Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold197
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: 573162
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.31
Warning! 46325 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:122763 original size:32 final size:32
Alignment explanation
Indices: 122727--122789 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
122717 TTCAATAATT
*
122727 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
122759 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
122790 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:122764 original size:13 final size:13
Alignment explanation
Indices: 122746--122770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122736 ACATAAGTTT
122746 TGTATCGATACAA
1 TGTATCGATACAA
122759 TGTATCGATACA
1 TGTATCGATACA
122771 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:122850 original size:13 final size:13
Alignment explanation
Indices: 122832--122857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122822 CATTTTTCTG
122832 TGTATCGATACAT
1 TGTATCGATACAT
122845 TGTATCGATACAT
1 TGTATCGATACAT
122858 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:122854 original size:33 final size:33
Alignment explanation
Indices: 122812--122878 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
122802 GCCAAGGAAA
***
122812 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
122845 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
122878 T
1 T
122879 CGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:125446 original size:51 final size:51
Alignment explanation
Indices: 125384--125554 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
125374 TTATTTCTGA
* * *
125384 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
125435 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
125488 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
125540 GAGGATACTCCAACC
1 GGGGATACTCCAACC
125555 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:125569 original size:28 final size:28
Alignment explanation
Indices: 125537--125618 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
125527 ATTTTTCACA
125537 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCTCGTTATTTC
* *
125565 ATCGAGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCTCGTTATTTC
*
125593 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCGA-GG-ATACTCCAACCTCGTTATT
125619 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 42 0.89
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCTCGTTATTTC
Found at i:128087 original size:13 final size:12
Alignment explanation
Indices: 128071--128116 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
128061 ATGATGAAAA
128071 AAAAAGAAACAAC
1 AAAAA-AAACAAC
128084 AAAAAAAACAAC
1 AAAAAAAACAAC
*
128096 GACAAAAAACACAC
1 -AAAAAAAACA-AC
128110 AAAAAAA
1 AAAAAAA
128117 GTGTAAAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 20 0.69
14 2 0.07
ACGTcount: A:0.78, C:0.17, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:129378 original size:31 final size:32
Alignment explanation
Indices: 129336--129569 Score: 205
Period size: 31 Copynumber: 7.3 Consensus size: 32
129326 CAATTCTTCA
* *
129336 CATCTCTTTTCTCCAAAGTCCACGACTTAGTGG
1 CATCT-TTTTCTCCAAAGTCCACAACTCAGTGG
*
129369 CAT-TTTTTCTCTAAAGTCCACAACTCAGTGG
1 CATCTTTTTCTCCAAAGTCCACAACTCAGTGG
* *
129400 CAATCTCTTT-T-CAAAGTCCACGACTCAGTGG
1 C-ATCTTTTTCTCCAAAGTCCACAACTCAGTGG
** *
129431 CATC-TTTTCTTTAAAGTCCACAACTCCGTGG
1 CATCTTTTTCTCCAAAGTCCACAACTCAGTGG
*
129462 CATCTCTTTTCTTCAAAGTCCACAACTCAGTGG
1 CATCT-TTTTCTCCAAAGTCCACAACTCAGTGG
** * *
129495 CATCCCTTTTTC-CTGTAAGTCCACAATTAAGTGG
1 CAT--CTTTTTCTC-CAAAGTCCACAACTCAGTGG
* *
129529 CATCTCTTTTCT---AAGTCCACGACTCCGTGG
1 CATCT-TTTTCTCCAAAGTCCACAACTCAGTGG
*
129559 CACCTTTTTCT
1 CATCTTTTTCT
129570 TTTTAAAGCC
Statistics
Matches: 168, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
29 9 0.05
30 22 0.13
31 65 0.39
32 6 0.04
33 40 0.24
34 24 0.14
35 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (32 bp):
CATCTTTTTCTCCAAAGTCCACAACTCAGTGG
Found at i:129515 original size:34 final size:33
Alignment explanation
Indices: 129351--129622 Score: 187
Period size: 31 Copynumber: 8.4 Consensus size: 33
129341 CTTTTCTCCA
* * *
129351 AAGTCCACGACTTAGTGGCAT-T-TTTT-CTCTA
1 AAGTCCACAACTCAGTGGCATCTCTTTTCCT-TT
*
129382 AAGTCCACAACTCAGTGGCAATCTCTTTT-C--A
1 AAGTCCACAACTCAGTGGC-ATCTCTTTTCCTTT
*
129413 AAGTCCACGACTCAGTGGCA--TCTTTT-CTTT
1 AAGTCCACAACTCAGTGGCATCTCTTTTCCTTT
* *
129443 AAAGTCCACAACTCCGTGGCATCTCTTTT-CTTCA
1 -AAGTCCACAACTCAGTGGCATCTCTTTTCCTT-T
* *
129477 AAGTCCACAACTCAGTGGCATCCCTTTTTCCTGT
1 AAGTCCACAACTCAGTGGCATCTC-TTTTCCTTT
* *
129511 AAGTCCACAATTAAGTGGCATCTCTTTT-C--T
1 AAGTCCACAACTCAGTGGCATCTCTTTTCCTTT
* * * *
129541 AAGTCCACGACTCCGTGGCACCT-TTTTCTTTTT
1 AAGTCCACAACTCAGTGGCATCTCTTTTC-CTTT
* * *
129574 AAAGCCCACAACTCCGTGGCA-CTATTTTTCCCTTTT
1 -AAGTCCACAACTCAGTGGCATCT-CTTTT-CC-TTT
129610 AAGTCCACAACTC
1 AAGTCCACAACTC
129623 CATGACACCC
Statistics
Matches: 197, Mismatches: 24, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.04
29 4 0.02
30 20 0.10
31 54 0.27
32 3 0.02
33 39 0.20
34 48 0.24
35 18 0.09
36 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTCAGTGGCATCTCTTTTCCTTT
Found at i:129545 original size:64 final size:62
Alignment explanation
Indices: 129336--129568 Score: 258
Period size: 62 Copynumber: 3.7 Consensus size: 62
129326 CAATTCTTCA
* *
129336 CATCTCTTTTCTCCAAAGTCCACGACTTAGTGGCAT-TTTTTCTCTAAAGTCCACAACTCAGTGG
1 CATCTCTTTTCT-C-AAGTCCACGACTCAGTGGCATCTTTTTC-CTTAAGTCCACAACTCAGTGG
* * *
129400 CAATCTCTTTTC-AAAGTCCACGACTCAGTGGCATC-TTTTCTTTAAAGTCCACAACTCCGTGG
1 C-ATCTCTTTTCTCAAGTCCACGACTCAGTGGCATCTTTTTCCTT-AAGTCCACAACTCAGTGG
* * *
129462 CATCTCTTTTCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGTAAGTCCACAATTAAGT
1 CATCTCTTTTC-TC-AAGTCCACGACTCAGTGGCAT--CTTTTTCCT-TAAGTCCACAACTCAGT
129527 GG
61 GG
* *
129529 CATCTCTTTTCT-AAGTCCACGACTCCGTGGCACCTTTTTC
1 CATCTCTTTTCTCAAGTCCACGACTCAGTGGCATCTTTTTC
129569 TTTTTAAAGC
Statistics
Matches: 145, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
61 11 0.08
62 50 0.34
64 39 0.27
65 10 0.07
66 2 0.01
67 32 0.22
68 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (62 bp):
CATCTCTTTTCTCAAGTCCACGACTCAGTGGCATCTTTTTCCTTAAGTCCACAACTCAGTGG
Found at i:129593 original size:64 final size:64
Alignment explanation
Indices: 129336--129594 Score: 271
Period size: 64 Copynumber: 4.0 Consensus size: 64
129326 CAATTCTTCA
* * *
129336 CATCTCTTTTCTCCAAAGTCCACGACTTAGTGGCA--TTTTTTCTCTAAAGTCCACAACTCAGTG
1 CATCTCTTTTCT-C-AAGTCCACGACTCAGTGGCACCTTTTTCCTTTAAAGTCCACAACTCAGTG
129399 G
64 G
* * *
129400 CAATCTCTTTTC-AAAGTCCACGACTCAGTGGCATC-TTTT-CTTTAAAGTCCACAACTCCGTGG
1 C-ATCTCTTTTCTCAAGTCCACGACTCAGTGGCACCTTTTTCCTTTAAAGTCCACAACTCAGTGG
* * * *
129462 CATCTCTTTTCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGT-AAGTCCACAATTAAG
1 CATCTCTTTTC-TC-AAGTCCACGACTCAGTGGCA--CCTTTTTCCTTTAAAGTCCACAACTCAG
129526 TGG
62 TGG
* * * *
129529 CATCTCTTTTCT-AAGTCCACGACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG
1 CATCTCTTTTCTCAAGTCCACGACTCAGTGGCACCTTTTTC-CTTTAAAGTCCACAACTCAGTGG
129593 CA
1 CA
129595 CTATTTTTCC
Statistics
Matches: 164, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
61 10 0.06
62 49 0.30
63 6 0.04
64 54 0.33
65 10 0.06
66 2 0.01
67 30 0.18
68 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (64 bp):
CATCTCTTTTCTCAAGTCCACGACTCAGTGGCACCTTTTTCCTTTAAAGTCCACAACTCAGTGG
Found at i:129618 original size:35 final size:33
Alignment explanation
Indices: 129413--129623 Score: 120
Period size: 34 Copynumber: 6.4 Consensus size: 33
129403 TCTCTTTTCA
* * *
129413 AAGTCCACGACTCAGTGG--CATCTTTT-CTTTA
1 AAGTCCACAACTCCGTGGCACAT-TTTTCCTTTT
**
129444 AAGTCCACAACTCCGTGGCATC-TCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCA-CAT-TTTTCCTTTT
* * *
129477 AAGTCCACAACTCAGTGGCATCCCTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCA--CATTTTTCCTTTT
* **
129511 AAGTCCACAATTAAGTGGCATC-TCTTTT-C---T
1 AAGTCCACAACTCCGTGGCA-CAT-TTTTCCTTTT
* * *
129541 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACATTTTTCCTTTT
*
129574 AAAGCCCACAACTCCGTGGCACTATTTTTCCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-ATTTTT-CCTTTT
129610 AAGTCCACAACTCC
1 AAGTCCACAACTCC
129624 ATGACACCCT
Statistics
Matches: 145, Mismatches: 20, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
29 5 0.03
30 18 0.12
31 16 0.11
32 2 0.01
33 35 0.24
34 44 0.30
35 20 0.14
36 5 0.03
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACATTTTTCCTTTT
Found at i:129789 original size:49 final size:49
Alignment explanation
Indices: 129729--130763 Score: 988
Period size: 49 Copynumber: 22.1 Consensus size: 49
129719 GGCATCTTCT
* *
129729 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
129778 TTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA--------
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
129819 --TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
** * *
129866 TTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * *
129915 TTTAAGACCGATATCGCTGGCCTTGAATCAACACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* *
129958 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
130007 TTAAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
130050 TTTAAGTCCAATAT-GCTGGCATTGAATCAGCATATTAGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
130098 TTTAAGACCAAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * *
130148 TTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* *
130191 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* *
130240 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
** * *
130283 TTTAAGTCCAATATCGCTGGCCTTGAATCAATATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
** * *
130332 TTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * *
130375 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
130424 TTTAAGACCAATGTCGATGGCCTTGAATCAACACATTGGCA----C-T-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
** * *
130467 TTTAAGTCCAATATTACTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* *
130516 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTT--TC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* *
130562 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * * *
130608 TTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
* * * *
130657 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCGTC
* * * *
130709 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
130759 TTTAA
1 TTTAA
130764 CATTCCTAAG
Statistics
Matches: 810, Mismatches: 118, Indels: 116
0.78 0.11 0.11
Matches are distributed among these distances:
39 36 0.04
42 22 0.03
43 230 0.28
44 4 0.00
46 4 0.00
48 13 0.02
49 411 0.51
50 44 0.05
51 2 0.00
52 5 0.01
53 39 0.05
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCGTC
Found at i:129839 original size:39 final size:39
Alignment explanation
Indices: 129780--129858 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
129770 CCTTCATCTT
*
129780 TAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
