Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr7
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: 32089248
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 951031 characters in sequence are not A, C, G, or T
File 51 of 100
Found at i:15896449 original size:26 final size:26
Alignment explanation
Indices: 15896420--15896517 Score: 112
Period size: 26 Copynumber: 3.8 Consensus size: 26
15896410 GAGGAAGTGC
15896420 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
* **
15896446 AAAATGGCTTAT-CCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCT-AGTTTATTG
*
15896472 AAAAGAGCTTATGCTCC-AGTTTATTG
1 AAAAGGGCTTATGC-CCTAGTTTATTG
*
15896498 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCTAGTT
15896518 ATTAAAGAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
24 2 0.03
25 11 0.18
26 44 0.73
27 1 0.02
28 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTATTG
Found at i:15896720 original size:42 final size:42
Alignment explanation
Indices: 15896661--15896752 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
15896651 TAGTCTCCCC
*
15896661 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
15896703 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
15896745 ATATGGGC
1 AAATGGGC
15896753 CTGTGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:15896854 original size:31 final size:31
Alignment explanation
Indices: 15896776--15896847 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
15896766 CGTTTACAAT
15896776 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
15896807 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
15896838 AAAGGCTTCG
1 AAAGGCTTCG
15896848 TTCCAGTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:15899593 original size:43 final size:41
Alignment explanation
Indices: 15899518--15899641 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 41
15899508 AGGATTTTGA
* * *
15899518 TATGTGCTCTCGTGTAAGACCACGTCTAGGACATTGGCATAG
1 TATGTGAT-TCGTGTAAGACCATGTCTGGGACATTGGCATAG
* * *
15899560 ATATGTGATTACGTGTAAGACCATGTTTGGGACATCT-GTATCG
1 -TATGTGATT-CGTGTAAGACCATGTCTGGGACAT-TGGCATAG
* * * *
15899603 TATTTGATTCGTGTAAGACCCTATCTGGGACAGTGGCAT
1 TATGTGATTCGTGTAAGACCATGTCTGGGACATTGGCAT
15899642 CGATTTACCG
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.02
41 23 0.35
42 9 0.14
43 32 0.48
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TATGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATAG
Found at i:15900435 original size:17 final size:18
Alignment explanation
Indices: 15900413--15900454 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
15900403 CATGTTTACA
15900413 TGGTTGAGTA-AATGA-TG
1 TGGTTGA-TATAATGATTG
*
15900430 TGGTTGATATATTGATTG
1 TGGTTGATATAATGATTG
15900448 TGGTTGA
1 TGGTTGA
15900455 CATATTCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (18 bp):
TGGTTGATATAATGATTG
Found at i:15904880 original size:18 final size:17
Alignment explanation
Indices: 15904855--15904896 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
15904845 TAACATTAGC
* *
15904855 TTCTTTTATTTTTATTT
1 TTCTTTTATGTTTATGT
15904872 TTACTTTTATGTTTATGT
1 TT-CTTTTATGTTTATGT
15904890 TTCTTTT
1 TTCTTTT
15904897 TCTTCTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (17 bp):
TTCTTTTATGTTTATGT
Found at i:15904896 original size:24 final size:23
Alignment explanation
Indices: 15904858--15904921 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
15904848 CATTAGCTTC
*
15904858 TTTTATTTTTATTTTTACTT-TTATG
1 TTTTA-TTTTCTTTTT-CTTCTT-TG
15904883 -TTTATGTTTCTTTTTCTTCTTTG
1 TTTTAT-TTTCTTTTTCTTCTTTG
15904906 TTTCTATTTTCTTTTT
1 TTT-TATTTTCTTTTT
15904922 GATTCTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
23 6 0.18
24 25 0.74
25 3 0.09
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTATTTTCTTTTTCTTCTTTG
Found at i:15904907 original size:17 final size:16
Alignment explanation
Indices: 15904887--15904932 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 16
15904877 TTTATGTTTA
15904887 TGTTTCTTTTTCTTCTT
1 TGTTTCTTTTTCTT-TT
15904904 TGTTTCTATTTTCTTTT
1 TGTTTCT-TTTTCTTTT
15904921 TGATTCTCTTTT
1 TG-TT-TCTTTT
15904933 ACTGTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.42
18 12 0.46
19 3 0.12
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.74
Consensus pattern (16 bp):
TGTTTCTTTTTCTTTT
Found at i:15905696 original size:103 final size:102
Alignment explanation
Indices: 15905556--15905800 Score: 273
Period size: 103 Copynumber: 2.4 Consensus size: 102
15905546 CACAGCTAAG
* * * *
15905556 AACACGGGTATGTGCCTAGGCCGTGTAACTCACTGTTTGTGGCACAA-GACCACACGGATAAGAA
1 AACACGGGTGTGT-CC-AGGCCGTGTAATTCATTGTTTGTGGCACAAGGA-AACACGGATAAGAA
15905620 CACGGG-GATGTGTCCAGGTCGTATGAGTCACACG-GCCAGA
63 CACGGGCG-TGTGTCCAGGTCGTATGAGTCACACGCG-CAGA
* ** *
15905660 AACACGGTGTGTGTCCAGGCCGTGTAATTCATTGTTTGTGGCACAAGGAAACACGGCTTGGGACA
1 AACACGG-GTGTGTCCAGGCCGTGTAATTCATTGTTTGTGGCACAAGGAAACACGGATAAGAACA
* * *
15905725 CGGGCGTGTGTCTAGGTCGTGTGAGTCCCACGCGCAGA
65 CGGGCGTGTGTCCAGGTCGTATGAGTCACACGCGCAGA
*
15905763 AACATGGGCATGTGTCCAGGCCGTGTAACTT-ATTGTTT
1 AACACGGG--TGTGTCCAGGCCGTGTAA-TTCATTGTTT
15905801 ATGCTTCGAA
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
102 1 0.01
103 76 0.62
104 38 0.31
105 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (102 bp):
AACACGGGTGTGTCCAGGCCGTGTAATTCATTGTTTGTGGCACAAGGAAACACGGATAAGAACAC
GGGCGTGTGTCCAGGTCGTATGAGTCACACGCGCAGA
Found at i:15907462 original size:70 final size:66
Alignment explanation
Indices: 15907353--15907484 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 66
15907343 ATAAACAATA
* * *
15907353 TAATGGTTTTGCTTTTAACTTAATGGATAAACATTTATCAAAATGATGTAGTTTTGCCTTTTATC
1 TAATGGTTTTGCTTTTAACTTAAAGGATAAACATTTATCAAAACGACGTAGTTTTGCCTTTTATC
15907418 T
66 T
15907419 TAATGGTTTTGACTTTTAACTTTACAAAAGG-TAAACATTTATCAAAACGACGTAGTTTTGCCTT
1 TAATGGTTTTG-CTTTTAAC-TT---AAAGGATAAACATTTATCAAAACGACGTAGTTTTGCCTT
15907483 TT
61 TT
15907485 CTTATTCAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
66 11 0.19
67 8 0.14
68 2 0.03
70 33 0.57
71 4 0.07
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (66 bp):
TAATGGTTTTGCTTTTAACTTAAAGGATAAACATTTATCAAAACGACGTAGTTTTGCCTTTTATC
T
Found at i:15918331 original size:44 final size:44
Alignment explanation
Indices: 15918266--15918350 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
15918256 TTGATATCTC
* *
15918266 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACCGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACCGA
* * *
15918310 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGAC
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGAC
15918351 GGTTAAGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACCGA
Found at i:15918546 original size:44 final size:47
Alignment explanation
Indices: 15918484--15918602 Score: 199
Period size: 44 Copynumber: 2.6 Consensus size: 47
15918474 GCATTGGCAC
*
15918484 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
15918531 T-A-A-AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
15918575 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
15918603 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
44 42 0.62
45 2 0.03
46 2 0.03
47 22 0.32
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:15918786 original size:108 final size:108
Alignment explanation
Indices: 15918589--15918802 Score: 295
Period size: 108 Copynumber: 2.0 Consensus size: 108
15918579 ATAAGGATAT
**
15918589 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCTTGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * * *
15918654 TTGTAAAGACATGGGATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTAAAGACATGGCAATGATGAGTT-CAAAAAGGAAAAGGTCC
* * * *
15918698 CATGTAAGGCCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
15918762 ATGTCAAGACATGGCAATGGTGAGTTCAAAAAGGAAAAGGT
66 ATGTAAAGACATGGCAATGATGAGTTCAAAAAGGAAAAGGT
15918803 TCCTGAGTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 13 0.14
108 44 0.48
109 35 0.38
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTAAAGACATGGCAATGATGAGTTCAAAAAGGAAAAGGTCC
Found at i:15918912 original size:16 final size:17
Alignment explanation
Indices: 15918891--15918923 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15918881 CTTATTTAAT
15918891 ATTGAGATTGT-AAGTA
1 ATTGAGATTGTCAAGTA
15918907 ATTGAGATTGTCAAGTA
1 ATTGAGATTGTCAAGTA
15918924 CTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (17 bp):
ATTGAGATTGTCAAGTA
Found at i:15922312 original size:78 final size:78
Alignment explanation
Indices: 15922222--15922365 Score: 243
Period size: 78 Copynumber: 1.8 Consensus size: 78
15922212 CGGGATTTAT
* * ** *
15922222 CCCGGATATAATACCAGCATGAAGCCTGCGGGATTTAACCCAGATATTTTACCAGTACGAAGCCT
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCT
15922287 GCGGGTCTTTAAG
66 GCGGGTCTTTAAG
15922300 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCT
15922365 G
66 G
15922366 TCGGATTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (78 bp):
CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGCCT
GCGGGTCTTTAAG
Found at i:15922322 original size:40 final size:38
Alignment explanation
Indices: 15922210--15922385 Score: 237
Period size: 38 Copynumber: 4.6 Consensus size: 38
15922200 GCACTAGGCT
* * *
15922210 TGCGGGATTTATCCCGGATATAATACCAGCATGAAGCC
1 TGCGGGATTTAACCCAGATATAATACCAGCACGAAGCC
** *
15922248 TGCGGGATTTAACCCAGATATTTTACCAGTACGAAGCC
1 TGCGGGATTTAACCCAGATATAATACCAGCACGAAGCC
* * *
15922286 TGCGGGTCTTTAAGCCCGGATATAATACCAACACGAAGCC
1 TGCGGG-ATTTAA-CCCAGATATAATACCAGCACGAAGCC
15922326 TGCGGGATTTAACCCAGATATAATACCAGCACGAAGCC
1 TGCGGGATTTAACCCAGATATAATACCAGCACGAAGCC
15922364 TGTC-GGATTTAACCCAGATATA
1 TG-CGGGATTTAACCCAGATATA
15922386 CATCGAATAT
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 82 0.68
39 11 0.09
40 27 0.22
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
TGCGGGATTTAACCCAGATATAATACCAGCACGAAGCC
Found at i:15926978 original size:17 final size:16
Alignment explanation
Indices: 15926952--15926983 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15926942 CACGAAAAAG
15926952 TAAACTTAGTAAGCTA
1 TAAACTTAGTAAGCTA
15926968 TAAAGCTTAGTAAGCT
1 TAAA-CTTAGTAAGCT
15926984 CTTATAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
TAAACTTAGTAAGCTA
Found at i:15932878 original size:19 final size:20
Alignment explanation
Indices: 15932844--15932884 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15932834 CTAGACAGGT
* *
15932844 AACTTAGGAAATTTTTAGAA
1 AACTTAGGAAAATTTTACAA
15932864 AACTTA-GAAAATTTTACAA
