Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 74 of 425
Found at i:20808685 original size:40 final size:39
Alignment explanation
Indices: 20808525--20808718 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
20808515 TGTGTATGAA
* *
20808525 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
20808564 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
20808603 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
20808642 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
20808682 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
20808719 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:20808745 original size:79 final size:78
Alignment explanation
Indices: 20808542--20808756 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
20808532 ATTGTGATAT
* * ** * * *
20808542 CCGGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
* *
20808607 CGAGATATGATAT
66 CGAGATATCATAA
** * *
20808620 CCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
20808685 GCGGGTTATCATAA
65 GCGAGATATCATAA
* * *
20808699 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCGATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
20808757 TATGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 46 0.39
79 46 0.39
80 25 0.21
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGATATCATAA
Found at i:20816596 original size:39 final size:39
Alignment explanation
Indices: 20816552--20816708 Score: 235
Period size: 39 Copynumber: 4.0 Consensus size: 39
20816542 GATGTGTATG
20816552 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
20816591 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
20816630 ATTGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
20816669 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
20816709 TTTGTGCGGG
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 98 0.91
40 10 0.09
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:20816732 original size:40 final size:38
Alignment explanation
Indices: 20816554--20816732 Score: 214
Period size: 39 Copynumber: 4.6 Consensus size: 38
20816544 TGTGTATGAA
* * *
20816554 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-AT
* *
20816593 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-AT
*
20816632 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-AT
* *
20816671 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCA-T
* * *
20816711 TGTGCGGGTTATCATAACCGGG
1 TGTGCGAGTTATGATATCCGGG
20816733 ATATGTCCTT
Statistics
Matches: 126, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 98 0.78
40 28 0.22
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (38 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAT
Found at i:20819699 original size:2 final size:2
Alignment explanation
Indices: 20819688--20819726 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
20819678 ATTAAGTTAT
20819688 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20819727 AAGTGAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:20819818 original size:19 final size:19
Alignment explanation
Indices: 20819794--20819835 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
20819784 GAGAGCAGGG
*
20819794 GAAAGAAAGAAGGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
20819813 GAAAGAAAGAAAGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
20819832 -AAAG
1 GAAAG
20819836 GGGAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAAAGAAGGAA
Found at i:20820921 original size:6 final size:6
Alignment explanation
Indices: 20820910--20820936 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20820900 TGTGTACCGC
20820910 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
20820937 CCTTACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:20827167 original size:40 final size:39
Alignment explanation
Indices: 20827123--20827233 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
20827113 TATGGTAGCC
* *
20827123 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
**
20827163 CGCACAATTGCCTTCGGGCTTAGCCTAGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20827202 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
20827234 TACCCGAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 48 0.74
40 17 0.26
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20835206 original size:39 final size:39
Alignment explanation
Indices: 20835124--20835234 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
20835114 TATGGTAGCC
* *
20835124 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
20835164 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20835203 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
20835235 TACCCGAACA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 50 0.75
40 17 0.25
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20837347 original size:19 final size:19
Alignment explanation
Indices: 20837323--20837364 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
20837313 GAGAGCAAGG
*
20837323 GAAAGAAAGAAGGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
20837342 GAAAGAAAGAAAGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
20837361 -AAAG
1 GAAAG
20837365 GGGAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAAAGAAGGAA
Found at i:20838409 original size:51 final size:53
Alignment explanation
Indices: 20838354--20838453 Score: 134
Period size: 51 Copynumber: 1.9 Consensus size: 53
20838344 CGAATGCTTC
20838354 GGATTCGTTCCGAAGAGGTAC-TATGT-AC-CTGACTGTTACTGTTACTATTCT
1 GGATTCGTTCCGAAGAGGTACTTATGTAACGCT-ACTGTTACTGTTACTATTCT
* * *
20838405 GGATTTGTTCCGATGAGGTACTTTGTGTAACGCTACTGTTACTGTTACT
1 GGATTCGTTCCGAAGAGGTAC-TTATGTAACGCTACTGTTACTGTTACT
20838454 GTTACTGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 19 0.45
53 4 0.10
54 17 0.40
55 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (53 bp):
GGATTCGTTCCGAAGAGGTACTTATGTAACGCTACTGTTACTGTTACTATTCT
Found at i:20838449 original size:6 final size:6
Alignment explanation
Indices: 20838438--20838464 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20838428 TGTGTAACGC
20838438 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
20838465 CCTTACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:20838638 original size:18 final size:18
Alignment explanation
Indices: 20838596--20838638 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20838586 GACTGTCTAC
** *
20838596 TACTGAATAATTGACTGT
1 TACTGAATAACCGACTGG
*
20838614 TATTGAATAACCGACTGG
1 TACTGAATAACCGACTGG
20838632 TACTGAA
1 TACTGAA
20838639 CGATAAAGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (18 bp):
TACTGAATAACCGACTGG
Found at i:20840690 original size:25 final size:24
Alignment explanation
Indices: 20840660--20840706 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20840650 AAATTTCAAT
*
20840660 TTTATTTAATTATTTAATTTTTTTA
1 TTTATTGAATTA-TTAATTTTTTTA
*
20840685 TTTATTGACTTATTAATTTTTT
1 TTTATTGAATTATTAATTTTTT
20840707 ATACTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTGAATTATTAATTTTTTTA
Found at i:20844890 original size:26 final size:26
Alignment explanation
Indices: 20844859--20844940 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
20844849 TCCCATTTCC
20844859 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20844885 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20844911 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20844937 ATCA
1 ATCA
20844941 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20851898 original size:26 final size:26
Alignment explanation
Indices: 20851862--20851969 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20851852 TGAAATTCCA
20851862 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
20851888 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
20851914 ATCATGAAACATTTACCGAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
20851940 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
20851966 ATCA
1 ATCA
20851970 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:20862880 original size:47 final size:47
Alignment explanation
Indices: 20862822--20862951 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
20862812 ACAATTGATA
* *
20862822 AGTATCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCAG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAG
* * *
20862869 AGTACCTATACCATGGCCTC-TAGCCAAATTAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCC-CGTAGCCAAATCAAGGTAACTCATCTCAG
* *
20862916 AATACCTCTACCATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
20862952 TTATTCACAC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 71 0.97
48 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAG
Found at i:20880269 original size:47 final size:47
Alignment explanation
Indices: 20880216--20880346 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
20880206 CACAATCCAT
** *
20880216 AAGTACCTATACCATGGCTTGTAGCCAAATCAAGGTAACTTATCCCC
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCC
* * *
20880263 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCT
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCC
* * *
20880310 AAATACGTATACCATGGCCCGTAGCAAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
20880347 TTATTCGCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCC
Found at i:20885037 original size:47 final size:47
Alignment explanation
Indices: 20884980--20885110 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
20884970 TCACAACCGA
*
20884980 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATC-C
1 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
* * * * *
20885026 TAGAGTACCTATACCATGGTCTGTAGCCAAATCAAGGCAACTCCTCTT
1 TA-AATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
*
20885074 TAAATACCTATACCATGGCCTATAGCCAAATCAAGGT
1 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGT
20885111 TTTATTTGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.03
47 69 0.95
48 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (47 bp):
TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
Found at i:20895868 original size:29 final size:29
Alignment explanation
Indices: 20895777--20895937 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
20895767 TACTCGATTT
* *
20895777 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
20895806 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
20895835 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20895864 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20895893 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20895922 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20895938 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 109 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20903107 original size:29 final size:29
Alignment explanation
Indices: 20903007--20903166 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
20902997 TACTCGATTT
* *
20903007 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
20903036 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
20903065 CGCACAC-CAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20903093 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20903122 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20903151 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20903167 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.20
29 89 0.80
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20906227 original size:52 final size:54
Alignment explanation
Indices: 20906160--20906363 Score: 240
Period size: 52 Copynumber: 3.9 Consensus size: 54
20906150 TTTCCTTTTT
* * *
20906160 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCC-TAT-
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
20906212 GAACTTACCAATGCCATGCCTTGGCATGGTCTTACATG-GA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
20906265 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
20906320 GAACTTATC-ATGCCATG-CTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
20906364 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.02
51 6 0.05
52 62 0.47
53 9 0.07
54 40 0.31
55 10 0.08
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:20906444 original size:46 final size:47
Alignment explanation
Indices: 20906342--20906462 Score: 208
Period size: 46 Copynumber: 2.6 Consensus size: 47
20906332 CCATGCTTGG
* *
20906342 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
*
20906389 CATGGTCTTACATGGTATCCTTGTCTTACTAAAT-TCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
20906435 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
20906463 GTGTCAATGC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 40 0.56
47 31 0.44
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
Found at i:20907250 original size:29 final size:29
Alignment explanation
Indices: 20907218--20907275 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
20907208 TTCCCTAATT
* *
20907218 CAAACTTTTTCAAAATTACAATTTTGCCC
1 CAAACCTTTACAAAATTACAATTTTGCCC
* *
20907247 CAAACCTTTACAGAATTACGATTTTGCCC
1 CAAACCTTTACAAAATTACAATTTTGCCC
20907276 TAGGCTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (29 bp):
CAAACCTTTACAAAATTACAATTTTGCCC
Found at i:20912945 original size:55 final size:55
Alignment explanation
Indices: 20912868--20913025 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 55
20912858 TTACGTGGTA
*
20912868 TTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGACC
1 TTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGACC
** * * ***
20912921 TTTGCCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTGCATGATTTCC
1 TTTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGACC
* *
20912977 -TTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 TTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
20913026 TATCCTTATC
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
53 10 0.11
54 34 0.39
55 42 0.48
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (55 bp):
TTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGACC
Found at i:20913016 original size:54 final size:54
Alignment explanation
Indices: 20912872--20913038 Score: 203
Period size: 54 Copynumber: 3.1 Consensus size: 54
20912862 GTGGTATTTG
* ** *
20912872 CCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTA
** * * *
20912925 CCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTGCATGATTTCCTTA
1 CCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTA
*
20912980 CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTA
1 CCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTA
*
20913034 TCTTA
1 CCTTA
20913039 CCAAATGTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 6 0.06
54 45 0.47
55 42 0.44
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTA
Found at i:20913064 original size:47 final size:47
Alignment explanation
Indices: 20913011--20913132 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
20913001 CATGCCTTGG
* * *
20913011 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
20913058 CATGGTCTTACATGGTATCCTTGTCTTACTAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
20913105 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
20913133 GTGTCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:20916353 original size:34 final size:34
Alignment explanation
Indices: 20916315--20916382 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
20916305 ACAGTTAAAT
* *
20916315 GCAGTCTG-GGCTTAAGCCCATTTCAGTTTTAGTA
1 GCAGTCTGAGCCTT-AGCCCATTTCAGTTTCAGTA
*
20916349 GCAGTTTGAGCCTTAGCCCATTTCAGTTTCAGTA
1 GCAGTCTGAGCCTTAGCCCATTTCAGTTTCAGTA
