Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold336
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: 179563
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6728 original size:20 final size:20
Alignment explanation
Indices: 6677--6751 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
6667 AAAAAGACAT
*
6677 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
* *
6696 GAATATATTGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6717 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6737 AATGTATCGATACAT
1 AATGTATCGATACAT
6752 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6734 original size:40 final size:39
Alignment explanation
Indices: 6674--6751 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6664 GGTAAAAAGA
* *
6674 CATAATGTATCGATACATTGAAGAATATATTGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6713 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
6752 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:7537 original size:156 final size:154
Alignment explanation
Indices: 7173--7544 Score: 417
Period size: 154 Copynumber: 2.4 Consensus size: 154
7163 TAGACGCACG
* * * *
7173 CCTTTGGCATAAAAACATCCCAATGACTATATAGAACTTAATTTTAGAAGAAATTACTAAAATGC
1 CCTTTGGCATAAAAACATCCCAATGACTATATCGGACTTGATTTTAGAAGAAATTACTAAAATAC
7238 CATTATAGTATACCTTCAACGTGAAAATATCTCAATAACCTTAAAGGACTCGAAAATAATAAAAA
66 CATTATAGTATACCTTCAACGTGAAAATATCTCAATAACCTTAAAGGACTCGAAAATAATAAAAA
* *
7303 AGTTGAACCTATCCTAAATATACA
131 AGGTAAACCTATCCTAAATATACA
* * * * *
7327 CCTTTGGCATAAAAACATTCTAATGACTATATCGGACTAGATTATAGAAGAAATTACCAAAATAC
1 CCTTTGGCATAAAAACATCCCAATGACTATATCGGACTTGATTTTAGAAGAAATTACTAAAATAC
* * * * ** ** *
7392 C-TTATGGGTATACCTTCCATGTGAAAGTATCTCGGTAAACC-TAAAGGACTTTAAAATGATAAG
66 CATTAT-AGTATACCTTCAACGTGAAAATATCTCAAT-AACCTTAAAGGACTCGAAAATAATAA-
* * *
7455 AAAATGGTAAACTTATCCTAAATGTAGA
128 AAAA-GGTAAACCTATCCTAAATATACA
* * * * * *
7483 CCTTTGACTTAAAAGCATCCCAGTGACTATATCGGACTTGGTTTTAG-GGAAAATTACTAAAA
1 CCTTTGGCATAAAAACATCCCAATGACTATATCGGACTTGATTTTAGAAG-AAATTACTAAAA
7545 AACTTTTGGG
Statistics
Matches: 179, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
153 4 0.02
154 99 0.55
155 9 0.05
156 67 0.37
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (154 bp):
CCTTTGGCATAAAAACATCCCAATGACTATATCGGACTTGATTTTAGAAGAAATTACTAAAATAC
CATTATAGTATACCTTCAACGTGAAAATATCTCAATAACCTTAAAGGACTCGAAAATAATAAAAA
AGGTAAACCTATCCTAAATATACA
Found at i:7830 original size:155 final size:156
Alignment explanation
Indices: 7122--7967 Score: 418
Period size: 155 Copynumber: 5.4 Consensus size: 156
7112 TTGATAATCC
* * * * * * * *
7122 TAAAAGACTTGAAAATGATAAAAAAAAAAGTGAACATATCCTAGACGCACGCCTTTGGCATAAAA
1 TAAAAGACTTAAAAATGATAAGAAAAAGA-TGAACCTATCCTAAATGTACACCTTTGGCATAAAA
* * * ** * * * *
7187 ACATCCCAATGACTATAT-AGAACTTAATT-TTAGAAGAAATTACTAAAATGCCATTAT-AG-TA
65 GCATCTCAATGACTACATCA-AACTCGATTCTAAGGA-AAACTACCAAAATGCC-TT-TGAGATA
* * * *
7248 TACCTTCAACGTGAAAATATCTCAATAACCT
126 CACCTTCGACATAAAAATATCTCAATAACCT
* ** * * * *
7279 TAAAGGACTCGAAAATAAT-A-AAAAAGTTGAACCTATCCTAAATATACACCTTTGGCATAAAAA
1 TAAAAGACTTAAAAATGATAAGAAAAAGATGAACCTATCCTAAATGTACACCTTTGGCATAAAAG
* ** * * * * * * *
7342 CAT-TCTAATGACTATATCGGACTAGATTAT-AGAAGAAATTACCAAAATACCTTATG-GGTATA
66 CATCTC-AATGACTACATCAAACTCGATTCTAAGGA-AAACTACCAAAATGCCTT-TGAGATACA
* ** * * **
7404 CCTTCCATGTGAAAGTATCTCGGTAAACC-
128 CCTTCGACATAAAAATATCTCAAT-AACCT
* * * * * * * * *
7433 TAAAGGACTTTAAAATGATAAGAAAATGGTAAACTTATCCTAAATGTAGACCTTTGACTTAAAAG
1 TAAAAGACTTAAAAATGATAAGAAAAAGATGAACCTATCCTAAATGTACACCTTTGGCATAAAAG
* * * ** * * * * * * ** * * * * **
7498 CATCCCAGTGACTATATCGGACTTGGTTTTAGGGAAAATTACTAAAAAACTTTTGGGGTATATTT
66 CATCTCAATGACTACATCAAACTCGATTCTAAGGAAAACTACCAAAATGCCTTTGAGATACACCT
* * * *
7563 TCGATATAAAAGTATTTCAGTAATCC-
131 TCGACATAAAAATATCTCAATAA-CCT
* * * *
7589 CAAAAGAC-TCAAAATGATCATG-AAAAGATGAACCTATCCTAAAT-TCACACCTTTAGCATAAA
1 TAAAAGACTTAAAAATGAT-AAGAAAAAGATGAACCTATCCTAAATGT-ACACCTTTGGCATAAA
* ** * * * * * *
7651 AGCATGTCGTTGACTACATCAAACTTGGTTGTAA-GAAAACTACCCAAATGCCTTTGAGATATAT
64 AGCATCTCAATGACTACATCAAACTCGATTCTAAGGAAAACTACCAAAATGCCTTTGAGATACAC
* * * * * *
7715 TTTTGACATAAAAGTGT-TCTGATAA-TT
129 CTTCGACATAAAAATATCTC-AATAACCT
* ** *
7742 CTAAAAGACTTAAAAATGATAAGAAAAAGGTGAACCTATCCTAAATGTACATATCTGGCATAAAA
1 -TAAAAGACTTAAAAATGATAAGAAAAAGATGAACCTATCCTAAATGTACACCTTTGGCATAAAA
* * * *
7807 GCATCTCAATGAC--CATACTAAACTCGATTCTAAGGGAAATTACCAAAATGCCTTTGGGTTACA
65 GCATCTCAATGACTACAT-C-AAACTCGATTCTAAGGAAAACTACCAAAATGCCTTTGAGATACA
*
7870 CCTTCGATATAAAAATATCTCAATAACCT
128 CCTTCGACATAAAAATATCTCAATAACCT
* * * * *
7899 TAAAAGAATCAAAAATGATAA-AAAAATATGAACCTATCCTAAATGCACAGCTTTGGCATAAAAG
1 TAAAAGACTTAAAAATGATAAGAAAAAGATGAACCTATCCTAAATGTACACCTTTGGCATAAAAG
7963 CATCT
66 CATCT
7968 TTGTGACTAA
Statistics
Matches: 541, Mismatches: 123, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
153 11 0.02
154 158 0.29
155 185 0.34
156 165 0.30
157 22 0.04
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (156 bp):
TAAAAGACTTAAAAATGATAAGAAAAAGATGAACCTATCCTAAATGTACACCTTTGGCATAAAAG
CATCTCAATGACTACATCAAACTCGATTCTAAGGAAAACTACCAAAATGCCTTTGAGATACACCT
TCGACATAAAAATATCTCAATAACCT
Found at i:8462 original size:13 final size:13
Alignment explanation
Indices: 8444--8469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8434 TACACCAAGT
8444 ATGTATCGATACA
1 ATGTATCGATACA
8457 ATGTATCGATACA
1 ATGTATCGATACA
8470 CAAAAAAATT
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:13015 original size:19 final size:20
Alignment explanation
Indices: 12968--13015 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
12958 TAAATTATTA
* * *
12968 TTATAAATATTTTTATTATT
1 TTATAAAAATTTATATTAAT
*
12988 TTTTAAAAATTTAT-TTAAT
1 TTATAAAAATTTATATTAAT
13007 TTATAAAAA
1 TTATAAAAA
13016 AAATTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATAAAAATTTATATTAAT
Found at i:13031 original size:21 final size:22
Alignment explanation
Indices: 12992--13033 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12982 ATTATTTTTT
*
12992 AAAAATTTATTTAATTTATAAA
1 AAAAATTAATTTAATTTATAAA
*
13014 AAAAATTAATTTCA-TTATAA
1 AAAAATTAATTTAATTTATAA
13034 CATACTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATTAATTTAATTTATAAA
Found at i:13360 original size:2 final size:2
Alignment explanation
Indices: 13353--13404 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
13343 AAATATTAAC
13353 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
*
13395 AT AT AG AT AT
1 AT AT AT AT AT
13405 GAAATGGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13758 original size:21 final size:21
Alignment explanation
Indices: 13703--13771 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
13693 ATTCAATCAA
* *
13703 TAAATTGACATATAATTAAA-
1 TAAATTAACATAAAATTAAAT
13723 TAAATTTAACATAAAATTAAAT
1 TAAA-TTAACATAAAATTAAAT
* * *
13745 TAAATTCACGTAAAATAAAAAT
1 TAAATTAACATAAAAT-TAAAT
13767 TAAAT
1 TAAAT
13772 AAAAAAATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.10
21 24 0.59
22 13 0.32
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAATTAACATAAAATTAAAT
Found at i:15477 original size:2 final size:2
Alignment explanation
Indices: 15470--15497 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15460 ATTAATTTAG
15470 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
15498 GAAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22608 original size:16 final size:15
Alignment explanation
Indices: 22548--22605 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
22538 AATAAAAAAT
22548 TATTTTT-ATATTAA
1 TATTTTTAATATTAA
*
22562 TATTTTTTATAATTAA
1 TATTTTTAAT-ATTAA
* **
22578 -A-TTTAAATAAAAA
1 TATTTTTAATATTAA
22591 TATTTTTAATATTAA
1 TATTTTTAATATTAA
22606 ATAATAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
13 3 0.09
14 13 0.39
15 12 0.36
16 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTTTAATATTAA
Found at i:24562 original size:21 final size:21
Alignment explanation
Indices: 24537--24576 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24527 CACATGTCTC
24537 ATATACATATAATATATATAT
1 ATATACATATAATATATATAT
** *
24558 ATATATGTATCATATATAT
1 ATATACATATAATATATAT
24577 CTAAATGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
ATATACATATAATATATATAT
Found at i:25481 original size:2 final size:2
Alignment explanation
Indices: 25476--25502 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25466 TATATATATA
25476 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
25503 TTACTATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:28668 original size:12 final size:13
Alignment explanation
Indices: 28635--28675 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
28625 AAATTTTTTT
28635 AAATATTAAATTA
1 AAATATTAAATTA
28648 AAA-ATTAAATTA
1 AAATATTAAATTA
*
28660 AAATATAAAAATTA
1 AAATAT-TAAATTA
28674 AA
1 AA
28676 TGAGTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
13 5 0.20
14 8 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATTAAATTA
Found at i:30414 original size:15 final size:16
Alignment explanation
Indices: 30389--30418 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30379 ATAAAACTAA
30389 TAAAATGTATATTAAT
1 TAAAATGTATATTAAT
30405 TAAAAT-TATATTAA
1 TAAAATGTATATTAA
30419 CATTTGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAATGTATATTAAT
Found at i:33968 original size:21 final size:23
Alignment explanation
Indices: 33938--33980 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33928 AGAAGTTTTA
33938 TTTATAATAAA-ATAAATATCTC
1 TTTATAATAAATATAAATATCTC
*
33960 TTTAT-ATAAATATAATTATCT
1 TTTATAATAAATATAAATATCT
33981 AAATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTATAATAAATATAAATATCTC
Found at i:34172 original size:21 final size:21
Alignment explanation
Indices: 34146--34187 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34136 GGCTTAGGTG
*
34146 GCAAAGCTTGCTCACAGTTGA
1 GCAAAGCTAGCTCACAGTTGA
34167 GCAAAGCTAGCTCACAGTTGA
1 GCAAAGCTAGCTCACAGTTGA
34188 TTTACTGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
GCAAAGCTAGCTCACAGTTGA
Found at i:34210 original size:3 final size:3
Alignment explanation
Indices: 34202--34243 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
34192 CTGGCCTTGT
*
34202 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34244 GCAGCTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34501 original size:29 final size:30
Alignment explanation
Indices: 34431--34509 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
34421 TTAAGTTTTA
* *
34431 AAGTTTGATAAAAAATTCACTTAATCTCTT
1 AAGTTTGATAAAATATTCACTTAATCACTT
*
34461 TAGTTTGA-AAAATATTCACTT-ATCAC-T
1 AAGTTTGATAAAATATTCACTTAATCACTT
*
34488 AAGGTTTGATAAAATATACACT
1 AA-GTTTGATAAAATATTCACT
34510 AACCTCTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 10 0.24
29 23 0.55
30 7 0.17
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (30 bp):
AAGTTTGATAAAATATTCACTTAATCACTT
Found at i:35662 original size:21 final size:18
Alignment explanation
Indices: 35629--35668 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
35619 TATTAATTTT
35629 AATTATTTTTAAAATATAA
1 AATTATTTTTAAAAT-TAA
35648 AATTATATATTTAAAATTAA
1 AATTAT-T-TTTAAAATTAA
35668 A
1 A
35669 TAAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATTTTTAAAATTAA
Found at i:37471 original size:7 final size:7
Alignment explanation
Indices: 37455--37521 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
37445 ATTAATTTAA
37455 TTTA-AT
1 TTTATAT
37461 TTTATAT
1 TTTATAT
37468 TTTATAT
1 TTTATAT
37475 GATTTATAT
1 --TTTATAT
* *
37484 TTATTTAA
1 TT-TATAT
37492 TTTA-AT
1 TTTATAT
*
37498 CATTATAT
1 -TTTATAT
37506 TTTATAT
1 TTTATAT
37513 TTT-TAT
1 TTTATAT
37519 TTT
1 TTT
37522 TATAAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 11 0.22
7 24 0.49
8 7 0.14
9 7 0.14