* *
129819 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
129858 T
1 T
129859 CTTCATCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (39 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
Found at i:129993 original size:92 final size:90
Alignment explanation
Indices: 129718--130751 Score: 949
Period size: 92 Copynumber: 11.1 Consensus size: 90
129708 CACAAGTTGG
129718 TGGCATCTTCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
1 TGGCA-CTTC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAA
* *
129783 GACCAATGTCGTTGGCCTTGAATCAACACAT
60 GACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
129814 TGGCA------TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGA
** * *
129873 CCGGTATCGCTGGCCTTGAATCAGCATAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
129902 TGGCACCTTTGTCTTTAAGACCGATATCGCTGGCCTTGAATCAACACATTGGCA-C-CTTTAAGT
1 TGGCA-C--T-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGA
* *
129965 CCAATATCGCTGGCCTTGAATCAGCATAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
129994 TGGCACCTTTGTCTTAAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C-CTTTAAGT
1 TGGCA-C--T-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGA
* * *
130057 CCAATAT-GCTGGCATTGAATCAGCATAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
130085 TAGCACCTTTGTCTTTAAGACCAAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCTT
1 TGGCA-C--T-TCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTT
*
130150 TAAGACCAATGTTGCTGGCCTTGAATCAGCACAT
57 TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
130184 TGGCAC--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGA
130247 CCAATGTCGCTGGCCTTGAATCAGCACAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
** *
130276 TGGCAC--CTTTAAGTCCAATATCGCTGGCCTTGAATCAATATATTGGCACCTTTGTCTTTAAAA
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGA
*
130339 CCAATGTCGCTGGCCTTGAATCAACACAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
*
130368 TGGCAC--CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGA
* *
130431 CCAATGTCGATGGCCTTGAATCAACACAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
**
130460 TGGCAC-T-TTTAAGTCCAATATTACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGA
130523 CCAATGTCGCTGGCCTTGAATCAGCACAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
*
130552 TGGCAC-T-TTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGA
* *
130615 CCAATGTCACTAGCCTTGAATCAGCACAT
62 CCAATGTCGCTGGCCTTGAATCAGCACAT
* *
130644 TGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TGGCA-C-T--TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-----C-TC
* *
130709 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
55 -TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
130746 TAGCAC
1 TGGCAC
130752 CTTCATCTTT
Statistics
Matches: 841, Mismatches: 65, Indels: 59
0.87 0.07 0.06
Matches are distributed among these distances:
88 77 0.09
91 40 0.05
92 555 0.66
93 11 0.01
94 1 0.00
96 5 0.01
97 1 0.00
98 87 0.10
99 24 0.03
101 3 0.00
102 36 0.04
104 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TGGCACTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGACCAA
TGTCGCTGGCCTTGAATCAGCACAT
Found at i:130308 original size:184 final size:186
Alignment explanation
Indices: 129729--130754 Score: 1214
Period size: 184 Copynumber: 5.5 Consensus size: 186
129719 GGCATCTTCT
**
129729 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * * * *
129794 TTGGCCTTGAATCAACACATTGGCA----TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* ** * ** * *
129855 GCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
131 GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC----TC
* * * * * *
129915 TTTAAGACCGATATCGCTGGCCTTGAATCAACACATTGGCA-C-----CTTTAAGTCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* * * *
129974 CTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTAAAGACCAATGTCGCTGGCCTTGAATTAGC
66 CTGGCCTTGAATCAGCACATTGGCACC----T-TT-AAGTCCAATATCGCTGGCCTTGAATCAGC
* * * * * *
130039 ACATTGGCA-C-----CTTTAAGTCCAATAT-GCTGGCATTGAATCAGCATATTAGCACCTTTGT
125 ATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC----T
130097 C
186 C
* * * * *
130098 TTTAAGACCAAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGACCAATGTT
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
130163 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
65 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
130228 GGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-C
130 GGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTC
** *
130283 TTTAAGTCCAATATCGCTGGCCTTGAATCAATATATTGGCACCTTTGTCTTTAAAACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* *
130348 CTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* *
130413 GCACCTTTGTCTTTAAGACCAATGTCGATGGCCTTGAATCAACACATTGGCA-CT-
131 GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTC
**
130467 TTTAAGTCCAATATTACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
130532 CTGGCCTTGAATCAGCACATTGGCA-CTTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
66 CTGGCCTTGAATCAGCACATTGGCACCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
130596 GGCACCTTTGTCTTTAAGACCAATGTCACTAGCCTTGAATCAGCACATTGGCACCTTCATC
130 GGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* * *
130657 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC-TTTAAGACCAAT
* *
130722 GTCGCTGGCCTTGAATCAGCATATTAGCACCTT
62 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
130755 CATCTTTAAC
Statistics
Matches: 741, Mismatches: 62, Indels: 65
0.85 0.07 0.07
Matches are distributed among these distances:
180 37 0.05
183 45 0.06
184 404 0.55
185 14 0.02
186 38 0.05
188 1 0.00
189 3 0.00
190 133 0.18
191 23 0.03
193 2 0.00
194 38 0.05
195 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (186 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTC
Found at i:130763 original size:102 final size:98
Alignment explanation
Indices: 130557--130763 Score: 306
Period size: 102 Copynumber: 2.1 Consensus size: 98
130547 CACATTGGCA
130557 CTTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
*
130622 CACTAGCCTTGAATCAGCACATTGGCACCTTCAT
65 CACTAGCCTTGAATCAGCACATTAGCACCTTCAT
* * *
130656 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC-TTTAAGACCAA
* * *
130721 TGTCGCTGGCCTTGAATCAGCATATTAGCACCTTCAT
62 TGTCACTAGCCTTGAATCAGCACATTAGCACCTTCAT
130758 CTTTAA
1 CTTTAA
130764 CATTCCTAAG
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
98 42 0.43
99 4 0.04
101 2 0.02
102 49 0.51
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (98 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
ACTAGCCTTGAATCAGCACATTAGCACCTTCAT
Found at i:131545 original size:21 final size:21
Alignment explanation
Indices: 131516--131571 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
131506 TTTTTATCCA
* *
131516 AATGCATCGATACATTGTTAG
1 AATGTATCGATACATTATTAG
131537 AATGTATCGATACATTATTAG
1 AATGTATCGATACATTATTAG
131558 AATGTATCGATACA
1 AATGTATCGATACA
131572 AGGTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTATTAG
Found at i:131645 original size:32 final size:32
Alignment explanation
Indices: 131609--131679 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
131599 TTCAACGATT
**
131609 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTACATCGATACAA
*
131641 TGTATCGATACATAAGTTTTACATCGATACAA
1 TGTATCGATACATAAGTGTTACATCGATACAA
131673 TGTATCG
1 TGTATCG
131680 TTACGGAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTACATCGATACAA
Found at i:131646 original size:13 final size:13
Alignment explanation
Indices: 131628--131652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131618 ACATAAGTGT
131628 TGTATCGATACAA
1 TGTATCGATACAA
131641 TGTATCGATACA
1 TGTATCGATACA
131653 TAAGTTTTAC
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:131742 original size:13 final size:13
Alignment explanation
Indices: 131724--131748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131714 ATTACTCAAA
131724 TGTATCGATACAT
1 TGTATCGATACAT
131737 TGTATCGATACA
1 TGTATCGATACA
131749 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:131801 original size:52 final size:49
Alignment explanation
Indices: 131737--131880 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 49
131727 ATCGATACAT
* *
131737 TGTATCGATACACTGATCTTTGTATCGATACATGCAAGCAAATTTGTCCAGA
1 TGTATCGATACACT-ATC--TGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
131789 TGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT---CTGTATCGATACATGCAGGCAAATTTGCCCAGA
131841 TGTATCGATACACTA-C-GTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATCTGTATCGATACATGCAGGCAAATTT
131881 TCATATTTCG
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
47 23 0.28
51 2 0.02
52 58 0.70
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (49 bp):
TGTATCGATACACTATCTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:141749 original size:21 final size:21
Alignment explanation
Indices: 141707--141755 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
141697 AAATTTTATT
141707 TAAT-TTTATAATTTTATAAA
1 TAATATTTATAATTTTATAAA
* *
141727 TACTATTTATCAATTTT-TTAA
1 TAATATTTAT-AATTTTATAAA
141748 TAATATTT
1 TAATATTT
141756 TTTGTCTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 15 0.62
22 6 0.25
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATTTATAATTTTATAAA
Found at i:156020 original size:6 final size:6
Alignment explanation
Indices: 156009--156056 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
155999 ACGGCGCCAC
* * *
156009 AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGGGAGA ACGGAA AGGGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGG-GA AGGGGA AGGGG
156057 TTTTTGTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.60, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:158304 original size:21 final size:22
Alignment explanation
Indices: 158262--158310 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
158252 AATTTTATTA
158262 TGATATGCACATTATCTTATAG
1 TGATATGCACATTATCTTATAG
* *
158284 TGATATGTACA-TATGTTATAG
1 TGATATGCACATTATCTTATAG
*
158305 TTATAT
1 TGATAT
158311 ACGCATACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (22 bp):
TGATATGCACATTATCTTATAG
Found at i:162793 original size:52 final size:52
Alignment explanation
Indices: 162715--162863 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 52
162705 CGAAATATGA
* *
162715 AAATTTGCCTACATGTATCGATACATTGAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
162767 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
** *
162819 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
162864 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:162870 original size:13 final size:13
Alignment explanation
Indices: 162852--162876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
162842 CAAAGATTAG
162852 TGTATCGATACAA
1 TGTATCGATACAA
162865 TGTATCGATACA
1 TGTATCGATACA
162877 TTTAAGTGAT
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:162956 original size:13 final size:13
Alignment explanation
Indices: 162938--162962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
162928 ACAAAAAAAA
