTGCCAATATGCTGATTCAAGGCCAGC
64 TGATTCAAGGCCAGCGATATTGGAT-TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
*
102222 GATATTGG
128 GACATTGG
102230 GCTTGTGCCA
Statistics
Matches: 281, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
188 115 0.41
189 6 0.02
190 1 0.00
191 6 0.02
192 152 0.54
193 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (187 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATGCAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
ATTGGTTTAAACGACAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:102162 original size:91 final size:91
Alignment explanation
Indices: 102003--102170 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
101993 AAAGATGAAG
*
102003 GTGCCAATGTACTGATTAAAGGCCAGCGACATTGGATTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTACTGATTAAAGGCCAGCAACATTGGATTTAAAGATGACAAAGGCGCCAATATGCT
102068 GATTCAAGGCCAGCGATATTGGACTT
66 GATTCAAGGCCAGCGATATTGGACTT
* * * *** * * *
102094 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGG-TCTTGAAGATGGTTAAGGTGCCAATGTGT
1 GTGCCAATGTACTGATTAAAGGCCAGCAACATTGGAT-TTAAAGATGACAAAGGCGCCAATATGC
102158 TGATTCAAGGCCA
65 TGATTCAAGGCCA
102171 ACAATATCGG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
90 1 0.02
91 65 0.98
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (91 bp):
GTGCCAATGTACTGATTAAAGGCCAGCAACATTGGATTTAAAGATGACAAAGGCGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTT
Found at i:102183 original size:52 final size:49
Alignment explanation
Indices: 102094--102660 Score: 242
Period size: 39 Copynumber: 12.5 Consensus size: 49
102084 TATTGGACTT
* * * *
102094 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTGAAGATGGTTAAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGA-CG--AAG
* *
102146 GTGCCAATGTGTTGATTCAAGGCCAACAATATCGGTCTTAAAGACGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * * *
102195 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT----------
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * * **
102234 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * *
102283 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT----------
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * *
102322 GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGAC-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * * *
102370 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------A-
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* *
102410 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAC-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * *
102457 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT--------A-
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * *
102497 -TGTCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGAC-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * * * *
102544 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* * * *
102587 GTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTCAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
* *
102636 GTGCCAATATGCTGATTCCAGGCCA
1 GTGCCAATGTGCTGATTCAAGGCCA
102661 GCGATATTGG
Statistics
Matches: 411, Mismatches: 61, Indels: 89
0.73 0.11 0.16
Matches are distributed among these distances:
39 133 0.32
41 2 0.00
43 37 0.09
44 1 0.00
46 2 0.00
47 1 0.00
48 99 0.24
49 96 0.23
51 1 0.00
52 39 0.09
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGACGAAG
Found at i:102249 original size:39 final size:39
Alignment explanation
Indices: 102195--102615 Score: 257
Period size: 39 Copynumber: 9.7 Consensus size: 39
102185 AAAGACGAAG
102195 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
102234 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------GCT--T
*
102282 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * *
102322 GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
102361 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * *
102409 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
102448 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * **
102496 ATGTCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------G-C-TT
*
102544 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
102583 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGA
102616 CATCGGTCTC
Statistics
Matches: 295, Mismatches: 46, Indels: 78
0.70 0.11 0.19
Matches are distributed among these distances:
39 129 0.44
40 2 0.01
42 2 0.01
43 28 0.09
46 3 0.01
47 1 0.00
48 98 0.33
49 32 0.11
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:102424 original size:87 final size:87
Alignment explanation
Indices: 102147--102675 Score: 770
Period size: 87 Copynumber: 6.0 Consensus size: 87
102137 ATGGTTAAGG
* * * *
102147 TGCCAATGTGTTGATTCAAGGCCAACAATATCGGTCTTAAAGACGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATT
*
102212 CAAGGCCAGCGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTA
* * ***