1 AACTTAGGAAAATTTTACAA
15932883 AA
1 AA
15932885 TATAGGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
AACTTAGGAAAATTTTACAA
Found at i:15936631 original size:11 final size:10
Alignment explanation
Indices: 15936611--15936640 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
15936601 TAATTTTAGG
15936611 TTTAGTTTTC
1 TTTAGTTTTC
15936621 TTTATGTTTTC
1 TTTA-GTTTTC
15936632 TTTAGTTTT
1 TTTAGTTTT
15936641 TCTCTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:15940006 original size:12 final size:12
Alignment explanation
Indices: 15939911--15940007 Score: 50
Period size: 12 Copynumber: 8.4 Consensus size: 12
15939901 CATTATTTTA
15939911 ATTTAATATTAA-
1 ATTTAAT-TTAAT
15939923 ATTTAATTTAAT
1 ATTTAATTTAAT
*
15939935 ACTT-ATCTTAAT
1 ATTTAAT-TTAAT
*
15939947 A-GT-ATTT--T
1 ATTTAATTTAAT
15939955 A-TTAATTTAAT
1 ATTTAATTTAAT
* *
15939966 ATTCAA-GTAAT
1 ATTTAATTTAAT
15939977 AATCTTAATATTAA-
1 -AT-TTAAT-TTAAT
15939991 ATTTAATTTAAT
1 ATTTAATTTAAT
15940003 ATTTA
1 ATTTA
15940008 TCTTGAAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 19 0.28
12 31 0.46
13 5 0.07
15 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (12 bp):
ATTTAATTTAAT
Found at i:15947587 original size:40 final size:40
Alignment explanation
Indices: 15947443--15947570 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
15947433 AGCCTTCAAG
* * * *
15947443 GCATTAGTGGCACTTTTTCAAGAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAA-AAACACCGCTATAGATCGA
* *
15947484 G-ATTTAGCTGCGCTTTTTGAAAAACACTGCTATAGATCGA
1 GCA-TTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
*
15947524 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
15947564 GCATTAG
1 GCATTAG
15947571 TGGTGTTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 60 0.79
41 16 0.21
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
Found at i:15947922 original size:18 final size:17
Alignment explanation
Indices: 15947885--15947919 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
15947875 TATATAACTG
15947885 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
15947902 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
15947918 AT
1 AT
15947920 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:15951714 original size:9 final size:9
Alignment explanation
Indices: 15951688--15951754 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
15951678 GTTTAAATTT
*
15951688 CATAACTTA
1 CATAACTCA
*
15951697 CAAAACTCA
1 CATAACTCA
*
15951706 CATACCTCA
1 CATAACTCA
*
15951715 CATAACTTA
1 CATAACTCA
15951724 CATAACTCA
1 CATAACTCA
*
15951733 CATAACTTA
1 CATAACTCA
* *
15951742 GATAACTTA
1 CATAACTCA
15951751 CATA
1 CATA
15951755 TATAATACAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (9 bp):
CATAACTCA
Found at i:15951730 original size:27 final size:27
Alignment explanation
Indices: 15951688--15951754 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
15951678 GTTTAAATTT
* *
15951688 CATAACTTACAAAACTCACATACCTCA
1 CATAACTTACATAACTCACATAACTCA
*
15951715 CATAACTTACATAACTCACATAACTTA
1 CATAACTTACATAACTCACATAACTCA
*
15951742 GATAACTTACATA
1 CATAACTTACATA
15951755 TATAATACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (27 bp):
CATAACTTACATAACTCACATAACTCA
Found at i:15957724 original size:43 final size:43
Alignment explanation
Indices: 15957669--15957933 Score: 277
Period size: 43 Copynumber: 6.2 Consensus size: 43
15957659 AGAACGTGAC
* * * *
15957669 CTTTAGCAGCGTTTTCCAAAAAAGCGCCACTAAATGTCAAGTT
1 CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
* *
15957712 CTTTAACGGCGTTTTCCCAAAAAGCGCCGCT-AAAGATCACGTT
1 CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAG-TCAAGTT
* * * *
15957755 CTTTAGCGACGTTTGCCCAAAAAGCGTCGCTAAATGTCAAGTT
1 CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
* * *
15957798 CTTTAGCGGCGTTTGCCCAAAAAGTGCCGCTAAAGGTCACA-TT
1 CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAGTCA-AGTT
** * * *
15957841 CTTTAGCGGTATTTTTCCC-AAATGCGCCGCTAAAAATCACGTT
1 CTTTAGCGG-CGTTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
* ** *
15957884 CTTTAGCGGCGTTTT-TCTGAAAGCGCCGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
15957926 CTTTAGCG
1 CTTTAGCG
15957934 ACTTTTTTTT
Statistics
Matches: 185, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 35 0.19
43 139 0.75
44 10 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
Found at i:15957745 original size:86 final size:85
Alignment explanation
Indices: 15957645--15957832 Score: 245
Period size: 86 Copynumber: 2.2 Consensus size: 85
15957635 CATTTGAGAT
* *
15957645 AAAATCGCCGCTAAAGA-ACGTGACCTTTAGC-AGCGTTTTCCAAAAAAGCGCCACTAAATGTCA
1 AAAAGCGCCGCTAAAGACACGT--CCTTTAGCGA-CGTTTGCCAAAAAAGCGCCACTAAATGTCA
*
15957708 AGTTCTTTAACGGCGTTTTCCCA
63 AGTTCTTTAACGGCGTTTGCCCA
* * * *
15957731 AAAAGCGCCGCTAAAGATCACGTTCTTTAGCGACGTTTGCCCAAAAAGCGTCGCTAAATGTCAAG
1 AAAAGCGCCGCTAAAGA-CACGTCCTTTAGCGACGTTTGCCAAAAAAGCGCCACTAAATGTCAAG
*
15957796 TTCTTTAGCGGCGTTTGCCCA
65 TTCTTTAACGGCGTTTGCCCA
*
15957817 AAAAGTGCCGCTAAAG
1 AAAAGCGCCGCTAAAG
15957833 GTCACATTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
86 85 0.94
87 1 0.01
88 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAGACACGTCCTTTAGCGACGTTTGCCAAAAAAGCGCCACTAAATGTCAAGT
TCTTTAACGGCGTTTGCCCA
Found at i:15957831 original size:129 final size:128
Alignment explanation
Indices: 15957669--15957933 Score: 318
Period size: 129 Copynumber: 2.1 Consensus size: 128
15957659 AGAACGTGAC
* * * *
15957669 CTTTAGCAGCGTTTTCCAAAAAAGCGCCACTAAATGTCA-AGTTCTTTAACGG-CGTTTTCCCAA
1 CTTTAGCGGCGTTTGCCAAAAAAGCGCCACTAAAGGTCACA-TTCTTTAACGGTAGTTTTCCC-A
* * *
15957732 AAAGCGCCGCTAAAGATCACGTTCTTTAGCGACGTTTGCCCAAAAAGCGTCGCTAAATGTCAAGT
64 AAAGCGCCGCTAAAAATCACGTTCTTTAGCGACGTTT-CCCAAAAAGCGCCGCTAAAAGTCAAGT
15957797 T
128 T
* * * * *
15957798 CTTTAGCGGCGTTTGCCCAAAAAGTGCCGCTAAAGGTCACATTCTTTAGCGGTATTTTTCCCAAA
1 CTTTAGCGGCGTTTGCCAAAAAAGCGCCACTAAAGGTCACATTCTTTAACGGTAGTTTTCCCAAA
* * ** ** *
15957863 TGCGCCGCTAAAAATCACGTTCTTTAGCGGCGTTTTTCTGAAAGCGCCGCTAAAAGTCATGTT
66 AGCGCCGCTAAAAATCACGTTCTTTAGCGACGTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
15957926 CTTTAGCG
1 CTTTAGCG
15957934 ACTTTTTTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
128 29 0.25
129 78 0.68
130 8 0.07
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (128 bp):
CTTTAGCGGCGTTTGCCAAAAAAGCGCCACTAAAGGTCACATTCTTTAACGGTAGTTTTCCCAAA
AGCGCCGCTAAAAATCACGTTCTTTAGCGACGTTTCCCAAAAAGCGCCGCTAAAAGTCAAGTT
Found at i:15958436 original size:30 final size:30
Alignment explanation
Indices: 15958401--15958461 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15958391 AGACATACAA
15958401 AAAACAAACAAACAATTTGTTAATTTTTTC
1 AAAACAAACAAACAATTTGTTAATTTTTTC
15958431 AAAACAAACAAACAATTTGTTAATTTTTTC
1 AAAACAAACAAACAATTTGTTAATTTTTTC
15958461 A
1 A
15958462 TTGCTTCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAACAAACAAACAATTTGTTAATTTTTTC
Found at i:15961517 original size:24 final size:25
Alignment explanation
Indices: 15961490--15961541 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
15961480 ACCTAGCCTC
15961490 TTTTAAT-AACTGGAGAAAAGCCCT
1 TTTTAATAAACTGGAGAAAAGCCCT
* * *
15961514 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGAAAAGCCCT
15961539 TTT
1 TTT
15961542 CGGTAAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGAGAAAAGCCCT
Found at i:15961525 original size:25 final size:25
Alignment explanation
Indices: 15961497--15961566 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
15961487 CTCTTTTAAT
* * *
15961497 AACTGGAGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
15961522 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
15961547 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
15961567 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:15961862 original size:81 final size:81
Alignment explanation
Indices: 15961777--15962713 Score: 1739
Period size: 81 Copynumber: 11.6 Consensus size: 81
15961767 ATGGTAGTTT
* * * * * * * **
15961777 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15961842 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15961858 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15961923 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15961939 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962004 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962020 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962085 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962101 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962166 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962182 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962247 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962263 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962328 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962344 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962409 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
15962425 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962490 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
**
15962506 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTACAGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962571 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
*
15962587 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATAGG
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
15962652 GGTATTTCGGTAATTC
66 GGTATTTCGGTAATTC
* * *
15962668 TACCCTACAGGGGTATTTCAGTAATTCTACCCTACAATGGTATTTC
1 TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
15962714 AGTATTTTAC
Statistics
Matches: 841, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 841 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (81 bp):
TACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAGTTCTACCCTATTGG
GGTATTTCGGTAATTC
Found at i:15962717 original size:27 final size:27
Alignment explanation
Indices: 15961777--15962713 Score: 1388
Period size: 27 Copynumber: 34.7 Consensus size: 27
15961767 ATGGTAGTTT
* * * *
15961777 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
15961804 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