162938 TGTATCGATACAT
1 TGTATCGATACAT
162951 TGTATCGATACA
1 TGTATCGATACA
162963 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:163793 original size:52 final size:49
Alignment explanation
Indices: 163721--164102 Score: 377
Period size: 52 Copynumber: 7.9 Consensus size: 49
163711 GTTAAAGATG
* * *
163721 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AG-A-GACA
* *
163773 AATGCGCCAATATGCGGATTCAAGGCCAGCGATATTGGACTT-G-G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGACA
* * *
163817 -AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AG-A-GACA
*
163868 AAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-G-G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGACA
* * * *
163912 -AGGTGCCAATGTGCTGATTCAAGGCTAGCGATATAGGACTTAAGGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-GA-GACA
163963 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-G-G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGACA
* * * *
164007 -AGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTACCA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGA-G-A-CA
164058 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGA
164103 AGAAGACGAC
Statistics
Matches: 272, Mismatches: 31, Indels: 54
0.76 0.09 0.15
Matches are distributed among these distances:
43 110 0.40
45 1 0.00
46 2 0.01
47 3 0.01
48 2 0.01
49 1 0.00
50 2 0.01
52 151 0.56
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (49 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGACA
Found at i:163888 original size:95 final size:95
Alignment explanation
Indices: 163722--164099 Score: 634
Period size: 95 Copynumber: 4.0 Consensus size: 95
163712 TTAAAGATGA
*
163722 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAATGCGCCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAAGGCGCCAATATG
*
163787 CGGATTCAAGGCCAGCGATATTGGACTTGG
66 CTGATTCAAGGCCAGCGATATTGGACTTGG
*
163817 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAAGGCACCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAAGGCGCCAATATG
163882 CTGATTCAAGGCCAGCGATATTGGACTTGG
66 CTGATTCAAGGCCAGCGATATTGGACTTGG
* *
163912 AGGTGCCAATGTGCTGATTCAAGGCTAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAAGGCGCCAATATG
163977 CTGATTCAAGGCCAGCGATATTGGACTTGG
66 CTGATTCAAGGCCAGCGATATTGGACTTGG
* * * * *
164007 AGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-A-AAGGTACCAAAGGCGCCAATA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATG-A-CAAAGGCGCCAATA
164070 TGCTGATTCAAGGCCAGCGATATTGGACTT
64 TGCTGATTCAAGGCCAGCGATATTGGACTT
164100 AGAAGAAGAC
Statistics
Matches: 268, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
93 2 0.01
94 2 0.01
95 264 0.99
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (95 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATAGGACTTAAGAATGACAAAGGCGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTGG
Found at i:164187 original size:28 final size:28
Alignment explanation
Indices: 164148--164304 Score: 188
Period size: 28 Copynumber: 5.4 Consensus size: 28
164138 GATTGCATCA
* *
164148 ACTTGTGTGCTTTTGAAGGTTGCCACCG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
164176 ACTTGTGGGCTTTTAAAGATTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
*
164204 ACTTGTGGGCTTTTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
164232 ACTTGTGGGCTTTTGAAAAGAGATGCCACTA
1 ACTTGTGGGCTTTTG--AAG-GTTGCCACTG
* *
164263 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
164293 ACTTGTGGGCTT
1 ACTTGTGGGCTT
164305 AAAAGGAAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
28 65 0.56
30 24 0.21
31 28 0.24
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (28 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTG
Found at i:164223 original size:56 final size:57
Alignment explanation
Indices: 164122--164304 Score: 228
Period size: 56 Copynumber: 3.2 Consensus size: 57
164112 CACCAACTTG
* * *
164122 TGTGGGCTTTTAAAAAGATTG-CA-TCAACTTGTGTGCTTTTGAAGGTTGCCACCGACT
1 TGTGGGCTTTT-AAAAGATTGCCACT-AACTTGTGGGCTTTTAAAGGTTGCCACTGACT
*
164179 TGTGGGCTTTT-AAAGATTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAAGATTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACT
* * *
164235 TGTGGGCTTTTGAAAAGAGATGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT-AAAAGA-TTGCCACTAACTTGTGGGCTTTT--AAAGGTTGCCACTGACT
164296 TGTGGGCTT
1 TGTGGGCTT
164305 AAAAGGAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
55 8 0.07
56 41 0.37
57 12 0.11
58 5 0.05
59 21 0.19
61 24 0.22
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (57 bp):
TGTGGGCTTTTAAAAGATTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTGACT
Found at i:164291 original size:30 final size:30
Alignment explanation
Indices: 164122--164494 Score: 223
Period size: 30 Copynumber: 12.5 Consensus size: 30
164112 CACCAACTTG
* **
164122 TGTGGGCTTTTAAAAAGATTG-CA-TCAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACT-AACT
* * **
164151 TGTGTGCTTTTG--AAGGTTGCCACCGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
** *
164179 TGTGGGCTTTT--AAAGATTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
* *
164207 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
*
164235 TGTGGGCTTTTGAAAAGAGATGCCACTAACT
1 TGTGGGCTTTTGAAAAG-GGTGCCACTAACT
164266 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
** * * *
164296 TGTGGGCTTAAAAGGAAAAAGAGTGCTA-TAGAGT
1 TGTGGGCTT---TTG-AAAAGGGTGCCACTA-ACT
* ** * ** *
164330 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT----TTG-AAAAGGGTGCCACTAACT
* * * **
164365 TGTGGACTTTGGAAAA-GATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
** * *
164394 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
* *
164424 TGTGGGC-TTTG--AAGGTTGCCACTAATT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
164451 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
164481 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
164495 GGGTGAGGAA
Statistics
Matches: 285, Mismatches: 42, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
27 27 0.09
28 71 0.25
29 35 0.12
30 74 0.26
31 29 0.10
33 3 0.01
34 20 0.07
35 26 0.09
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGGTGCCACTAACT
Found at i:164365 original size:35 final size:34
Alignment explanation
Indices: 164278--164368 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
164268 TGGGCTTTTG
* * * *
164278 AAAAGGGTGCCACTA-ACTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCAC-AGAGTTGTGAGCTTAAAAAGA
* *
164312 AAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGAGCTTA-AAAAGA
*
164347 AAAAGAGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAGAGTTGTG
164369 GACTTTGGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.02
34 21 0.46
35 24 0.52
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGAGCTTAAAAAGA
Found at i:165947 original size:6 final size:6
Alignment explanation
Indices: 165932--166000 Score: 53
Period size: 6 Copynumber: 12.5 Consensus size: 6
165922 TCCGGACCCC
*
165932 TTTT-T TTTTGT TTTTG- -TTTGT TTGTTTT TTTTGT TTTTG- -TTT-T
1 TTTTGT TTTTGT TTTTGT TTTTGT TT-TTGT TTTTGT TTTTGT TTTTGT
* *
165975 TTTTGG TTTTGT TTTTCT TTTT-T TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTT
166001 GTGGAGGACG
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 7 0.13
5 11 0.21
6 29 0.56
7 5 0.10
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:165959 original size:23 final size:21
Alignment explanation
Indices: 165932--166000 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
165922 TCCGGACCCC
165932 TTTTTTTTTGTTTTTGTTTGTT
1 TTTTTTTTTGTTTTTGTTT-TT
165954 TGTTTTTTTTGTTTTTGTTTTT
1 T-TTTTTTTTGTTTTTGTTTTT
** *
165976 TTTGGTTTTGTTTTTCTTTTT
1 TTTTTTTTTGTTTTTGTTTTT
165997 TTTT
1 TTTT
166001 GTGGAGGACG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 20 0.48
22 4 0.10
23 18 0.43
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTGTTTTTGTTTTT
Found at i:165970 original size:15 final size:15
Alignment explanation
Indices: 165932--166002 Score: 85
Period size: 15 Copynumber: 4.8 Consensus size: 15
165922 TCCGGACCCC
165932 TTTT-TTTTTGTTTT
1 TTTTGTTTTTGTTTT
165946 TGTTTG--TTTGTTTT
1 T-TTTGTTTTTGTTTT
165960 TTTTGTTTTTGTTTT
1 TTTTGTTTTTGTTTT
*
165975 TTTTGGTTTTGTTTT
1 TTTTGTTTTTGTTTT
*
165990 TCTTTTTTTTTGT
1 T-TTTGTTTTTGT
166003 GGAGGACGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
13 4 0.08
14 10 0.20
15 26 0.53
16 9 0.18
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (15 bp):
TTTTGTTTTTGTTTT
Found at i:177911 original size:13 final size:13
Alignment explanation
Indices: 177893--177917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177883 TACAAAAAAA
177893 TGTATCGATACAT
1 TGTATCGATACAT
177906 TGTATCGATACA
1 TGTATCGATACA
177918 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180786 original size:153 final size:152
Alignment explanation
Indices: 180629--180930 Score: 414
Period size: 152 Copynumber: 2.0 Consensus size: 152
180619 ACTCGGTGGT
* * *
180629 AGCCTAAGAGTTAGTTTT-AAAACA-AACGAAAATGCCCATAAGGGATACCTTCGACGTAAAAGT
1 AGCCTAAGACTTAGTTTTGAAAA-ATAACGAAAATGCCCATAAGGGATACCATCGACATAAAAGT
*
180692 ACCCGATACTCCT-AAAGGACTTAAAAAGGATGTGGATGGGGTGAACCTATCCTAAAT-GCCTAC
65 ACCC-ATAC-CCTGAAAGGAC-TAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATAGCC-AC
*
180755 CTTCAGCATAAAAGCAAACTCGGTAAC
126 CTTCAGCATAAAAGCAAACACGGTAAC
* * * * *
180782 AGCCTAAGACTTGGTTTTGAAAAATTATGAAAATGCCCTTAAGGGATACCATCGACATAGAAGTA
1 AGCCTAAGACTTAGTTTTGAAAAATAACGAAAATGCCCATAAGGGATACCATCGACATAAAAGTA
* * *
180847 CCCATACCCTGAAAGGACTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATATCCACTTTCG
66 CCCATACCCTGAAAGGACTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATAGCCACCTTCA
180912 GCATAAAAGCAAACACGGT
131 GCATAAAAGCAAACACGGT
180931 GATAATCTAG
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
152 61 0.46
153 30 0.23
154 41 0.31
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (152 bp):
AGCCTAAGACTTAGTTTTGAAAAATAACGAAAATGCCCATAAGGGATACCATCGACATAAAAGTA
CCCATACCCTGAAAGGACTAAAAAGGATGTGGATGGCGTGAACCTATCCTAAATAGCCACCTTCA
GCATAAAAGCAAACACGGTAAC
Found at i:182960 original size:14 final size:13
Alignment explanation
Indices: 182931--182972 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
182921 CAAAAAGTAG
*
182931 AATAAATAAA-TA
1 AATAAAAAAACTA
*
182943 AATAAAAGAAATTA
1 AATAAAA-AAACTA
182957 AATAAAAAAACTA
1 AATAAAAAAACTA
182970 AAT
1 AAT
182973 GGCTGAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 11 0.42
14 9 0.35
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (13 bp):
AATAAAAAAACTA
Found at i:182972 original size:18 final size:18
Alignment explanation
Indices: 182931--182972 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
182921 CAAAAAGTAG
182931 AATAAA-TAAATAAATAA
1 AATAAATTAAATAAATAA
*
182948 AAGAAATTAAATAAA-AA
1 AATAAATTAAATAAATAA
182965 AACTAAAT
1 AA-TAAAT
182973 GGCTGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAAATTAAATAAATAA
Found at i:183479 original size:166 final size:163
Alignment explanation
Indices: 183246--183971 Score: 719
Period size: 166 Copynumber: 4.4 Consensus size: 163
183236 TTTTTTGGAG
* * * *