102235 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGGTGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
102300 CAAGGCCAACGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTA
* * *
102323 TGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
102388 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
102410 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
102475 AAGGCCAGCAATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
102497 TGTCAATGTGCTGATTCAAGGCCAACGACATTGGTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
102562 AAGGCCAGCGATATTGGACTTAAA
66 AAGGCCAGCGATATTGGGCTT--A
* * * *
102586 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTCAAAGATGAAGGTGCCAATATGCTGA
1 --TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGA
* *
102651 TTCCAGGCCAGCGATATTGGACTTA
63 TTCAAGGCCAGCGATATTGGGCTTA
102676 AAGGTGCCAC
Statistics
Matches: 402, Mismatches: 33, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
87 204 0.51
88 117 0.29
89 1 0.00
90 1 0.00
91 38 0.09
92 41 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:102774 original size:34 final size:34
Alignment explanation
Indices: 102675--102836 Score: 133
Period size: 34 Copynumber: 4.9 Consensus size: 34
102665 TATTGGACTT
* *
102675 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAA
** *
102709 AAAACTGCCATGAAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAA
* * *
102743 AAGGGTGCCACAAAGTCGTGGACTTAAAA--G--
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAA
* *
102773 ---GGTGCCACGAAGTTGTGGGCTTTTAAAA-AGAA
1 AAAGGTGCCACGAAGTTGTGGAC--TTAAAAGGGAA
* * *
102805 AAAGGTGCCACGGAGTGGTGGACTTCAAAGGG
1 AAAGGTGCCACGAAGTTGTGGACTTAAAAGGG
102837 TGTTACGGAG
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
27 17 0.17
29 6 0.06
30 1 0.01
32 1 0.01
33 5 0.05
34 53 0.53
35 17 0.17
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (34 bp):
AAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAA
Found at i:102826 original size:62 final size:60
Alignment explanation
Indices: 102714--102888 Score: 208
Period size: 62 Copynumber: 2.9 Consensus size: 60
102704 GGAAAAAAAC
* * * **
102714 TGCCATGAAGTTGTGGACTTAAAAGGGAAAAGGGTGCCACAAAGTCGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGGCTTAAAA-GGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
* * *
102775 TGCCACGAAGTTGTGGGCTTTTAAAAAGAAAAAGGTGCCACGGAGTGGTGGACTTCAAAGGG
1 TGCCACGAAGTTGTGGGC--TTAAAAGGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
** * *
102837 TGTTACGGAGTTGTAGGCTTAAAAGGAAAAA-GTGCCACGGAGTCGTGGACTT
1 TGCCACGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGTCGTGGACTT
102889 TTGGAAAAGA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.20
60 12 0.12
61 16 0.16
62 44 0.45
63 6 0.06
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (60 bp):
TGCCACGAAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGG
Found at i:102969 original size:95 final size:92
Alignment explanation
Indices: 102864--103110 Score: 300
Period size: 95 Copynumber: 2.6 Consensus size: 92
102854 CTTAAAAGGA
* * * *
102864 AAAAG-TGCCACGGAGTCGTGGACTTTTGGAAAAGATGCTACTGAGTCGTGGATTTTTGAAGAAA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCGTGGA-CTTTGAAG-AA
*
102928 AAAGATGCCACTGAGTCGTGGACTTTAAAG
64 AAAGATACCACTGAGTCGTGGACTTT-AAG
*
102958 AAAAGATGCCACTAAGTCGTGGACTTTGGGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG--AAAAGATGCCACTGAGTCGTGGACTTTGAAGAA
* *
103023 AAGGATACCACTGAGTCGTGGACTTTGAG
64 AAAGATACCACTGAGTCGTGGACTTTAAG
* * *
103052 AAGAGATTGCCACTGAATTGTGGAC-TTGGAAGAAAAGGATGCCACTGAGTCGTGGACTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGG--GAAAA-GATGCCACTGAGTCGTGGACTT
103111 AGAAAAGAGA
Statistics
Matches: 134, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
94 20 0.15
95 84 0.63
96 8 0.06
97 22 0.16
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (92 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
AGATACCACTGAGTCGTGGACTTTAAG
Found at i:102999 original size:32 final size:30
Alignment explanation
Indices: 102863--103121 Score: 261
Period size: 32 Copynumber: 8.3 Consensus size: 30
102853 GCTTAAAAGG
*
102863 AAAAAG-TGCCACGGAGTCGTGGACTTTTG-
1 AAAAAGATGCCACTGAGTCGTGGAC-TTTGA
* * *
102892 GAAAAGATGCTACTGAGTCGTGGATTTTTGAAGA
1 AAAAAGATGCCACTGAGTCGTGGA-CTTT---GA
*
102926 AAAAAGATGCCACTGAGTCGTGGACTTTAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGA
*
102956 AGAAAAGATGCCACTAAGTCGTGGACTTTGGGA
1 A-AAAAGATGCCACTGAGTCGTGGACTTT--GA
102989 AAAAAGATGCCACTGAGTCGTGGACTTTGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGA
*
103019 AGAAAAGGATACCACTGAGTCGTGGACTTTGA
1 A-AAAA-GATGCCACTGAGTCGTGGACTTTGA
* * * * *
103051 GAAGAGATTGCCACTGAATTGTGGACTTGGA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGA
*
103082 AGAAAAGGATGCCACTGAGTCGTGGACTTAGA
1 A-AAAA-GATGCCACTGAGTCGTGGACTTTGA
*
103114 AAAGAGAT
1 AAAAAGAT
103122 TTAAAAAATT
Statistics
Matches: 192, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
29 5 0.03
30 28 0.15
31 55 0.29
32 74 0.39
33 8 0.04