15961831 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15961858 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15961885 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15961912 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15961939 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15961966 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15961993 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962020 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962047 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962074 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962101 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962128 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962155 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962182 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962209 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962236 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962263 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962290 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962317 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962344 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962371 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962398 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962425 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962452 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962479 TACCCTATTGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962506 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962533 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
15962560 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962587 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
15962614 TACCCTACAAGGGTATTTCGGTAGTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962641 TACCCTATAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
15962668 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
**
15962695 TACCCTACAATGGTATTTC
1 TACCCTACAGGGGTATTTC
15962714 AGTATTTTAC
Statistics
Matches: 819, Mismatches: 91, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 819 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:15962845 original size:81 final size:81
Alignment explanation
Indices: 15962758--15962937 Score: 270
Period size: 81 Copynumber: 2.2 Consensus size: 81
15962748 CACAAATTAG
* * * * *
15962758 GGGTATTTTGGTAATTTTACAAACCATGGGTATTTTGGTAATTTTATAAGCCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGTATTTTGG
15962823 TAATTTTATAAACCAA
66 TAATTTTATAAACCAA
* * *
15962839 GGGTATTTTAGTAAATTTACAAACCAAGGGTATTTTGGTAAATTTGCAAACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGTATTTTGG
*
15962904 TAATTTTGTAAACCAA
66 TAATTTTATAAACCAA
*
15962920 GGGTATTTCAGTAATTTT
1 GGGTATTTTAGTAATTTT
15962938 TTAAATTGAG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAAATTTACAAACCAGGGGTATTTTGG
TAATTTTATAAACCAA
Found at i:15962942 original size:27 final size:27
Alignment explanation
Indices: 15962758--15962942 Score: 226
Period size: 27 Copynumber: 6.9 Consensus size: 27
15962748 CACAAATTAG
* *
15962758 GGGTATTTTGGTAATTTTACAAACCAT
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
15962785 GGGTATTTTGGTAATTTTATAAGCCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
15962812 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
15962839 GGGTATTTTAGTAAATTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** * *
15962866 GGGTATTTTGGTAAATTTGCAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
15962893 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
** *
15962920 GGGTATTTCAGTAATTTTTTAAA
1 GGGTATTTTGGTAATTTTATAAA
15962943 TTGAGGGTAA
Statistics
Matches: 139, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:15962978 original size:81 final size:80
Alignment explanation
Indices: 15962812--15963213 Score: 241
Period size: 81 Copynumber: 5.0 Consensus size: 80
15962802 TATAAGCCAG
* * * * * ****
15962812 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAAATTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTTAGTAATTTTATAAATCGAGGGTAAAACGG
* * *
15962877 TAAATTTGCAAACT-A
65 TAATTTTGTAAATTGA
* *
15962892 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTTTAAATTGAGGGTAAAACG
1 -GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT-AGTAATTTTATAAATCGAGGGTAAAACG
15962957 GTAATTTTGTAAATTGA
64 GTAATTTTGTAAATTGA
*** * * * * ** * *
15962974 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGT-ATTTAGTAATTTTATAAATCGAGGGTAAAACGG
* *
15963039 TAATTCTGTAAATCGA
65 TAATTTTGTAAATTGA
**** * * * * ** * * * * *
15963055 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGCAATTCTATAAATCGAGCGTAAAATGG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGT-ATTTAGTAATTTTATAAATCGAGGGTAAAACGG
* * *
15963120 TAATTCTATAAATCGA
65 TAATTTTGTAAATTGA
*** * * ** * *
15963136 GGGTAAAATGGTAATTTTGTAAATCGAGGGT-TAAACGATAATTCTATAAATCGAGGGTAAAATG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTA-G-TAATTTTATAAATCGAGGGTAAAACG
15963200 GTAATTTTGTAAAT
64 GTAATTTTGTAAAT
15963214 CAAGGGTTAA
Statistics
Matches: 268, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.00
80 4 0.01
81 260 0.97
82 3 0.01
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAGTAATTTTATAAATCGAGGGTAAAACGGT
AATTTTGTAAATTGA
Found at i:15963214 original size:27 final size:27
Alignment explanation
Indices: 15962930--15963248 Score: 386
Period size: 27 Copynumber: 11.8 Consensus size: 27
15962920 GGGTATTTCA
* * * *
15962930 GTAATTTTTTAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
15962957 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
*
15962984 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
15963011 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
15963038 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
15963065 ATAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
15963092 GCAATTCTATAAATCGAGCGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
15963119 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
15963146 GTAATTTTGTAAATCGAGGGTTAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
15963173 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * * *
15963200 GTAATTTTGTAAATCAAGGGTTAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
15963227 ATAATTCTATAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
15963249 CTTTGATAAT
Statistics
Matches: 252, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 252 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:15963256 original size:27 final size:26
Alignment explanation
Indices: 15962727--15963401 Score: 147
Period size: 27 Copynumber: 25.0 Consensus size: 26
15962717 ATTTTACGAT
* * *
15962727 TCGAGGGTTTTTCGATAATTTCACAAA
1 TCGAGGGTATTT-GATAATTTTATAAA
* * *
15962754 T-TAGGGGTATTTTGGTAATTTTACAAA
1 TCGA-GGGTA-TTTGATAATTTTATAAA
* *
15962781 -CCATGGGTATTTTGGTAATTTTAT-AA
1 TCGA-GGGTA-TTTGATAATTTTATAAA
* * *
15962807 GCCAGGGGTATTTTGGTAATTTTATAAA
1 TCGA-GGGTA-TTTGATAATTTTATAAA
* * * * *
15962835 CCAAGGGTATTTTAGTAAATTTACAAA
1 TCGAGGGTATTTGA-TAATTTTATAAA
* * * * **
15962862 CCAAGGGTATTTTGGTAAATTTGCAAA
1 TCGAGGGTA-TTTGATAATTTTATAAA
* * *
15962889 -CTAGGGGTATTTTGGTAATTTTGTAAA
1 TCGA-GGGTA-TTTGATAATTTTATAAA
* * * *
15962916 CCAAGGGTATTTCAGTAATTTTTTAAA
1 TCGAGGGTATTTGA-TAATTTTATAAA
* *** * *
15962943 TTGAGGGTAAAACGGTAATTTTGTAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
* ** * *
15962970 TTGAGGGTAAAAT-AGTAATTCTGTAAA
1 TCGAGGGT-ATTTGA-TAATTTTATAAA
** * *
15962997 TCGAGGGTAAAATGGTAATTCTATAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
*** * * *
15963024 TCGAGGGTAAAACGGTAATTCTGTAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
***
15963051 TCGAGGGTAAAACGATAATTTTATAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
** ** *
15963078 TCGAGGGTAAAATGGCAATTCTATAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
* ** * *
15963105 TCGAGCGTAAAATGGTAATTCTATAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
** * *
15963132 TCGAGGGTAAAATGGTAATTTTGTAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
*** *
15963159 TCGAGGGTTAAACGATAATTCTATAAA
1 TCGAGGG-TATTTGATAATTTTATAAA
** * *
15963186 TCGAGGGTAAAATGGTAATTTTGTAAA
1 TCGAGGGT-ATTTGATAATTTTATAAA
* *** *
15963213 TCAAGGGTTAAACGATAATTCTATAAA
1 TCGAGGG-TATTTGATAATTTTATAAA
* * *
15963240 TCGGGGGTACTTTGATAATTTTACAAG
1 TCGAGGGTA-TTTGATAATTTTATAAA
* *
15963267 TCGATGGTATTTCAGTAATTTTAT-AA
1 TCGAGGGTATTTGA-TAATTTTATAAA
* *
15963293 TCGACGGTATTTCGGTAATTTTATAAA
1 TCGAGGGTATTT-GATAATTTTATAAA
* * * * *
15963320 CCGGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTA-TTTGATAATTTTATAAA
** * * *
15963347 TTAAAGGTATTTTAGTAATTTTACAAA
1 TCGAGGGTATTTGA-TAATTTTATAAA
*
15963374 TCGAGGGTATTTCGGTAATTTTAGTAAA
1 TCGAGGGTATTT-GATAATTTTA-TAAA
15963402 CTAAAGTATT
Statistics
Matches: 523, Mismatches: 101, Indels: 47
0.78 0.15 0.07
Matches are distributed among these distances:
26 42 0.08
27 460 0.88
28 21 0.04
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (26 bp):
TCGAGGGTATTTGATAATTTTATAAA
Found at i:15963261 original size:54 final size:54
Alignment explanation
Indices: 15962930--15963248 Score: 431
Period size: 54 Copynumber: 5.9 Consensus size: 54
15962920 GGGTATTTCA
* * * * * * * *
15962930 GTAATTTTTTAAATTGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* * *
15962984 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
*
15963038 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* * * * *
15963092 GCAATTCTATAAATCGAGCGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* *
15963146 GTAATTTTGTAAATCGAGGGTTAAACGATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
* * * *
15963200 GTAATTTTGTAAATCAAGGGTTAAACGATAATTCTATAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
15963249 CTTTGATAAT
Statistics
Matches: 237, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 237 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATG
Found at i:15963325 original size:80 final size:81
Alignment explanation
Indices: 15963228--15963402 Score: 253
Period size: 80 Copynumber: 2.2 Consensus size: 81
15963218 GGTTAAACGA
* * * * *
15963228 TAATTCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGATGGTATTTCAGTAATTTTA-TA
1 TAATTTTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAAGGTATTTCAGTAATTTTACAA
15963292 ATCGACGGTATTTCGG
66 ATCGACGGTATTTCGG
* * *
15963308 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTTAAAGGTATTTTAGTAATTTTACAA
1 TAATTTTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAAGGTATTTCAGTAATTTTACAA
*
15963373 ATCGAGGGTATTTCGG
66 ATCGACGGTATTTCGG
15963389 TAATTTTAGTAAAC
1 TAATTTTA-TAAAC
15963403 TAAAGTATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
80 55 0.65
81 24 0.29
82 5 0.06
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
TAATTTTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAAGGTATTTCAGTAATTTTACAA
ATCGACGGTATTTCGG
Found at i:15975275 original size:25 final size:26
Alignment explanation
Indices: 15975247--15975316 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
15975237 CTCTTTTAAT
15975247 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
15975272 AACTCGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
15975297 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
15975317 AGTACTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 7 0.18
25 26 0.67
26 6 0.15
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:15975791 original size:27 final size:27
Alignment explanation
Indices: 15975518--15975787 Score: 324
Period size: 27 Copynumber: 10.0 Consensus size: 27
15975508 GGGACAAAAT
* * *
15975518 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
15975545 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15975572 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15975599 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15975626 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15975653 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
15975680 GGTAGTTCTATCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
15975707 GGTAGTTTTACCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
15975734 GATAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15975761 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
15975788 AGTATTTTAC
Statistics
Matches: 207, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:15975986 original size:27 final size:27
Alignment explanation
Indices: 15975776--15975984 Score: 240
Period size: 27 Copynumber: 7.8 Consensus size: 27
15975766 TTCTACCCTA
** * *
15975776 CAAGGGTATTTCAGT-ATTTTACGAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * *
15975802 CGAGGGTTTTTTGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
15975829 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
15975856 CAGGGGTATTTTTGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
15975883 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
15975910 CAAGGGTAATTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
15975937 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
15975964 CAAGGGTATTTCAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
15975985 GTGAATCGAG
Statistics
Matches: 155, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
26 10 0.06
27 145 0.94
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:15975999 original size:81 final size:81
Alignment explanation
Indices: 15975816--15975984 Score: 284
Period size: 81 Copynumber: 2.1 Consensus size: 81
15975806 GGTTTTTTGA
* * *
15975816 TAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTTGTAATTTTATAA
1 TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAA
*
15975881 ACCAAGGGTATTTTAG
66 ACCAAGGGTATTTCAG
* *
15975897 TAATTTTACAAACCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAA
1 TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAA
15975962 ACCAAGGGTATTTCAG
66 ACCAAGGGTATTTCAG
15975978 TAATTTT
1 TAATTTT
15975985 GTGAATCGAG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (81 bp):
TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAA
ACCAAGGGTATTTCAG
Found at i:15976008 original size:27 final size:27
Alignment explanation
Indices: 15975978--15976291 Score: 318
Period size: 27 Copynumber: 11.7 Consensus size: 27
15975968 GGTATTTCAG
* *
15975978 TAATTTTGTGAATCGAGGGTAAAACGA
1 TAATTTTATAAATCGAGGGTAAAACGA
*
15976005 TAATTCTATAAATCGAGGGTAAAACGA
1 TAATTTTATAAATCGAGGGTAAAACGA
* *
15976032 TAATTTCATAAATCGAGCGTAAAAC-A
1 TAATTTTATAAATCGAGGGTAAAACGA
* * *
15976058 GTAATTTTGTAAATCGAGGGTAAAATGG
1 -TAATTTTATAAATCGAGGGTAAAACGA
* *
15976086 TAATTCTAT-AATCGAGGGTAAAA-TA
1 TAATTTTATAAATCGAGGGTAAAACGA
* * *
15976111 GTAATTTTATAAATCGAGCGTAAAATGG
1 -TAATTTTATAAATCGAGGGTAAAACGA
* *
15976139 TAATTTTTTAAATCGAGGGTAAAA-TA
1 TAATTTTATAAATCGAGGGTAAAACGA
* * *
15976165 GTAATTCTATAAATCGAGGGTAAAATGG
1 -TAATTTTATAAATCGAGGGTAAAACGA
* * *
15976193 TAATTCTATAAATCAAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAACGA
* *
15976220 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAACGA
*
15976247 TAATTTTGTAAATCGAGGGTAAAAC-A
1 TAATTTTATAAATCGAGGGTAAAACGA
15976273 GTAATTCTT-TAAATC-AGGG
1 -TAATT-TTATAAATCGAGGG
15976292 CTACTTTGAT
Statistics
Matches: 243, Mismatches: 35, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
26 27 0.11
27 214 0.88
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTAAAACGA
Found at i:15976009 original size:81 final size:81
Alignment explanation
Indices: 15975843--15976009 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 81
15975833 GGTATTTTGG
* *
15975843 TAATTTTACAAACCAGGGGTATTTTTGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAA
*** *
15975908 ACCAAGGGTAATTTGG
66 ACCAAGGGTAAAACGA
* ***
15975924 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTGA
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAA
* *
15975989 ATCGAGGGTAAAACGA
66 ACCAAGGGTAAAACGA
15976005 TAATT
1 TAATT
15976010 CTATAAATCG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (81 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAA
ACCAAGGGTAAAACGA
Found at i:15976024 original size:54 final size:54
Alignment explanation
Indices: 15975977--15976291 Score: 420
Period size: 54 Copynumber: 5.9 Consensus size: 54
15975967 GGGTATTTCA
* * *
15975977 GTAATTTTGTGAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAATG
* * * * *
15976031 ATAATTTCATAAATCGAGCGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * * *
15976085 GTAATTCTAT-AATCGAGGGTAAAATAGTAATTTTATAAATCGAGCGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* *
15976138 GTAATTTTTTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * * *
15976192 GTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* *
15976246 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATC-AGGG
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGG
15976292 CTACTTTGAT
Statistics
Matches: 228, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
53 51 0.22
54 176 0.77
55 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
Found at i:15976025 original size:81 final size:81
Alignment explanation
Indices: 15975869--15976288 Score: 398
Period size: 81 Copynumber: 5.2 Consensus size: 81
15975859 GGGTATTTTT
* ** * * * * ** * *
15975869 GTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAATTTGGTAATTTTACA
1 GTAATTTTATAAATCAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
* ***
15975934 AA-CCAGGGGTATTTTG
66 AATCGA-GGGTAAAATG
* * ** * * * *
15975950 GTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTGAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
*
15976015 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAATG
* * * * * *
15976031 ATAATTTCATAAATCGAGCGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTAT-
1 GTAATTTTATAAATCAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
*
15976095 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATG
* * * * *
15976111 GTAATTTTATAAATCGAGCGTAAAAT-GGTAATTTTTTAAATCGAGGGTAAAATAGTAATTCTAT
1 GTAATTTTATAAATCAAGGGT-AAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTAT
15976175 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * * *
15976192 GTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTA
1 GTAATTTTATAAATCAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
**
15976257 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAATG
15976273 GTAATTCTT-TAAATCA
1 GTAATT-TTATAAATCA
15976289 GGGCTACTTT
Statistics
Matches: 284, Mismatches: 50, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
80 71 0.25
81 210 0.74
82 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (81 bp):
GTAATTTTATAAATCAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:15976377 original size:80 final size:82
Alignment explanation
Indices: 15976293--15976449 Score: 228
Period size: 80 Copynumber: 1.9 Consensus size: 82
15976283 AAATCAGGGC
* * * *
15976293 TACTTTGATAAATTTACAAGTCGAGGGTATTTCAGTAATTTTA-AAATCGATAGTATTTTGGTAA
1 TACTTTGATAAATTTACAAGTCAAAGGTATTTCAGTAATTTTACAAATCGAGAGTATTTCGGTAA
15976357 TATTA-TAAACTGGGGG
66 TATTAGTAAACTGGGGG
* * *
15976373 TACTTTGGTAATTTTACAAGTCAAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAA
1 TACTTTGATAAATTTACAAGTCAAAGGTATTTCAGTAATTTTACAAATCGAGAGTATTTCGGTAA
*
15976438 TTTTAGTAAACT
66 TATTAGTAAACT
15976450 AAAGTATTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 39 0.58
81 22 0.33
82 6 0.09
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (82 bp):
TACTTTGATAAATTTACAAGTCAAAGGTATTTCAGTAATTTTACAAATCGAGAGTATTTCGGTAA
TATTAGTAAACTGGGGG
Found at i:15976401 original size:27 final size:27
Alignment explanation
Indices: 15976371--15976442 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
15976361 ATAAACTGGG
*
15976371 GGTACTTT-GGTAATTTTACAAGTCAAA
1 GGTA-TTTCGGTAATTTTACAAATCAAA
* * *
15976398 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAA
15976425 GGTATTTCGGTAATTTTA
1 GGTATTTCGGTAATTTTA
15976443 GTAAACTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.08
27 36 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCAAA
Found at i:15976457 original size:54 final size:52
Alignment explanation
Indices: 15976305--15976457 Score: 130
Period size: 54 Copynumber: 2.8 Consensus size: 52
15976295 CTTTGATAAA
* * * * **
15976305 TTTACAAGTCGAGGGTATTTCAGTAATTTTAAAATCGATAGTATTTTGGTAAT
1 TTTACAAATCGAGGGTATTTCGGTAATTTTAAAA-CTAAAGTATTTCAGTAAT
* * * * *
15976358 ATTATAAA-CTGGGGGTACTTT-GGTAATTTTACAAGTCAAAGGTATTTCAGTAAT
1 TTTACAAATC-GAGGGTA-TTTCGGTAATTTTAAAACT-AAA-GTATTTCAGTAAT
15976412 TTTACAAATCGAGGGTATTTCGGTAATTTTAGTAAACTAAAGTATT
1 TTTACAAATCGAGGGTATTTCGGTAATTTTA--AAACTAAAGTATT
15976458 GTAAACAGGG
Statistics
Matches: 76, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
52 1 0.01
53 27 0.36
54 41 0.54
55 4 0.05
56 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (52 bp):
TTTACAAATCGAGGGTATTTCGGTAATTTTAAAACTAAAGTATTTCAGTAAT
Found at i:15976919 original size:38 final size:38
Alignment explanation
Indices: 15976868--15976944 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
15976858 CCCTCTTATG
*
15976868 TTAGCTTCCCGATGTGGGATCCCTCCAACACCAGAGTT
1 TTAGCTTCCCGATGTAGGATCCCTCCAACACCAGAGTT
15976906 TTAGCTTCCCGATGTAGGATCCCTCCAACACCAGAGTT
1 TTAGCTTCCCGATGTAGGATCCCTCCAACACCAGAGTT
15976944 T
1 T
15976945 AAATTCAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (38 bp):