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (7 bp):
TTTATAT
Found at i:40157 original size:2 final size:2
Alignment explanation
Indices: 40150--40181 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
40140 AAATCCATTC
40150 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
40182 TTGCAACCAA
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:41982 original size:2 final size:2
Alignment explanation
Indices: 41975--42016 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
41965 AGTGTGCTCA
41975 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
42017 TATTTTAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43971 original size:34 final size:32
Alignment explanation
Indices: 43919--44011 Score: 91
Period size: 34 Copynumber: 2.9 Consensus size: 32
43909 TATTTTTTAA
* * *
43919 TTATTATTTAACAAAAATATAATTTTATTTAATT
1 TTATTATTTAATATAAATATAATTTTAATT-A-T
* *
43953 TTGTTATTTAATATAAATAAAATTTTTAATTAT
1 TTATTATTTAATATAAATATAA-TTTTAATTAT
*
43986 TTATTATTT-ATATATATAT-ATTTTAA
1 TTATTATTTAATATAAATATAATTTTAA
44012 ATAAATACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
30 6 0.12
31 1 0.02
32 8 0.16
33 9 0.18
34 19 0.38
35 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TTATTATTTAATATAAATATAATTTTAATTAT
Found at i:44120 original size:21 final size:22
Alignment explanation
Indices: 44086--44127 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44076 ATACATATTA
*
44086 ATTATTAATTATTAATTTTATC
1 ATTATTAATAATTAATTTTATC
44108 ATTA-TAATAATTAATTTTAT
1 ATTATTAATAATTAATTTTAT
44128 TAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTAATAATTAATTTTATC
Found at i:44127 original size:15 final size:14
Alignment explanation
Indices: 44109--44157 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
44099 AATTTTATCA
44109 TTATAATAATTAATT
1 TTATAA-AATTAATT
44124 TTATTAAAATTAATT
1 TTA-TAAAATTAATT
*
44139 TTATCAAAATCAATT
1 TTAT-AAAATTAATT
44154 TTAT
1 TTAT
44158 TATTATCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 1 0.03
15 27 0.87
16 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATAAAATTAATT
Found at i:49374 original size:52 final size:52
Alignment explanation
Indices: 49174--49354 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
49164 CGAAATATGA
49174 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
49226 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
49278 AAATTTTCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
49330 AAATTTGCTTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
49355 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:49381 original size:13 final size:13
Alignment explanation
Indices: 49363--49387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49353 CAAAGATCAG
49363 TGTATCGATACAA
1 TGTATCGATACAA
49376 TGTATCGATACA
1 TGTATCGATACA
49388 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49454 original size:19 final size:18
Alignment explanation
Indices: 49430--49527 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
49420 TAGCTTACAT
49430 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
49449 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
49462 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
49481 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
49494 TGTATTGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
49514 TGTATCGATACAAA
1 TGTATCGATACAAA
49528 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.38
20 12 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:49466 original size:32 final size:32
Alignment explanation
Indices: 49425--49525 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
49415 GGCAGTAGCT
*
49425 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
49457 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
49489 TACATTGTATTGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
49522 TACA
1 TACA
49526 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:49467 original size:13 final size:13
Alignment explanation
Indices: 49449--49505 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
49439 ACAAAACTTA
49449 TGTATCGATACAT
1 TGTATCGATACAT
49462 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
49480 ATGTATCGATACAT
1 -TGTATCGATACAT
*
49494 TGTATTGATACA
1 TGTATCGATACA
49506 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50196 original size:52 final size:52
Alignment explanation
Indices: 49996--50176 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
49986 CGAAATATGA
*
49996 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
50048 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
50100 AAATTTGCCTGCATATATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
50152 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
50177 AAGATCAGTG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:50203 original size:13 final size:13
Alignment explanation
Indices: 50185--50209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50175 CAAAGATCAG
50185 TGTATCGATACAA
1 TGTATCGATACAA
50198 TGTATCGATACA
1 TGTATCGATACA
50210 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50276 original size:19 final size:18
Alignment explanation
Indices: 50252--50349 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
50242 TAGCTTACAT
50252 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
50271 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
50284 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
50303 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
50316 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
50336 TGTATCGATACAAA
1 TGTATCGATACAAA
50350 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:50288 original size:32 final size:32
Alignment explanation
Indices: 50247--50347 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
50237 GGCAGTAGCT
*
50247 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
50279 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
50311 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
50344 TACA
1 TACA
50348 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:50289 original size:13 final size:13
Alignment explanation
Indices: 50271--50327 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
50261 ACAAAACTTA
50271 TGTATCGATACAT
1 TGTATCGATACAT
50284 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
50302 ATGTATCGATACAT
1 -TGTATCGATACAT
50316 TGTATCGATACA
1 TGTATCGATACA
50328 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50966 original size:75 final size:79
Alignment explanation
Indices: 50859--51052 Score: 193
Period size: 78 Copynumber: 2.5 Consensus size: 79
50849 AAAACTTTTG
* * ** * * * * *
50859 TTAGGTAAT-GTTAATGTAACGGGTAATATTTTTACATAATTTA-ATAATATTTTATGTAATTCT
1 TTAGGTAATATTTTATGTAACTAGTAATATTTTTATATAATTTAGACAACATTTAATATAATTCT
*
50922 -A-AAGAA-TATTC
66 AATAAAAATTATTC
* * * * *
50933 TTAGGTAATATTTTATGTAACTAGTAATGTTTTTATGTAA-TTAGGCACCGTTTAATATAATTCT
1 TTAGGTAATATTTTATGTAACTAGTAATATTTTTATATAATTTAGACAACATTTAATATAATTCT
50997 AATAAAAATTATTC
66 AATAAAAATTATTC
* *
51011 TTAGGCAATATTTTATGTAACTTGTAATATTTTTATATAATT
1 TTAGGTAATATTTTATGTAACTAGTAATATTTTTATATAATT
51053 AGGTAATTTT
Statistics
Matches: 95, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
74 12 0.13
75 36 0.38
76 1 0.01
77 4 0.04
78 41 0.43
79 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (79 bp):
TTAGGTAATATTTTATGTAACTAGTAATATTTTTATATAATTTAGACAACATTTAATATAATTCT
AATAAAAATTATTC
Found at i:51235 original size:121 final size:121
Alignment explanation
Indices: 51021--51265 Score: 418
Period size: 121 Copynumber: 2.0 Consensus size: 121
51011 TTAGGCAATA
*
51021 TTTTATGTAACTTGTAATATTTTTATATAATTAGGTAATTTTATATAATTTCATTAAAAACAATA
1 TTTTATGTAACTTGCAATATTTTTATATAATTAGGTAATTTTATATAATTTCATTAAAAACAATA
* *
51086 TTTTAAAATCAGTGAGACATTTTCAAACCAGCATTACCTTTTATCTAAGTGTAATG
66 GTTTAAAATCAGTGAGACATTTTCAAACCAGCATTACCTTTTATCTAAGGGTAATG
* * *
51142 TTTTATGTAACTTGCAATATTTTTATGTAATTAGGTAATTTTATGTAATTTCATTAAAAATAATA
1 TTTTATGTAACTTGCAATATTTTTATATAATTAGGTAATTTTATATAATTTCATTAAAAACAATA
* *
51207 GTTTAAAATCAGTGAGCCATTTTCAAACCAGCATTACCTTTTATGTAAGGGTAATG
66 GTTTAAAATCAGTGAGACATTTTCAAACCAGCATTACCTTTTATCTAAGGGTAATG
51263 TTT
1 TTT
51266 GTCGCAACAT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 116 1.00
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.44
Consensus pattern (121 bp):
TTTTATGTAACTTGCAATATTTTTATATAATTAGGTAATTTTATATAATTTCATTAAAAACAATA
GTTTAAAATCAGTGAGACATTTTCAAACCAGCATTACCTTTTATCTAAGGGTAATG
Found at i:53993 original size:16 final size:17
Alignment explanation
Indices: 53959--53997 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
53949 GAGGTTACGG
*
53959 TGGTTGCTGAACTGTTGT
1 TGGTTGCT-AACTGGTGT
53977 TGGTTGCT-ACTGGTGT
1 TGGTTGCTAACTGGTGT
53993 TGGTT
1 TGGTT
53998 TTTTCGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.08, C:0.10, G:0.36, T:0.46
Consensus pattern (17 bp):
TGGTTGCTAACTGGTGT
Found at i:54348 original size:23 final size:23
Alignment explanation
Indices: 54322--54377 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
54312 CTTTCTTCAT
*
54322 TGTTGCTTTGCTTTGCTGTTCCA
1 TGTTGCTTTGCTTTGCTATTCCA
54345 TGTTGCTTTGCTTTGCTATTCCA
1 TGTTGCTTTGCTTTGCTATTCCA
54368 TGTTGCTTTG
1 TGTTGCTTTG
54378 TCTTCATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.05, C:0.20, G:0.21, T:0.54
Consensus pattern (23 bp):
TGTTGCTTTGCTTTGCTATTCCA
Found at i:54451 original size:108 final size:110
Alignment explanation
Indices: 54259--54462 Score: 358
Period size: 108 Copynumber: 1.9 Consensus size: 110
54249 CTCTTGCACA
*
54259 TTGCTTTGTCCTCATCATTGCTATTTTGCTTTTCCATGTTACTTTGTCTTCCACTTTCTTCATTG
1 TTGCTTTGTCCTCATCATTGCTAGTTT-CTTTTCCATGTTACTTTGTCTTCCACTTTCTTCATTG
*
54324 TTGCTTTGCTTTGCTGTTCCATGTTGCTTTGCTTTGCTATTCCATG
65 TTGCTTTGCTTTGCTGTTCCATATTGCTTTGCTTTGCTATTCCATG
*
54370 TTGCTTTGTCTTCATCATTGCT-GTTT-TTTTCCATGTTACTTTGTCTTCCACTTTCTTCATTGT
1 TTGCTTTGTCCTCATCATTGCTAGTTTCTTTTCCATGTTACTTTGTCTTCCACTTTCTTCATTGT
54433 TGCTTTGCTTTGCTGTTCCATATTGCTTTG
66 TGCTTTGCTTTGCTGTTCCATATTGCTTTG
54463 TCTTCATCAT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
108 66 0.73
110 3 0.03
111 21 0.23
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.54
Consensus pattern (110 bp):
TTGCTTTGTCCTCATCATTGCTAGTTTCTTTTCCATGTTACTTTGTCTTCCACTTTCTTCATTGT
TGCTTTGCTTTGCTGTTCCATATTGCTTTGCTTTGCTATTCCATG
Found at i:54684 original size:31 final size:32
Alignment explanation
Indices: 54646--54788 Score: 118
Period size: 31 Copynumber: 4.4 Consensus size: 32
54636 AATGAAAATT
54646 TGCATGCATGAAGCATGAAATGTTTATG-AAA
1 TGCATGCATGAAGCATGAAATGTTTATGTAAA
*
54677 TGCATGCATGAA--ATGAAA--ATTATGTTAAA
1 TGCATGCATGAAGCATGAAATGTTTATG-TAAA
** *
54706 TGCATGCATGAATTGTTACATGAAATGCATGAAATGAAAA
1 TGCATGCATGAA--G---CATGAAATG--T-TTATGTAAA
*
54746 TGCATGCATGAAGCTTGAAATGTTTATG-AAA
1 TGCATGCATGAAGCATGAAATGTTTATGTAAA
54777 TGCATGCATGAA
1 TGCATGCATGAA
54789 ATGTAATGCA
Statistics
Matches: 90, Mismatches: 8, Indels: 28
0.71 0.06 0.22
Matches are distributed among these distances:
27 5 0.06
29 21 0.23
31 27 0.30
32 3 0.03
33 1 0.01
35 8 0.09
36 6 0.07
38 1 0.01
40 15 0.17
41 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (32 bp):
TGCATGCATGAAGCATGAAATGTTTATGTAAA
Found at i:54744 original size:14 final size:13
Alignment explanation
Indices: 54729--54807 Score: 58
Period size: 14 Copynumber: 6.2 Consensus size: 13
54719 TGTTACATGA
54729 AATGCATGAAATG
1 AATGCATGAAATG
*
54742 AAAATGCATG-CATG
1 --AATGCATGAAATG
*
54756 AA-GCTTGAAATG
1 AATGCATGAAATG
**
54768 --TTTATGAAATG
1 AATGCATGAAATG
*
54779 CATGCATGAAATG
1 AATGCATGAAATG
54792 TAATGCATGAAATG
1 -AATGCATGAAATG
54806 AA
1 AA
54808 AATTATGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 11 0.22
12 5 0.10
13 11 0.22
14 15 0.30