34 22 0.11
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (30 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGA
Found at i:103005 original size:63 final size:63
Alignment explanation
Indices: 102863--103110 Score: 301
Period size: 63 Copynumber: 3.9 Consensus size: 63
102853 GCTTAAAAGG
* * *
102863 AAAAAG-TGCCACGGAGTCGTGGACTTTTG--GAAAA-GATGCTACTGAGTCGTGGATTTTTGAA
1 AAAAAGATGCCACTGAGTCGTGGAC-TTTGAAGAAAAGGATGCCACTGAGTCGTGGA-CTTTG--
102924 GA
62 GA
* *
102926 AAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAA-GATGCCACTAAGTCGTGGACTTTGGGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTT-GGA
*
102989 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATACCACTGAGTCGTGGACTTT-GA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGGA
* * * * *
103051 GAAGAGATTGCCACTGAATTGTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTT
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTT
103111 AGAAAAGAGA
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
62 7 0.04
63 94 0.57
64 41 0.25
65 23 0.14
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (63 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGGA
Found at i:104347 original size:25 final size:25
Alignment explanation
Indices: 104319--104375 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
104309 TTGCACTCTT
104319 TTTTTTGTGATGTTTT-TTTTTTTTG
1 TTTTTTGT-ATGTTTTGTTTTTTTTG
* *
104344 TTTTTTGTTTTTTTTGTTTTTTTTG
1 TTTTTTGTATGTTTTGTTTTTTTTG
104369 TGTTTTT
1 T-TTTTT
104376 ACTTGTGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 5 0.18
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (25 bp):
TTTTTTGTATGTTTTGTTTTTTTTG
Found at i:104349 original size:9 final size:9
Alignment explanation
Indices: 104332--104375 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
104322 TTTGTGATGT
*
104332 TTTTTTTTT
1 TTTTTTTTG
104341 TTGTTTTTTG
1 TT-TTTTTTG
104351 TTTTTTTTG
1 TTTTTTTTG
104360 TTTTTTTTG
1 TTTTTTTTG
*
104369 TGTTTTT
1 TTTTTTT
104376 ACTTGTGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:104354 original size:16 final size:15
Alignment explanation
Indices: 104317--104367 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
104307 CTTTGCACTC
* *
104317 TTTTTTTTGTGATGTT
1 TTTTTTTTTTG-TTTT
104333 TTTTTTTTTTGTTTT
1 TTTTTTTTTTGTTTT
104348 TTGTTTTTTTTGTTTT
1 TT-TTTTTTTTGTTTT
104364 TTTT
1 TTTT
104368 GTGTTTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTGTTTT
Found at i:104374 original size:16 final size:15
Alignment explanation
Indices: 104331--104374 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
104321 TTTTGTGATG
104331 TTTTTTT-TTTTTGT
1 TTTTTTTGTTTTTGT
*
104345 TTTTTGTTTTTTTTGT
1 TTTTT-TTGTTTTTGT
104361 TTTTTTTGTGTTTT
1 TTTTTTTGT-TTTT
104375 TACTTGTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
16 16 0.62
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTGTTTTTGT
Found at i:110087 original size:12 final size:12
Alignment explanation
Indices: 110069--110103 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
110059 GATTTGATTC
110069 CATGCATGAAAG
1 CATGCATGAAAG
*
110081 TATGCATGAAAG
1 CATGCATGAAAG
110093 CATGCATGAAA
1 CATGCATGAAA
110104 TGCAATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (12 bp):
CATGCATGAAAG
Found at i:110167 original size:57 final size:57
Alignment explanation
Indices: 110097--110221 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 57
110087 TGAAAGCATG
* * * *
110097 CATGAAATGCAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGCAGCAAATTAAA
1 CATGAAATCCAATGCAATGCAATGACACCTAAAAAGCTTAAGTGGCAACAAATTAAA
* * *
110154 CATGAAATCCAATGCAATGCCATGACATCTAAAAAGCTTAAGTGGCAACAAATTAAG
1 CATGAAATCCAATGCAATGCAATGACACCTAAAAAGCTTAAGTGGCAACAAATTAAA
110211 CATGAAATCCA
1 CATGAAATCCA
110222 CCAAATTCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (57 bp):
CATGAAATCCAATGCAATGCAATGACACCTAAAAAGCTTAAGTGGCAACAAATTAAA
Found at i:110335 original size:19 final size:17
Alignment explanation
Indices: 110298--110363 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
110288 TAAATTTTAA
110298 TTTTATTCTTTTTTATTT
1 TTTTA-TCTTTTTTATTT
110316 TTTTATCTTTATTATATTT
1 TTTTATCTTT-TT-TATTT
110335 TTTTAT-TATTTTTA-TT
1 TTTTATCT-TTTTTATTT
*
110351 TATTAT-TTTTTTA
1 TTTTATCTTTTTTA
110364 ATGTCAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
15 6 0.14
16 8 0.18
17 7 0.16
18 10 0.23
19 13 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTTATTT
Found at i:110341 original size:13 final size:12
Alignment explanation
Indices: 110300--110362 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 12
110290 AATTTTAATT
110300 TTATTCTTTTTTA
1 TTATT-TTTTTTA
*
110313 TTTTTTTATCTTTA
1 TTATTTT-T-TTTA
110327 TTATATTTTTTTA
1 TTAT-TTTTTTTA
110340 TTATTTTTATTTA
1 TTATTTTT-TTTA
110353 TTATTTTTTT
1 TTATTTTTTT
110363 AATGTCAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 8 0.18
13 25 0.57
14 8 0.18
15 3 0.07
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTTTTA
Done.