TTAGCTTCCCGATGTAGGATCCCTCCAACACCAGAGTT
Found at i:15978901 original size:25 final size:25
Alignment explanation
Indices: 15978873--15978942 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
15978863 CTCTTTTAAT
*
15978873 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
15978898 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
15978923 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
15978943 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:15979175 original size:27 final size:27
Alignment explanation
Indices: 15979146--15979391 Score: 332
Period size: 27 Copynumber: 9.1 Consensus size: 27
15979136 GGGCAAAATG
* * * *
15979146 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
15979173 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
15979200 GTAATTCTACCCTACATGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
15979227 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
15979254 GTAATTCTACCCTAC-AGGGATATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCA
* *
15979281 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
15979308 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
15979335 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
15979362 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
15979389 GTA
1 GTA
15979392 TTTTACGAAT
Statistics
Matches: 193, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.02
27 187 0.97
28 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:15979285 original size:81 final size:81
Alignment explanation
Indices: 15979145--15979387 Score: 369
Period size: 81 Copynumber: 3.0 Consensus size: 81
15979135 GGGGCAAAAT
* * * * *
15979145 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
15979210 CCTACATGGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
15979226 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
15979291 CCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
* *
15979307 GGTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
15979372 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
15979388 AGTATTTTAC
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:15979388 original size:54 final size:54
Alignment explanation
Indices: 15979146--15979387 Score: 378
Period size: 54 Copynumber: 4.5 Consensus size: 54
15979136 GGGCAAAATG
* * * *
15979146 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
15979200 GTAATTCTACCCTACATGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
15979254 GTAATTCTACCCTAC-AGGGATATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* **
15979308 GTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
15979362 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
15979388 AGTATTTTAC
Statistics
Matches: 172, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 3 0.02
54 165 0.96
55 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:15979460 original size:80 final size:80
Alignment explanation
Indices: 15979376--15979582 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
15979366 TTCTACCCTA
* *** * * * *
15979376 CAAGGGTATTTCAGT-ATTTTACGAATTGAGGGT-TTTTCGATAATTTCACAAATCAGGGGTATT
1 CAAGGGTATTT-AGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCAAGGGTAAT
15979439 TTGGTAATTTTACAAAC
64 TTGGTAATTTTACAAAC
* * *
15979456 CAAGGGTATTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAATTT
1 CAAGGGTATTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTAATTT
15979521 GGTAATTTTACAAAC
66 GGTAATTTTACAAAC
* * * **
15979536 TAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 CAAGGGTA-TTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
15979583 TTTAAATCAA
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 66 0.60
81 42 0.38
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTAATTT
GGTAATTTTACAAAC
Found at i:15979462 original size:27 final size:27
Alignment explanation
Indices: 15979416--15979597 Score: 231
Period size: 27 Copynumber: 6.8 Consensus size: 27
15979406 GGTTTTTCGA
* * *
15979416 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
15979443 TAATTTTACAAACCAAGGGTA-TTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
* *
15979469 TAATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAAGGGTATTTTGG
*
15979496 TAATTTTACAAACCAAGGGTAATTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
* *
15979523 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGG
** *
15979550 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAAGGGTATTTTGG
** *
15979577 TAATTTTTTAAATCAAGGGTA
1 TAATTTTACAAACCAAGGGTA
15979598 AAACGATAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 25 0.18
27 111 0.82
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACCAAGGGTATTTTGG
Found at i:15979581 original size:81 final size:80
Alignment explanation
Indices: 15979416--15979598 Score: 276
Period size: 81 Copynumber: 2.3 Consensus size: 80
15979406 GGTTTTTCGA
* * *
15979416 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAA
1 TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAA
15979481 CCAAGGGTATTTTAG
66 CCAAGGGTATTTTAG
* * * *
15979496 TAATTTTACAAACCAAGGGTAATTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAA
1 TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAAGGGTA-TTTGGTAATTTTATAA
15979561 ACCAAGGGTATTTTAG
65 ACCAAGGGTATTTTAG
**
15979577 TAATTTTTTAAATCAAGGGTAA
1 TAATTTTACAAATCAAGGGTAA
15979599 AACGATAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 42 0.46
81 50 0.54
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (80 bp):
TAATTTTACAAATCAAGGGTAATTTGGTAATTTTACAAACCAAGGGTATTTGGTAATTTTATAAA
CCAAGGGTATTTTAG
Found at i:15979607 original size:27 final size:27
Alignment explanation
Indices: 15979576--15979886 Score: 370
Period size: 27 Copynumber: 11.5 Consensus size: 27
15979566 GGGTATTTTA
* * *
15979576 GTAATTTTTTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
15979603 ATAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
15979630 GTAATTCTGTAAATCGAGCGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * * **
15979657 ATAATTTTGTAAATCAAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
15979684 GTATTTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
15979711 GTAATTTTATAAATCGAGGGTAAAACT
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
15979738 GTAATTTTGTAAATCGAGGGTAAGATG
1 GTAATTCTATAAATCGAGGGTAAAACG
15979765 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
15979792 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
15979819 GTAATTCTATAAATAGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
15979846 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
15979873 GCAATTCTGTAAAT
1 GTAATTCTATAAAT
15979887 TGGGGCTACT
Statistics
Matches: 243, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 243 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:15979931 original size:27 final size:27
Alignment explanation
Indices: 15979901--15980042 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
15979891 GCTACTTTGA
* *
15979901 TAATTTTACAAGTCGATGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
15979928 TAATTTTAC-AATCGACGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * *
15979954 TAATTTTATAAACCGGGGGTATTTTC-G
1 TAATTTTACAAATCGAGGGTA-TTTCAG
* * * *
15979981 TAATTTAACAAGTCGAAGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCAG
15980008 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
15980035 TAATTTTA
1 TAATTTTA
15980043 GTAAACTAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 25 0.27
27 65 0.69
28 4 0.04
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:15985544 original size:46 final size:46
Alignment explanation
Indices: 15985491--15985584 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
15985481 TAGGCATACA
15985491 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
1 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
*
15985537 TAATACCAAAACATTTTCTTATTTAGCTATATCATAAGCTAATCAT
1 TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
15985583 TA
1 TA
15985585 CCAAGTATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.38
Consensus pattern (46 bp):
TAATACCAAAACATGTTCTTATTTAGCTATATCATAAGCTAATCAT
Found at i:15986034 original size:53 final size:53
Alignment explanation
Indices: 15985969--15986172 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 53
15985959 CTTTTTAAAC
* * *
15985969 TTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAA
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
15986021 TTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGT
1 TT-ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-A-A
* * * * * * * *
15986077 TTATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTGTCTTGTAAAA
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
15986130 CTTACTAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 -TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
15986173 AAACCTTAAT
Statistics
Matches: 120, Mismatches: 27, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 36 0.30
55 38 0.32
56 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:15992832 original size:27 final size:27
Alignment explanation
Indices: 15992801--15992978 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15992791 TAAATTGTAC
15992801 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15992828 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15992854 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15992882 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15992910 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15992937 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15992964 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15992979 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15992915 original size:82 final size:81
Alignment explanation
Indices: 15992802--15992957 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15992792 AAATTGTACA
* *
15992802 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15992866 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15992883 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15992948 TGCGAGTTGA
65 TGCGAATTGA
15992958 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15992969 original size:82 final size:81
Alignment explanation
Indices: 15992798--15992978 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15992788 GATTAAATTG
* *