15 8 0.16
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.27
Consensus pattern (13 bp):
AATGCATGAAATG
Found at i:54807 original size:50 final size:51
Alignment explanation
Indices: 54628--54807 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 51
54618 AAATGCATGT
*
54628 ATGCATGAAATGAAAATTTGCATG-CATGAAGCATGAAATGTTTATGAAATGC
1 ATGCATGAAATGAAAA--TGCATGAAATGAAGCATGAAATGTTTATGAAATGC
* * * *
54680 ATGCATGAAATGAAAAT-TATGTTAAATGCATGCATGAATTGTTACATG-AA---
1 ATGCATGAAATGAAAATGCATG--AAATG-AAGCATGAAATGTT-TATGAAATGC
* *
54730 ATGCATGAAATGAAAATGCATG-CATGAAGCTTGAAATGTTTATGAAATGC
1 ATGCATGAAATGAAAATGCATGAAATGAAGCATGAAATGTTTATGAAATGC
*
54780 ATGCATGAAATG-TAATGCATGAAATGAA
1 ATGCATGAAATGAAAATGCATGAAATGAA
54808 AATTATGTGA
Statistics
Matches: 104, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
46 3 0.03
47 13 0.12
48 3 0.03
49 11 0.11
50 35 0.34
51 3 0.03
52 19 0.18
53 14 0.13
54 3 0.03
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.29
Consensus pattern (51 bp):
ATGCATGAAATGAAAATGCATGAAATGAAGCATGAAATGTTTATGAAATGC
Found at i:54825 original size:25 final size:25
Alignment explanation
Indices: 54793--54860 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
54783 CATGAAATGT
54793 AATGCATGAAATGAAAATTATGTGA
1 AATGCATGAAATGAAAATTATGTGA
*
54818 AATGCATGAACTGAAAATTATGTGA
1 AATGCATGAAATGAAAATTATGTGA
*
54843 ACTGCATGAAATGAAAAT
1 AATGCATGAAATGAAAAT
54861 GCATGCATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (25 bp):
AATGCATGAAATGAAAATTATGTGA
Found at i:54883 original size:40 final size:40
Alignment explanation
Indices: 54817--54893 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
54807 AAATTATGTG
* *
54817 AAATGCATGAACTGAAAATTATGTGAACTGCATGAAATGA
1 AAATGCATGAACTGAAAATTACGTGAAATGCATGAAATGA
* * *
54857 AAATGCATGCA-TGAAATGTTACGTGAAATGTATGAAA
1 AAATGCATGAACTGAAA-ATTACGTGAAATGCATGAAA
54894 ATATGCATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (40 bp):
AAATGCATGAACTGAAAATTACGTGAAATGCATGAAATGA
Found at i:55014 original size:21 final size:20
Alignment explanation
Indices: 54975--55022 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
54965 TTTTATAAAA
*
54975 TTTTTATTTTAATTTATTTAT
1 TTTTTATTTTAATTAATTT-T
54996 TTTTTATGTTTAA-TAATTTT
1 TTTTTAT-TTTAATTAATTTT
*
55016 TGTTTAT
1 TTTTTAT
55023 AAACTTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTATTTTAATTAATTTT
Found at i:55883 original size:42 final size:42
Alignment explanation
Indices: 55455--56284 Score: 498
Period size: 42 Copynumber: 19.7 Consensus size: 42
55445 ATATTCTTTC
* * *
55455 GGGTCAAAGCC-AAAGAGCAGACTTAGGGAAAAAAAGTCTTCA
1 GGGTCAAAGCCGACAG-GCAGACTGAGGGAAGAAAAGTCTTCA
* * *
55497 GGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTTCA
* * * * * * *
55540 AGATTAAAGCCAACAGGCAGACTTAGGACTAAG-AAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGG--GAAGAAAAGTCTTCA
* * * * *
55583 AGGTCAAAGCTGACAAGCAGACTTAGGGAA-AGAAAGTC-TCT
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGA-AAAGTCTTCA
* * *
55624 GTGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCA
1 G-GGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTTCA
* * * * *
55668 GGGTTAAAGCTG--A--CAGACTAAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTTCA
* * **
55707 GGGTCAAAGCCGACATGCAGACTTTA---AATGAGGTAGTCTTCA
1 GGGTCAAAGCCGACAGGCAGAC-TGAGGGAA-GA-AAAGTCTTCA
* * * * * *
55749 GGGACGAAGCCGACAGGCAAACTTTA---AATGAGATAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGAC-TGAGGGAA-GA-AAAGTCTTCA
* * * * * * *
55791 AGGTCAAAGCTGATAAGCAGACTGAAGGAAAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTG-AGGGAAGAAAAGTCTTCA
* **
55834 GGGTCAAAGCCGACAAGCAGACTGAGGGTTGAAAAGTCTTCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTCA
* * * * *
55876 AGGTCAAAGCTGACAGGCAAACTAAGGGATGAAAAGTC-TCTA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTC-A
*
55918 GGGTCAAAGCCGACAGGCAGACTGAGGGTAG-AAAGTTCTTCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAG-TCTTCA
* * *
55960 GGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTTTA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTCA
* * *
56002 GGGTCAAAGCCGACAGACAGACTGAAGGGTAGGAAAGTC-TCTA
1 GGGTCAAAGCCGACAGGCAGACTG-AGGGAAGAAAAGTCTTC-A
* * * * *
56045 GGGTTAAA-CCGACAGGCAGATTGAGGGTAGAAAGGTTTTCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTCA
* * * * * * * *
56086 GGGACGAAGCCAACAGGAAGACTTA--AAATGAGATAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAA-GA-AAAGTCTTCA
* * *
56128 GGGTTAAAGCCGACAGGCAGACTGAGGGAAAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGG-AAGAAAAGTCTTCA
* * * * *
56171 GGGTCAAAGTCGACAAGAAGATTGAGGGAGGGAAAA-TC-TCTA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTTC-A
* * * * * * *
56213 GGGACGAAGCCGATAGGCAGATTAAGGGATGAAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTCA
* *
56255 AGGTCAAAGCCGACAGGCAGACTAAGGGAA
1 GGGTCAAAGCCGACAGGCAGACTGAGGGAA
56285 AACAGAAAAG
Statistics
Matches: 621, Mismatches: 129, Indels: 76
0.75 0.16 0.09
Matches are distributed among these distances:
39 36 0.06
40 2 0.00
41 39 0.06
42 349 0.56
43 182 0.29
44 8 0.01
45 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.16
Consensus pattern (42 bp):
GGGTCAAAGCCGACAGGCAGACTGAGGGAAGAAAAGTCTTCA
Found at i:56117 original size:337 final size:336
Alignment explanation
Indices: 55456--56285 Score: 941
Period size: 337 Copynumber: 2.5 Consensus size: 336
55446 TATTCTTTCG
* * * * *
55456 GGTCAAAGCC-AAAGAGCAGACTTAGGGAAA-AAAAGTCTTCAGGGTCAAAGCCGACAGGCAGAC
1 GGTCAAAGCCGACA-AGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGAC
* * * * * * * *
55519 TAAGGGATAGGAAAGTCTCCAAGATTAAAGCCAACAGGCAGACTTA-GGACTAAGAAAGTCTCCA
65 TGAGGGATAGAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-TGA-AAAGTCTCCA
* * * *
55583 AGGTCAAAGCTGACAAGCAGACTTAGGGAAAGAAAGTCTCTGTGGTCAAAGCCGACAGGCAGACT
128 AGGTCAAAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCAGTGGTCAAAGCCGACAGGCAGACT
* *
55648 AAGGGATAGGAAAGTCTCCAGGGTTAAAGCTGACAGACTAAGGGATAGGAAAGTCTCCAGGGTCA
193 AAGGGATAGGAAAGTCTCCAGGGTCAAAGCAGACAGACTAAGGGATAGGAAAGTCTCCAGGGTCA
* * ** * *
55713 AAGCCGACATGCAGACTTTAAATGAGGTAGTCTTCAGGGACGAAGCCGACAGGCAAACTTTAAAT
258 AAGCCGACAGGCAGACTTGAAATGAGAAAGTCTTCAGGGACGAAGCCAACAGGCAAACTTAAAAT
55778 GAGATAGTCTCCAA
323 GAGATAGTCTCCAA
* * *
55792 GGTCAAAGCTGATAAGCAGACTGAAGGAAAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGACAAGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT
* * * * *
55857 GAGGG-TTGAAAAGTCTTCAAGGTCAAAGCTGACAGGCAAACTAAGGGATGAAAAGTCTCTAGGG
66 GAGGGATAGAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAAGG
* *
55921 TCAAAGCCGACAGGCAGACTGAGGG-TAGAAAGTTCTTCAG-GGTCAAAGCCGACAGGCAGACTA
131 TCAAAGCCGACAGGCAGACTAAGGGAAAGAAAG-TC-TCAGTGGTCAAAGCCGACAGGCAGACTA
** *
55984 AGGGA-AGGAAAGTCTTTAGGGTCAAAGCCGACAGACAGACTGAAGGG-TAGGAAAGTCTCTAGG
194 AGGGATAGGAAAGTCTCCAGGGTCAAA---G-CAGACAGACT-AAGGGATAGGAAAGTCTCCAGG
* ** *
56047 GTTAAA-CCGACAGGCAGA-TTG-AGGGTAGAAAGGTTTTCAGGGACGAAGCCAACAGG-AAGAC
254 GTCAAAGCCGACAGGCAGACTTGAAATG-AGAAA-GTCTTCAGGGACGAAGCCAACAGGCAA-AC
*
56108 TTAAAATGAGATAGTCTCCAG
316 TTAAAATGAGATAGTCTCCAA
* * * * *
56129 GGTTAAAGCCGACAGGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGTCGACAAGAAGATT
1 GGTCAAAGCCGACAAGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT
** * * * * *
56194 GAGGGAGGGAAAA-TC-TCTAGGGACGAAGCCGATAGGCAGATTAAGGGATGAAAAGTCTCCAAG
66 GAGGGATAGAAAAGTCTTC-AAGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAAG
56257 GTCAAAGCCGACAGGCAGACTAAGGGAAA
130 GTCAAAGCCGACAGGCAGACTAAGGGAAA
56286 ACAGAAAAGA
Statistics
Matches: 416, Mismatches: 62, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
334 24 0.06
335 65 0.16
336 67 0.16
337 220 0.53
338 35 0.08
339 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.16
Consensus pattern (336 bp):
GGTCAAAGCCGACAAGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT
GAGGGATAGAAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAAGG
TCAAAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCAGTGGTCAAAGCCGACAGGCAGACTAAG
GGATAGGAAAGTCTCCAGGGTCAAAGCAGACAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG
CCGACAGGCAGACTTGAAATGAGAAAGTCTTCAGGGACGAAGCCAACAGGCAAACTTAAAATGAG
ATAGTCTCCAA
Found at i:59056 original size:25 final size:27
Alignment explanation
Indices: 59022--59084 Score: 103
Period size: 25 Copynumber: 2.4 Consensus size: 27
59012 GGTTGAAAAC
*
59022 GGGTTGGAGTGCTCTCTC-GAGG-ATG
1 GGGTTGGAGTGCACTCTCGGAGGAATG
59047 GGGTTGGAGTGCACTCTCGGAGGAATG
1 GGGTTGGAGTGCACTCTCGGAGGAATG
59074 GGGTTGGAGTG
1 GGGTTGGAGTG
59085 TCCCCGATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 17 0.49
26 4 0.11
27 14 0.40
ACGTcount: A:0.14, C:0.13, G:0.48, T:0.25
Consensus pattern (27 bp):
GGGTTGGAGTGCACTCTCGGAGGAATG
Found at i:61366 original size:52 final size:49
Alignment explanation
Indices: 61258--61861 Score: 482
Period size: 49 Copynumber: 12.6 Consensus size: 49
61248 GGCATTGTGT
* * * * * * *
61258 TGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTAC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
** * * * *
61305 TGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTA--AA-GATGAAGGTGCCAATATGC
* * * * *
61357 TGATTCAAGGCCAACAATATTTGACTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
*
61406 TAATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* * * * **
61455 TGATTCAAGGTCGGCGACATCGGACTTAAAGATGGTTAAGGTGCCAACGTGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G--AAGGTGCCAATATGC
* ** **
61507 TGATTCAAGGCCAACGACATCAGTCTTAAAGATGGTTAAGGTGCCAACGTGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G--AAGGTGCCAATATGC
** *
61559 TGATTCAAGGCCAATGACATTAGTCTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* *
61608 TGATTCAAGGCCAGCGATATTGGTCTTAAAGA-CAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
** * * *
61656 TGATTCAAGGCCAATGATATAGG-C-T-----T--A--TGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
61694 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* * * *
61743 TAATTCAAGGCCAGTGATATTGGGCTT----AT----GT--CAATATGC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* * *
61782 TGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATAC
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
** * * * *
61831 TGAGACAAGGCCAACAATATTGGACTTAAAG
1 TGATTCAAGGCCAGCGACATTGGTCTTAAAG
61862 GTGTCACAGA
Statistics
Matches: 455, Mismatches: 72, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
38 29 0.06
39 31 0.07
40 2 0.00
41 2 0.00
43 2 0.00
45 3 0.01
46 1 0.00
47 26 0.06
48 35 0.08
49 196 0.43
50 6 0.01
51 1 0.00
52 121 0.27
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
Found at i:61499 original size:101 final size:97
Alignment explanation
Indices: 61258--61861 Score: 489
Period size: 101 Copynumber: 6.3 Consensus size: 97
61248 GGCATTGTGT
* * * * * * **
61258 TGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTACTGAGACAAGGCCAGCG
1 TGATTCAAGGCCAACGACATT-GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * * *
61321 ACATTGGGCTTAGGAATGTTAAAGATGCCAATATGC
65 ACATTGGTCTTA--AA-GATGAAGGTGCCAATATGC
* * *
61357 TGATTCAAGGCCAACAATATTTGACTTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAGCG
1 TGATTCAAGGCCAACGACA-TTGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
61422 ACATTGGTCTTAAAGATGAAGGTGCCAATATGC
65 ACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* ** * **
61455 TGATTCAAGGTCGGCGACATCGGACTTAAAGATGGTTAAGGTGCCAACGTGCTGATTCAAGGCCA
1 TGATTCAAGGCCAACGACAT-TGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCA
* ** **
61520 ACGACATCAGTCTTAAAGATGGTTAAGGTGCCAACGTGC
62 GCGACATTGGTCTTAAAGAT-G--AAGGTGCCAATATGC
* *
61559 TGATTCAAGGCCAATGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
1 TGATTCAAGGCCAACGACATT-GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* *