20916383 TTAGATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (34 bp):
GCAGTCTGAGCCTTAGCCCATTTCAGTTTCAGTA
Found at i:20917880 original size:29 final size:29
Alignment explanation
Indices: 20917839--20917955 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
20917829 TTGCCCATCT
*
20917839 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
*
20917868 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * *
20917897 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * * * *
20917926 CCTTTATATGGTCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
20917955 C
1 C
20917956 CTTATATTCA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAAATCA
Found at i:20918187 original size:8 final size:8
Alignment explanation
Indices: 20918171--20918206 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
20918161 GCAGCCAATC
*
20918171 TTTCGGCT
1 TTTCAGCT
20918179 TTTCAGCT
1 TTTCAGCT
*
20918187 TTTCAGCA
1 TTTCAGCT
20918195 TTTCAGCT
1 TTTCAGCT
20918203 TTTC
1 TTTC
20918207 GACTTTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.50
Consensus pattern (8 bp):
TTTCAGCT
Found at i:20921160 original size:29 final size:29
Alignment explanation
Indices: 20921128--20921230 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
20921118 ATGACGAGAT
* *
20921128 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20921157 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20921186 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
20921215 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20921231 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:20929153 original size:29 final size:29
Alignment explanation
Indices: 20929121--20929223 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
20929111 ATGACGAGAT
* *
20929121 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20929150 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
20929179 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
20929208 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20929224 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:20935891 original size:29 final size:29
Alignment explanation
Indices: 20935863--20935964 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
20935853 CCTCCGAGCT
** * * *
20935863 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20935892 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20935921 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20935950 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
20935965 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20943744 original size:29 final size:29
Alignment explanation
Indices: 20943716--20943817 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
20943706 CCTCCGAGCT
** * * *
20943716 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20943745 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20943774 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20943803 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
20943818 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20951641 original size:3 final size:3
Alignment explanation
Indices: 20951633--20951672 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
20951623 TTTATTCTCT
*
20951633 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
20951673 TTGTTTTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20953988 original size:18 final size:16
Alignment explanation
Indices: 20953943--20953984 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
20953933 AATAATATTG
20953943 TAAAAAATAATATACA
1 TAAAAAATAATATACA
20953959 TAAAAAAT-ATATA-A
1 TAAAAAATAATATACA
* *
20953973 TAGATAATAATA
1 TAAAAAATAATA
20953985 ATATGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TAAAAAATAATATACA
Found at i:20954161 original size:23 final size:22
Alignment explanation
Indices: 20954093--20954178 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 22
20954083 TGATATATGT
* * *
20954093 TAAAATATATATTAATATGATAA
1 TAAAATATATAATAA-ATAATTA
*
20954116 TAGAAAGATATGAAGTAATATAATATAA
1 TA-AAATATAT-AA-TAA-ATAAT-T-A
20954144 TAAAATATA-AATAAATAATTA
1 TAAAATATATAATAAATAATTA
20954165 TAAAATATATAATA
1 TAAAATATATAATA
20954179 CGTATATTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 10 0.19
22 5 0.10
23 7 0.13
24 10 0.19
25 3 0.06
26 8 0.15
27 6 0.12
28 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
TAAAATATATAATAAATAATTA
Found at i:20956856 original size:29 final size:29
Alignment explanation
Indices: 20956824--20956879 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
20956814 AAGGCTAAAA
*
20956824 AAAGAAAGGCTCATAATATCTCTCTAATT
1 AAAGAAAGACTCATAATATCTCTCTAATT
* * *
20956853 AAAGAAAGATTCCTAATATTTCTCTAA
1 AAAGAAAGACTCATAATATCTCTCTAA
20956880 AATATTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAGAAAGACTCATAATATCTCTCTAATT
Found at i:20960402 original size:41 final size:41
Alignment explanation
Indices: 20960345--20960428 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
20960335 CTGAAATTGT
*
20960345 GTCTGTGTGCTTCAACCCTTGACTAAACTTTAGTAAGGGTA
1 GTCTGTGTGCTTCAACCCTTGACTAAACTTTAGTAAGGATA
*
20960386 GTCTGTGTGCTTCAACCCTTGACTAAGCTTTAGTAAGGATA
1 GTCTGTGTGCTTCAACCCTTGACTAAACTTTAGTAAGGATA
20960427 GT
1 GT
20960429 TAAGACTCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
GTCTGTGTGCTTCAACCCTTGACTAAACTTTAGTAAGGATA
Found at i:20964585 original size:30 final size:31
Alignment explanation
Indices: 20964501--20964587 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 31
20964491 CACTTGGCTA
* * *
20964501 TGTGGGACACATGGCCTGGACACA-CAGCCG
1 TGTGGGACGCACGGCCTGGACACATGAGCCG
* *
20964531 TGTGGGACGTACGACCTGGACACATGA-CCG
1 TGTGGGACGCACGGCCTGGACACATGAGCCG
*
20964561 TGTGGGATGCACGGCCTGGACACATGA
1 TGTGGGACGCACGGCCTGGACACATGA
20964588 TCATGTGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.16
Consensus pattern (31 bp):
TGTGGGACGCACGGCCTGGACACATGAGCCG
Found at i:20964595 original size:30 final size:30
Alignment explanation
Indices: 20964471--20964595 Score: 90
Period size: 30 Copynumber: 4.2 Consensus size: 30
20964461 CACATAACTG
* * * * * *
20964471 TGTGGGACACACAACCTGGGCACTTGGCTA
1 TGTGGGACGCACGACCTGGACACATGACCA
* * * * *
20964501 TGTGGGACACATGGCCTGGACACA-CAGCCG
1 TGTGGGACGCACGACCTGGACACATGA-CCA
* *
20964531 TGTGGGACGTACGACCTGGACACATGACCG
1 TGTGGGACGCACGACCTGGACACATGACCA
* * *
20964561 TGTGGGATGCACGGCCTGGACACATGATCA
1 TGTGGGACGCACGACCTGGACACATGACCA
20964591 TGTGG
1 TGTGG
20964596 TAGACTATGT
Statistics
Matches: 74, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
30 73 0.99
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.18
Consensus pattern (30 bp):
TGTGGGACGCACGACCTGGACACATGACCA
Found at i:20964919 original size:6 final size:6
Alignment explanation
Indices: 20964919--20964953 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
20964909 TTTTTAATTT
*
20964919 TTTTAA TTTTTAC TTTTAC TTTTAC TTTTAC TTTT
1 TTTTAC TTT-TAC TTTTAC TTTTAC TTTTAC TTTT
20964954 GTTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAC
Found at i:20964919 original size:8 final size:9
Alignment explanation
Indices: 20964900--20964929 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
20964890 TTTCATTTAG
20964900 TTTTATATTT
1 TTTTA-ATTT
20964910 TTTTAATTT
1 TTTTAATTT
20964919 TTTTAATTT
1 TTTTAATTT
20964928 TT
1 TT
20964930 ACTTTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTAATTT
Found at i:20964959 original size:6 final size:6
Alignment explanation
Indices: 20964950--20965018 Score: 113
Period size: 6 Copynumber: 11.7 Consensus size: 6
20964940 TTACTTTTAC
* *
20964950 TTTTGT TTTTGT TTTTGT TTTTAT TTTTGT TTTTGT TTTTGC TTTTG-
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
20964997 TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTT
20965019 TATTTTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
5 5 0.08
6 54 0.92
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTGT
Found at i:20964959 original size:12 final size:12
Alignment explanation
Indices: 20964944--20965025 Score: 94
Period size: 12 Copynumber: 6.8 Consensus size: 12
20964934 TTACTTTTAC
*
20964944 TTTTACTTTTGT
1 TTTTATTTTTGT
*
20964956 TTTTGTTTTTGT
1 TTTTATTTTTGT
20964968 TTTTATTTTTGT
1 TTTTATTTTTGT
* *
20964980 TTTTGTTTTTGC
1 TTTTATTTTTGT
*
20964992 TTTT-GTTTTGT
1 TTTTATTTTTGT
*
20965003 TTTTGTTTTTGTT
1 TTTTATTTTTG-T
20965016 TTTTATTTTT
1 TTTTATTTTT
20965026 TTATATTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
11 9 0.15
12 40 0.68
13 10 0.17
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTGT
Found at i:20964959 original size:18 final size:18
Alignment explanation
Indices: 20964925--20965000 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
20964915 ATTTTTTTAA
*
20964925 TTTTTACTTTTACTTTTA
1 TTTTTACTTTTACTTTTG
* **
20964943 CTTTTACTTTTGTTTTTG
1 TTTTTACTTTTACTTTTG
** *
20964961 TTTTTGTTTTTATTTTTG
1 TTTTTACTTTTACTTTTG
** *
20964979 TTTTTGTTTTTGCTTTTG
1 TTTTTACTTTTACTTTTG
20964997 TTTT
1 TTTT
20965001 GTTTTTGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.78
Consensus pattern (18 bp):
TTTTTACTTTTACTTTTG
Found at i:20967600 original size:17 final size:17
Alignment explanation
Indices: 20967566--20967616 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
20967556 AATTTAGCCC
*
20967566 TATATTTATTTTTT-TA
1 TATATATATTTTTTATA
20967582 TATATATATTTTTTATA
1 TATATATATTTTTTATA
20967599 TAT-TGATATTTTTTATA
1 TATAT-ATATTTTTTATA
20967616 T
1 T
20967617 TTTTTACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TATATATATTTTTTATA
Found at i:20967616 original size:9 final size:9
Alignment explanation
Indices: 20967586--20967637 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
20967576 TTTTTATATA
20967586 TATATTTTT
1 TATATTTTT
*
20967595 TATA-TATT
1 TATATTTTT
*
20967603 GATATTTTT
1 TATATTTTT
20967612 TATATTTTT
1 TATATTTTT
*
20967621 TACTTTATTTT
1 TA-TAT-TTTT
20967632 TATATT
1 TATATT
20967638 ATACATTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.18
9 18 0.53
10 4 0.12
11 6 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TATATTTTT
Found at i:20967617 original size:15 final size:14
Alignment explanation
Indices: 20967566--20967617 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 14
20967556 AATTTAGCCC
20967566 TATATT-TATTTTTT
1 TATATTATA-TTTTT
20967580 TATATATATATTTTTT
1 TATAT-TATA-TTTTT
20967596 ATATATTGATATTTTT
1 -TATATT-ATATTTTT
20967612 TATATT
1 TATATT
20967618 TTTTACTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 14 0.41
17 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TATATTATATTTTT
Found at i:20967728 original size:14 final size:14
Alignment explanation
Indices: 20967697--20967733 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
20967687 CACAAATTAT
20967697 TATTATTA-TTTTA
1 TATTATTATTTTTA
*
20967710 CATTATTATTTTTA
1 TATTATTATTTTTA
20967724 TATTATTATT
1 TATTATTATT
20967734 ATATCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:20968187 original size:22 final size:21
Alignment explanation
Indices: 20968135--20968188 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
20968125 AAACAATATA
*
20968135 TTTTATATA-ATTATTATTAT
1 TTTTATATATTTTATTATTAT
* *
20968155 TTTATAAATATTTTGTTATTAT
1 TTT-TATATATTTTATTATTAT
20968177 GTTTTATATATT
1 -TTTTATATATT
20968189 GTATAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 5 0.19
22 16 0.59
23 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTATATATTTTATTATTAT
Found at i:20968440 original size:33 final size:32
Alignment explanation
Indices: 20968371--20968445 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
20968361 ATTGATATTG
*
20968371 TATTATT-CTTTTTTGGTATGTCATGCATTAT
1 TATTATTACTTTTTTGGTATATCATGCATTAT
20968402 T-TTATTACTTTTTT-GTATATCATGCATTATT
1 TATTATTACTTTTTTGGTATATCATGCATTA-T
20968433 TAATTATTACTTT
1 T-ATTATTACTTT
20968446 GTATGTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 19 0.49
31 10 0.26
33 10 0.26
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (32 bp):
TATTATTACTTTTTTGGTATATCATGCATTAT
Found at i:20971964 original size:29 final size:28
Alignment explanation
Indices: 20971862--20971964 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
20971852 GTGACAAGAT
*
20971862 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATA-TA
**
20971891 TGGCACTAAGTGTGCGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
20971920 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
20971949 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20971965 TGATCGATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.06
29 58 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:20975301 original size:15 final size:15
Alignment explanation
Indices: 20975265--20975314 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
20975255 CGATATCCTT
20975265 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
20975279 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
20975295 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
20975308 TTTGCAT
1 TTTGCAT
20975315 TTAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:20978311 original size:27 final size:27
Alignment explanation
Indices: 20978279--20978409 Score: 180
Period size: 27 Copynumber: 4.9 Consensus size: 27
20978269 AGGAAGCGTC
*
20978279 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
20978306 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
20978332 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
20978360 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
20978387 CTGGTGGCTCTGCCACAA-TATCT
1 CTGGTGGCTCTGCCACAATTATCT
20978410 ATATCTGGCG
Statistics
Matches: 94, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.11
27 80 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:20978417 original size:54 final size:54
Alignment explanation
Indices: 20978276--20978409 Score: 243
Period size: 54 Copynumber: 2.5 Consensus size: 54
20978266 TGGAGGAAGC
20978276 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
20978330 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
20978384 GTTCTGGTGGCTCTGCCACAA-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCT
20978410 ATATCTGGCG
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:20979436 original size:18 final size:19
Alignment explanation
Indices: 20979401--20979437 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20979391 AATGGGTTTA
20979401 CAAAAAAAACAAAGATTTT
1 CAAAAAAAACAAAGATTTT
20979420 CAAAAACAAA-AAA-ATTTT
1 CAAAAA-AAACAAAGATTTT
20979438 ATAAAGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 9 0.53
20 3 0.18
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.22
Consensus pattern (19 bp):
CAAAAAAAACAAAGATTTT
Found at i:20985337 original size:27 final size:27
Alignment explanation
Indices: 20985297--20985437 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
20985287 AGGAAGCGTC
*
20985297 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
20985324 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
20985350 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
20985378 CTGGTGGCTCTGCCAC-ATATATATGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
20985405 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
20985432 CTGGTG
1 CTGGTG
20985438 ACTTCATCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:20985376 original size:54 final size:54
Alignment explanation
Indices: 20985294--20985437 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
20985284 TGGAGGAAGC
*
20985294 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