15992798 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15992863 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15992879 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15992943 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15992961 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15992979 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15995816 original size:8 final size:8
Alignment explanation
Indices: 15995798--15995828 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
15995788 TCTCTTCACT
15995798 TTAGTTTAA
1 TTAG-TTAA
15995807 TTAGTTAA
1 TTAGTTAA
15995815 TTAGTTAA
1 TTAGTTAA
15995823 TTAGTT
1 TTAGTT
15995829 TAATAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (8 bp):
TTAGTTAA
Found at i:16001246 original size:11 final size:11
Alignment explanation
Indices: 16001230--16001259 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
16001220 CCTCCTATCT
16001230 TTTTATTATTA
1 TTTTATTATTA
16001241 TTTTATTATTA
1 TTTTATTATTA
16001252 TTATTATT
1 TT-TTATT
16001260 TTTTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:16001605 original size:16 final size:16
Alignment explanation
Indices: 16001580--16001611 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16001570 CTATATAACA
16001580 GGGAGCTTCACCTCTT
1 GGGAGCTTCACCTCTT
*
16001596 GGGAGTTTCACCTCTT
1 GGGAGCTTCACCTCTT
16001612 TCCCTCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.28, G:0.25, T:0.34
Consensus pattern (16 bp):
GGGAGCTTCACCTCTT
Found at i:16004174 original size:13 final size:13
Alignment explanation
Indices: 16004156--16004184 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16004146 TTTAGTTTAA
16004156 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16004169 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16004182 TTA
1 TTA
16004185 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:16017344 original size:43 final size:43
Alignment explanation
Indices: 16017305--16017403 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
16017295 GAAAAGGGTT
* * * * *
16017305 TAGCCCGGACGGGTAATTCGTTGATCTCAATTTAGAAAGGAAC
1 TAGCCCGAACGGGTAATCCATTGATCTCAATATAGAAAGGATC
* * *
16017348 TAGCCCAAACGGGTGATCCATTTATCTCAATATAGAAAGGATC
1 TAGCCCGAACGGGTAATCCATTGATCTCAATATAGAAAGGATC
16017391 TAGCCCGAACGGG
1 TAGCCCGAACGGG
16017404 GTTCCTTAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (43 bp):
TAGCCCGAACGGGTAATCCATTGATCTCAATATAGAAAGGATC
Found at i:16036342 original size:28 final size:28
Alignment explanation
Indices: 16036311--16036380 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
16036301 TATGGTACTC
* *
16036311 AGTGTACGAAATATTGAGAATGGCACCT
1 AGTGTGCGAAATATTGAGAATGACACCT
* *
16036339 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACCT
*
16036367 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
16036381 CAAATTATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACCT
Found at i:16039811 original size:28 final size:28
Alignment explanation
Indices: 16039750--16039812 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
16039740 TATGGTACTC
* *
16039750 AGTGTACGAAATATTGAGAATGGCACCT
1 AGTGTGCGAAATATTGAGAATGACACCT
* *
16039778 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACCT
16039806 AGTGTGC
1 AGTGTGC
16039813 AACATATCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACCT
Found at i:16039819 original size:28 final size:28
Alignment explanation
Indices: 16039760--16039819 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
16039750 AGTGTACGAA
* * *
16039760 ATATTGAGAATGGCACCTAGTGTGCGAG
1 ATATTGAGAATGACACCTAGTGTGCAAC
*
16039788 ATATTGAGAATGACACTTAGTGTGCAAC
1 ATATTGAGAATGACACCTAGTGTGCAAC
16039816 ATAT
1 ATAT
16039820 CAAATGATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (28 bp):
ATATTGAGAATGACACCTAGTGTGCAAC
Found at i:16039996 original size:44 final size:43
Alignment explanation
Indices: 16039931--16040059 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
16039921 TTTATAATGG
** * *
16039931 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTG-A-AA
* *
16039976 T-ATTATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
* *
16040019 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAA
16040060 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 12 0.16
43 27 0.37
44 25 0.34
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCAAGCCTAGCAAGCTATAATGCCGGTGAAA
Found at i:16040032 original size:43 final size:42
Alignment explanation
Indices: 16039979--16040059 Score: 135
Period size: 43 Copynumber: 1.9 Consensus size: 42
16039969 TGAATAATAT
* *
16039979 TATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 TATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAAATGA
16040022 TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAA
1 TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAA
16040060 TGAGTTCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
42 12 0.33
43 24 0.67
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (42 bp):
TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAAATGA
Found at i:16040135 original size:40 final size:41
Alignment explanation
Indices: 16039992--16040139 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
16039982 CGGGCTTCAG
* *
16039992 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGTTTAAA
* * * *
16040035 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGATTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* *** *
16040076 GTCTAGCAGGCTTCGTGCCGTTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
*
16040116 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
16040140 TTTGATAAAA
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 31 0.38
41 28 0.34
42 11 0.13
43 12 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
Found at i:16052773 original size:9 final size:9
Alignment explanation
Indices: 16052759--16052807 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
16052749 AACTAAAATG
16052759 TTGAGAGAA
1 TTGAGAGAA
16052768 TTGAGAGAA
1 TTGAGAGAA
16052777 -TGA-ATGAA
1 TTGAGA-GAA
16052785 TTGAGAGAA
1 TTGAGAGAA
16052794 TT-AGGAGAA
1 TTGA-GAGAA
16052803 -TGAGA
1 TTGAGA
16052808 TTTGAATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 1 0.03
8 10 0.29
9 23 0.66
10 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:16061389 original size:24 final size:24
Alignment explanation
Indices: 16061357--16061409 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
16061347 AAGTCTGTCA
16061357 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
16061381 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
16061405 GGAGA
1 GGAGA
16061410 ACAGTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:16062859 original size:27 final size:27
Alignment explanation
Indices: 16062819--16062885 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
16062809 AGGAAGCATC
*
16062819 CTGGTGGCTATGCCATAAT-TATCTGAT
1 CTGGTGGCTCTGCCA-AATATATCTGAT
* *
16062846 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGAT
16062873 CTGGTGGCTCTGC
1 CTGGTGGCTCTGC
16062886 AACGATTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCAAATATATCTGAT
Found at i:16062895 original size:27 final size:25
Alignment explanation
Indices: 16062836--16062929 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 25
16062826 CTATGCCATA
*
16062836 ATTATCTGATCTGGTGGCTCTGCCAC
1 ATTATCTGTTCTGGTGGCTCTG-CAC
16062862 ATATATCTGTTCTGGTGGCTCTGCAAC
1 AT-TATCTGTTCTGGTGGCTCTGC-AC
* * *
16062889 GATTATCTATTCTAGTGACTCTGTCAC
1 -ATTATCTGTTCTGGTGGCTCTG-CAC
16062916 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
16062930 CAGCCATGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 15 0.26
27 40 0.69
28 3 0.05
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.39
Consensus pattern (25 bp):
ATTATCTGTTCTGGTGGCTCTGCAC
Found at i:16064967 original size:27 final size:27
Alignment explanation
Indices: 16064936--16065113 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16064926 TAAATTGTAC
16064936 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16064963 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16064989 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16065017 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16065045 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16065072 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16065099 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16065114 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16065050 original size:82 final size:81
Alignment explanation
Indices: 16064937--16065092 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16064927 AAATTGTACA
* *
16064937 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16065001 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16065018 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16065083 TGCGAGTTGA
65 TGCGAATTGA
16065093 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16065104 original size:82 final size:81
Alignment explanation
Indices: 16064933--16065113 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16064923 GATTAAATTG
* *
16064933 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16064998 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16065014 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16065078 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16065096 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16065114 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16074036 original size:27 final size:26
Alignment explanation
Indices: 16073996--16074106 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
16073986 AGGAAGCGTC
* *
16073996 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
16074023 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
16074050 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
16074077 TTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
16074103 CTGG
1 CTGG
16074107 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.78
28 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:16079339 original size:13 final size:13
Alignment explanation
Indices: 16079321--16079345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16079311 CTATGACAAG
16079321 ATTACTTCAAAAC
1 ATTACTTCAAAAC
16079334 ATTACTTCAAAA
1 ATTACTTCAAAA
16079346 GGATGTTAAG
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTACTTCAAAAC
Found at i:16086475 original size:48 final size:48
Alignment explanation
Indices: 16086419--16086515 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
16086409 ATCGCTGATA
* *