183246 AAAAGGAATTTCAA-GAAAAAATTCAAAATTCATGGAAATGAATGCATTTTTGAAAATTAAATTA
1 AAAAGGAATTTCAAGGAAAAAA-TCAAAATTCATGAAAATGAATGAATTTTTGAAAATTGATTTA
* * * * *
183310 ATATAAAATAAATAATAATATTTTATGAATTTTAAAAATCATAAACTAAGAAAAATCCTTTCGAA
65 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC-TTCCAA
*
183375 AAAATTTACGGAGTAGAAAATTTCGTATTTCAGAA
129 AAAATTTACGAAGTAGAAAATTTCGTATTTCAGAA
* * ** *
183410 AAAAGGAAATTTCAAGGAAAAAATCAAAATTTTATGAAAATGAATCAATTTTTGGGAACTGATTT
1 AAAAGG-AATTTCAAGGAAAAAATCAAAA-TTCATGAAAATGAATGAATTTTTGAAAATTGATTT
* * **
183475 AATATGAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCTGA
64 AATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCAA
* * * ** * *
183540 AAAAGTAATGAAGTAGAAAGCTCCGTATTTCAAAAA
129 AAAATTTACGAAGTAGAAAATTTCGTATTTC-AGAA
*
183576 AAAAGGAATTTCAAGGAAAAAATCAAAATTTTATGAAAATGAATGAATTTTT-AAGAATTGATTT
1 AAAAGGAATTTCAAGGAAAAAATCAAAA-TTCATGAAAATGAATGAATTTTTGAA-AATTGATTT
* * ** *
183640 ACTATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTACGAAAGTTCC-CCCAA
64 AATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCAA
* * *
183704 AACAAATTACGAAGTAGAAAATTTCATTTTTC-GAA
129 AA-AATTTACGAAGTAGAAAATTTCGTATTTCAGAA
* * * * * * * * *
183739 AATAGTGGAATTTTAAAGAAAAAATTCGAAAACTAATGCAAA-GAAAAGAAGTTTTGAAAATAGA
1 AA-A-AGGAATTTCAAGGAAAAAA-TC-AAAATTCATGAAAATG-AATGAATTTTTGAAAATTGA
* * * * *
183803 TTTTATTTGAATTAAATAATAATATTTGATGAATTTTGAAAATTAAAAACCAAGAAAAATCCTTC
61 TTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTC
* * *
183868 CAAAAACTTTAC-AGAGTAGAAAA-CTCTGTATTTTAGAA
126 CAAAAAATTTACGA-AGTAGAAAATTTC-GTATTTCAGAA
* * * * * *
183906 AAATGAGAACTTCAAGGACAAAAATAAAAAATTCATGAAAATGAAAGAATTTTTCAAAACTGATT
1 AAAAG-GAATTTCAAGGA-AAAAAT-CAAAATTCATGAAAATGAATGAATTTTTGAAAATTGATT
183971 T
63 T
183972 GATGGGGATT
Statistics
Matches: 462, Mismatches: 80, Indels: 38
0.80 0.14 0.07
Matches are distributed among these distances:
163 4 0.01
164 11 0.02
165 191 0.41
166 233 0.50
167 23 0.05
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (163 bp):
AAAAGGAATTTCAAGGAAAAAATCAAAATTCATGAAAATGAATGAATTTTTGAAAATTGATTTAA
TATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCAAAA
AATTTACGAAGTAGAAAATTTCGTATTTCAGAA
Found at i:183821 original size:331 final size:327
Alignment explanation
Indices: 183246--183964 Score: 772
Period size: 331 Copynumber: 2.2 Consensus size: 327
183236 TTTTTTGGAG
* *
183246 AAAAGGAATTTCAA-GAAAAAATTCAAAATTCATGGAAATGAATGCATTTTTGAAAATTAAATTA
1 AAAAGGAATTTCAAGGAAAAAA-TCAAAATTCATGAAAATGAATGAATTTTTGAAAATTAAATTA
* * * *
183310 ATATAAAATAAATAATAATATTTTATGAATTTTAAAAATCATAAACTAAGAAAAATCCTTTCGAA
65 ATATAAAATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACTAAGAAAAATCC-TCCCAA
* * * *
183375 AAAATTTACGGAGTAGAAAATTTCGTATTTCAGAAAAAAGGAAATTTCAAGGAAAAAATCAAAAT
129 AAAAATTACGAAGTAGAAAATTTCATATTTCAGAAAAAAGGAAATTTCAAAGAAAAAATCAAAAT
* * * * * * *
183440 TTTATGAAAATGAATCAATTTTTGGGAACTGATTTAATATGAAATAAATAATAATATTTTATGAA
194 CTAATGAAAATGAAACAAGTTTTGGAAAATGATTTAATATGAAATAAATAATAATATTTGATGAA
* * *
183505 TTTTAAAAATTAAAAACTAAGAAAAATCCCTCTGAAAAA-GTA-ATGAAGTAGAAAGCTCCGTAT
259 TTTTAAAAATTAAAAACCAAGAAAAATCCCTC-CAAAAACGTACA-G-AGTAGAAAACTCCGTAT
183568 TTCAAAAA
321 TT-AAAAA
* * *
183576 AAAAGGAATTTCAAGGAAAAAATCAAAATTTTATGAAAATGAATGAATTTTT-AAGAATTGATTT
1 AAAAGGAATTTCAAGGAAAAAATCAAAA-TTCATGAAAATGAATGAATTTTTGAA-AATTAAATT
* * * * **
183640 ACTATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTACGAAAGTTCC-CCCAA
64 AATATAAAATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACTAAGAAAAATCCTCCCAA
* * * *
183704 AACAAATTACGAAGTAGAAAATTTCATTTTTC-GAAAATAGTGGAATTTTAAAGAAAAAATTCGA
129 AA-AAATTACGAAGTAGAAAATTTCATATTTCAGAAAAAAG-GAAATTTCAAAGAAAAAA-TC-A
* * * * *
183768 AAA-CTAATGCAAA-GAAAAGAAGTTTT-GAAAATAGATTTTATTTGAATTAAATAATAATATTT
190 AAATCTAATGAAAATG-AAACAAGTTTTGGAAAAT-GATTTAATATGAAATAAATAATAATATTT
* * * *
183830 GATGAATTTTGAAAATTAAAAACCAAGAAAAATCCTTCCAAAAACTTTACAGAGTAGAAAACTCT
253 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAAC-GTACAGAGTAGAAAACTCC
* *
183895 GTATTTTAGAA
317 GTATTTAAAAA
* * * * *
183906 AAATGAGAACTTCAAGGACAAAAATAAAAAATTCATGAAAATGAAAGAATTTTTCAAAA
1 AAAAG-GAATTTCAAGGA-AAAAAT-CAAAATTCATGAAAATGAATGAATTTTTGAAAA
183965 CTGATTTGAT
Statistics
Matches: 324, Mismatches: 49, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
329 12 0.04
330 79 0.24
331 190 0.59
332 36 0.11
333 7 0.02
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (327 bp):
AAAAGGAATTTCAAGGAAAAAATCAAAATTCATGAAAATGAATGAATTTTTGAAAATTAAATTAA
TATAAAATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACTAAGAAAAATCCTCCCAAAA
AAATTACGAAGTAGAAAATTTCATATTTCAGAAAAAAGGAAATTTCAAAGAAAAAATCAAAATCT
AATGAAAATGAAACAAGTTTTGGAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATT
TTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACGTACAGAGTAGAAAACTCCGTATTTAAA
AA
Found at i:185421 original size:84 final size:85
Alignment explanation
Indices: 185155--185845 Score: 350
Period size: 84 Copynumber: 8.2 Consensus size: 85
185145 TAAGCCGATT
* * * * * * *
185155 GGTAAACGAGGGATGAAGGGTTGACCGGGGACTA-AG-TCGACAAGTCACCAAGGA-AAAAAGGG
1 GGTAAACAATGGATGAA-AGTTGACCGGAGACTAGAGCT-GACAGGTCACCAAGGAGATAAGGGG
** * * *
185217 TTTA-TTGTGGATTGAGCCGATA
64 TTTACCAG-GGACTGAGCTGACA
* ** * * *
185239 GGTAAACAATGGATG-GAGATTGACCAAAAACTA-AGCTGATAGGTCACCATAAGG-G-TAA-TG
1 GGTAAACAATGGATGAAAG-TTGACCGGAGACTAGAGCTGACAGGTCACC--AAGGAGATAAGGG
* *
185299 GTTTACCAGGGACTAAGCCGACA
63 GTTTACCAGGGACTGAGCTGACA
* *
185322 GGTAAACAATCGATGAAAGTTGACCGGAGACTAG-GCTGACAGGTCACCAAGGAGAAAAGGGGTT
1 GGTAAACAATGGATGAAAGTTGACCGGAGACTAGAGCTGACAGGTCACCAAGGAGATAAGGGGTT
*
185386 TACCAGGGACTGAGCTGATA
66 TACCAGGGACTGAGCTGACA
* * * * * * * **
185406 GGTAAATAATGGATGAAGGTTAACCGGAGA-TTGAGTTGACAGGTCACCATA-AAGGTAATAGGT
1 GGTAAACAATGGATGAAAGTTGACCGGAGACTAGAGCTGACAGGTCACCA-AGGAGATAAGGGGT
* * **
185469 TTACTAGGGACTAAGCCAACA
65 TTACCAGGGACTGAGCTGACA
* * * * ** *
185490 AGTAAACAATAGATGAAAGTTGATCAGAGACT-GAGCTGATTGGTCACCAAGGAGAGAAGGGGTT
1 GGTAAACAATGGATGAAAGTTGACCGGAGACTAGAGCTGACAGGTCACCAAGGAGATAAGGGGTT
*
185554 TACC-GAGGATTGAGCTGACA
66 TACCAG-GGACTGAGCTGACA
* * * * * *
185574 GGTAAGCGATGGATGAAGGGTTGACCGGAGA-TTGAGCTGATAGGTCACCATAAGG-G-TAATGG
1 GGTAAACAATGGATGAA-AGTTGACCGGAGACTAGAGCTGACAGGTCACC--AAGGAGATAAGGG
* *** * *
185636 ATTTATTGGGGATTAAGCTGACA
63 GTTTACCAGGGACTGAGCTGACA
* ** * * * * *
185659 GGCAAATGATGCAT-AAAGGTTGACCGGAGACT-GAGTTGATAGGTCACCATAGG-GGTAATGGG
1 GGTAAACAATGGATGAAA-GTTGACCGGAGACTAGAGCTGACAGGTCACCA-AGGAGATAAGGGG
* * * * *
185721 TTTGCCGGGGATTGAGTTGATA
64 TTTACCAGGGACTGAGCTGACA
* * * ** * * *
185743 GGCAAACGATGGATGAAGGTTGACCAAAGA-TTGAGCTGACAGGTCACCATAGGCG-TAAAGGGT
1 GGTAAACAATGGATGAAAGTTGACCGGAGACTAGAGCTGACAGGTCACCA-AGGAGAT-AAGGGG
* *
185806 TTTACCGGGGACTGAG-TCAACA
64 TTTACCAGGGACTGAGCT-GACA
*
185828 GGTAAACAAAGGA-GAAAG
1 GGTAAACAATGGATGAAAG
185846 GGTTGACTAG
Statistics
Matches: 469, Mismatches: 108, Indels: 60
0.74 0.17 0.09
Matches are distributed among these distances:
81 4 0.01
82 3 0.01
83 87 0.19
84 273 0.58
85 96 0.20
86 2 0.00
87 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (85 bp):
GGTAAACAATGGATGAAAGTTGACCGGAGACTAGAGCTGACAGGTCACCAAGGAGATAAGGGGTT
TACCAGGGACTGAGCTGACA
Found at i:185509 original size:168 final size:166
Alignment explanation
Indices: 185174--185793 Score: 631
Period size: 168 Copynumber: 3.7 Consensus size: 166
185164 GGGATGAAGG
* * * * ** * *
185174 GTTGACCGGGGACTAAG-TCGACAAGTCACCAAGGA-AAAAAGGGTTTATTGTGGATTGAGCCGA
1 GTTGACCGGAGACTGAGCT-GACAGGTCACCAAGGAGAAAAGGGGTTTACCGAGGATTGAGCTGA
* * * * * *
185237 TAGGTAAACAATGGATGGAGATTGACCAAAAACTAAGCTGATAGGTCACCATAAGGGTAATGGTT
65 TAGGTAAACAATGGATGAAGGTTGACCAAAGATTGAGCTGACAGGTCACCATAAGGGTAATGGTT
*
185302 TACCAGGGACTAAGCCGACAGGTAAACAATCGATGAAA
130 TACTAGGGACTAAGCCGACAGGTAAACAAT-GATGAAA
*
185340 GTTGACCGGAGACT-AGGCTGACAGGTCACCAAGGAGAAAAGGGGTTTACC-AGGGACTGAGCTG
1 GTTGACCGGAGACTGA-GCTGACAGGTCACCAAGGAGAAAAGGGGTTTACCGA-GGATTGAGCTG
* * ** * *
185403 ATAGGTAAATAATGGATGAAGGTTAACCGGAGATTGAGTTGACAGGTCACCATAAAGGTAATAGG
64 ATAGGTAAACAATGGATGAAGGTTGACCAAAGATTGAGCTGACAGGTCACCATAAGGGTAAT-GG
* *
185468 TTTACTAGGGACTAAGCCAACAAGTAAACAATAGATGAAA
128 TTTACTAGGGACTAAGCCGACAGGTAAACAAT-GATGAAA
* * ** * *
185508 GTTGATCAGAGACTGAGCTGATTGGTCACCAAGGAGAGAAGGGGTTTACCGAGGATTGAGCTGAC
1 GTTGACCGGAGACTGAGCTGACAGGTCACCAAGGAGAAAAGGGGTTTACCGAGGATTGAGCTGAT
* * ** *
185573 AGGTAAGCGATGGATGAAGGGTTGACCGGAGATTGAGCTGATAGGTCACCATAAGGGTAATGGAT
66 AGGTAAACAATGGATGAA-GGTTGACCAAAGATTGAGCTGACAGGTCACCATAAGGGTAATGG-T
* * * * * **
185638 TTATTGGGGATTAAGCTGACAGGCAAATGATGCAT-AAA
129 TTACTAGGGACTAAGCCGACAGGTAAACAATG-ATGAAA
* * ** * * * *
185676 GGTTGACCGGAGACTGAGTTGATAGGTCACCATAGG-GGTAATGGGTTTGCCGGGGATTGAGTTG
1 -GTTGACCGGAGACTGAGCTGACAGGTCACCA-AGGAGAAAAGGGGTTTACCGAGGATTGAGCTG
* *
185740 ATAGGCAAACGATGGATGAAGGTTGACCAAAGATTGAGCTGACAGGTCACCATA
64 ATAGGTAAACAATGGATGAAGGTTGACCAAAGATTGAGCTGACAGGTCACCATA
185794 GGCGTAAAGG
Statistics
Matches: 379, Mismatches: 63, Indels: 22
0.82 0.14 0.05
Matches are distributed among these distances:
165 1 0.00
166 29 0.08
167 71 0.19
168 144 0.38
169 131 0.35
170 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (166 bp):
GTTGACCGGAGACTGAGCTGACAGGTCACCAAGGAGAAAAGGGGTTTACCGAGGATTGAGCTGAT
AGGTAAACAATGGATGAAGGTTGACCAAAGATTGAGCTGACAGGTCACCATAAGGGTAATGGTTT
ACTAGGGACTAAGCCGACAGGTAAACAATGATGAAA
Found at i:185951 original size:44 final size:44
Alignment explanation
Indices: 185895--186141 Score: 212
Period size: 44 Copynumber: 5.6 Consensus size: 44
185885 AAAAGGGGTT
* *
185895 TGACTAGGGTGGTAACCATATGTCAAATCAAAATGAAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
* * * * * * * * *
185939 TAACCAGGGTGGTAACCTTACATTAGACCGAAATGAGAAGAATT
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
* * * *
185983 TGACAAGGGTGGTAACCATACGTCAAA-CAGGAA-G-AAAGCTGATT
1 TGACCAGGGTGGTAACCATACGTCAAATCA-AAATGAAAAG--AATC
186027 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
* * * * * * * * *
186071 TGACTAGAGTGGTAACCATACATCAGACCGAAATGAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
* *
186115 TGACCAAGGTGATAACCATACGTCAAA
1 TGACCAGGGTGGTAACCATACGTCAAA
186142 CAGGAAAGAG
Statistics
Matches: 157, Mismatches: 40, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 145 0.92
45 3 0.02
46 4 0.03
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (44 bp):
TGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATC
Found at i:186117 original size:88 final size:87
Alignment explanation
Indices: 185895--186142 Score: 246
Period size: 88 Copynumber: 2.8 Consensus size: 87
185885 AAAAGGGGTT
* * * * * * *
185895 TGACTAGGGTGGTAACCATATGTCAAATCAAAATGAAAAGAATCTAACCAGGGTGGTAACCTTAC
1 TGACTAGGGTGGTAACCATACGTCAAACCGAAATG-AAAGAGTTTGACCAGGGTGGTAACCATAC
* * * * * *
185960 ATTAGACCGAAATGAGAAGAATT
65 GTCAAACCAAAATGAAAAGAATC
* * * *
185983 TGACAAGGGTGGTAACCATACGTCAAACAGGAA-GAAAGCTGATTTGACCAGGGTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAAACCGAAATGAAAG-AG-TTTGACCAGGGTGGTAACCATA
*
186047 CGTCAAATCAAAATGAAAAGAATC
64 CGTCAAACCAAAATGAAAAGAATC
* * * * *
186071 TGACTAGAGTGGTAACCATACATCAGACCGAAATGAGAAGAGTTTGACCAAGGTGATAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAAACCGAAATGA-AAGAGTTTGACCAGGGTGGTAACCATAC