61624 ATATTGGTCTTAAAGA-CAAGGTGCCAATATGC
65 ACATTGGTCTTAAAGATGAAGGTGCCAATATGC
* * * * *
61656 TGATTCAAGGCCAATG--A-T-A--T-AGGCT-TA--TGCCAATGTGCTGATTCAAGGCCAGCGA
1 TGATTCAAGGCCAACGACATTGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
61711 CATTGGTCTTAAAGATGAAGGTGCCAATATGC
66 CATTGGTCTTAAAGATGAAGGTGCCAATATGC
* ** * * *
61743 TAATTCAAGGCCAGTGATATTGGGCTT----AT----GT--CAATATGCTGATTCAAGGCCAACG
1 TGATTCAAGGCCAACGACATT-GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* *
61798 ACATTGGTCTTAAAGATAAAGGTGCCAATATAC
65 ACATTGGTCTTAAAGATGAAGGTGCCAATATGC
** * *
61831 TGAGACAAGGCCAACAATATTGGACTTAAAG
1 TGATTCAAGGCCAACGACATT-GACTTAAAG
61862 GTGTCACAGA
Statistics
Matches: 415, Mismatches: 66, Indels: 55
0.77 0.12 0.10
Matches are distributed among these distances:
86 41 0.10
87 29 0.07
88 74 0.18
89 4 0.01
90 3 0.01
91 1 0.00
94 2 0.00
95 1 0.00
97 30 0.07
98 41 0.10
99 30 0.07
100 2 0.00
101 116 0.28
102 1 0.00
103 1 0.00
104 39 0.09
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (97 bp):
TGATTCAAGGCCAACGACATTGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
CATTGGTCTTAAAGATGAAGGTGCCAATATGC
Found at i:61600 original size:153 final size:146
Alignment explanation
Indices: 61346--61756 Score: 412
Period size: 153 Copynumber: 2.8 Consensus size: 146
61336 ATGTTAAAGA
* * ** *
61346 TGCCAATATGCTGATTCAAGGCCAACAATATTTGACTTAAAGATGAAGGTGCCAATATGCTAATT
1 TGCCAACATGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGAAGGTGCCAACATGCTAATT
* * * *
61411 CAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGTCGGCGACATC
66 CAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATC
*
61476 GGACTTAAAGATGGTTAAGG
131 GGACTTAAAGA----CAAGG
* * * * *
61496 TGCCAACGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGGTTAAGGTGCCAACGTGCTG
1 TGCCAACATGCTGATTCAAGGCCAACAACATCAGACTTAAAGAT-G--AAGGTGCCAACATGCTA
* *
61561 ATTCAAGGCCAATGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
63 ATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
* *
61626 ATTGGTCTTAAAGACAAGG
128 ATCGGACTTAAAGACAAGG
* ** * * ** *
61645 TGCCAATATGCTGATTCAAGGCCAATGATAT-AGGC-T-----T--A--TGCCAATGTGCTGATT
1 TGCCAACATGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGAAGGTGCCAACATGCTAATT
* * *
61699 CAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTAATTCAAGGCCAG
66 CAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG
61757 TGATATTGGG
Statistics
Matches: 229, Mismatches: 29, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
135 69 0.30
137 1 0.00
142 1 0.00
147 1 0.00
148 3 0.01
149 31 0.14
150 37 0.16
151 1 0.00
153 85 0.37
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (146 bp):
TGCCAACATGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGAAGGTGCCAACATGCTAATT
CAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATC
GGACTTAAAGACAAGG
Found at i:61804 original size:39 final size:39
Alignment explanation
Indices: 61735--61809 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
61725 ATGAAGGTGC
** *
61735 CAATATGCTAATTCAAGGCCAGTGATATTGGGCTTATGT
1 CAATATGCTAATTCAAGGCCAACGACATTGGGCTTATGT
* *
61774 CAATATGCTGATTCAAGGCCAACGACATTGGTCTTA
1 CAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
61810 AAGATAAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (39 bp):
CAATATGCTAATTCAAGGCCAACGACATTGGGCTTATGT
Found at i:61851 original size:88 final size:88
Alignment explanation
Indices: 61597--61858 Score: 375
Period size: 88 Copynumber: 3.0 Consensus size: 88
61587 AAGATGAAGG
* *
61597 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
61661 CAAGGCCAATGATA-TAGGCTTA
66 CAAGGCCAATGATATTGGGCTTA
* * *
61683 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
61748 CAAGGCCAGTGATATTGGGCTTA
66 CAAGGCCAATGATATTGGGCTTA
* * * **
61771 TGTCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATACTGAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
** *
61836 CAAGGCCAACAATATTGGACTTA
66 CAAGGCCAATGATATTGGGCTTA
61859 AAGGTGTCAC
Statistics
Matches: 156, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 41 0.26
87 32 0.21
88 83 0.53
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (88 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAATGATATTGGGCTTA
Found at i:62000 original size:33 final size:33
Alignment explanation
Indices: 61858--62019 Score: 177
Period size: 33 Copynumber: 4.9 Consensus size: 33
61848 TATTGGACTT
* * * *
61858 AAAGGTGTCACAGAGTTGTGGA-TTTACAGGAAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGG-GA
* * * *
61891 AAAGGATACCACAGAGGTGTGGGCTTAAAAGAGA
1 AAAGG-TGCCACAGAGTTGTGGACTTAAAAGGGA
* *
61925 AAAGGGTGCCACAAAGTCGTGGACTTAAAA--GA
1 AAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGA
61957 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGGA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGGA
*
61990 CAAGGTGCCACAGAGTTGTGGACTTAAAAG
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAG
62020 AAAAAGATGC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
31 24 0.22
32 5 0.05
33 36 0.33
34 36 0.33
35 7 0.06
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAGGGA
Found at i:62018 original size:64 final size:65
Alignment explanation
Indices: 61858--62023 Score: 201
Period size: 64 Copynumber: 2.5 Consensus size: 65
61848 TATTGGACTT
* * *
61858 AAAGGTGTCACAGAGTTGTGGATTTACAGGAA-AAAAGGATACCACAGAGGTGTGGGCTTAAAAG
1 AAAGGTGCCACAGAGTTGTGGACTTA-A--AAGAAAAGGATACCACAGAGGTGTGGACTTAAAAG
61922 AGA
63 AGA
* * * * *
61925 AAAGGGTGCCACAAAGTCGTGGACTTAAAAGAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGG
1 AAA-GGTGCCACAGAGTTGTGGACTTAAAAGAAAAGGATACCACAGAGGTGTGGACTTAAAAGAG
61989 A
65 A
*
61990 CAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAA
62024 AGATGCATGA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
64 29 0.34
65 28 0.33
66 6 0.07
67 4 0.05
68 19 0.22
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.18
Consensus pattern (65 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAGGATACCACAGAGGTGTGGACTTAAAAGAGA
Found at i:62151 original size:34 final size:33
Alignment explanation
Indices: 62042--62550 Score: 517
Period size: 34 Copynumber: 15.6 Consensus size: 33
62032 GAGTTGTGTA
62042 TGCCACGGAGTTGTGGACTTAAAAGG--AAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
62073 TGCCACGAAGTTGTGGACTTAAAAGGAATAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
*
62106 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-G
* * *
62140 TGCCACGGAGTTATGGGCTTAAAAGGGAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGG
* *
62174 TGCCACGGAGTTGTGGGCTTAAAAGGGAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGG
**
62208 TGCCACGGAGTCATGGACTTAAAA-G-----GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
*
62235 TGCCACAGAGTTGTGGACTTAAAAGG-AAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
*
62267 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
62300 TGCCATGGAGTTGTGGACTTAAAAGGAACAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-G
* * *
62334 TGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGG
* * *
62368 TGTCACGAAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
** *
62401 TGCCATTGAGTTATGGACTTAAAA-G-----GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
**
62428 TGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-G
* * * * *
62462 TGCCATGGAGTTATGGGCTTTAAAAAGAAAAATG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGG
* *
62496 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGG
** *
62531 TGCCATAGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
62551 TGGGAAGAGA
Statistics
Matches: 407, Mismatches: 50, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
27 46 0.11
28 2 0.00
31 25 0.06
32 29 0.07
33 102 0.25
34 146 0.36
35 57 0.14
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
Found at i:62239 original size:27 final size:27
Alignment explanation
Indices: 62201--62325 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
62191 CTTAAAAGGG
**
62201 AAAAGGGTGCCACGGAGTCATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
62228 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
62255 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAA-G----GGTGCCACGGAGTTGTGGACTT
*
62287 AAAAGGAACAAGGTGCCATGGAGTTGTGGACTT
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTT
62320 AAAAGG
1 AAAAGG
62326 AACAAGAGTG
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
27 29 0.34
28 1 0.01
32 28 0.33
33 28 0.33
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.19
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:62265 original size:101 final size:92
Alignment explanation
Indices: 62133--62515 Score: 367
Period size: 101 Copynumber: 4.0 Consensus size: 92
62123 CTTAAAAGGA
* * * * * *
62133 AAAAGAGTGCCACGGAGTTATGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGAAAA-GGTGCCACGGAGTTGTGGACTTAAAA
* *
62198 GGGAAAAGGGTGCCACGGAGTCATGGACTT
65 -GGAAAA-GGTGCCATGGAGTTATGGACTT
62228 AAAAGGGTGCCACAGAGTTGTGGACTT-AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
*
62292 GAACAAGGTGCCATGGAGTTGTGGACTT
66 GAA-AAGGTGCCATGGAGTTATGGACTT
* * * *
62320 AAAAGGAACAAGAGTGCCAC-GAAGTTGTGGGCTTTAAAAAGAAAAAGGTGTCACGAAGTTGTGG
1 AAAA-G-----G-GTGCCACAG-AGTTGTGGAC-TTAAAAAGGAAAAGGTGCCACGGAGTTGTGG
* *
62384 ACTTAAAAGGAAAAAGATGCCATTGAGTTATGGACTT
57 ACTTAAAAGG-AAAAGGTGCCATGGAGTTATGGACTT
* * * *
62421 AAAAGGGTGCCATAGAGTTGTGGACTT-AAAAGGAAAAAGAGTGCCATGGAGTTATGGGCTTTAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG-AAAAG-GTGCCACGGAGTTGTGGAC-TT-A
* * ** *
62485 AAAGAAAAATGTGCCACAGAGTTGTGGACTT
62 AAAGGAAAAGGTGCCATGGAGTTATGGACTT
62516 TGAAAAGAAA
Statistics
Matches: 241, Mismatches: 30, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
92 32 0.13
93 35 0.15
94 38 0.16
95 48 0.20
96 5 0.02
98 2 0.01
99 16 0.07
100 3 0.01
101 60 0.25
102 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (92 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
GAAAAGGTGCCATGGAGTTATGGACTT
Found at i:62382 original size:194 final size:193
Alignment explanation
Indices: 62042--62535 Score: 670
Period size: 194 Copynumber: 2.5 Consensus size: 193
62032 GAGTTGTGTA
* * *
62042 TGCCACGGAGTTGTGGACTTAAAAGG-AAAGGTGCCACGAAGTTGTGGACTTAAAAGGAATAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
62106 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTATGGGCTTAAAAGGGAAAA
66 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTATGGGCTTAAAAGAGAAAA
* * * * *
62171 GGGTGCCACGGAGTTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGAGTCATGGACTTAAAAGGG
131 AGGTGCCACGAAGTTGTGGACTTAAAA-GGAAAAAGATGCCACGGAGTCATGGACTTAAAAGGG
*
62235 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
** * *
62300 TGCCATGGAGTTGTGGACTTAAAAGGAACAAGAGTGCCACGAAGTTGTGGGCTTTAAAA-AGAAA
66 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTATGGGC-TTAAAAGAGAAA
* ** *
62364 AAGGTGTCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCATTGAGTTATGGACTTAAAAGGG
130 AAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCATGGACTTAAAAGGG
* * * * *
62428 TGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTATGGGCTTTAAAAAGAAAA
1 TGCCACAGAGTTGTGGACTTAAAAGG-AAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAA
* *
62493 ATGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAG-GTGCCA
63 AGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCA
62536 TAGAGTCGTG
Statistics
Matches: 265, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
193 81 0.31
194 116 0.44
195 22 0.08
196 28 0.11
197 8 0.03
198 10 0.04
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (193 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTATGGGCTTAAAAGAGAAAA
AGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCATGGACTTAAAAGGG
Found at i:62432 original size:27 final size:27
Alignment explanation