16086419 CCTTTTCTATCTTTGATGTTACTGTGAATGCATTAATTGACCTTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
16086467 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
1 CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
16086515 C
1 C
16086516 AGCACAATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.44
Consensus pattern (48 bp):
CCTTTTCTATCTTTGATGTTACTATGAATGCATTAATTGACCCTGGGT
Found at i:16092129 original size:44 final size:42
Alignment explanation
Indices: 16092064--16092218 Score: 138
Period size: 44 Copynumber: 3.7 Consensus size: 42
16092054 TGTGATTTCG
* *
16092064 TGTAAGACCACT-TCTAAGACATTGGCATCGAT-TTGAGATATACA
1 TGTAAGACCA-TGTCTGAGACATTGGCATC-ATATT-TGAT-TACA
* * * *
16092108 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTCG
1 TGTAAGACCATGTCTGAGACATTGGCATCATATTTGATTACA
* * *
16092150 T-TAAGACCCTGTCTGAGACAGTGGCATCAATATTTCATTACA
1 TGTAAGACCATGTCTGAGACATTGGCATC-ATATTTGATTACA
* *
16092192 TGTAAGACCACGTCTGGGAC-TTGGCAT
1 TGTAAGACCATGTCTGAGACATTGGCAT
16092219 TGTACGAGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
41 23 0.26
42 20 0.22
43 21 0.23
44 26 0.29
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGAGACATTGGCATCATATTTGATTACA
Found at i:16092163 original size:41 final size:43
Alignment explanation
Indices: 16092104--16092211 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 43
16092094 ATTTGAGATA
* *
16092104 TACATGTAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGAT
1 TACATGTAAGACCCTGTCTGGGACAGT-GGCATCAATATTTCAT
* * *
16092146 TTCGT-TAAGACCCTGTCTGAGACAGTGGCATCAATATTTCAT
1 TACATGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTCAT
16092188 TACATGTAAGACCAC-GTCTGGGAC
1 TACATGTAAGACC-CTGTCTGGGAC
16092212 TTGGCATTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.43
42 15 0.28
43 15 0.28
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
TACATGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTCAT
Found at i:16092207 original size:84 final size:86
Alignment explanation
Indices: 16092051--16092211 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 86
16092041 AGGATTTTCG
* * *
16092051 ATATGTGATTTCGTGTAAGACCACTTCTAAGACATTGGCATCGATTTGAGATATACATGTAAGAC
1 ATATGTGATTTCGTGTAAGACCACTTCTAAGACAGTGGCATCAATTTGACATATACATGTAAGAC
*
16092116 CATGTCTGGGACATCGGCATC
66 CACGTCTGGGACATCGGCATC
* * *
16092137 ATATTTGATTTCGT-TAAGACC-CTGTCTGAGACAGTGGCATCAATATT-TCAT-TACATGTAAG
1 ATATGTGATTTCGTGTAAGACCACT-TCTAAGACAGTGGCATCAAT-TTGACATATACATGTAAG
16092198 ACCACGTCTGGGAC
64 ACCACGTCTGGGAC
16092212 TTGGCATTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
84 25 0.38
85 26 0.39
86 15 0.23
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (86 bp):
ATATGTGATTTCGTGTAAGACCACTTCTAAGACAGTGGCATCAATTTGACATATACATGTAAGAC
CACGTCTGGGACATCGGCATC
Found at i:16098075 original size:30 final size:30
Alignment explanation
Indices: 16098041--16098098 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16098031 TCCTTAACTC
16098041 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
16098071 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGAAAATTTACAATTTTGCCC
16098099 TTAGGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:16101808 original size:23 final size:23
Alignment explanation
Indices: 16101781--16101827 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16101771 GTAAGCGTTA
*
16101781 GTTTTTTATTGCCAAGGTTATGT
1 GTTTTTTATTACCAAGGTTATGT
16101804 GTTTTTTATTACCAAGGTTATGT
1 GTTTTTTATTACCAAGGTTATGT
16101827 G
1 G
16101828 AGGCCCACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (23 bp):
GTTTTTTATTACCAAGGTTATGT
Found at i:16107959 original size:23 final size:23
Alignment explanation
Indices: 16107904--16107953 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
16107894 TGTATTGGGG
16107904 TTATCATTAGCACATTCCACATT
1 TTATCATTAGCACATTCCACATT
16107927 TTATCATTAGCACATTCCACATT
1 TTATCATTAGCACATTCCACATT
16107950 TTAT
1 TTAT
16107954 ACTTAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.42
Consensus pattern (23 bp):
TTATCATTAGCACATTCCACATT
Found at i:16118367 original size:12 final size:11
Alignment explanation
Indices: 16118329--16118362 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
16118319 CTTCATTTCT
16118329 TACCCAAAACC
1 TACCCAAAACC
16118340 TACCCATAAACC
1 TACCCA-AAACC
16118352 TACACCAAAAC
1 TAC-CCAAAAC
16118363 TTACATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 12 0.57
13 3 0.14
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (11 bp):
TACCCAAAACC
Found at i:16124890 original size:18 final size:18
Alignment explanation
Indices: 16124863--16124915 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
16124853 TTACAATTCA
*
16124863 AAAAAATATAAAAAGTCT
1 AAAAAATATAAAAAATCT
* *
16124881 AAAGAATATATAAAGAATTT
1 AAA-AA-ATATAAAAAATCT
16124901 AAAAAATATAAAAAA
1 AAAAAATATAAAAAA
16124916 ACCCTAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAAAAATCT
Found at i:16124912 original size:9 final size:9
Alignment explanation
Indices: 16124863--16124915 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
16124853 TTACAATTCA
16124863 AAAAAATAT
1 AAAAAATAT
* *
16124872 AAAAAGTCT
1 AAAAAATAT
16124881 AAAGAATATAT
1 AAA-AA-ATAT
* *
16124892 AAAGAATTT
1 AAAAAATAT
16124901 AAAAAATAT
1 AAAAAATAT
16124910 AAAAAA
1 AAAAAA
16124916 ACCCTAAACC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 26 0.76
10 3 0.09
11 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:16125139 original size:17 final size:16
Alignment explanation
Indices: 16125117--16125148 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16125107 ACTTTACTCT
16125117 ATAATTTAAATATAATC
1 ATAATTTAAAT-TAATC
16125134 ATAATTTAAATTAAT
1 ATAATTTAAATTAAT
16125149 AAAACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTAAATTAATC
Found at i:16125403 original size:27 final size:27
Alignment explanation
Indices: 16125373--16125425 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
16125363 GTTTAAAATT
*
16125373 AATCAAAATAAATCATAAAAGTATGTA
1 AATCAAAATAAATAATAAAAGTATGTA
16125400 AATCAAAATAAATAATAAAAGTATGT
1 AATCAAAATAAATAATAAAAGTATGT
16125426 CTACTCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (27 bp):
AATCAAAATAAATAATAAAAGTATGTA
Found at i:16139456 original size:94 final size:94
Alignment explanation
Indices: 16139273--16139541 Score: 303
Period size: 94 Copynumber: 2.8 Consensus size: 94
16139263 GGATAAGTTA
* * * ** * *
16139273 CCGACGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCGAGGATGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAAT-GTGGCTGATG-CATGTCCCA
*
16139338 GACATGGTCTTACACTAGCTCTCGTAT-ATACGTG
64 GACAT-GTCTTACACTAGCCCTCGTATCA-AC--G
* * *
16139372 CTGATG-CATTTCCCAGACAT-GTCTTACACTAGC-ACTTATAATGTGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATAATGTGGCTGATGCATGTCCCAG
*
16139434 ACATGTCTTACACTAGCCCTCGTCTCAACG
65 ACATGTCTTACACTAGCCCTCGTATCAACG
* * * *
16139464 CCGATGCCATGTCCCATATATGGTCTTACACTGGCTATCATAATGTGGTTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
16139529 CATGTCTTACACT
66 CATGTCTTACACT
16139542 GGTGCACAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
92 6 0.04
93 11 0.08
94 72 0.49
95 16 0.11
96 9 0.06
97 16 0.11
98 12 0.08
99 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCGTATCAACG
Found at i:16139543 original size:46 final size:47
Alignment explanation
Indices: 16139280--16139541 Score: 212
Period size: 46 Copynumber: 5.5 Consensus size: 47
16139270 TTACCGACGC
* * ** * *
16139280 CATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCGAGGATGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTATCATAAT-GTGGCTGATG
* *
16139328 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACGT-GCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTATC--ATA-ATGTGGCTGATG
* *
16139378 CATTTCCCAGACAT-GTCTTACACTAGC-ACTTATAATGTGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTA-TCATAATGTGGCTGATG
** * * *** *
16139424 CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTCAACGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTATCATAAT-GTGGCTGATG
* * * *
16139470 CCATGTCCCATATATGGTCTTACACTGGCTATCATAATGTGGTTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATG
16139518 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
16139542 GGTGCACAAA
Statistics
Matches: 168, Mismatches: 35, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
45 4 0.02
46 54 0.32
47 24 0.14
48 34 0.20
49 43 0.26
50 6 0.04
51 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTGGCTGATG
Found at i:16143177 original size:57 final size:57
Alignment explanation
Indices: 16143089--16143886 Score: 1596
Period size: 57 Copynumber: 14.0 Consensus size: 57
16143079 ACCTGTAAAG
16143089 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143146 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143203 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143260 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143317 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143374 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143431 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143488 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143545 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143602 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143659 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143716 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143773 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143830 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
1 AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
16143887 GATAACAAAA
Statistics
Matches: 741, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 741 1.00
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (57 bp):
AAGAAATAAACAAATTTAGATATAAATAAAAATGAAAACACTAAAAAGAAGAAATTT
Found at i:16161745 original size:19 final size:19
Alignment explanation
Indices: 16161699--16161769 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
16161689 CATCACTGGA
* *
16161699 ACACAAAGTGCATACTAGA
1 ACACAAAGTGCATCCTAGC
**
16161718 ACATGAAGTGCATCCTAGC
1 ACACAAAGTGCATCCTAGC
* * *
16161737 ACACAAAGTCCATTCTGGC
1 ACACAAAGTGCATCCTAGC
* *
16161756 ACACGAGGTGCATC
1 ACACAAAGTGCATC
16161770 TTGATGCATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (19 bp):
ACACAAAGTGCATCCTAGC
Found at i:16163138 original size:16 final size:17
Alignment explanation
Indices: 16163117--16163152 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
16163107 TTTATAGTGA
16163117 TTTTATCATTTTA-TTT
1 TTTTATCATTTTAGTTT
16163133 TTTTATCATTTTAGTTT