20985348 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
* *
20985402 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
20985438 ACTTCATCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATAT
Found at i:20985449 original size:81 final size:79
Alignment explanation
Indices: 20985297--20985455 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 79
20985287 AGGAAGCGTC
* *
20985297 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
20985362 GCCACAATTATCTGAT
66 -CCACAA-TATCTGAT
* * *
20985378 CTGGTGGCTCTGCCAC-ATATATATGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATATGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
20985441 -TCATCACAATATCTG
64 ATC--CACAATATCTG
20985456 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
79 1 0.01
80 17 0.25
81 51 0.74
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (79 bp):
CTGGTGGCTATGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
CCACAATATCTGAT
Found at i:20988799 original size:25 final size:23
Alignment explanation
Indices: 20988747--20988801 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
20988737 TATAAGTAGT
20988747 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
20988770 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
20988795 AATAGTG
1 AATAGTG
20988802 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:20988919 original size:22 final size:24
Alignment explanation
Indices: 20988862--20988954 Score: 84
Period size: 24 Copynumber: 3.9 Consensus size: 24
20988852 AATAGATATA
* *
20988862 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
20988886 AAAAATACATACATAATATAAT-T
1 AAAAATATATACATAATATAATGT
*
20988909 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
* *
20988934 AGAAAAAATATATAT-ATATAA
1 A-AAAATATATACATAATATAA
20988955 ATAATATAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
22 16 0.29
23 2 0.04
24 22 0.39
25 2 0.04
26 3 0.05
27 11 0.20
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:20988970 original size:15 final size:14
Alignment explanation
Indices: 20988939--20989003 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
20988929 CATGTAGAAA
20988939 AAATATATATATAT
1 AAATATATATATAT
20988953 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
20988968 AAAGATATATACAT
1 AAATATATATATAT
20988982 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
20988995 ATATATATA
1 AAATATATA
20989004 CATAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:20988975 original size:25 final size:25
Alignment explanation
Indices: 20988947--20989078 Score: 109
Period size: 25 Copynumber: 5.6 Consensus size: 25
20988937 AAAAATATAT
*
20988947 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
20988972 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* *
20988997 ATATATACATAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
20989021 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
20989043 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
20989066 AAATATA-ATAATA
1 ATATATACATAATA
20989079 ACAAAAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 24 0.28
24 11 0.13
25 35 0.40
26 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:20989059 original size:50 final size:50
Alignment explanation
Indices: 20988945--20989061 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
20988935 GAAAAAATAT
* * *
20988945 ATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATAAT
1 ATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGTAAAAA
* * * * *
20988995 ATATATATACATAATATAGAATT-TAGA-ATATACCTAATATATTAAAAGA
1 ATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGTAAAA-A
20989044 ATATATATAATATAATAT
1 ATATATATAA-ATAATAT
20989062 TAAGAAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 16 0.29
49 12 0.21
50 28 0.50
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (50 bp):
ATATATATAAATAATATAGAATTAAAGATATATACATAAAATAGTAAAAA
Found at i:20989594 original size:30 final size:30
Alignment explanation
Indices: 20989558--20989625 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
20989548 AGGTACAAGT
20989558 GGTGGTGGAACAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAACAAGTGTGGCTAGTGGAGTA
* *
20989588 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAACAAGTGTGGCTAGTGGAGTA
20989618 GGTGGTGG
1 GGTGGTGG
20989626 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAACAAGTGTGGCTAGTGGAGTA
Found at i:20990585 original size:102 final size:97
Alignment explanation
Indices: 20990399--20990762 Score: 309
Period size: 90 Copynumber: 3.8 Consensus size: 97
20990389 TAAAACAATT
** * *
20990399 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
20990462 G-CAAAGCATAAATTGAAAAAAAATAAAAATAAAAATCAA
66 GACAAA-CATAAATTG---AAAAA-AAAAA-AAAAA--AA
*
20990501 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
20990566 GACAAACATAAATTG-----AAAAAAAAGAAA
66 GACAAACATAAATTGAAAAAAAAAAAAAAAAA
* * * *
20990593 TTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
20990656 GA-AAACA-AAATTTG------AAAAACAGAAT
66 GACAAACATAAA-TTGAAAAAAAAAAAAAAAAA
* * * * * *
20990681 TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCACAATATGAGCTGATTTTTT
1 TTGAAAATACCTCGGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
20990745 TGA-AACACAGAAATTGAA
65 TGACAA-ACATAAATTGAA
20990763 GAACAGAAAT
Statistics
Matches: 230, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
88 31 0.13
89 9 0.04
90 80 0.35
91 6 0.03
92 23 0.10
94 4 0.02
95 5 0.02
102 53 0.23
104 15 0.07
105 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (97 bp):
TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GACAAACATAAATTGAAAAAAAAAAAAAAAAA
Found at i:20990636 original size:90 final size:88
Alignment explanation
Indices: 20990499--20990852 Score: 401
Period size: 90 Copynumber: 3.9 Consensus size: 88
20990489 AATAAAAATC
* * *
20990499 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
*
20990564 TTGACAAACATAAATTGAAAAAAAAGA
65 TTGA-AAACA-AAATTG-AAAAACAGA
* * *
20990591 AATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
*
20990655 GGAAAACAAAATTTGAAAAACAGA
66 TGAAAACAAAA-TTGAAAAACAGA
* ** * * *
20990679 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCACAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
*
20990744 TTGAAACACAGAAATTGAAGAACAGA
65 TTGAAA-ACA-AAATTGAAAAACAGA
* * * *
20990770 AATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTT
*
20990832 TTTAAAGACAGAAATTGAAAA
65 TTGAAA-ACA-AAATTGAAAA
20990853 TACCTCAACT
Statistics
Matches: 227, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
87 29 0.13
88 55 0.24
89 11 0.05
90 80 0.35
91 29 0.13
92 23 0.10
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TGAAAACAAAATTGAAAAACAGA
Found at i:20990674 original size:14 final size:14
Alignment explanation
Indices: 20990652--20990687 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20990642 GAGTTGATTT
*
20990652 TTTGGAAAACAAAA
1 TTTGAAAAACAAAA
*
20990666 TTTGAAAAACAGAA
1 TTTGAAAAACAAAA
20990680 TTTGAAAA
1 TTTGAAAA
20990688 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (14 bp):
TTTGAAAAACAAAA
Found at i:20990732 original size:180 final size:177
Alignment explanation
Indices: 20990501--20990831 Score: 468
Period size: 180 Copynumber: 1.9 Consensus size: 177
20990491 TAAAAATCAA
* * * * *
20990501 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCACAATATGAGCTGATTTTTTT
* * * * *
20990566 GACAA-ACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCAC
66 GA-AACACAGAAATTG-AAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTCAC
*
20990630 CTCTCGCAATATGAGTTGATTTTTTGGAAAACAAAATTTGAAAAACAGAAT
127 CTCTCACAATATGAGTTGATTTTTTGGAAAACAAAATTTGAAAAACAGAAT
20990681 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCACAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCACAATATGAGCTGATTTTTT
* * * *
20990745 TGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTC
65 TGAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTC
20990810 TCACAATATGAGTTGATTTTTT
130 TCACAATATGAGTTGATTTTTT
20990832 TTTAAAGACA
Statistics
Matches: 134, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
177 40 0.30
179 24 0.18
180 68 0.51
181 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (177 bp):
TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCACAATATGAGCTGATTTTTTT
GAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CACAATATGAGTTGATTTTTTGGAAAACAAAATTTGAAAAACAGAAT
Found at i:20991050 original size:73 final size:75
Alignment explanation
Indices: 20990758--20991350 Score: 775
Period size: 73 Copynumber: 8.1 Consensus size: 75
20990748 AACACAGAAA
* * * * * *
20990758 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20990821 GTTGATTTTTT
66 GTTGA-TTTTT
* *
20990832 TTTAAAGACAGAAATTGAAAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20990896 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
20990904 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20990967 GTTGATTTTT
66 GTTGATTTTT
*
20990977 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
20991042 GCT-ATTTTT
66 GTTGATTTTT
* *
20991051 TTTAAAGACAGAAATTGAAAATACCTCAA--TGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20991114 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
20991122 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT-ACGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20991186 GTTGATTTTT
66 GTTGATTTTT
*
20991196 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
20991261 GTTGA--GTT
66 GTTGATTTTT
* * * * * *
20991269 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
20991334 GTTGATTTTT
66 GTTGATTTTT
20991344 TTAGAAA
1 TT-GAAA
20991351 CATAATTAAA
Statistics
Matches: 452, Mismatches: 51, Indels: 30
0.85 0.10 0.06
Matches are distributed among these distances:
71 63 0.14
72 75 0.17
73 114 0.25
74 107 0.24
75 90 0.20
76 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:20991114 original size:147 final size:145
Alignment explanation
Indices: 20990758--20991350 Score: 773
Period size: 147 Copynumber: 4.0 Consensus size: 145
20990748 AACACAGAAA
* * * * *
20990758 TTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCACAATATGAGT
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
20990823 TGATTTTTTTTTAAAGACAGAAATTGAAAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTCTC
65 TGA---TTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
20990887 GCAATATGAGTTGA--TTT
127 GCAATATGAGTTGATTTTT
* * * * *
20990904 TTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGT
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
20990969 TGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCG
65 TGA--TTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
20991034 CAATATGAGCT-ATTTTT
128 CAATATGAGTTGATTTTT
* *
20991051 TTTAAAGACAGAAATTGAAAATACCTCAATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
20991116 TGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT-ACGCA
65 TGATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
20991180 ATATGAGTTGATTTTT
130 ATATGAGTTGATTTTT
*
20991196 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAAC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
20991261 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCG
63 GTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
20991326 CAATATGAGTTGATTTTT
128 CAATATGAGTTGATTTTT
20991344 TTAGAAA
1 TT-GAAA
20991351 CATAATTAAA
Statistics
Matches: 405, Mismatches: 31, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
144 12 0.03
145 114 0.28
146 100 0.25
147 153 0.38
148 25 0.06
149 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (145 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTT
Found at i:20991197 original size:219 final size:217
Alignment explanation
Indices: 20990758--20991343 Score: 885
Period size: 219 Copynumber: 2.7 Consensus size: 217
20990748 AACACAGAAA
* * * * *
20990758 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
20990821 GTTGATTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACTGTCTTGAGGCTCAACTCACCTCT
66 G-T-A-TTTTTTTTAAAGACAGAAATTGAAAATACCTCAA-TGTCTTGAGGCTCAACTCACCTCT
* *
20990886 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTC
127 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTC
20990951 ACCTATCGCAATATGAGTTGATTTTT
192 ACCTATCGCAATATGAGTTGATTTTT
20990977 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
20991042 GCTATTTTTTTTAAAGACAGAAATTGAAAATACCTCAATGTCTTGAGGCTCAACTCACCTCTCGC
66 G-TATTTTTTTTAAAGACAGAAATTGAAAATACCTCAATGTCTTGAGGCTCAACTCACCTCTCGC
20991107 AATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
130 AATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCA
20991172 CCTA-CGCAATATGAGTTGATTTTT
193 CCTATCGCAATATGAGTTGATTTTT
* *
20991196 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
** * * * * * *
20991261 GT-TGAGTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GTAT-TTTTTTTA-AAGACAGAAATTGAAAATACCTCA--ATGTCTTGAGGCTCAACTCACCTCT
20991324 CGCAATATGAGTTGATTTTT
127 CGCAATATGAGTTGATTTTT
20991344 TTAGAAACAT
Statistics
Matches: 341, Mismatches: 18, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
217 1 0.00
218 97 0.28
219 144 0.42
220 64 0.19
221 35 0.10
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (217 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GTATTTTTTTTAAAGACAGAAATTGAAAATACCTCAATGTCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCT
ATCGCAATATGAGTTGATTTTT
Found at i:20991553 original size:13 final size:13
Alignment explanation
Indices: 20991531--20991574 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
20991521 TTGATTTTTG
*
20991531 AAAAATAGAAATT
1 AAAAACAGAAATT
*
20991544 AAAAGCAGAAATT
1 AAAAACAGAAATT
20991557 GAAAAACA-AAATT
1 -AAAAACAGAAATT
20991570 AAAAA
1 AAAAA
20991575 TACCTTGGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 16 0.59
14 6 0.22
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:20991595 original size:98 final size:100
Alignment explanation
Indices: 20991368--20991646 Score: 336
Period size: 98 Copynumber: 2.8 Consensus size: 100
20991358 AAAAAAATGA
* * *
20991368 AAATTGAAAATACCTCAGTGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AAATTAAAAATACCTCAGCGTG-CCTCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
20991430 GAAAAGCAGAATTTGTAAGGAAAAAATTGAAAACAG
65 GAAAAACAGAAATTGAAAAGAAAAAATTGAAAACAG
* **
20991466 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCTCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
20991531 AAAAATAGAAATT-AAAAGCAGAAATTGAAAAACA-
66 AAAAACAGAAATTGAAAAGAAAAAATTG-AAAACAG
** *
20991565 AAATTAAAAATACCTTGGCGTGCC-CCAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCTCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
20991629 AAAAGCATAAATTGAAAA
66 AAAAACAGAAATTGAAAA
20991647 AACGGAAATT
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
97 3 0.02
98 101 0.64
99 35 0.22
100 20 0.13
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (100 bp):
AAATTAAAAATACCTCAGCGTGCCTCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAAAGAAAAAATTGAAAACAG
Found at i:20991642 original size:85 final size:90
Alignment explanation
Indices: 20991544--20991717 Score: 223
Period size: 90 Copynumber: 2.0 Consensus size: 90
20991534 AATAGAAATT
* * *
20991544 AAAAGCAGAAATTG-AAAAAC-AAAATTAAAAATACCT-TG-GCGTG-CCCCAGGCTCAGCTCAC
1 AAAAGCAGAAATTGAAAAAACGAAAATTAAAAATACCTCAGCGCGTGACCCCAGGCCCAACTCAC
*
20991604 CTCTCGCAATATGAGTTGATTTTTG
66 CTCTCACAATATGAGTTGATTTTTG
* * * * **
20991629 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTGAAAAAACGAAAATTAAAAATACCTCAGCGCGTGACCCCAGGCCCAACTCAC