186136 GTCAAAC
65 GTCAAAC
186143 AGGAAAGAGA
Statistics
Matches: 128, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
86 4 0.03
87 1 0.01
88 117 0.91
89 3 0.02
90 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (87 bp):
TGACTAGGGTGGTAACCATACGTCAAACCGAAATGAAAGAGTTTGACCAGGGTGGTAACCATACG
TCAAACCAAAATGAAAAGAATC
Found at i:186131 original size:132 final size:132
Alignment explanation
Indices: 185893--186168 Score: 421
Period size: 132 Copynumber: 2.1 Consensus size: 132
185883 TGAAAAGGGG
* * * *
185893 TTTGACTAGGGTGGTAACCATATGTCAAATCAAAATGAAAAGAATCTAACCAGGGTGGTAACCTT
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTAACCAGAGTGGTAACCAT
* *
185958 ACATTAGACCGAAATGAGAAGAATTTGACAAGGGTGGTAACCATACGTCAAACAGGAAGAAAG-C
66 ACATCAGACCGAAATGAGAAGAATTTGACAAGGGTGATAACCATACGTCAAACAGGAA-AAAGAC
*
186022 TGA
130 AGA
* *
186025 TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGAGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTAACCAGAGTGGTAACCAT
* *
186090 ACATCAGACCGAAATGAGAAGAGTTTGACCAA-GGTGATAACCATACGTCAAACAGGAAAGAGAC
66 ACATCAGACCGAAATGAGAAGAATTTGA-CAAGGGTGATAACCATACGTCAAACAGGAAAAAGAC
186154 AGA
130 AGA
186157 TTTGACCAGGGT
1 TTTGACCAGGGT
186169 ATAGTCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
131 3 0.02
132 125 0.95
133 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (132 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTAACCAGAGTGGTAACCAT
ACATCAGACCGAAATGAGAAGAATTTGACAAGGGTGATAACCATACGTCAAACAGGAAAAAGACA
GA
Found at i:186161 original size:44 final size:45
Alignment explanation
Indices: 185968--186164 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 45
185958 ACATTAGACC
185968 GAAATGAGA-AGAATTTGA-CAAGGGTGGTAACCATACGTCAAACAG
1 GAAATGAGACAG-ATTTGACCAA-GGTGGTAACCATACGTCAAACAG
* * *
186013 G-AA-GAAAGCTGATTTGACCAGGGTGGTAACCATACGTCAAATCA-
1 GAAATGAGA-CAGATTTGACCAAGGTGGTAACCATACGTCAAA-CAG
* * * * * *
186057 -AAATGA-AAAGAATCTGA-CTAGAGTGGTAACCATACATCAGAC-C
1 GAAATGAGACAG-ATTTGACCAAG-GTGGTAACCATACGTCAAACAG
*
186100 GAAATGAGA-AGAGTTTGACCAAGGTGATAACCATACGTCAAACAG
1 GAAATGAGACAGA-TTTGACCAAGGTGGTAACCATACGTCAAACAG
186145 GAAA-GAGACAGATTTGACCA
1 GAAATGAGACAGATTTGACCA
186165 GGGTATAGTC
Statistics
Matches: 121, Mismatches: 16, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
43 8 0.07
44 94 0.78
45 19 0.16
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (45 bp):
GAAATGAGACAGATTTGACCAAGGTGGTAACCATACGTCAAACAG
Found at i:186244 original size:60 final size:60
Alignment explanation
Indices: 186171--186364 Score: 212
Period size: 60 Copynumber: 3.2 Consensus size: 60
186161 ACCAGGGTAT
* *
186171 AGTCAAATAAGGAAGGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGGCTAAGTAC
1 AGTCAAATGAGGAAGGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACTAAGTAC
* ** * * * *
186231 AATCAAATGAGGAAGATCTTAACCGAATACAGTCAAGA-GAGGTAAGATTTGACTGAA-TAC
1 AGTCAAATGAGGAAGGGCTTAACCGAATACAATTAA-ACAAGGAAAGATTTGACT-AAGTAC
* * * * ** *
186291 AGTCAAATGAGGAAAGGCTTAATCGAATACAATTAAGCTAGGAAAGATTTGACCGAGTAT
1 AGTCAAATGAGGAAGGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACTAAGTAC
186351 AGTCAAATGAGGAA
1 AGTCAAATGAGGAA
186365 TATCTTGACC
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
59 1 0.01
60 104 0.96
61 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (60 bp):
AGTCAAATGAGGAAGGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACTAAGTAC
Found at i:186364 original size:30 final size:30
Alignment explanation
Indices: 186192--186418 Score: 117
Period size: 30 Copynumber: 7.6 Consensus size: 30
186182 GAAGGGCTTA
* * **
186192 ACCGAATACAATTAAACAAGGAAAGATTTG
1 ACCGAATACAGTCAAATGAGGAAAGATTTG
* * * *
186222 -GCTAAGTACAATCAAATGAGG-AAGATCTTA
1 ACCGAA-TACAGTCAAATGAGGAAAGAT-TTG
*
186252 ACCGAATACAGTCAAGA-GAGGTAAGATTTG
1 ACCGAATACAGTCAA-ATGAGGAAAGATTTG
* ** *
186282 ACTGAATACAGTCAAATGAGGAAAGGCTTA
1 ACCGAATACAGTCAAATGAGGAAAGATTTG
* * * *
186312 ATCGAATACAATTAAGCT-AGGAAAGATTTG
1 ACCGAATACAGTCAA-ATGAGGAAAGATTTG
* * *
186342 ACCGAGTATAGTCAAATGAGG-AATATCTTG
1 ACCGAATACAGTCAAATGAGGAAAGAT-TTG
* * *
186372 ACCAAATATAGTCAAGA-GGGGTAAA-ATTTG
1 ACCGAATACAGTCAA-ATGAGG-AAAGATTTG
* *
186402 ACCGAGTATAGTCAAAT
1 ACCGAATACAGTCAAAT
186419 AATGATGGAA
Statistics
Matches: 149, Mismatches: 35, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
29 15 0.10
30 119 0.80
31 13 0.09
32 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.23
Consensus pattern (30 bp):
ACCGAATACAGTCAAATGAGGAAAGATTTG
Found at i:186385 original size:120 final size:120
Alignment explanation
Indices: 186171--186420 Score: 329
Period size: 120 Copynumber: 2.1 Consensus size: 120
186161 ACCAGGGTAT
* * *
186171 AGTCAAATAAGGAAGGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGGCTAAGTACAATCA
1 AGTCAAATAAGGAAAGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACCAAGTACAATCA
* * *
186236 AATGAGGAAGATCTTAACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAATAC
66 AATGAGGAAGATCTTAACCAAATACAGTCAAGAGAGGTAAAATTTGACCGAATAC
* * * * * * *
186291 AGTCAAATGAGGAAAGGCTTAATCGAATACAATTAAGCTAGGAAAGATTTGACCGAGTATAGTCA
1 AGTCAAATAAGGAAAGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACCAAGTACAATCA
* * * * * *
186356 AATGAGGAATATCTTGACCAAATATAGTCAAGAGGGGTAAAATTTGACCGAGTAT
66 AATGAGGAAGATCTTAACCAAATACAGTCAAGAGAGGTAAAATTTGACCGAATAC
186411 AGTCAAATAA
1 AGTCAAATAA
186421 TGATGGAAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (120 bp):
AGTCAAATAAGGAAAGGCTTAACCGAATACAATTAAACAAGGAAAGATTTGACCAAGTACAATCA
AATGAGGAAGATCTTAACCAAATACAGTCAAGAGAGGTAAAATTTGACCGAATAC
Found at i:186401 original size:60 final size:59
Alignment explanation
Indices: 186233--186418 Score: 203
Period size: 60 Copynumber: 3.1 Consensus size: 59
186223 CTAAGTACAA
* * * *
186233 TCAAATGAGGAAGATCTTAACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAATACAG
1 TCAAATGAGGAA-ATCTTAACCGAATACAGTCAAGAGAGGTAAAATTTGACCGAGTATAG
* * * * **
186293 TCAAATGAGGAAAGGCTTAATCGAATACAATTAAGCTAGG-AAAGATTTGACCGAGTATAG
1 TCAAATGAGGAAA-TCTTAACCGAATACAGTCAAGAGAGGTAAA-ATTTGACCGAGTATAG
* * * *
186353 TCAAATGAGGAATATCTTGACCAAATATAGTCAAGAGGGGTAAAATTTGACCGAGTATAG
1 TCAAATGAGGAA-ATCTTAACCGAATACAGTCAAGAGAGGTAAAATTTGACCGAGTATAG
186413 TCAAAT
1 TCAAAT
186419 AATGATGGAA
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
59 3 0.03
60 95 0.93
61 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (59 bp):
TCAAATGAGGAAATCTTAACCGAATACAGTCAAGAGAGGTAAAATTTGACCGAGTATAG
Found at i:186762 original size:90 final size:89
Alignment explanation
Indices: 186603--186855 Score: 289
Period size: 90 Copynumber: 2.8 Consensus size: 89
186593 GTTGAGATAT
* * * **
186603 CCTTGCCCCAAGGAAATTAGGCTTTGTGATGCATGAATACCATTTAGTGACT-AAGGGAAAGGGA
1 CCTTG-CCCAAGGAAATAAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGGGAAAGGGA
186667 TATGATTAGGGATATGTGGGCTACA
65 TATGATTAGGGATATGTGGGCTACA
* * *
186692 CCTTTGGCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAA-TGAATGGG
1 CC-TT-GCCCAAGGAAATAAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGGGAAAGGG
* * *
186756 GTATGATTGGGGATGTGTGGGCTACA
64 ATATGATTAGGGATATGTGGGCTACA
* * ** *
186782 CCTTGCCCTAAAGG-AATAAGACTTTGTGATGCATCAACACCATCTAGTGGTTG-AGTAAAAAGG
1 CCTTGCCC--AAGGAAATAAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGGGAAAGGG
186845 ATATGATTAGG
64 ATATGATTAGG
186856 AAATATATGT
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
88 5 0.04
89 54 0.39
90 78 0.56
91 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (89 bp):
CCTTGCCCAAGGAAATAAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGGGAAAGGGAT
ATGATTAGGGATATGTGGGCTACA
Found at i:187900 original size:117 final size:118
Alignment explanation
Indices: 187738--187975 Score: 435
Period size: 117 Copynumber: 2.0 Consensus size: 118
187728 GCCTTTGGTT
* *
187738 AAAGCATGTGAGGTTCTAGTCTCTCAAAAACTAATAATCTCTTGTTGAAAATTTTAGGATTAGAA
1 AAAGCATATGAGGTTCCAGTCTCTCAAAAACTAATAATCTCTTGTTGAAAATTTTAGGATTAGAA
187803 TCTGGGCTTTTCGCAAAATAGGTTGAAGGGCTAAGGAAACTTTGGTGGGCCTA
66 TCTGGGCTTTTCGCAAAATAGGTTGAAGGGCTAAGGAAACTTTGGTGGGCCTA
187856 AAAGCATATGAGGTTCCAGTAC-CT-AAAAACTAATAATCTCTTGTTGAAAATTTTAGGATTAGA
1 AAAGCATATGAGGTTCCAGT-CTCTCAAAAACTAATAATCTCTTGTTGAAAATTTTAGGATTAGA
187919 ATCTGGGCTTTTCGCAAAATAGGTTGAAGGGCTAAGGAAACTTTGGTGGGCCTA
65 ATCTGGGCTTTTCGCAAAATAGGTTGAAGGGCTAAGGAAACTTTGGTGGGCCTA
187973 AAA
1 AAA
187976 ATTTTAACGC
Statistics
Matches: 117, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
117 96 0.82
118 20 0.17
119 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (118 bp):
AAAGCATATGAGGTTCCAGTCTCTCAAAAACTAATAATCTCTTGTTGAAAATTTTAGGATTAGAA
TCTGGGCTTTTCGCAAAATAGGTTGAAGGGCTAAGGAAACTTTGGTGGGCCTA
Found at i:188729 original size:26 final size:24
Alignment explanation
Indices: 188695--188743 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
188685 GATTCAGCAT
188695 TTTTTTCATTTCCTCATCTTTTTTTC
1 TTTTTTCATTT-CTC-TCTTTTTTTC
*
188721 TTTTTTCATTTTTCTCTTTTTTT
1 TTTTTTCATTTCTCTCTTTTTTT
188744 GCACTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 11 0.50
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTCATTTCTCTCTTTTTTTC
Found at i:189173 original size:12 final size:11
Alignment explanation
Indices: 189148--189172 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
189138 GCATCTGAAA
189148 TTTCCTTTTTT
1 TTTCCTTTTTT
189159 TTTCCTTTTTT
1 TTTCCTTTTTT
189170 TTT
1 TTT
189173 TGTGAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCCTTTTTT
Found at i:197533 original size:32 final size:32
Alignment explanation
Indices: 197492--197896 Score: 774
Period size: 32 Copynumber: 12.7 Consensus size: 32
197482 AGTTTCGTAG
*
197492 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197524 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197556 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197588 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
197620 CGATACAATGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197652 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197684 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197716 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197748 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197780 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197812 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
197844 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
197876 CAATACATTGTATCCATACAA
1 CGATACATTGTATCGATACAA
197897 ATCGTTGAAA
Statistics
Matches: 368, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 368 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:199462 original size:20 final size:20
Alignment explanation
Indices: 199437--199505 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
199427 ATTTTCATGG
199437 TGTATCGATACATTGCAATT
1 TGTATCGATACATTGCAATT
** *
199457 TGTATCGATACATAACAACT
1 TGTATCGATACATTGCAATT
*
199477 TGTATCGATACATCTGC-ATG
1 TGTATCGATACAT-TGCAATT
199497 TGTATCGAT
1 TGTATCGAT
199506 TAAATTAAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGCAATT
Found at i:201082 original size:16 final size:16
Alignment explanation
Indices: 201058--201172 Score: 101