1 TTTTATCATTTTAGTTT
16163150 TTT
1 TTT
16163153 CTAGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATCATTTTAGTTT
Found at i:16164635 original size:2 final size:2
Alignment explanation
Indices: 16164628--16164660 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16164618 AAATAAAGAA
16164628 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16164661 AAGTAATAAG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16170847 original size:5 final size:5
Alignment explanation
Indices: 16170837--16170861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16170827 TGGCTCATTT
16170837 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
16170862 AACCCCTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:16177453 original size:41 final size:41
Alignment explanation
Indices: 16177339--16177496 Score: 156
Period size: 41 Copynumber: 3.8 Consensus size: 41
16177329 TGCATGGCGA
* * * *
16177339 AGATTAATTTTGA-TTTTTCAATACCAACATGACGAGGTGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
* * * *
16177379 TGATTAATTTTGATTTATTTTTCAACATCAACATGGCGAGGTGG
1 AGATCAATTTT-A-AT-TTTTTCAACACCAACATGGCGAGGTGG
* * *
16177423 AGATCAATTTTAATTTTTTCAACATCAACATGGTGAGGGGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
* * *
16177464 AGATCAACTCTGATTTTTTCAACACCAACATGG
1 AGATCAATTTTAATTTTTTCAACACCAACATGG
16177497 TGAGACAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 10 0.10
41 54 0.55
42 1 0.01
43 1 0.01
44 33 0.33
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (41 bp):
AGATCAATTTTAATTTTTTCAACACCAACATGGCGAGGTGG
Found at i:16182461 original size:43 final size:43
Alignment explanation
Indices: 16182404--16182489 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
16182394 AAAAGTATAA
* *
16182404 TTTTGCCAAAATGTGTAAATTGTGTTAAATTGAATGGATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
*
16182447 TTTTGCCAAAATGTGTAAATTTTATTAAATTGAATGAATTAAT
1 TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
16182490 GATTAAGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (43 bp):
TTTTGCCAAAATGTGTAAATTGTATTAAATTGAATGAATTAAT
Found at i:16182854 original size:28 final size:28
Alignment explanation
Indices: 16182823--16182901 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
16182813 GACATCAAAT
*
16182823 ATGACACTTAGTGTGTGAAATATTGAGG
1 ATGACACTTAGTGTGTGAAATATTGAGA
* *
16182851 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGTGAAATATTGAGA
16182879 ATGACACTTAGTGTGTGAAATAT
1 ATGACACTTAGTGTGTGAAATAT
16182902 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGACACTTAGTGTGTGAAATATTGAGA
Found at i:16190307 original size:40 final size:40
Alignment explanation
Indices: 16190263--16190449 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
16190253 TTGATGACAA
* *
16190263 TTCGGCTATGTATGCCACTTAGTGTATGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
*
16190303 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * *
16190343 TTCAGCAATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
* * * *
16190383 TTTGGCTATGTAAGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTAC--GATTCAAGATAGC
* *
16190424 TTCGACTATGTATTGACACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
16190450 GTGAGAATTT
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 98 0.75
41 17 0.13
42 15 0.12
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTACGATTCAAGATAGC
Found at i:16193014 original size:41 final size:41
Alignment explanation
Indices: 16192958--16193241 Score: 392
Period size: 41 Copynumber: 6.9 Consensus size: 41
16192948 TTGTAAAACA
* * * *
16192958 CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAA-AA
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
* *
16192999 CAGAGCATTAACGGCGCTTCTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
16193040 CAGAGCATTAGCTGCGCTTTTGTTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
16193081 CAGAGCACTAGCGGCG-TTTCTGGTAAAACGACGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTT-TGGTAAAACGCCGCTAAAGAC
* * *
16193122 CAGAGCACTAGCGGCGCTTCTGGTAAAACGGCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
*
16193163 CAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
16193204 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
16193242 AGTTATATAA
Statistics
Matches: 217, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
40 22 0.10
41 193 0.89
42 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:16193685 original size:24 final size:24
Alignment explanation
Indices: 16193658--16193706 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16193648 CGTATATTTG
16193658 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
16193682 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
16193706 T
1 T
16193707 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:16203477 original size:46 final size:49
Alignment explanation
Indices: 16203374--16203645 Score: 230
Period size: 46 Copynumber: 5.7 Consensus size: 49
16203364 GGGTTATTAT
* * * * *
16203374 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCATCTAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCTAGATGTA
16203422 GAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCTAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCTAGATGTA
* * * * * *
16203469 -AGCCAGTGTAGGA-CATGTTTGGGACAT-GCATCGG-GTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCT-CTAGATGTA
* * * *
16203514 --GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GTATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGC-CTCTAGATGT-A
* *
16203562 GAGCTAGTGTAAGACCATGTCTGAGACATGGCGTCGGCCTCGATGATG-A
1 GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCTA-GATGTA
*
16203611 TAG-TCAGTGTAAGACCATGTCT-AGGACATGGCATC
1 GAGCT-AGTGTAAGACCATGTCTGA-GACATGGCATC
16203646 AACTCGAGAC
Statistics
Matches: 183, Mismatches: 27, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
44 9 0.05
45 14 0.08
46 63 0.34
47 13 0.07
48 16 0.09
49 31 0.17
50 34 0.19
51 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCTAGATGTA
Found at i:16207504 original size:18 final size:18
Alignment explanation
Indices: 16207481--16207515 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16207471 AGCTGCAGGT
*
16207481 AAGAATCGTAAGTTACAG
1 AAGAATAGTAAGTTACAG
16207499 AAGAATAGTAAGTTACA
1 AAGAATAGTAAGTTACA
16207516 TATTCAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.23
Consensus pattern (18 bp):
AAGAATAGTAAGTTACAG
Found at i:16210824 original size:4 final size:4
Alignment explanation
Indices: 16210815--16210856 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
16210805 ATATTTGCTT
* *
16210815 ATAA ATAA ATAA ATAA ATAA ATAAA ATGA ATAA ATTA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
16210857 GGCTCAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:16210846 original size:21 final size:21
Alignment explanation
Indices: 16210817--16210856 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16210807 ATTTGCTTAT
16210817 AAATAAATAAATAAATAAATA
1 AAATAAATAAATAAATAAATA
* *
16210838 AAATGAATAAATTAATAAA
1 AAATAAATAAATAAATAAA
16210857 GGCTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AAATAAATAAATAAATAAATA
Found at i:16211718 original size:12 final size:12
Alignment explanation
Indices: 16211701--16211731 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16211691 CCTCCAACAC
16211701 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
16211713 CCGTGTGCTAGG
1 CCGTGTGCCAGG
16211725 CCGTGTG
1 CCGTGTG
16211732 AAAACTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:16218386 original size:20 final size:20
Alignment explanation
Indices: 16218361--16218398 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16218351 GTCACATATA
16218361 TCATGAACTCAGACCACACC
1 TCATGAACTCAGACCACACC
* *
16218381 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
16218399 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACACC
Found at i:16218525 original size:25 final size:25
Alignment explanation
Indices: 16218497--16218545 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16218487 CCAGAGGACC
*
16218497 AATCATATAACTCATAATAATGATT
1 AATCACATAACTCATAATAATGATT
* * *
16218522 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATAATAATGAT
16218546 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATAATAATGATT
Found at i:16225487 original size:25 final size:25
Alignment explanation
Indices: 16225434--16225553 Score: 154
Period size: 25 Copynumber: 4.8 Consensus size: 25
16225424 TTTATCATAT
* *
16225434 AACTGGAGGCATAGCCTCTTTT-AAT-
1 AACTGG-GGCAAAGCC-CTTTTCGATA
*
16225459 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16225484 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16225509 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16225534 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16225554 AGCACTTCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 5 0.06
24 10 0.11
25 73 0.83
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16225789 original size:27 final size:27
Alignment explanation
Indices: 16225758--16225902 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 27
16225748 GGGGCAAAAT
* * *
16225758 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
16225785 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
16225812 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
16225839 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
16225866 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
16225893 GAT-ATTTTAC
1 GGTAATTTTAC
16225903 AAATCGAGAG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.09
27 89 0.87
28 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:16225942 original size:27 final size:27
Alignment explanation
Indices: 16225830--16225998 Score: 121
Period size: 27 Copynumber: 6.3 Consensus size: 27
16225820 TACCCTACAA
* **
16225830 GGGTATTTCGGTAATTTTACCCTA-TAG
1 GGGTATTTCGATAATTTTA-CAAACTAG
* * **
16225857 GGGTATTTCGGTAATTCTACCCTAC-AG
1 GGGTATTTCGATAATTTTA-CAAACTAG
*
16225884 GGGTATTTCGAT-ATTTTACAAA-TCG
1 GGGTATTTCGATAATTTTACAAACTAG
* * *
16225909 AGAGTATTTCGATAATTTCACAAATTAG
1 -GGGTATTTCGATAATTTTACAAACTAG
* * * *
16225937 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTCGATAATTTTACAAACTAG
* *
16225964 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGATAATTTTACAAACTAG
*
16225991 GGTTATTT
1 GGGTATTT
16225999 TGGTAGTTTT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.03
26 16 0.14
27 97 0.82
28 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTAG
Done.