20991694 CTCTCACAATATGAGTTGATTTTT
66 CTCTCACAATATGAGTTGATTTTT
20991718 TTGAAAGATA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 13 0.18
86 6 0.08
87 14 0.19
88 1 0.01
89 4 0.05
90 36 0.49
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (90 bp):
AAAAGCAGAAATTGAAAAAACGAAAATTAAAAATACCTCAGCGCGTGACCCCAGGCCCAACTCAC
CTCTCACAATATGAGTTGATTTTTG
Found at i:20992595 original size:12 final size:12
Alignment explanation
Indices: 20992578--20992610 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20992568 CCCTCTCTCT
20992578 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
20992590 TTTTCTTTTCTC
1 TTTTCTTTTTTC
20992602 TTTT-TTTTT
1 TTTTCTTTTT
20992611 AAGATGCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:20992600 original size:17 final size:17
Alignment explanation
Indices: 20992578--20992610 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20992568 CCCTCTCTCT
20992578 TTTTCT-TTTTTCTTTTC
1 TTTTCTCTTTTT-TTTTC
20992595 TTTTCTCTTTTTTTTT
1 TTTTCTCTTTTTTTTT
20992611 AAGATGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTCTTTTTTTTTC
Found at i:20997728 original size:40 final size:40
Alignment explanation
Indices: 20997649--20997892 Score: 325
Period size: 40 Copynumber: 6.1 Consensus size: 40
20997639 CGGGATTTAA
* *
20997649 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20997688 CCGGATATAGTAACTCGTACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20997728 CCGGATATAGTAACTCGCACAAATGCCTTCGCGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20997768 CCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTATC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
20997808 CCGGATGTAATAACTCGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20997848 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
20997889 CCGG
1 CCGG
20997893 TTATCATCCA
Statistics
Matches: 181, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 16 0.09
40 137 0.76
41 24 0.13
42 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21004415 original size:40 final size:40
Alignment explanation
Indices: 21004360--21004517 Score: 246
Period size: 40 Copynumber: 4.0 Consensus size: 40
21004350 TGATATTCGA
* *
21004360 GCTAAGTCCTGAAGGCCTTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
* *
21004400 GCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
21004440 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
* *
21004480 GCTAAGACCCGAAGGCATTTGTGCAAGTTG-CTATATCC
1 GCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCC
21004518 AGCTAATTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 107 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
Found at i:21008270 original size:39 final size:39
Alignment explanation
Indices: 21008106--21008268 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
21008096 TTGTGGAACC
* *
21008106 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
21008146 CGCACAATTGCCTTCGGGCTTAGCCCGAATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
21008185 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
21008224 CGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
21008263 CGCACA
1 CGCACA
21008269 TTCATACACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 98 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:21010918 original size:14 final size:14
Alignment explanation
Indices: 21010899--21010935 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
21010889 AACTTAGCCC
21010899 TATATTTATTTTTT
1 TATATTTATTTTTT
21010913 TATATTGATATTTTTT
1 TATATT--TATTTTTT
21010929 TATATTT
1 TATATTT
21010936 TTTACCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATATTTATTTTTT
Found at i:21011015 original size:3 final size:3
Alignment explanation
Indices: 21011007--21011053 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
21010997 TTTTTCACAA
* *
21011007 ATT ATT ATT ATT ATT ATT -TT A-C ATT ATT ATT TTT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21011052 AT
1 AT
21011054 ATCTTACTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 5 0.14
3 32 0.86
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21011026 original size:25 final size:25
Alignment explanation
Indices: 21010983--21011048 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
21010973 TTATTATTAT
*
21010983 TTATTATATCTTATT-TTTTCACA-AA
1 TTATTAT-TATTATTATTTT-ACATAA
*
21011008 TTATTATTATTATTATTTTACATTA
1 TTATTATTATTATTATTTTACATAA
*
21011033 TTATTTTTA-TATTATT
1 TTATTATTATTATTATT
21011049 ATTATATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTATTATTATTATTTTACATAA
Found at i:21011046 original size:14 final size:14
Alignment explanation
Indices: 21011015--21011051 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
21011005 AAATTATTAT
21011015 TATTATTA-TTTTA
1 TATTATTATTTTTA
*
21011028 CATTATTATTTTTA
1 TATTATTATTTTTA
21011042 TATTATTATT
1 TATTATTATT
21011052 ATATCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTTA
Found at i:21011079 original size:33 final size:32
Alignment explanation
Indices: 21011008--21011085 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 32
21010998 TTTTCACAAA
* *
21011008 TTATTATTATTATTATTTTACATTATTATTTT
1 TTATTATTATTATTATCTTACATTATTATTAT
*
21011040 TATATTATTATTA-TATCTTACTTGTATTATATAT
1 T-TATTATTATTATTATCTTACAT-TATTAT-TAT
21011074 TTATTAATTATT
1 TTATT-ATTATT
21011086 TATTTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 9 0.23
33 21 0.54
34 9 0.23
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (32 bp):
TTATTATTATTATTATCTTACATTATTATTAT
Found at i:21011758 original size:33 final size:32
Alignment explanation
Indices: 21011689--21011763 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
21011679 ATTGATATTG
*
21011689 TATTATT-CTTTTTTGGTATGTCATGCATTAT
1 TATTATTACTTTTTTGGTATATCATGCATTAT
21011720 T-TTATTACTTTTTT-GTATATCATGCATTATT
1 TATTATTACTTTTTTGGTATATCATGCATTA-T
21011751 TAATTATTACTTT
1 T-ATTATTACTTT
21011764 GTATGTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 19 0.49
31 10 0.26
33 10 0.26
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (32 bp):
TATTATTACTTTTTTGGTATATCATGCATTAT
Found at i:21017087 original size:16 final size:16
Alignment explanation
Indices: 21017066--21017096 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21017056 AGGTGCAATA
21017066 GAATAGAGCTGTAATT
1 GAATAGAGCTGTAATT
21017082 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
21017097 AAGTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
GAATAGAGCTGTAATT
Found at i:21017351 original size:24 final size:24
Alignment explanation
Indices: 21017324--21017371 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21017314 TTTAACCATA
*
21017324 TTTAACATAATTATTATTAAATAT
1 TTTAACATAATAATTATTAAATAT
21017348 TTTAACATAATAATTATTAAATAT
1 TTTAACATAATAATTATTAAATAT
21017372 AATAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTAACATAATAATTATTAAATAT
Found at i:21017821 original size:19 final size:20
Alignment explanation
Indices: 21017789--21017836 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
21017779 TTTACAATAA
**
21017789 TTTATTTAGCTATTTAACTT
1 TTTATTTAATTATTTAACTT
* *
21017809 TTT-TTTAATTATTTTAGTT
1 TTTATTTAATTATTTAACTT
21017828 TTTATTTAA
1 TTTATTTAA
21017837 ATTTTTGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATTTAATTATTTAACTT
Found at i:21017842 original size:19 final size:19
Alignment explanation
Indices: 21017807--21017850 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21017797 GCTATTTAAC
*
21017807 TTTTTTTTAATTATTTTAG
1 TTTTTTTTAAATATTTTAG
*
21017826 TTTTTATTTAAAT-TTTTGG
1 TTTTT-TTTAAATATTTTAG
21017845 TTTTTT
1 TTTTTT
21017851 CTAGCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTTTTTTAAATATTTTAG
Found at i:21023241 original size:16 final size:16
Alignment explanation