Period size: 16 Copynumber: 7.2 Consensus size: 16
201048 AAAATGACTT
* *
201058 GAATTCGAAATGACAC
1 GAATCCGAAATGACCC
* *
201074 GAACCCGAAATGACCT
1 GAATCCGAAATGACCC
201090 GAATCC-AGAATGACCC
1 GAATCCGA-AATGACCC
* *
201106 -AAACTCGGAATGACCC
1 GAATC-CGAAATGACCC
*
201122 GAATCCGAAATAACCC
1 GAATCCGAAATGACCC
*
201138 GAATCCGAAATGATCC
1 GAATCCGAAATGACCC
*
201154 GAAAT-CAAAATGACCC
1 G-AATCCGAAATGACCC
201170 GAA
1 GAA
201173 CAATTAACCC
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
15 6 0.08
16 67 0.85
17 6 0.08
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.14
Consensus pattern (16 bp):
GAATCCGAAATGACCC
Found at i:201150 original size:48 final size:48
Alignment explanation
Indices: 201065--201173 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
201055 CTTGAATTCG
* * * *
201065 AAATGACACGAACCCGAAATGACCTGAATCCAGAATGA-CCCAAACTCG
1 AAATGACCCGAACCCGAAATAACCCGAATCCAGAATGATCCCAAA-TCA
* * *
201113 GAATGACCCGAATCCGAAATAACCCGAATCC-GAAATGATCCGAAATCA
1 AAATGACCCGAACCCGAAATAACCCGAATCCAG-AATGATCCCAAATCA
201161 AAATGACCCGAAC
1 AAATGACCCGAAC
201174 AATTAACCCG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
47 1 0.02
48 44 0.88
49 5 0.10
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.13
Consensus pattern (48 bp):
AAATGACCCGAACCCGAAATAACCCGAATCCAGAATGATCCCAAATCA
Found at i:204140 original size:4 final size:4
Alignment explanation
Indices: 204123--204153 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
204113 ACTCTTATGT
*
204123 TTTC TTTA TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
204154 TTCGTTGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:207068 original size:41 final size:41
Alignment explanation
Indices: 207023--207107 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
207013 AAGAGCTTTC
*
207023 AAAGAATAACAATAATGAATGTAAAAGGTCTTGAAAATGAG
1 AAAGAATAACAATAATGAATGTAAAAGCTCTTGAAAATGAG
*
207064 AAAGAATAACAATAATTAATGTAAAAGCTCTTGAAAATGAG
1 AAAGAATAACAATAATGAATGTAAAAGCTCTTGAAAATGAG
207105 AAA
1 AAA
207108 ATAAGTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.22
Consensus pattern (41 bp):
AAAGAATAACAATAATGAATGTAAAAGCTCTTGAAAATGAG
Found at i:207399 original size:13 final size:13
Alignment explanation
Indices: 207381--207405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207371 CAATTCTTCA
207381 TGTATCGATACAT
1 TGTATCGATACAT
207394 TGTATCGATACA
1 TGTATCGATACA
207406 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:207403 original size:33 final size:33
Alignment explanation
Indices: 207361--207423 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
207351 TTTAGGACAA
207361 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
207394 TGTATCGATACAATGTGCCATGTATCGATA
1 TGTATCGATACAATGTGCCATGTATCGATA
207424 AAAACTGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:208823 original size:37 final size:37
Alignment explanation
Indices: 208782--208855 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
208772 ATAGAAAAGC
208782 ATGTCGTGGAGGATTGCTGAAGTACCTTGCAAATCAT
1 ATGTCGTGGAGGATTGCTGAAGTACCTTGCAAATCAT
208819 ATGTCGTGGAGGATTGCTGAAGTACCTTGCAAATCAT
1 ATGTCGTGGAGGATTGCTGAAGTACCTTGCAAATCAT
208856 GGATGATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (37 bp):
ATGTCGTGGAGGATTGCTGAAGTACCTTGCAAATCAT
Found at i:211147 original size:84 final size:84
Alignment explanation
Indices: 210995--211156 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
210985 TTTCCACTTG
* * * * *
210995 CAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAGAAGAATTATTTTCTAAACTCA
1 CAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTACAAGAATTATTCTCTAAACTCA
211060 TTGATTTACTTTCATTTTC
66 TTGATTTACTTTCATTTTC
* *
211079 CAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTACAC
1 CAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTACAAGAAT-T-ATTCTCTAAAC
* *
211141 TTATTGATTTATTTTC
63 TCATTGATTTACTTTC
211157 TTCTTTGAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.14
84 51 0.77
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.52
Consensus pattern (84 bp):
CAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTACAAGAATTATTCTCTAAACTCA
TTGATTTACTTTCATTTTC
Found at i:213260 original size:13 final size:13
Alignment explanation
Indices: 213242--213267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213232 CTATTTATGA
213242 TGTATCGATACAC
1 TGTATCGATACAC
213255 TGTATCGATACAC
1 TGTATCGATACAC
213268 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:213412 original size:22 final size:22
Alignment explanation
Indices: 213357--213412 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
213347 ACAGTGACCT
213357 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
213379 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
213400 ATGAACAGTGATG
1 ATGAACAGTGATG
213413 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:213419 original size:10 final size:10
Alignment explanation
Indices: 213400--213430 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
213390 GTATCGATAC
213400 ATGAACAGTG
1 ATGAACAGTG
*
213410 ATGAATAGTG
1 ATGAACAGTG
213420 ATGAACAGTG
1 ATGAACAGTG
213430 A
1 A
213431 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:213528 original size:53 final size:53
Alignment explanation
Indices: 213454--213590 Score: 211
Period size: 53 Copynumber: 2.6 Consensus size: 53
213444 CTACTTCCAA
* *
213454 TGTATCGATATATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * * *
213507 TGTATTGATACATATTGTGTGTATTGATACAAATTTGGCTACTGCTAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
213560 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
213591 TATGCAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 60 0.80
54 15 0.20
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:213623 original size:20 final size:20
Alignment explanation
Indices: 213560--213630 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
213550 GCTAATGTCC
**
213560 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
213580 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
213600 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
213620 TGTATCGATAC
1 TGTATCGATAC
213631 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:213694 original size:21 final size:21
Alignment explanation
Indices: 213670--213710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
213660 GTCAACCTTG
213670 TGTATTAATATCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
213691 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
213711 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:216850 original size:15 final size:15
Alignment explanation
Indices: 216832--216866 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
216822 CGAGTCAACT
216832 TCATCATTATCATCA
1 TCATCATTATCATCA
*
216847 TCATCATTATCTTCA
1 TCATCATTATCATCA
216862 TCATC
1 TCATC
216867 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:218572 original size:19 final size:20
Alignment explanation
Indices: 218528--218578 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
218518 CTGCCAGTTT
* **
218528 CATGTATCAATATAATTATG
1 CATGTATCGATATAATTAAA
218548 CATGTATCGATATAA-TAAA
1 CATGTATCGATATAATTAAA
218567 CATGTATCGATA
1 CATGTATCGATA
218579 CAATGTATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATATAATTAAA
Found at i:218586 original size:13 final size:13
Alignment explanation
Indices: 218568--218593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
218558 TATAATAAAC
218568 ATGTATCGATACA
1 ATGTATCGATACA
218581 ATGTATCGATACA
1 ATGTATCGATACA
218594 TCTAGATGTG
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:219239 original size:2 final size:2
Alignment explanation
Indices: 219234--219274 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
219224 TATTTTCTTT
* *
219234 TA TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
219275 GTATGCTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:220133 original size:14 final size:15
Alignment explanation
Indices: 220114--220156 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
220104 TATTAAAAAT
220114 TAAGTATTGAATTT-
1 TAAGTATTGAATTTA
* * *
220128 TTAGTACTAAATTTA
1 TAAGTATTGAATTTA
220143 TAAGTATTGAATTT
1 TAAGTATTGAATTT
220157 GAATTAGAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (15 bp):
TAAGTATTGAATTTA
Found at i:220670 original size:23 final size:23
Alignment explanation
Indices: 220632--220691 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
220622 TTAATTAATT
*
220632 TATTTAATTATATTTAAGA-TATAA
1 TATTTAATAAT-TTTAA-ATTATAA
*
220656 TATTTAATAATTTTAAATTTTAA
1 TATTTAATAATTTTAAATTATAA
220679 TATTT-ATAATTTT
1 TATTTAATAATTTT
220692 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 9 0.27
23 14 0.42
24 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTAATAATTTTAAATTATAA
Found at i:220692 original size:16 final size:17
Alignment explanation
Indices: 220651--220692 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
220641 ATATTTAAGA
*
220651 TATAATATTTAATAATT
1 TATAATTTTTAATAATT
*
220668 T-TAAATTTTAAT-ATT
1 TATAATTTTTAATAATT
220683 TATAATTTTT
1 TATAATTTTT
220693 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.19
16 16 0.76
17 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATAATTTTTAATAATT
Found at i:222101 original size:18 final size:19
Alignment explanation
Indices: 222080--222121 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
222070 ATTTAATACA
222080 AATATAAATTTTATT-TTT
1 AATATAAATTTTATTATTT
*
222098 AATATATATTTTATTATTT
1 AATATAAATTTTATTATTT
222117 AATAT
1 AATAT
222122 GTATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATAAATTTTATTATTT
Found at i:222368 original size:21 final size:21
Alignment explanation
Indices: 222344--222387 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
222334 ATTTCCCTAC
*
222344 TATAATATTTAATTTCATAAT
1 TATAATAATTAATTTCATAAT
*
222365 TATAATAATTAATTTCATCAT
1 TATAATAATTAATTTCATAAT
222386 TA
1 TA
222388 CCTTCGTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAATAATTAATTTCATAAT
Found at i:223025 original size:7 final size:7
Alignment explanation
Indices: 223015--223041 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
223005 GTTTGTTCTT
223015 GTGCATG
1 GTGCATG
223022 GTGCATG
1 GTGCATG
223029 GTGCATG
1 GTGCATG
223036 GTGCAT
1 GTGCAT
223042 TTTGCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.41, T:0.30
Consensus pattern (7 bp):
GTGCATG
Found at i:223184 original size:2 final size:2
Alignment explanation
Indices: 223177--223209 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
223167 CAATGCAGAA
223177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223210 ATAAAATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:224687 original size:18 final size:17
Alignment explanation
Indices: 224664--224698 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
224654 TTTTTTTAAT
224664 TTTATTATATTTATATTA
1 TTTATTATA-TTATATTA
224682 TTTATTATATTATATTA
1 TTTATTATATTATATTA
224699 AATATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTATATTATATTA
Found at i:225417 original size:23 final size:23
Alignment explanation
Indices: 225391--225435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