Indices: 62401--62453 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
62391 AGGAAAAAGA
*
62401 TGCCATTGAGTTATGGACTTAAAAGGG
1 TGCCATAGAGTTATGGACTTAAAAGGG
*
62428 TGCCATAGAGTTGTGGACTTAAAAGG
1 TGCCATAGAGTTATGGACTTAAAAGG
62454 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (27 bp):
TGCCATAGAGTTATGGACTTAAAAGGG
Found at i:62552 original size:35 final size:34
Alignment explanation
Indices: 62421--62622 Score: 145
Period size: 34 Copynumber: 6.1 Consensus size: 34
62411 TTATGGACTT
* * * *
62421 AAAAGGGTGCCATAGAGTTGTGGAC-TTAAAAGG
1 AAAAAGGTGCCATAGAGTCGTGGACTTTGAAAGA
* ** * *
62454 AAAAAGAGTGCCATGGAGTTATGGGCTTT-AAAAA
1 AAAAAG-GTGCCATAGAGTCGTGGACTTTGAAAGA
* * *
62488 GAAAAATGTGCCACAGAGTTGTGGACTTTGAAAAGA
1 -AAAAAGGTGCCATAGAGTCGTGGACTTTG-AAAGA
62524 AAAAAGGTGCCATAGAGTCGTGGACTTTG---G-
1 AAAAAGGTGCCATAGAGTCGTGGACTTTGAAAGA
* * *
62554 GAAGAGATGCCACTA-AGTCGTGGACTTTGAAA-A
1 AAAAAGGTGCCA-TAGAGTCGTGGACTTTGAAAGA
*
62587 AAAAAGATGCCACT-GAGTCGTGGA-TTTGAAAGA
1 AAAAAGGTGCCA-TAGAGTCGTGGACTTTGAAAGA
62620 AAA
1 AAA
62623 GGATTCCACT
Statistics
Matches: 137, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
30 23 0.17
31 3 0.02
32 7 0.05
33 30 0.22
34 37 0.27
35 33 0.24
36 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAAGGTGCCATAGAGTCGTGGACTTTGAAAGA
Found at i:62573 original size:30 final size:30
Alignment explanation
Indices: 62525--62869 Score: 317
Period size: 30 Copynumber: 11.2 Consensus size: 30
62515 TTGAAAAGAA
* *
62525 AAAAGGTGCCA-TAGAGTCGTGGACTTTGGG
1 AAAAGATGCCACT-GAGTCGTGGACTTTGAG
* * *
62555 AAGAGATGCCACTAAGTCGTGGACTTTGAAAAA
1 AAAAGATGCCACTGAGTCGTGGACTTTG---AG
62588 AAAAGATGCCACTGAGTCGTGGA-TTTGAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG--AG
* * *
62619 AAAAGGATTCCACTGAGTTGTGGACTTAGA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* * *
62649 AAAGAGATGCCACTAAGTTGTGGACTTTGAA
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAG
*
62680 AAAAGATGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
62710 ACAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
62740 AAGAA-ATTGCCACTGGGTCGTGGACTTTGGG
1 AA-AAGA-TGCCACTGAGTCGTGGACTTTGAG
* * * *
62771 ACAAGATGCCATTGGGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
62802 AAAAAAGATGCCACTGAGTCGTGG-TTTTGGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTT-G-AG
62835 AAAAGGATGCCACTGAGTCGTGGAC-TT-AG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
62864 AAAAGA
1 AAAAGA
62870 GATTTGAAAA
Statistics
Matches: 265, Mismatches: 33, Indels: 36
0.79 0.10 0.11
Matches are distributed among these distances:
28 2 0.01
29 6 0.02
30 123 0.46
31 44 0.17
32 44 0.17
33 46 0.17
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:62588 original size:95 final size:92
Alignment explanation
Indices: 62488--62872 Score: 368
Period size: 95 Copynumber: 4.1 Consensus size: 92
62478 GCTTTAAAAA
* * * *
62488 GAAAAATG-TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGACTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTTG--AAG-AAAAAGATGCCACT-GAGTCGTGGACTT
*
62551 TGGGAAGAGATGCCACTAAGTCGTGGACTTT
62 TGAGAAGAGATGCCACTAAGTCGTGGACTTT
* * *
62582 GAAAAAAAAAGATGCCACTGAGTCGTGGA-TTTGAAAGAAAAGGATTCCACTGAGTTGTGGACTT
1 G---AAAAAAGATGCCACTGAGTCGTGGACTTTG-AAGAAAAAGATGCCACTGAGTCGTGGACTT
* * *
62646 AGAAAAGAGATGCCACTAAGTTGTGGACTTT
62 TGAGAAGAGATGCCACTAAGTCGTGGACTTT
* *
62677 GAAAAAAGATGCCACTGAGTCGTGGACTTTG--GGACAAGATGCCACTGAGTCGTGGACTTTGAG
1 GAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG
* **
62740 AAGAAATTGCCACTGGGTCGTGGACTTT
66 AAGAGA-TGCCACTAAGTCGTGGACTTT
** * * * * *
62768 GGGACAAGATGCCATTGGGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGG-TTTTGG
1 GAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAAGATGCCACTGAGTCGTGGACTTT-G
* * *
62832 AAGAAAAGGATGCCACTGAGTCGTGGACTTA
64 -AGAAGA-GATGCCACTAAGTCGTGGACTTT
*
62863 GAAAAGAGAT
1 GAAAAAAGAT
62873 TTGAAAAATT
Statistics
Matches: 239, Mismatches: 39, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
90 30 0.13
91 43 0.18
92 25 0.10
93 8 0.03
94 23 0.10
95 79 0.33
96 6 0.03
97 10 0.04
98 15 0.06
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (92 bp):
GAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG
AAGAGATGCCACTAAGTCGTGGACTTT
Found at i:74349 original size:20 final size:20
Alignment explanation
Indices: 74321--74358 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
74311 TTATTTATTG
74321 TTTATTATTATTTTTATGAGT
1 TTTATTATT-TTTTTATGAGT
74342 TTTA-TATTTTTTTATGA
1 TTTATTATTTTTTTATGA
74359 ACTTAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TTTATTATTTTTTTATGAGT
Found at i:75120 original size:46 final size:46
Alignment explanation
Indices: 75053--75150 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
75043 TGCTGCCCGT
75053 AAGCTGGGATGGATGCAGGAAGCTGCTGGAGTTGGGAGCTTGTTGG
1 AAGCTGGGATGGATGCAGGAAGCTGCTGGAGTTGGGAGCTTGTTGG
75099 AAGCTGGGATGGATGCAGGAAGCTGCTGGAGTTGGGAGCTTGTTGG
1 AAGCTGGGATGGATGCAGGAAGCTGCTGGAGTTGGGAGCTTGTTGG
75145 AAGCTG
1 AAGCTG
75151 TCCGTGATTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.20, C:0.11, G:0.45, T:0.23
Consensus pattern (46 bp):
AAGCTGGGATGGATGCAGGAAGCTGCTGGAGTTGGGAGCTTGTTGG
Found at i:75448 original size:40 final size:40
Alignment explanation
Indices: 75404--75535 Score: 95
Period size: 40 Copynumber: 3.2 Consensus size: 40
75394 TCTTCCACTT
75404 TCTTCATTGTTGCTTTGCTTTGCAATTCCTTGTTGCTTTG
1 TCTTCATTGTTGCTTTGCTTTGCAATTCCTTGTTGCTTTG
** ** * * * * *
75444 TCTTCATCATTGCTGTTTTTTTCCACGTTACTTTGTCTTCCAATT-
1 TCTTCATTGTTGCT-TTGCTTTGCA-ATT-CCTTG--TTGC-TTTG
* * *
75489 TCTTCATTGTTGCTTTGCTTTGCTATTCCATATTGCTTTG
1 TCTTCATTGTTGCTTTGCTTTGCAATTCCTTGTTGCTTTG
75529 TCTTCAT
1 TCTTCAT
75536 CATTGCTGTT
Statistics
Matches: 64, Mismatches: 21, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
39 2 0.03
40 22 0.34
41 7 0.11
42 4 0.06
43 6 0.09
44 6 0.09
45 15 0.23
46 2 0.03
ACGTcount: A:0.11, C:0.22, G:0.13, T:0.55
Consensus pattern (40 bp):
TCTTCATTGTTGCTTTGCTTTGCAATTCCTTGTTGCTTTG
Found at i:75494 original size:85 final size:86
Alignment explanation
Indices: 75347--75546 Score: 321
Period size: 85 Copynumber: 2.3 Consensus size: 86
75337 CCTCTTGCAC
* *
75347 ATTGCTTTGTCCTCATCATTGCTAGTTTGCTTTTCCACATTACTTTGTCTTCCACTTTCTTCATT
1 ATTGCTTTGTCTTCATCATTGCT-GTTT-CTTTTCCACATTACTTTGTCTTCCAATTTCTTCATT
*
75412 GTTGCTTTGCTTTGCAATTCCTT
64 GTTGCTTTGCTTTGCAATTCCAT
* *
75435 GTTGCTTTGTCTTCATCATTGCTGTTT-TTTTCCACGTTACTTTGTCTTCCAATTTCTTCATTGT
1 ATTGCTTTGTCTTCATCATTGCTGTTTCTTTTCCACATTACTTTGTCTTCCAATTTCTTCATTGT
*
75499 TGCTTTGCTTTGCTATTCCAT
66 TGCTTTGCTTTGCAATTCCAT
75520 ATTGCTTTGTCTTCATCATTGCTGTTT
1 ATTGCTTTGTCTTCATCATTGCTGTTT
75547 GCGTTTCTCC
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 80 0.76
87 4 0.04
88 21 0.20
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (86 bp):
ATTGCTTTGTCTTCATCATTGCTGTTTCTTTTCCACATTACTTTGTCTTCCAATTTCTTCATTGT
TGCTTTGCTTTGCAATTCCAT
Found at i:75841 original size:100 final size:101
Alignment explanation
Indices: 75696--75879 Score: 316
Period size: 100 Copynumber: 1.8 Consensus size: 101
75686 AAATGCATGT
*
75696 ATGCATGAAATGAAAATTTGCATGCATAAAGCATGAAATGTTTATGAAATGCATGCATGAAATGA
1 ATGCATGAAATGAAAA-TTGCATGCATAAAGCATGAAATGTTTATGAAATGCATGCATGAAATAA
*
75761 AAATTATGTTAAATGCATGGATGAATTGTTACGTGAA
65 AAATTATGTGAAATGCATGGATGAATTGTTACGTGAA
* *
75798 ATGCATGAAATGAAAA-TGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAATAAA
1 ATGCATGAAATGAAAATTGCATGCATAAAGCATGAAATGTTTATGAAATGCATGCATGAAATAAA
75862 AATTATGTGAAATGCATG
66 AATTATGTGAAATGCATG
75880 AAATAAATGC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 62 0.79
102 16 0.21
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (101 bp):
ATGCATGAAATGAAAATTGCATGCATAAAGCATGAAATGTTTATGAAATGCATGCATGAAATAAA
AATTATGTGAAATGCATGGATGAATTGTTACGTGAA
Found at i:75852 original size:50 final size:50
Alignment explanation
Indices: 75696--75864 Score: 164
Period size: 50 Copynumber: 3.3 Consensus size: 50
75686 AAATGCATGT
75696 ATGCATGAAATGAAAATTTGCATGCATAAAGCATGAAATGTTTATGAAATGC
1 ATGCATGAAATGAAAA--TGCATGCATAAAGCATGAAATGTTTATGAAATGC
* * * * * * ** *
75748 ATGCATGAAATGAAAAT-TATG-TTAAATGCATG-GATGAATTGTTACGTGAA
1 ATGCATGAAATGAAAATGCATGCATAAA-GCATGAAATG-TTTATGAAATG-C
* *
75798 ATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGC
1 ATGCATGAAATGAAAATGCATGCATAAAGCATGAAATGTTTATGAAATGC
*
75848 ATGCATGAAATAAAAAT
1 ATGCATGAAATGAAAAT
75865 TATGTGAAAT
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
48 7 0.08
49 14 0.16
50 34 0.38
51 13 0.14
52 22 0.24
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGCATGAAATGAAAATGCATGCATAAAGCATGAAATGTTTATGAAATGC
Found at i:75910 original size:38 final size:38
Alignment explanation
Indices: 75770--75920 Score: 98
Period size: 38 Copynumber: 4.0 Consensus size: 38
75760 AAAATTATGT
** *
75770 TAAATGCATGGATGAATTGTTACGTGAAATGCATGAAA
1 TAAATGCATACATGAAATGTTACGTGAAATGCATGAAA
* * *
75808 TGAAAATGCATGCATG-AA-G---CTTGAAATGTTTATGAAA
1 T--AAATGCATACATGAAATGTTACGTGAAATG--CATGAAA
** * ** *
75845 TGCATGCATGAAAT-AAAAATTATGTGAAATGCATGAAA
1 TAAATGCAT-ACATGAAATGTTACGTGAAATGCATGAAA
*
75883 TAAATGCATACATGAAATGTTACGTGAAATGTATGAAA
1 TAAATGCATACATGAAATGTTACGTGAAATGCATGAAA
75921 ATATGCAAGC
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
35 14 0.17
36 4 0.05
37 10 0.12
38 35 0.42
39 1 0.01
40 19 0.23
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (38 bp):
TAAATGCATACATGAAATGTTACGTGAAATGCATGAAA
Found at i:76030 original size:21 final size:20
Alignment explanation
Indices: 75993--76034 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
75983 TTTATAAAAA
*
75993 TTTATTTTAATTTATTTATTT
1 TTTATTTTAATTAATTT-TTT
76014 TTTATGTTTAA-TAATTTTTT
1 TTTAT-TTTAATTAATTTTTT
76034 T
1 T
76035 ATAAACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATTTTAATTAATTTTTT
Found at i:76387 original size:15 final size:17
Alignment explanation
Indices: 76356--76387 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76346 CAAGAAGAAT
76356 AAAACAAGAATGCAGGA
1 AAAACAAGAATGCAGGA
76373 AAAACAA-AA-GCAGGA
1 AAAACAAGAATGCAGGA
76388 CCACACAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.22, T:0.03
Consensus pattern (17 bp):
AAAACAAGAATGCAGGA
Found at i:76561 original size:43 final size:43
Alignment explanation
Indices: 76469--77299 Score: 607
Period size: 42 Copynumber: 19.6 Consensus size: 43
76459 ATATTCTCTC
* *
76469 GGGTCAAAGCCAAC-GAGCAGACTTAGGGAA-A-GAAAGTCTCCA
1 GGGTCAAAGCCGACAG-GCAGAC-TAAGGAATAGGAAAGTCTCCA
* *
76511 GGGTCAAAGTCGACAAGCAGACTAAGGAATAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * * *
76554 GGATCAAAGCCGACAAGCAGACTTAGGACTAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * * *
76597 AGGTCAAAGCCGACAAGCAAACTTAGGGAA-A-GAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGAATAGGAAAGTCTCCA
* *
76639 GGGTCAAAGCCGGCAGGCAGACTAAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * *
76682 GGGTCAAAGTCAACAGGCAGACTAAGGGATAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * *
76725 GGGTCAAAGCCGACATGCAGACTTTA--AATGAGG-TAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGAAT-AGGAAAGTCTCCA
* * * * *
76767 GGGACAAAGCCAACAGGCAGACTTTA--AAT-GAGATAGTCTCTA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGAATAG-GAAAGTCTCCA
* * *
76809 GGGTCAAAGCTGATAGGCAGACTGAGGGAA-AGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACT-AAGGAATAGGAAAGTCTCCA
* * * * * * *
76852 GGGTCAAAGCCGTCAAGCAGATTGAGG-GTTGAAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * * *
76894 TGGTCAAAGCCGACAGGCAGACTAAGGGAT-GAAAAGTCTCGA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* *
76936 GGGTCAAAGCCGACAGGCAGACTGAGG-GTA-GATAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGA-AAGTCTCCA
* * * * * * *
76978 AGGTTAAAGCTGACAAGCAGACTAAGGGA-AGAAAAGTCTCGA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * *
77020 GGGTTAAAGCCGACAGGCAGACTGAAGG-GTAGGAAAGTCTTCA
1 GGGTCAAAGCCGACAGGCAGACT-AAGGAATAGGAAAGTCTCCA
* * * * * * *
77063 GGGTTAAA-CCGACAAGCAGACTGAGG-GTAGAAAAGTTTCTA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * * * * *
77104 GGGACGAAGCCAATAGGCAGACTTAA--AATAAGATAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGAATAGGAAAGTCTCCA
* * * * * *
77146 AGGTCAAAGTCGATAGACAGACTGAGGGAA-AGGAAAGTCTCAA
1 GGGTCAAAGCCGACAGGCAGACT-AAGGAATAGGAAAGTCTCCA
* * * *
77189 AGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
* * * * * * *
77231 GGGAT-GAAGTCGACTGGCAAACTAAGGGAT-GAAAAGTCTCTA
1 GGG-TCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
** *
77273 GGGTCAAAATCGATAGGCAGACTAAGG
1 GGGTCAAAGCCGACAGGCAGACTAAGG
77300 GAAAACAGAA
Statistics
Matches: 631, Mismatches: 127, Indels: 62
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.00
41 36 0.06
42 356 0.56
43 227 0.36
44 11 0.02
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (43 bp):
GGGTCAAAGCCGACAGGCAGACTAAGGAATAGGAAAGTCTCCA
Found at i:76635 original size:85 final size:85
Alignment explanation
Indices: 76469--77303 Score: 634
Period size: 85 Copynumber: 9.9 Consensus size: 85
76459 ATATTCTCTC
* * * * * *
76469 GGGTCAAAGCCAACGAGCAGACTTAGGGA-AAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
*
76533 -TAAGGAATAGGAAAGTCTCCA
66 TTAGGGAA-A-GAAAGTCTCCA
* * * * *
76554 GGATCAAAGCCGACAAGCAGACTTA-GGACTAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAAA
1 GGGTCAAAGCCGACAAGCAGACTAAGGGA-TAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGA
76618 CTTAGGGAAAGAAAGTCTCCA
65 CTTAGGGAAAGAAAGTCTCCA
* * * *
76639 GGGTCAAAGCCGGCAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGTCAACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
* *
76704 TAAGGGATAGGAAAGTCTCCA
66 TTAGGGA-AAGAAAGTCTCCA
* * * *
76725 GGGTCAAAGCCGACATGCAGACTTTAA---ATGAGG-TAGTCTCCAGGGACAAAGCCAACAGGCA
1 GGGTCAAAGCCGACAAGCAGAC--TAAGGGAT-AGGAAAGTCTCCAGGGTCAAAGCCGACAGGCA
* *
76786 GACTTTA---AATGAGATAGTCTCTA
63 GAC-TTAGGGAA--AGAAAGTCTCCA
* * * * * * *
76809 GGGTCAAAGCTGATAGGCAGACTGAGGGAAAGGAAAGTCTCCAGGGTCAAAGCCGTCAAGCAGA-
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
**
76873 TTGAGGG-TTGAAAAGTCTCCA
66 TT-AGGGAAAG-AAAGTCTCCA
* * * *
76894 TGGTCAAAGCCGACAGGCAGACTAAGGGAT-GAAAAGTCTCGAGGGTCAAAGCCGACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
* *
76958 TGAGGG-TAGATAAGTCTCCA
66 TTAGGGAAAGA-AAGTCTCCA
* * * * * *
76978 AGGTTAAAGCTGACAAGCAGACTAAGGGA-AGAAAAGTCTCGAGGGTTAAAGCCGACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
* * * *
77042 TGAAGGGTAGGAAAGTCTTCA
66 T-TAGGGAAAGAAAGTCTCCA
* * * * * * * * *
77063 GGGTTAAA-CCGACAAGCAGACTGAGGG-TAGAAAAGTTTCTAGGGACGAAGCCAATAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
** *
77126 TTA-AAATAAGATAGTCTCCA
66 TTAGGGA-AAGAAAGTCTCCA
* * * * * * *
77146 AGGTCAAAGTCGA-TAGACAGACTGAGGGAAAGGAAAGTCTCAAAGGTCAAAGCCGACAGGCAGA
1 GGGTCAAAGCCGACAAG-CAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGA
*
77210 CTGAGGG-AAGAAAAGTCTCCA
65 CTTAGGGAAAG-AAAGTCTCCA
* * ** * * * ** *
77231 GGGAT-GAAGTCGACTGGCAAACTAAGGGAT-GAAAAGTCTCTAGGGTCAAAATCGATAGGCAGA
1 GGG-TCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGA
*
77294 CTAAGGGAAA
65 CTTAGGGAAA
77304 ACAGAAAAGA
Statistics
Matches: 606, Mismatches: 109, Indels: 70
0.77 0.14 0.09
Matches are distributed among these distances:
82 3 0.00
83 23 0.04
84 235 0.39
85 259 0.43
86 77 0.13
87 6 0.01
88 3 0.00
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (85 bp):
GGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC
TTAGGGAAAGAAAGTCTCCA
Found at i:76852 original size:127 final size:125
Alignment explanation
Indices: 76469--77233 Score: 498
Period size: 127 Copynumber: 6.0 Consensus size: 125
76459 ATATTCTCTC
* * * * * * * *
76469 GGGTCAAAGCCAACGAGCAGACTTAGGGAAAG-AAAGTCTCCAGGGTCAAAGTCGACAAGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTT-GAGAATGAAAAGTCTCCAGGGACAAAGCCAACAGGCAGAC
* * * * *
76533 TAAGGAATAGGAAAGTCTCCAGGATCAAAGCCGACAAGCAGACTTA-GGACTAGGAAAGTCTCCA
65 TAA-G-AT-GAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGA-TAGGAAAGTCTCCA
* * * * * **
76597 AGGTCAAAGCCGACAAGCAAACTTAGGGAAAG-AAAGTCTCCAGGGTCAAAGCCGGCAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTT-GAGAATGAAAAGTCTCCAGGGACAAAGCCAACAGGCAGAC
* * *
76661 TAAGGGATAGGAAAGTCTCCAGGGTCAAAG-TCAACAGGCAGACTAAGGGATAGGAAAGTCTCCA
65 TAA--GAT-GAAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACTGAGGGATAGGAAAGTCTCCA
* * **
76725 GGGTCAAAGCCGACATGCAGACTTTA-AATGAGGTAGTCTCCAGGGACAAAGCCAACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTTGAGAATGA-AAAGTCTCCAGGGACAAAGCCAACAGGCAGAC
* * * *
76789 TTTAA-ATGAGATAGTCTCTAGGGTCAAAGCTGATAGGCAGACTGAGGGAAAGGAAAGTCTCCA
65 --TAAGATGA-AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGGAAAGTCTCCA
* ** * * *
76852 GGGTCAAAGCCGTCAAGCAGA-TTGAGGGTTGAAAAGTCTCCATGGTCAAAGCCGACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACTTGA-GAATGAAAAGTCTCCAGGGACAAAGCCAACAGGCAGAC
* *
76916 TAAGGGATGAAAAGTCTCGAGGGTCAAAGCCGACAGGCAGACTGAGGG-TA-GATAAGTCTCCA
65 TAA--GATGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGGA-AAGTCTCCA
* * * * * * ** *
76978 AGGTTAAAGCTGACAAGCAGACTAAGGGAA-GAAAAGTCTCGAGGGTTAAAGCCGACAGGCAGAC
1 GGGTCAAAGCCGACAAGCAGACT-TGAGAATGAAAAGTCTCCAGGGACAAAGCCAACAGGCAGAC
* * * * * * * * *
77042 TGAAGGGTAGGAAAGTCTTCAGGGTTAAA-CCGACAAGCAGACTGAGGG-TAGAAAAGTTTCTA
65 T-AA-GAT-GAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGGAAAGTCTCCA
* * * * * * * * * * * *
77104 GGGACGAAGCCAATAGGCAGACTT-AAAAT-AAGATAGTCTCCAAGGTCAAAGTCGATAGACAGA
1 GGGTCAAAGCCGACAAGCAGACTTGAGAATGAA-A-AGTCTCCAGGGACAAAGCCAACAGGCAGA
* * * * * * *
77167 CTGAGGGAAAGGAAAGTCTCAAAGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAAGTCTCCA
64 CT-A-AG-ATGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGGAAAGTCTCCA
77231 GGG
1 GGG
77234 ATGAAGTCGA
Statistics
Matches: 518, Mismatches: 92, Indels: 55
0.78 0.14 0.08
Matches are distributed among these distances:
124 4 0.01
125 6 0.01
126 155 0.30
127 180 0.35
128 165 0.32
129 5 0.01
130 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (125 bp):
GGGTCAAAGCCGACAAGCAGACTTGAGAATGAAAAGTCTCCAGGGACAAAGCCAACAGGCAGACT
AAGATGAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGGAAAGTCTCCA
Found at i:84994 original size:79 final size:79
Alignment explanation
Indices: 84861--85062 Score: 296
Period size: 79 Copynumber: 2.6 Consensus size: 79
84851 ACGGGGCTGA
* * * * * *
84861 AGTATCCCTGATTATGGAAAATCGGTGTTTTGAAAGTAAAATCGGGGTTAGAGTATCTCCTTGAA
1 AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTAGAGTATCTACTCGAA
*
84926 AATAACAGGGTTGG
66 AATAACAAGGTTGG
* * * *
84940 AGTATCCCTGATTATAGAAAATTGGTATTTTGAAACTAAAATCGAGGTTGGAGTATCTACTCGGA
1 AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTAGAGTATCTACTCGAA
85005 AATAACAAGGTTGG
66 AATAACAAGGTTGG
*
85019 AGTATCCCTTATTATAGAAAATTGGTGTTTTGAAAATAAAATCG
1 AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCG
85063 GAGTTTGAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 110 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (79 bp):
AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGAGGTTAGAGTATCTACTCGAA
AATAACAAGGTTGG
Found at i:85124 original size:51 final size:52
Alignment explanation
Indices: 85012--85130 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 52
85002 GGAAATAACA
* *
85012 AGGTTGGAGTA-TCCCTTATTATAGAAAATTGGTGTTTTGAAAATAAAATCG
1 AGGTTGGAGTATTCCCTGATTATAGAAAATTGGTATTTTGAAAATAAAATCG
* *
85063 -GAGTTTGAGTATTCCC-GATTGT-GAAAATTTGGTATTTT-AGAAATAAAATCG
1 AG-GTTGGAGTATTCCCTGATTATAGAAAA-TTGGTATTTTGA-AAATAAAATCG
*
85114 AGGTTGGAGTATCCCCT
1 AGGTTGGAGTATTCCCT
85131 CAAAAATAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
50 7 0.12
51 44 0.79
52 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (52 bp):
AGGTTGGAGTATTCCCTGATTATAGAAAATTGGTATTTTGAAAATAAAATCG
Found at i:85361 original size:238 final size:238
Alignment explanation
Indices: 84928--85367 Score: 539
Period size: 238 Copynumber: 1.8 Consensus size: 238
84918 TCCTTGAAAA
* * ***
84928 TAACAGGGTTGGAGTATCCCTGATTATAGAAAATTGGTATTTTGAAACTAAAATCGAGGTTGGAG
1 TAACAGGGTTGGAGTAGCCCCGATTATAGAAAATCAATATTTTGAAACTAAAATCGAGGTTGGAG
* * ** *
84993 TATCTACTCGGAAATAACAAGGTTGGAGTATCCCTTATTATAGAAAATTGGTGTTTTGAAAATAA
66 TATCCACTCGGAAATAACAAGATTGGAGTATCCCCAATTATAGAAAATTGGTATTTTGAAAATAA
* * *** * * *
85058 AATCGGAGTTTGAGTATTCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGAGGTTGGAG
131 AATCGGAGTTGGAGTATCCCCGATTAAAAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAG
85123 TATCCCCTCAAAAATAACTGGGATTGGAGTATCCCCGATGACC
196 TATCCCCTCAAAAATAACTGGGATTGGAGTATCCCCGATGACC
* * * *
85166 TAACGGGGTTGGAGTAGCCCCGATTAT-GAAAAATCAATATTTTAGATA-TAAAATTGGGGTTGG
1 TAACAGGGTTGGAGTAGCCCCGATTATAG-AAAATCAATATTTT-GAAACTAAAATCGAGGTTGG
* * * *
85229 AGTATCCCCTCGGAAATAACGAGATTGGAGTATCCCCAATTGT-GAAAAATTGGTATTTTGGAAA
64 AGTATCCACTCGGAAATAACAAGATTGGAGTATCCCCAATTATAG-AAAATTGGTATTTTGAAAA
* * *
85293 TAAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATTGATGA-TTTGGAGATGAAACCG-GGAT
128 TAAAATCGGAGTTGGAGTATCCCCGATTAAAAAAAATTGAT-ATTTTAGAAATAAAACCGAGG-T
85356 TGGAGTATCCCC
191 TGGAGTATCCCC
85368 GGTTATGGTA
Statistics
Matches: 168, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
237 4 0.02
238 160 0.95
239 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (238 bp):
TAACAGGGTTGGAGTAGCCCCGATTATAGAAAATCAATATTTTGAAACTAAAATCGAGGTTGGAG
TATCCACTCGGAAATAACAAGATTGGAGTATCCCCAATTATAGAAAATTGGTATTTTGAAAATAA
AATCGGAGTTGGAGTATCCCCGATTAAAAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAG
TATCCCCTCAAAAATAACTGGGATTGGAGTATCCCCGATGACC
Found at i:85418 original size:50 final size:51
Alignment explanation
Indices: 85248--85468 Score: 223
Period size: 51 Copynumber: 4.4 Consensus size: 51
85238 TCGGAAATAA
* ** * *
85248 CGAGATTGGAGTATCCCCAATTGTGAAAAATTGGT-ATTTTGGAAATAAAAT
1 CGAGATTGGAGTATCCCCGATTAAGAAAAATTGATGA-TTTGGAAATAAAAC
* * *
85299 CG-GAGTTGGAGTATCCCCGATTAAAAAAAATTGATGATTTGGAGATGAAAC
1 CGAGA-TTGGAGTATCCCCGATTAAGAAAAATTGATGATTTGGAAATAAAAC
* * * ** * * * *
85350 CGGGATTGGAGTATCCCCGGTTATGGTAAATCGATGCTTTAGAAATAAAAT
1 CGAGATTGGAGTATCCCCGATTAAGAAAAATTGATGATTTGGAAATAAAAC
* *
85401 CGAG-TTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC
1 CGAGATTGGAGTATCCCCGATTAAGAAAAATTGATGATTTGGAAATAAAAC
*
85451 CGGGATTGGAGTATCCCC
1 CGAGATTGGAGTATCCCC
85469 AAGATGAAAA
Statistics
Matches: 136, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
50 42 0.31
51 91 0.67
52 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
CGAGATTGGAGTATCCCCGATTAAGAAAAATTGATGATTTGGAAATAAAAC
Found at i:87744 original size:20 final size:19
Alignment explanation
Indices: 87719--87792 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
87709 AAAATGCTTG
*
87719 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
87739 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGA-A
87759 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
87779 AATGTATCGATACA
1 AATGTATCGATACA
87793 TCTAGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:96915 original size:45 final size:46
Alignment explanation
Indices: 96850--96941 Score: 114
Period size: 48 Copynumber: 2.0 Consensus size: 46
96840 CAGAGCTGCT
* * *
96850 GGAATAGATGTTGGAAACTG-CTTTGATCGTGGATGGGAGGTTGCC
1 GGAATAGAAGTTGGAAACTGTCTTTGATCGTGAATCGGAGGTTGCC
* *
96895 GGAATGGAAGTTGGAGACTGCTTCTTTGATCGTGAATCGGAGGTTGC
1 GGAATAGAAGTTGGAAACTG--TCTTTGATCGTGAATCGGAGGTTGC
96942 TATAATGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 17 0.44
48 22 0.56
ACGTcount: A:0.22, C:0.12, G:0.37, T:0.29
Consensus pattern (46 bp):
GGAATAGAAGTTGGAAACTGTCTTTGATCGTGAATCGGAGGTTGCC
Found at i:97104 original size:22 final size:22
Alignment explanation