225381 AAGTTAAATA
*
225391 TATATTTTTTA-TTAATGATTAAT
1 TATATTATTTATTTAAT-ATTAAT
225414 TATATTATTTATTTAATATTAA
1 TATATTATTTATTTAATATTAA
225436 AATTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATTATTTATTTAATATTAAT
Found at i:225439 original size:25 final size:25
Alignment explanation
Indices: 225384--225450 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
225374 TATTATAAAG
*
225384 TTAAATATATATTTTTTA-TTAATGA
1 TTAAAT-TATATTATTTATTTAATGA
225409 TT-AATTATATTATTTATTTAAT-A
1 TTAAATTATATTATTTATTTAATGA
* *
225432 TTAAAATTATTTTAATTAT
1 TT-AAATTATATTATTTAT
225451 AGCAACCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 13 0.36
24 8 0.22
25 15 0.42
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTAAATTATATTATTTATTTAATGA
Found at i:225865 original size:1 final size:1
Alignment explanation
Indices: 225859--225889 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
225849 TCACCTTCTC
*
225859 TTTTTTTCTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
225890 GAGGTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:225999 original size:20 final size:20
Alignment explanation
Indices: 225962--226030 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
225952 TTTAATTTTT
* **
225962 TTTAAATTAGTTGAATTTAA
1 TTTAAATTATTTTTATTTAA
225982 TTTAAATTATTTTTATTTAA
1 TTTAAATTATTTTTATTTAA
* * *
226002 TATAATAATATTTTT-TTAAA
1 TTTAA-ATTATTTTTATTTAA
226022 TTT-AATTAT
1 TTTAAATTAT
226031 AGAAATGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.10
19 1 0.03
20 27 0.68
21 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTAAATTATTTTTATTTAA
Found at i:226297 original size:18 final size:17
Alignment explanation
Indices: 226263--226312 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
226253 TGTTTAAAAT
226263 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
226280 ATTTTGATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
226297 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
226312 A
1 A
226313 AATTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 5 0.17
16 3 0.10
17 7 0.24
18 6 0.21
19 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:226324 original size:32 final size:33
Alignment explanation
Indices: 226260--226324 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
226250 TAGTGTTTAA
* ** * *
226260 AATATTTTATATTTATATAAATTTTGATATATT
1 AATAATTTATATTTATATAAAAATTAAAATATT
226293 AATAATTTATA-TTATATAAAAATTAAAATATT
1 AATAATTTATATTTATATAAAAATTAAAATATT
226325 TATTCATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (33 bp):
AATAATTTATATTTATATAAAAATTAAAATATT
Found at i:226760 original size:2 final size:2
Alignment explanation
Indices: 226751--226786 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
226741 AAAAAATAGA
226751 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
226787 CTTTGTCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:228122 original size:18 final size:18
Alignment explanation
Indices: 228073--228133 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
228063 ATGTCATAAT
* *
228073 TATATTTATAATATTTTA
1 TATATTAATAATTTTTTA
228091 TAT-TTATATCAATTTTTTA
1 TATATTA-AT-AATTTTTTA
228110 TATATTAATAATTTGTATTA
1 TATATTAATAATTT-T-TTA
228130 TATA
1 TATA
228134 AATTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 2 0.06
18 10 0.28
19 14 0.39
20 10 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATTAATAATTTTTTA
Found at i:228821 original size:25 final size:25
Alignment explanation
Indices: 228787--228837 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
228777 AAATTTAATC
*
228787 AAATCAAATCAAATGAAAAAAATTT
1 AAATCAAATCAAATCAAAAAAATTT
* *
228812 AAATCAAATCTAATCAAATAAATTT
1 AAATCAAATCAAATCAAAAAAATTT
228837 A
1 A
228838 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATCAAATCAAATCAAAAAAATTT
Found at i:229957 original size:13 final size:14
Alignment explanation
Indices: 229915--229958 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
229905 TATTTAATAT
*
229915 TTTAAAAAATTAAA
1 TTTAAAAAAATAAA
229929 -TTAAAAAAATAAA
1 TTTAAAAAAATAAA
*
229942 TTTAAATAAA-AAA
1 TTTAAAAAAATAAA
229955 TTTA
1 TTTA
229959 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TTTAAAAAAATAAA
Found at i:230759 original size:17 final size:19
Alignment explanation
Indices: 230727--230774 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
230717 AATATATTAA
*
230727 AAATAT-TTATAATAAAA-
1 AAATATATTACAATAAAAC
*
230744 TAAT-TATTACAATAAAAC
1 AAATATATTACAATAAAAC
230762 AAATATATTACAA
1 AAATATATTACAA
230775 ATATCTCGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 3 0.12
19 8 0.32
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATATTACAATAAAAC
Found at i:230971 original size:16 final size:16
Alignment explanation
Indices: 230953--231015 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
230943 TATTCATATT
230953 TTAAATTAAA-TTAAA
1 TTAAATTAAATTTAAA
*
230968 TTTAAATAAAATTTTAAA
1 -TTAAATTAAA-TTTAAA
*
230986 --AAATTAATATTTTAA
1 TTAAATTAA-ATTTAAA
231001 TTAAATTAAATTTAA
1 TTAAATTAAATTTAA
231016 TTCGAATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
15 11 0.29
16 15 0.39
17 7 0.18
18 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATTAAATTTAAA
Found at i:230982 original size:28 final size:27
Alignment explanation
Indices: 230950--231007 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
230940 TATTATTCAT
230950 ATTTTAAATTAAATTAA-ATTTAAATAAA
1 ATTTTAAA--AAATTAATATTTAAATAAA
* *
230978 ATTTTAAAAAATTAATATTTTAATTAA
1 ATTTTAAAAAATTAATATTTAAATAAA
231005 ATT
1 ATT
231008 AAATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 12 0.44
28 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTTAAAAAATTAATATTTAAATAAA
Found at i:233964 original size:20 final size:20
Alignment explanation
Indices: 233939--233989 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
233929 AGAAATAATA
*
233939 TATCGATACAAT-TCATCATG
1 TATCGATACAATGT-ACCATG
*
233959 TATCGATATAATGTACCATG
1 TATCGATACAATGTACCATG
233979 TATCGATACAA
1 TATCGATACAA
233990 ACAGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACAATGTACCATG
Found at i:234043 original size:20 final size:19
Alignment explanation
Indices: 234017--234090 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
234007 ACTGCCAGTT
234017 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
234036 TCCATGTATCAATACAATGA
1 T-CATGTATCGATACAATGA
*
234056 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
234076 TAATGTATCGATACA
1 TCATGTATCGATACA
234091 TTTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:234710 original size:24 final size:24
Alignment explanation
Indices: 234681--234727 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
234671 TCGGTTGAAA
234681 AGATTTTCTCCCCCTAGATAAAAG
1 AGATTTTCTCCCCCTAGATAAAAG
*
234705 AGATTTTCTCCCTCTAGATAAAA
1 AGATTTTCTCCCCCTAGATAAAA
234728 AATTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (24 bp):
AGATTTTCTCCCCCTAGATAAAAG
Found at i:234732 original size:22 final size:22
Alignment explanation
Indices: 234678--234732 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
234668 TAATCGGTTG
*
234678 AAAAGATTTTCTCCCCCTAGAT
1 AAAAAATTTTCTCCCCCTAGAT
*
234700 AAAAGAGATTTTCTCCCTCTAGAT
1 AAAA-A-ATTTTCTCCCCCTAGAT
234724 AAAAAATTT
1 AAAAAATTT
234733 ATTTTCAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 20 0.69
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAAAATTTTCTCCCCCTAGAT
Found at i:236859 original size:79 final size:78
Alignment explanation
Indices: 236757--237169 Score: 473
Period size: 79 Copynumber: 5.3 Consensus size: 78
236747 TATTTTGGAG
* * * * * *
236757 ATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGATTGGAGTATTCTCGGTTGTGAAAAA
1 ATAA-AACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGAAAAA
* *
236822 TTGATGATTTGGAA
65 TTGATGTTTTAGAA
* * * * * * *
236836 ATAAAATCG-GGATTGGAGCATCCCCTCGGAAATAACGGAGTTGGAGGATCCCCGACTATAAAAA
1 ATAAAA-CGAGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGAAAA
236900 ATTGATGTTTTAGAA
64 ATTGATGTTTTAGAA
*
236915 ATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-TCCCTGATTATGAGAA
1 ATAAAA-CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCC-GATTATGAAAA
* *
236979 ATTAATATTTTAGAA
64 ATTGATGTTTTAGAA
* * ** *
236994 ATAAAGGCGAGGTT-GAGGAT--CCTAAAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAA
1 ATAAA-ACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGAAAAA
237053 TTGATGTTTTAGAA
65 TTGATGTTTTAGAA
*
237067 ATAAAACTGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
1 ATAAAAC-GAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGAAAAA
237132 TTGATGTTTTAGAA
65 TTGATGTTTTAGAA
*
237146 ATAAAACCGGGGTTGGAGTATCCC
1 ATAAAA-CGAGGTTGGAGTATCCC
237170 TGAGATTAAA
Statistics
Matches: 283, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.00
73 30 0.11
74 5 0.02
76 53 0.19
77 3 0.01
78 12 0.04
79 176 0.62
80 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (78 bp):
ATAAAACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGAAAAAT
TGATGTTTTAGAA
Found at i:237160 original size:152 final size:154
Alignment explanation
Indices: 236767--237170 Score: 508
Period size: 152 Copynumber: 2.6 Consensus size: 154
236757 ATAATAACGG
* * * * * * *
236767 GGTTGGAGTATCCCCTTGAAAATAACGGGATTGGAGTATTCTCGGTTGTGAAAAATTGATGATTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
* * * ***
236832 GGAAATAAAATCGGGATTGGAGCATCCCCTCGGAAATAACGGAGTTGGAGGATCCCCGACTATAA
66 AGAAATAAAACCGGGGTT-GAGCAT-CCCTAAAAAATAACGGAGTTGGAGGATCCCCGA--ATAA
236897 AAAATTGATGTTTTAGAAATAAAATCGA
127 AAAATTGATGTTTTAGAAATAAAATCGA
* * * *
236925 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATTAATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
** * * * * *
236990 AGAAATAAAGGCGAGGTTGAGGAT-CCTAAAAAATAACGGGGTTGGAGTATCCCCG-ATGAAAAA
66 AGAAATAAAACCGGGGTTGAGCATCCCTAAAAAATAACGGAGTTGGAGGATCCCCGAATAAAAAA
237053 TTGATGTTTTAGAAATAAAA-CTGA
131 TTGATGTTTTAGAAATAAAATC-GA
237077 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
*
237142 AGAAATAAAACCGGGGTTGGAGTATCCCT
66 AGAAATAAAACCGGGGTT-GAGCATCCCT
237171 GAGATTAAAA
Statistics
Matches: 212, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
151 1 0.00
152 105 0.50
153 5 0.02
154 3 0.01
155 26 0.12
157 5 0.02
158 67 0.32
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (154 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
AGAAATAAAACCGGGGTTGAGCATCCCTAAAAAATAACGGAGTTGGAGGATCCCCGAATAAAAAA
TTGATGTTTTAGAAATAAAATCGA
Found at i:239422 original size:40 final size:39
Alignment explanation
Indices: 239378--239477 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 39
239368 GTCCCACTTT
* * *
239378 TTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAAAGGAAAT-GGTCCTGCTCC
* *
239418 TTGAGGACAAAGGAAGAGAAGAAAAGGAAATTGTCCTGCTTC
1 TTGAGGACAAAGG-A-A-AAGAAAAGGAAATGGTCCTGCTCC
239460 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
239478 AGAGTATGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
40 15 0.29
41 2 0.04
42 22 0.43
43 12 0.24
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (39 bp):
TTGAGGACAAAGGAAAAGAAAAGGAAATGGTCCTGCTCC
Found at i:239572 original size:42 final size:42
Alignment explanation
Indices: 239494--239586 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
239484 TGTCCCATTT
*
239494 TTTGAGGACAAAGGAAAAAGGGAAACAAAATACATCCTGCTC
1 TTTGAGGACAAAGGAAAAAGGAAAACAAAATACATCCTGCTC
* * * *
239536 TTTGAGGACGAAA-GAAAGAGGAAAATAAAGTGCATCCTGCTC
1 TTTGAGGAC-AAAGGAAAAAGGAAAACAAAATACATCCTGCTC
239578 TTTGAGGAC
1 TTTGAGGAC
239587 TAAAAAGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 42 0.93
43 3 0.07
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (42 bp):
TTTGAGGACAAAGGAAAAAGGAAAACAAAATACATCCTGCTC
Found at i:239714 original size:55 final size:55
Alignment explanation
Indices: 239570--240154 Score: 642
Period size: 55 Copynumber: 10.3 Consensus size: 55
239560 ATAAAGTGCA
* ** *
239570 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG---A--A-AGGCG
** * *
239631 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
239686 TCCTGCTTTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
239741 TCTTGCTCTTTGAGGATTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
239796 TCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
239857 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * **
239912 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAACG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
239967 TCCTGCTCTTTGAGGACT-GAAAGGTACCACCAACTTGTGTGAGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
240022 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
240083 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG--TTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
240137 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
240155 AAAGGGCGAA
Statistics
Matches: 455, Mismatches: 49, Indels: 47
0.83 0.09 0.09
Matches are distributed among these distances:
53 1 0.00
54 28 0.06
55 279 0.61
56 7 0.02
58 1 0.00
60 2 0.00
61 114 0.25
62 23 0.05
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:239773 original size:171 final size:169
Alignment explanation
Indices: 239570--240159 Score: 735
Period size: 171 Copynumber: 3.5 Consensus size: 169
239560 ATAAAGTGCA
** *
239570 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAGAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA--AGAGGCGTCC
* * *
239634 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCATCCTGCTTTTTAA
63 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCATCCTGCTCTTTGA
239699 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
128 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
239741 TCTTGCTCTTTGAGGATTAGAAAA-TGCCACCAACTTGTGTGGGCTTT---AAGAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGGCGTCCTGC
* ** * ** *
239802 TCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTACTCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTT-----G-AAAGGCATCCTGCTCTT
* *
239867 TGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
125 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
239912 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAA-A--CGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGGCGTCCTGC
* *
239973 TCTTTGAGGACTGAAAGGTACCACCAACTTGTG-TGAGCTTTAAAAGGCATCCTGCTCTTTGAGG
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTG-GCTTTGAAAGGCATCCTGCTCTTTGAGG
240037 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
130 ACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
240083 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG--TT--AAA-AGGCGTCCTAC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGGCGTCCTGC
240143 TCTTTGAGGACT-AAAGG
66 TCTTTGAGGACTGAAAGG
240160 GCGAAAGGAG
Statistics
Matches: 365, Mismatches: 33, Indels: 44
0.83 0.07 0.10
Matches are distributed among these distances:
165 97 0.27
167 1 0.00
168 4 0.01
169 5 0.01
170 26 0.07
171 203 0.56
172 26 0.07
173 1 0.00
174 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGGCGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:239976 original size:226 final size:227
Alignment explanation
Indices: 239562--240155 Score: 831
Period size: 226 Copynumber: 2.6 Consensus size: 227
239552 AGAGGAAAAT
** * *
239562 AAAGTGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAG
1 AAAG-GCATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
* ** * *
239626 AGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTTGGCTTTGAAAGGCATCCTG
64 AGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
* * * ** *
239691 CTTTTTAAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
129 CTCTTTGAGGACTAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTGCTCTTTGAG
* * *
239755 GATTAGAAA-ATGCCACCAACTTGTGTGGGCTTTA
194 GACT-GAAAGATACCACCAACTTGTGTGAGCTTTA
* * * *
239789 AGAGGCGTCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAG
* *
239854 GTGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCT
66 GTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
239919 CTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTGCTCTTTGAGGA
131 CTTTGAGGACTAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTGCTCTTTGAGGA
*
239983 CTGAAAGGTACCACCAACTTGTGTGAGCTTTA
196 CTGAAAGATACCACCAACTTGTGTGAGCTTTA
* *
240015 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAG
* * *
240080 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG--TTAAAAGGCGTCCTAC
66 GTGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
240143 TCTTTGAGGACTA
130 TCTTTGAGGACTA
240156 AAGGGCGAAA
Statistics
Matches: 326, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
225 31 0.10
226 267 0.82
227 28 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (227 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAG
GTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAACGTCCTGCTCTTTGAGGA
CTGAAAGATACCACCAACTTGTGTGAGCTTTA
Found at i:240157 original size:26 final size:26
Alignment explanation
Indices: 240075--240162 Score: 61
Period size: 26 Copynumber: 3.3 Consensus size: 26
240065 CTTTGAAAGG
*
240075 AAAAGGCGTCCTGCTCTTTGAGGACT
1 AAAAGGCGTCCTACTCTTTGAGGACT
** * * * **
240101 AGAAAAGTGCCACCAACT-TGTGTGGGTT
1 --AAAAG-GCGTCCTACTCTTTGAGGACT
240129 AAAAGGCGTCCTACTCTTTGAGGACT
1 AAAAGGCGTCCTACTCTTTGAGGACT
*
240155 AAAGGGCG
1 AAAAGGCG
240163 AAAGGAGAGA
Statistics
Matches: 42, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
25 7 0.17
26 18 0.43
28 11 0.26
29 6 0.14
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (26 bp):
AAAAGGCGTCCTACTCTTTGAGGACT
Found at i:241252 original size:1 final size:1
Alignment explanation
Indices: 241248--241315 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
241238 CTTTTCTCTC
* * * * * * * * *
241248 TTTTTTCTTTGTTTTGTTTTTTTTTTTATTTTTTGTTTTTGTTTTTTTTTTATTTTTGTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
241313 TTT
1 TTT
241316 AGAAGAGAAG
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:241281 original size:19 final size:19
Alignment explanation
Indices: 241249--241315 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
241239 TTTTCTCTCT
241249 TTTTTCTTTGTTTTGTTTTT-
1 TTTTT-TTT-TTTTGTTTTTG
241269 TTTTTTATTTTTTGTTTTTG
1 TTTTTT-TTTTTTGTTTTTG
*
241289 --TTTTTTTTTTATTTTTG
1 TTTTTTTTTTTTGTTTTTG
241306 TTATTTTTTT
1 TT-TTTTTTT
241316 AGAAGAGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
17 12 0.29
18 4 0.10
19 11 0.27
20 14 0.34
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTTTGTTTTTG
Found at i:241291 original size:30 final size:33
Alignment explanation
Indices: 241255--241314 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
241245 CTCTTTTTTC
241255 TTTG-TTTTGTTTT-TTTTT-TTATTTTTTGTT
1 TTTGTTTTTGTTTTATTTTTGTTATTTTTTGTT
*
241285 TTTGTTTTTTTTTTATTTTTGTTATTTTTT
1 TTTGTTTTTGTTTTATTTTTGTTATTTTTT
241315 TAGAAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 5 0.19
33 9 0.35
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (33 bp):
TTTGTTTTTGTTTTATTTTTGTTATTTTTTGTT
Found at i:241303 original size:17 final size:17
Alignment explanation
Indices: 241249--241316 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
241239 TTTTCTCTCT
*
241249 TTTTTCTTTGTTTTGTTT-
1 TTTTTGTTT-TTTT-TTTA
* *
241267 TTTTT-TTTATTTTTTG
1 TTTTTGTTTTTTTTTTA
241283 TTTTTGTTTTTTTTTTA
1 TTTTTGTTTTTTTTTTA
*
241300 TTTTTGTTATTTTTTTA
1 TTTTTGTTTTTTTTTTA
241317 GAAGAGAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
15 3 0.07
16 8 0.18
17 28 0.64
18 5 0.11
ACGTcount: A:0.06, C:0.01, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTA
Found at i:241312 original size:25 final size:25
Alignment explanation
Indices: 241255--241304 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
241245 CTCTTTTTTC
241255 TTTG-TTTTGTTTTTTTTTTTATTT
1 TTTGTTTTTGTTTTTTTTTTTATTT
241279 TTTGTTTTTG-TTTTTTTTTTATTT
1 TTTGTTTTTGTTTTTTTTTTTATTT
241303 TT
1 TT
241305 GTTATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTGTTTTTGTTTTTTTTTTTATTT
Found at i:250340 original size:20 final size:19
Alignment explanation
Indices: 250294--250370 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
250284 TCATACCCTG
* *
250294 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACA-TTATCA
* *
250314 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
* *
250334 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTAT-CA
250354 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
250371 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:250361 original size:40 final size:39
Alignment explanation
Indices: 250294--250371 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
250284 TCATACCCTG
* * *
250294 ATGTATCGATGCATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
250334 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
250372 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:251306 original size:23 final size:23
Alignment explanation
Indices: 251279--251334 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
251269 AGCCTTTGAC
251279 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
251302 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
251324 CATGCATTTTT
1 CATGCATTTTT
251335 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:251341 original size:20 final size:21
Alignment explanation
Indices: 251287--251341 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
251277 ACCATGCATT
**
251287 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
251308 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
251330 -TTTTTAACATGT
1 TTTTTTAACATGT
251342 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:253978 original size:51 final size:52
Alignment explanation
Indices: 253869--253981 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
253859 ACAACGGGGC
* * * *
253869 TAGAGTATCCTCGATTATGGAAAAACGGTGTTCTAAAAAATAAAATCGGGGT
1 TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAACCGAGGT
* * *
253921 TAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAACCGAGGT
1 TAGAGTATCCCCGATTATGGAAAAA-CGATGTTCTAAAAAATAAAACCGAGGT
*
253972 TGGAGTATCC
1 TAGAGTATCC
253982 TCTCGAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
51 30 0.58
52 22 0.42
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (52 bp):
TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAACCGAGGT
Done.