Indices: 97079--97122 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
97069 TTGTCATTGC
* **
97079 TGGAAGTTGCTGTGGGAGCTGT
1 TGGAAGTTACTGCAGGAGCTGT
97101 TGGAAGTTACTGCAGGAGCTGT
1 TGGAAGTTACTGCAGGAGCTGT
97123 GGGGGGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (22 bp):
TGGAAGTTACTGCAGGAGCTGT
Found at i:97188 original size:30 final size:32
Alignment explanation
Indices: 97154--97218 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
97144 GAGCTGTTGA
97154 AGGCTGCCATGGGAGCTGCTGG-AGTTGCT-G
1 AGGCTGCCATGGGAGCTGCTGGAAGTTGCTAG
* *
97184 AGGCTGTCGTGGGAGCTGCTGGAAGTTGCTAG
1 AGGCTGCCATGGGAGCTGCTGGAAGTTGCTAG
97216 AGG
1 AGG
97219 TTGCGGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 20 0.65
31 7 0.23
32 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.45, T:0.23
Consensus pattern (32 bp):
AGGCTGCCATGGGAGCTGCTGGAAGTTGCTAG
Found at i:97646 original size:40 final size:40
Alignment explanation
Indices: 97602--97734 Score: 106
Period size: 40 Copynumber: 3.2 Consensus size: 40
97592 CCTTCCACTT
97602 TCTTCATTGTTGCTTTGCTTTGCTGTTCCATGTGGCTTTG
1 TCTTCATTGTTGCTTTGCTTTGCTGTTCCATGTGGCTTTG
* ** * * * * * *
97642 TCTTCATCGTTGCTGTTTTTTTTCCACGTTAC-TTTGTCTTCCACTC
1 TCTTCATTGTTGC--TTTGCTTTGC-TGTTCCATGTGGCTT----TG
*
97688 TCTTCATTGTTGCTTTGCTTTGCTGTTCCATGTTGCTTTG
1 TCTTCATTGTTGCTTTGCTTTGCTGTTCCATGTGGCTTTG
97728 TCTTCAT
1 TCTTCAT
97735 CATTGCTGTT
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
40 20 0.30
42 13 0.20
43 8 0.12
44 12 0.18
46 13 0.20
ACGTcount: A:0.07, C:0.23, G:0.17, T:0.53
Consensus pattern (40 bp):
TCTTCATTGTTGCTTTGCTTTGCTGTTCCATGTGGCTTTG
Found at i:97695 original size:86 final size:87
Alignment explanation
Indices: 97548--97745 Score: 317
Period size: 86 Copynumber: 2.3 Consensus size: 87
97538 CTTGCACGTT
* * *
97548 GCTTTGTCCTCATCATTGCTATTTTGCTGTTCCACGTTACTTTGCCTTCCACTTTCTTCATTGTT
1 GCTTTGTCTTCATCATTGCTGTTTT-CTGTTCCACGTTACTTTGCCTTCCACTCTCTTCATTGTT
97613 GCTTTGCTTTGCTGTTCCATGTG
65 GCTTTGCTTTGCTGTTCCATGTG
* * *
97636 GCTTTGTCTTCATCGTTGCTGTTTT-TTTTCCACGTTACTTTGTCTTCCACTCTCTTCATTGTTG
1 GCTTTGTCTTCATCATTGCTGTTTTCTGTTCCACGTTACTTTGCCTTCCACTCTCTTCATTGTTG
*
97700 CTTTGCTTTGCTGTTCCATGTT
66 CTTTGCTTTGCTGTTCCATGTG
97722 GCTTTGTCTTCATCATTGCTGTTT
1 GCTTTGTCTTCATCATTGCTGTTT
97746 GCGTTTCTCC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 80 0.78
88 22 0.22
ACGTcount: A:0.08, C:0.25, G:0.16, T:0.52
Consensus pattern (87 bp):
GCTTTGTCTTCATCATTGCTGTTTTCTGTTCCACGTTACTTTGCCTTCCACTCTCTTCATTGTTG
CTTTGCTTTGCTGTTCCATGTG
Found at i:97966 original size:14 final size:14
Alignment explanation
Indices: 97938--97975 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
97928 TGAAGTGTTT
*
97938 ATGAAATG-CATGC
1 ATGAAATGAAATGC
97951 ATGAAATGAAATGC
1 ATGAAATGAAATGC
97965 ATGAAATGAAA
1 ATGAAATGAAA
97976 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (14 bp):
ATGAAATGAAATGC
Found at i:97991 original size:25 final size:25
Alignment explanation
Indices: 97957--98177 Score: 114
Period size: 25 Copynumber: 8.8 Consensus size: 25
97947 ATGCATGAAA
97957 TGAAATGCATGAAATGAAAATTATG
1 TGAAATGCATGAAATGAAAATTATG
* * ** *
97982 TTAAATGCATG-CATGAATTGTTAGG
1 TGAAATGCATGAAATGAA-AATTATG
*
98007 TGAAATGCATGAAATGAAAATGCATG
1 TGAAATGCATGAAATGAAAAT-TATG
* *** * **
98033 CATG-AA-GCTTGAAATGTTTATGAAA
1 --TGAAATGCATGAAATGAAAATTATG
*
98058 TG-CATGCATGAAATGAAAATTATG
1 TGAAATGCATGAAATGAAAATTATG
*
98082 TGAAATGCATGAAATGAAAATGCATG
1 TGAAATGCATGAAATGAAAAT-TATG
* *** * **
98108 CATG-AA-GCTTGAAATGTTTATGAAA
1 --TGAAATGCATGAAATGAAAATTATG
* *
98133 TG-CATGCATGAAATGAAAATTATA
1 TGAAATGCATGAAATGAAAATTATG
98157 TGAAATGCATGAAATGAAAAT
1 TGAAATGCATGAAATGAAAAT
98178 GCGTGCATGA
Statistics
Matches: 141, Mismatches: 43, Indels: 24
0.68 0.21 0.12
Matches are distributed among these distances:
23 6 0.04
24 34 0.24
25 61 0.43
26 32 0.23
27 4 0.03
28 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (25 bp):
TGAAATGCATGAAATGAAAATTATG
Found at i:98038 original size:40 final size:39
Alignment explanation
Indices: 97984--98210 Score: 144
Period size: 40 Copynumber: 5.9 Consensus size: 39
97974 AAATTATGTT
*
97984 AAATGCATGCATGAATTGTTAGGTGAAATGCATGAAATGA
1 AAATGCATGCATGAAATGTTA-GTGAAATGCATGAAATGA
* **
98024 AAATGCATGCATG-AA-GCT--TGAAATG--T-TTATG-
1 AAATGCATGCATGAAATGTTAGTGAAATGCATGAAATGA
98055 AAATGCATGCATGAAATGAAAATTATGTGAAATGCATGAAATGA
1 AAATGCATGCATGAAATG----TTA-GTGAAATGCATGAAATGA
* **
98099 AAATGCATGCATG-AA-GCT--TGAAATG--T-TTATG-
1 AAATGCATGCATGAAATGTTAGTGAAATGCATGAAATGA
*
98130 AAATGCATGCATGAAATGAAAATTATATGAAATGCATGAAATGA
1 AAATGCATGCATGAAATG----TTA-GTGAAATGCATGAAATGA
* *
98174 AAATGCGTGCATGAAATGTTACGTGAAATGTATGAAA
1 AAATGCATGCATGAAATGTTA-GTGAAATGCATGAAA
98211 GTATGCATGC
Statistics
Matches: 144, Mismatches: 17, Indels: 52
0.68 0.08 0.24
Matches are distributed among these distances:
31 26 0.18
32 10 0.07
33 4 0.03
35 14 0.10
37 2 0.01
38 3 0.02
39 1 0.01
40 43 0.30
42 3 0.02
43 8 0.06
44 30 0.21
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (39 bp):
AAATGCATGCATGAAATGTTAGTGAAATGCATGAAATGA
Found at i:98093 original size:75 final size:75
Alignment explanation
Indices: 98006--98188 Score: 348
Period size: 75 Copynumber: 2.4 Consensus size: 75
97996 GAATTGTTAG
98006 GTGAAATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAA
1 GTGAAATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAA
98071 TGAAAATTAT
66 TGAAAATTAT
98081 GTGAAATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAA
1 GTGAAATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAA
98146 TGAAAATTAT
66 TGAAAATTAT
* *
98156 ATGAAATGCATGAAATGAAAATGCGTGCATGAA
1 GTGAAATGCATGAAATGAAAATGCATGCATGAA
98189 ATGTTACGTG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 106 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (75 bp):
GTGAAATGCATGAAATGAAAATGCATGCATGAAGCTTGAAATGTTTATGAAATGCATGCATGAAA
TGAAAATTAT
Found at i:98104 original size:15 final size:15
Alignment explanation
Indices: 98061--98107 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
98051 TATGAAATGC
98061 ATGCATGAAATGAAA
1 ATGCATGAAATGAAA
*
98076 AT-TATG---TG-AA
1 ATGCATGAAATGAAA
98086 ATGCATGAAATGAAA
1 ATGCATGAAATGAAA
98101 ATGCATG
1 ATGCATG
98108 CATGAAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
10 4 0.16
11 5 0.20
14 5 0.20
15 11 0.44
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (15 bp):
ATGCATGAAATGAAA
Found at i:98147 original size:44 final size:43
Alignment explanation
Indices: 98052--98147 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 43
98042 TGAAATGTTT
*
98052 ATGAAATGCATGCATGAAATGAAAATTATGTGAAATGCATGAA
1 ATGAAATGCATGCATGAAATGAAAATTATATGAAATGCATGAA
* * *
98095 ATGAAAATGCATGCATGAAGCTTG-AAATGTTTATGAAATGCATG-C
1 ATG-AAATGCATGCATGAA--ATGAAAAT-TATATGAAATGCATGAA
98140 ATGAAATG
1 ATGAAATG
98148 AAAATTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
43 3 0.07
44 20 0.44
45 7 0.16
46 15 0.33
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (43 bp):
ATGAAATGCATGCATGAAATGAAAATTATATGAAATGCATGAA
Found at i:98159 original size:29 final size:30
Alignment explanation
Indices: 98099--98167 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
98089 CATGAAATGA
* *
98099 AAATGCATGCATGAAGCTTGAAATGTTTATG
1 AAATGCATGCATGAA-CATGAAATGTATATG
98130 AAATGCATGCATGAA-ATGAAAAT-TATATG
1 AAATGCATGCATGAACATG-AAATGTATATG
98159 AAATGCATG
1 AAATGCATG
98168 AAATGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 16 0.46
30 4 0.11
31 15 0.43
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (30 bp):
AAATGCATGCATGAACATGAAATGTATATG
Found at i:98325 original size:21 final size:21
Alignment explanation
Indices: 98281--98325 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
98271 TTTTATAAAA
**
98281 TTTTTATTTTAATTTATTTAT
1 TTTTTATTTTAATAAATTTAT
98302 TTTTTATGTTTAATAAATTT-T
1 TTTTTAT-TTTAATAAATTTAT
98323 TTT
1 TTT
98326 ATAAACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTATTTTAATAAATTTAT
Found at i:98593 original size:20 final size:20
Alignment explanation
Indices: 98570--98639 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
98560 AATATTTTTT
98570 TGTAATTCGATAATGCTTTA
1 TGTAATTCGATAATGCTTTA
* **
98590 TGTAATTCTTATGAA-AATTTA
1 TGTAATTC-GAT-AATGCTTTA
*
98611 TGTAATT-GGTAATGTCTTTA
1 TGTAATTCGATAATG-CTTTA
98631 TGTAATTCG
1 TGTAATTCG
98640 GAAATGTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 19 0.50
21 14 0.37
22 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTAATTCGATAATGCTTTA
Found at i:98875 original size:78 final size:76
Alignment explanation
Indices: 98620--98907 Score: 281
Period size: 77 Copynumber: 3.7 Consensus size: 76
98610 ATGTAATTGG
* * * ** ** *
98620 TAATGTCTTTATGTAATTCGGAAATGTTTATACGATTTTGATGAAAATTATTCTTATTTAATATT
1 TAATGTTTTTATATAATTCGGTAATGTTTATATAATTTTGATGAAAATTA-TCTTAGGTAATGTT
* **
98685 TTATATAATTGG
65 TTATATAACTAA
* * * * * * *
98697 TAATGCTTTTATATAATTCGGCAATGTTTACATAATTCTGAGGAAAATTATTTTTAGGTAATG-A
1 TAATGTTTTTATATAATTCGGTAATGTTTATATAATTTTGATGAAAATTA-TCTTAGGTAATGTT
98761 TTATATAACTAA
65 TTATATAACTAA
* *
98773 TAATGTTTTTATATAATTCTGTAATACTTTATATAATTTTGATGAAAATTATCATTAGGTAATGT
1 TAATGTTTTTATATAATTCGGTAAT-GTTTATATAATTTTGATGAAAATTATC-TTAGGTAATGT
*
98838 TTTATGTAACTAA
64 TTTATATAACTAA
* * * * *
98851 TAATATTTTTATGTAATTTGGTAATATTTTATATAATTGTGATGAAAATTATTCTTA
1 TAATGTTTTTATATAATTCGGTAAT-GTTTATATAATTTTGATGAAAATTA-TCTTA
98908 TATACTTTTT
Statistics
Matches: 174, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
76 32 0.18
77 81 0.47
78 59 0.34
79 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (76 bp):
TAATGTTTTTATATAATTCGGTAATGTTTATATAATTTTGATGAAAATTATCTTAGGTAATGTTT
TATATAACTAA
Found at i:98932 original size:78 final size:78
Alignment explanation
Indices: 98703--98902 Score: 226
Period size: 78 Copynumber: 2.6 Consensus size: 78
98693 TTGGTAATGC
* * * * * * ** * * *
98703 TTTTATATAATTCGGCAAT-GTTTACATAATTCTGAGGAAAATTATTTTTAGGTAATG-ATTATA
1 TTTTATATAATTCTGTAATACTTTATATAATTGTGATGAAAATTATCATTAGATAATGTTTTATG
*
98766 TAACTAATAATGT
66 TAACTAATAATAT
* *
98779 TTTTATATAATTCTGTAATACTTTATATAATTTTGATGAAAATTATCATTAGGTAATGTTTTATG
1 TTTTATATAATTCTGTAATACTTTATATAATTGTGATGAAAATTATCATTAGATAATGTTTTATG
98844 TAACTAATAATAT
66 TAACTAATAATAT
* *
98857 TTTTATGTAATT-TGGTAATATTTTATATAATTGTGATGAAAATTAT
1 TTTTATATAATTCT-GTAATACTTTATATAATTGTGATGAAAATTAT
98903 TCTTATATAC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 17 0.16
77 33 0.31
78 57 0.53
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.47
Consensus pattern (78 bp):
TTTTATATAATTCTGTAATACTTTATATAATTGTGATGAAAATTATCATTAGATAATGTTTTATG
TAACTAATAATAT
Found at i:99083 original size:20 final size:19
Alignment explanation
Indices: 99029--99084 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
99019 TATTTACAGT
*
99029 TAATATTTTATGTAATTTG
1 TAATATTTTATGTAATGTG
* * *
99048 TAATGTTTACAAGTAATGTG
1 TAATATTT-TATGTAATGTG
99068 CTAATATTTTATGTAAT
1 -TAATATTTTATGTAAT
99085 TCTGATAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
21 7 0.25
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (19 bp):
TAATATTTTATGTAATGTG
Found at i:99167 original size:21 final size:21
Alignment explanation
Indices: 99109--99173 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
99099 TTAAATAACG
99109 TTTTATGTAA-TTGATAATAT
1 TTTTATGTAATTTGATAATAT
* * *
99129 TTATATATAATGTGATAATAT
1 TTTTATGTAATTTGATAATAT
* *
99150 TTTTATGTAATTTAATAATGT
1 TTTTATGTAATTTGATAATAT
99171 TTT
1 TTT
99174 ACATAATACT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTTATGTAATTTGATAATAT
Found at i:105508 original size:115 final size:114
Alignment explanation
Indices: 105352--105572 Score: 286
Period size: 115 Copynumber: 1.9 Consensus size: 114
105342 ACATGGGGGT
* * * *
105352 TTGGTATCAATACCTAAGGTGTGGTATCGATACCTAGTGTGATTGTATCGATACA-AGCCTTGGT
1 TTGGTATCAATACCTAAGGTGTAGTATCGATACCTAGTGTGATTGTATCAATACATAGCCATGGC
**
105416 GGTAGCTAAAATTTGA-TTTTTGGATAGACAGCAAGTATCGATACATGAATGC
66 AATAGCTAAAATTTGAGTTTTT---T-GACAGCAAGTATCGATACATGAATGC
** * * *
105468 TTGGTATTGATACCT-AGGTGTAGTATTGATACCTAGTGTGATTGTATCAATATATGGCCATGGC
1 TTGGTATCAATACCTAAGGTGTAGTATCGATACCTAGTGTGATTGTATCAATACATAGCCATGGC
105532 AATAGCTAAAATTTGAGTTTTTTGACAGCAAGTATCGATAC
66 AATAGCTAAAATTTGAGTTTTTTGACAGCAAGTATCGATAC
105573 TTAAGTAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
113 18 0.20
114 1 0.01
115 35 0.38
116 33 0.36
117 5 0.05
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (114 bp):
TTGGTATCAATACCTAAGGTGTAGTATCGATACCTAGTGTGATTGTATCAATACATAGCCATGGC
AATAGCTAAAATTTGAGTTTTTTGACAGCAAGTATCGATACATGAATGC
Found at i:107271 original size:19 final size:19
Alignment explanation
Indices: 107247--107314 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
107237 AATTCAACAA
107247 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
107266 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
107281 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
107298 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
107315 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:107286 original size:13 final size:13
Alignment explanation
Indices: 107268--107292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107258 ACATAAGTTT
107268 TGTATCGATACAA
1 TGTATCGATACAA
107281 TGTATCGATACA
1 TGTATCGATACA
107293 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107290 original size:32 final size:32
Alignment explanation
Indices: 107249--107311 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
107239 TTCAACAATT
*
107249 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
107281 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
107312 TAATTAGCTA
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:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:107352 original size:13 final size:13
Alignment explanation
Indices: 107334--107359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107324 GCCAAGGAAA
107334 TGTATCGATACAT
1 TGTATCGATACAT
107347 TGTATCGATACAT
1 TGTATCGATACAT
107360 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:109866 original size:27 final size:27
Alignment explanation
Indices: 109836--109911 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
109826 TTTCTTCACA
109836 ATCGGGGATACTCCAACCCCGTTGA-TC
1 ATCGGGGATACTCCAACCCCGTT-ATTC
109863 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTC
*
109891 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
109912 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.02
27 24 0.53
28 20 0.44
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTC
Found at i:109969 original size:51 final size:52
Alignment explanation
Indices: 109894--110116 Score: 209
Period size: 52 Copynumber: 4.3 Consensus size: 52
109884 TTATTTCTGA
** * * * *
109894 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * * * *
109945 GGGGATATTTCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
* * * **
109997 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCC-ACAATC
* * * * *
110049 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAGTC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTTTCCACAATC
*
110101 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
110117 TGTTATTTCA
Statistics
Matches: 137, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
51 40 0.29
52 84 0.61
53 9 0.07
54 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTTCCACAATC
Found at i:110135 original size:28 final size:29
Alignment explanation
Indices: 110103--110172 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 29
110093 TCACAGTCGA
* **
110103 GGATACTCCAACCCT-GTTATTTCATCGG
1 GGATACTCCAACCCTCGTTACTTCAGAGG
*
110131 GGATACTCCAA-CCTCGTTACTTCCGAGG
1 GGATACTCCAACCCTCGTTACTTCAGAGG
110159 GGATACTCCAACCC
1 GGATACTCCAACCC
110173 CGGCTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 31 0.86
29 2 0.06
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (29 bp):
GGATACTCCAACCCTCGTTACTTCAGAGG
Found at i:110192 original size:263 final size:263
Alignment explanation
Indices: 109725--110214 Score: 754
Period size: 263 Copynumber: 1.9 Consensus size: 263
109715 TTATCAATTC
* * *
109725 TCCACAATCGAGGATATTCCAACTCCGATTTTATATTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATATTCAAGACACCAATTTTCTATAATCGGGGA
*
109790 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
109855 CGTTGATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
109920 TCCAAAATATTGATTTTTCATAATCGGGGATATTTCAATCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATATTTCAATCCCGGTTTTATTGCTAAAACACTAAT
109985 TTT
261 TTT
* * * *
109988 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAA-ACACCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATATTC-AAGACACCAATTTT-CTATAATCGGG
* *
110052 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
110115 CCTGTT-ATTTCATCGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
*
110179 TATTCCCAAAATATTGATTTCTCATAATTGGGGATA
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATA
110215 CTCCAACCCC
Statistics
Matches: 205, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
261 1 0.00
262 26 0.13
263 140 0.68
264 38 0.19
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCACAATCGAGGATACTCCAACCCCGATTTTATATTCAAGACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATATTTCAATCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:114860 original size:21 final size:20
Alignment explanation
Indices: 114813--114866 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
114803 ATTTTCAAAC
114813 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
114833 ATGTATCGATACATT-ACCCT
1 ATGTATCGATACATTCA-CTT
114853 ATTGTATCGATACA
1 A-TGTATCGATACA
114867 ATTTGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.58
21 12 0.39
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:115307 original size:22 final size:22
Alignment explanation
Indices: 115279--115321 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
115269 TTTCTATTTT
* *
115279 GTTTAGATGGGCTTGAGTTTAG
1 GTTTAGATAGGCTTAAGTTTAG
115301 GTTTAGATAGGCTTAAGTTTA
1 GTTTAGATAGGCTTAAGTTTA
115322 AAATTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.42
Consensus pattern (22 bp):
GTTTAGATAGGCTTAAGTTTAG
Found at i:115712 original size:14 final size:14
Alignment explanation
Indices: 115693--115720 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115683 CATTTCTCGT
115693 TGTCCCTAATCGAG
1 TGTCCCTAATCGAG
115707 TGTCCCTAATCGAG
1 TGTCCCTAATCGAG
115721 ATAAAGTGTT
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:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
TGTCCCTAATCGAG
Found at i:117654 original size:22 final size:22
Alignment explanation
Indices: 117629--117676 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
117619 AAAATCATTT
117629 TAAAATCTTAAA-TGATTTTTCC
1 TAAAATCTTAAAGT-ATTTTTCC
* *
117651 T-AAATTTTATAGTATTTTTCC
1 TAAAATCTTAAAGTATTTTTCC
117672 TAAAA
1 TAAAA
117677 AGTGTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (22 bp):
TAAAATCTTAAAGTATTTTTCC
Found at i:120487 original size:87 final size:87
Alignment explanation
Indices: 120326--120592 Score: 301
Period size: 87 Copynumber: 3.1 Consensus size: 87
120316 AACTTTGGAG
* *
120326 AACTCCATCCCCACTATTCTAAGGGGATACTCCAACCACGCTCTAACAAAAATTCAAATTTTCAT
1 AACTCCATCCCCACTATTCTGAGGGGATACTCCAACCACACTCTAACAAAAATTCAAATTTTCAT
*
120391 TGTGGAATTTTGCCTTTGAGGA
66 TGTGCAATTTTGCCTTTGAGGA
* * * *
120413 AACTGCATCCCCACTATTCTGAGGGGATACTCCAATCTCACTCTAATAAAAATTCAAATTTTC-T
1 AACTCCATCCCCACTATTCTGAGGGGATACTCCAACCACACTCTAACAAAAATTCAAATTTTCAT
*
120477 TCGTGCAATTTTGCCTTTGGGGA
66 T-GTGCAATTTTGCCTTTGAGGA
* * * * * *
120500 AACTCCATCCCCACTATT-TCGAAGGGATACTCTAACGC-CGCTCT-ACAAAAATTTAGATTTAC
1 AACTCCATCCCCACTATTCT-GAGGGGATACTCCAAC-CACACTCTAACAAAAATTCAAATTTTC
* * *
120562 -TTCGTGGAATTTTACTTTTGAGGA
64 ATT-GTGCAATTTTGCCTTTGAGGA
*
120586 TACTCCA
1 AACTCCA
120593 ACCTCACCAT
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
86 43 0.28
87 111 0.72
88 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (87 bp):
AACTCCATCCCCACTATTCTGAGGGGATACTCCAACCACACTCTAACAAAAATTCAAATTTTCAT
TGTGCAATTTTGCCTTTGAGGA
Found at i:120615 original size:87 final size:86
Alignment explanation
Indices: 120326--120622 Score: 244
Period size: 87 Copynumber: 3.4 Consensus size: 86
120316 AACTTTGGAG
* * * * *
120326 AACTCCATCCCCACTA-TTCTAAGGGGATACTCCAAC-CACGCTCTAACAAAAATTCAAATTTTC
1 AACTCCAACCCCACCATTTCGAA-GGGATACTCTAACGC-CGCTCT-ACAAAAATTCAAATTTAC
* *
120389 ATT-GTGGAATTTTGCCTTTGAGGA
63 -TTCGTGCAATTTTACCTTTGAGGA
* * * * * * * * *
120413 AACTGCATCCCCACTA-TTCTGAGGGGATACTCCAATC-TCACTCTAATAAAAATTCAAATTTTC
1 AACTCCAACCCCACCATTTC-GAAGGGATACTCTAA-CGCCGCTCT-ACAAAAATTCAAATTTAC
* *
120476 TTCGTGCAATTTTGCCTTTGGGGA
63 TTCGTGCAATTTTACCTTTGAGGA
* * * *
120500 AACTCCATCCCCACTATTTCGAAGGGATACTCTAACGCCGCTCTACAAAAATTTAGATTTACTTC
1 AACTCCAACCCCACCATTTCGAAGGGATACTCTAACGCCGCTCTACAAAAATTCAAATTTACTTC
* *
120565 GTGGAATTTTACTTTTGAGGA
66 GTGCAATTTTACCTTTGAGGA
* * *
120586 TACTCCAACCTCACCATCTTCGAAGGGATATTCTAAC
1 AACTCCAACCCCACCAT-TTCGAAGGGATACTCTAAC
120623 CCCATTTTTT
Statistics
Matches: 178, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
86 50 0.28
87 123 0.69
88 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (86 bp):
AACTCCAACCCCACCATTTCGAAGGGATACTCTAACGCCGCTCTACAAAAATTCAAATTTACTTC
GTGCAATTTTACCTTTGAGGA
Found at i:121657 original size:20 final size:20
Alignment explanation
Indices: 121632--121683 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
121622 TACAAGCCAA
**
121632 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
121652 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
121671 TGTATCGATACAA
1 TGTATCGATACAA
121684 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:122389 original size:39 final size:40
Alignment explanation
Indices: 122304--122406 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 40
122294 TTTTCTTTTC
* * **
122304 TTTCTCCCTTAATTAAAGTAATTTTATCAAATTCGTACAT
1 TTTCCCCCTTAATTAAAGTAATTTTAGCAAATTCACACAT
* * *
122344 TCTCCCCCTTAA-TAAGGTAATTTTAGCAAATTCACGCAT
1 TTTCCCCCTTAATTAAAGTAATTTTAGCAAATTCACACAT
* * *
122383 TTTCCCCTTTTATTAAAGAAATTT
1 TTTCCCCCTTAATTAAAGTAATTT
122407 CCCCCTTAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 31 0.62
40 19 0.38
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (40 bp):
TTTCCCCCTTAATTAAAGTAATTTTAGCAAATTCACACAT
Found at i:126345 original size:15 final size:15
Alignment explanation
Indices: 126325--126355 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126315 ATTTCGTTTG
*
126325 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
126340 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
126355 G
1 G
126356 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:127125 original size:26 final size:26
Alignment explanation
Indices: 127068--127136 Score: 131
Period size: 25 Copynumber: 2.7 Consensus size: 26
127058 ACAATGACAA
127068 AACATTATAATGAAAAACAGAGTAGC
1 AACATTATAATGAAAAACAGAGTAGC
127094 AA-ATTATAATGAAAAACAGAGTAGC
1 AACATTATAATGAAAAACAGAGTAGC
127119 AACATTATAATGAAAAAC
1 AACATTATAATGAAAAAC
127137 CTCGAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.60
26 17 0.40
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (26 bp):
AACATTATAATGAAAAACAGAGTAGC
Found at i:129259 original size:13 final size:13
Alignment explanation
Indices: 129241--129266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129231 ATATTTTTTG
129241 TGTATCGATACAT
1 TGTATCGATACAT
129254 TGTATCGATACAT
1 TGTATCGATACAT
129267 ATTTTGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.