Indices: 21023220--21023253 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21023210 CTTTCACTTT
*
21023220 TTCCAAGTATTTGTTG
1 TTCCAACTATTTGTTG
21023236 TTCCAACTATTTGTTG
1 TTCCAACTATTTGTTG
21023252 TT
1 TT
21023254 GGTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (16 bp):
TTCCAACTATTTGTTG
Found at i:21029409 original size:30 final size:30
Alignment explanation
Indices: 21029373--21029441 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
21029363 ATGGCTAGGG
21029373 ACACGGGCATGTACCTAGGCCGTGTAAGTC
1 ACACGGGCATGTACCTAGGCCGTGTAAGTC
21029403 ACACGGGCATGTACCTAGGCCGTGTAAGTC
1 ACACGGGCATGTACCTAGGCCGTGTAAGTC
21029433 ACACGGGCA
1 ACACGGGCA
21029442 GGGACACGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (30 bp):
ACACGGGCATGTACCTAGGCCGTGTAAGTC
Found at i:21037944 original size:16 final size:16
Alignment explanation
Indices: 21037907--21037944 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21037897 TCTTTAGTTT
21037907 TATTTTATTTAGATTA
1 TATTTTATTTAGATTA
*
21037923 TTTTTTATTTA-ATTA
1 TATTTTATTTAGATTA
21037938 TAATTTT
1 T-ATTTT
21037945 GTTTTTCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTATTTAGATTA
Found at i:21037949 original size:21 final size:22
Alignment explanation
Indices: 21037903--21037949 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
21037893 GTCTTCTTTA
*
21037903 GTTTTATTTTATTTAGATTATT
1 GTTTTATTTAATTTAGATTATT
21037925 -TTTTATTTAATTATA-ATT-TT
1 GTTTTATTTAATT-TAGATTATT
21037945 GTTTT
1 GTTTT
21037950 TCGTACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 2 0.09
21 18 0.82
22 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (22 bp):
GTTTTATTTAATTTAGATTATT
Found at i:21042302 original size:19 final size:20
Alignment explanation
Indices: 21042261--21042303 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21042251 AAGTTAGTTT
* *
21042261 TTTTTTTCAAAATAATTTTA
1 TTTTTTTCAAAATAATATAA
21042281 TTTTTTTCAAAA-AATATAA
1 TTTTTTTCAAAATAATATAA
21042300 TTTT
1 TTTT
21042304 ATTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTTCAAAATAATATAA
Found at i:21042464 original size:3 final size:3
Alignment explanation
Indices: 21042456--21042517 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
21042446 GAAAAGCACA
21042456 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21042504 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
21042518 CAACGTGTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21044679 original size:2 final size:2
Alignment explanation
Indices: 21044672--21044708 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21044662 GTCAACGTAA
21044672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21044709 ACATTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21052068 original size:14 final size:15
Alignment explanation
Indices: 21052037--21052069 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21052027 ATAAAAAATG
*
21052037 ATATTTATTATTAGT
1 ATATTTATTATTAAT
21052052 ATATTTA-TATTAAT
1 ATATTTATTATTAAT
21052066 ATAT
1 ATAT
21052070 ATTTCTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:21054041 original size:19 final size:18
Alignment explanation
Indices: 21054019--21054066 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
21054009 ATTAATAACT
21054019 AATTTTTTAAAATATAAA
1 AATTTTTTAAAATATAAA
* **
21054037 AA-ATTCAAAAATATAAA
1 AATTTTTTAAAATATAAA
21054054 AATTATTTTAAAA
1 AATT-TTTTAAAA
21054067 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
17 14 0.64
18 2 0.09
19 6 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTTTTAAAATATAAA
Found at i:21054075 original size:29 final size:29
Alignment explanation
Indices: 21054033--21054089 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
21054023 TTTTAAAATA
21054033 TAAAAAATTCAAAAATATAAAAATTATTT
1 TAAAAAATTCAAAAATATAAAAATTATTT
* * * *
21054062 TAAAAAATTGAAAATTATTAAACTTATT
1 TAAAAAATTCAAAAATATAAAAATTATT
21054090 AAAAAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (29 bp):
TAAAAAATTCAAAAATATAAAAATTATTT
Found at i:21056317 original size:22 final size:22
Alignment explanation
Indices: 21056287--21056360 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
21056277 GAGGTTAAAA
21056287 ACCCGTGTGAAGA-AGGGCACAC
1 ACCCGTGTGAAGAGA-GGCACAC
*
21056309 ACCCATGTGAAGAGAGGCACAC
1 ACCCGTGTGAAGAGAGGCACAC
* *
21056331 AACCGTGTGAAG-GAGGTACAC
1 ACCCGTGTGAAGAGAGGCACAC
*
21056352 GCCCGTGTG
1 ACCCGTGTG
21056361 GACCAGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 15 0.33
22 29 0.64
23 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.32, T:0.12
Consensus pattern (22 bp):
ACCCGTGTGAAGAGAGGCACAC
Found at i:21061802 original size:26 final size:26
Alignment explanation
Indices: 21061750--21061813 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
21061740 GCCCAAACCC
* **
21061750 ATGAGGTCGTAGACTGAGCTTGTATG
1 ATGAGATCGTAGACTGAGCTTACATG
*
21061776 ATGGGATCGTAGACTGAG-TTCACATG
1 ATGAGATCGTAGACTGAGCTT-ACATG
*
21061802 ATGATATCGTAG
1 ATGAGATCGTAG
21061814 GCTAAGCTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (26 bp):
ATGAGATCGTAGACTGAGCTTACATG
Found at i:21068008 original size:20 final size:21
Alignment explanation
Indices: 21067983--21068022 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21067973 TGGGCTAAGT
*
21067983 ATGAT-GTTTAAGCATGATAA
1 ATGATGGTTTAAGAATGATAA
21068003 ATGATGGTTTAAGAATGATA
1 ATGATGGTTTAAGAATGATA
21068023 TGTTATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.35
Consensus pattern (21 bp):
ATGATGGTTTAAGAATGATAA
Found at i:21069662 original size:45 final size:45
Alignment explanation
Indices: 21069560--21069730 Score: 224
Period size: 45 Copynumber: 3.9 Consensus size: 45
21069550 ATTCACCCAT
* * * *
21069560 CGGCATT-TTGCCTGCTAAGCTCGAA-GCCCG-ATA-TCATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
* *
21069602 CGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCAT
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
21069647 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* * *
21069692 CGGCGTCATAGCCTGCTAGGCTCAAAGGCTCGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
21069731 CCGTACGATA
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 7 0.06
43 16 0.14
44 5 0.04
45 87 0.75
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:21072697 original size:64 final size:66
Alignment explanation
Indices: 21072583--21072705 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 66
21072573 AGATATCAAT
* * *
21072583 AATAATAATATAAACTACATAATACATACTTTAACATTTCATGCAAATATAAT-ATAAAAAATGA
1 AATAACAACATAAACTACATAATA-ATACATTAACATTTCATGCAAATATAATCATAAAAAATGA
21072647 TA
65 TA
* **
21072649 AATAACAACATAAATTACATAAT-ATACATTAACATTTCATGCTGATATAATCATAAA
1 AATAACAACATAAACTACATAATAATACATTAACATTTCATGCAAATATAATCATAAA
21072706 TAACATAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 25 0.50
65 5 0.10
66 20 0.40
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (66 bp):
AATAACAACATAAACTACATAATAATACATTAACATTTCATGCAAATATAATCATAAAAAATGAT
A
Found at i:21073283 original size:12 final size:12
Alignment explanation
Indices: 21073266--21073315 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
21073256 AAATTATACA
21073266 TAATATAATAAG
1 TAATATAATAAG
21073278 TAATATAA-AA-
1 TAATATAATAAG
*
21073288 TAAAAT-ATAAG
1 TAATATAATAAG
*
21073299 TAATATAATAAA
1 TAATATAATAAG
21073311 TAATA
1 TAATA
21073316 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.03
10 7 0.22
11 7 0.22
12 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (12 bp):
TAATATAATAAG
Found at i:21073313 original size:28 final size:30
Alignment explanation
Indices: 21073273--21073332 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
21073263 ACATAATATA
* * *
21073273 ATAAGTAATATAAAATAAAATATAAGTAAT
1 ATAAGTAATATAAAACAAAATAAAAGAAAT
*
21073303 ATAA-TAA-ATAATACAAAATAAAAGAAAT
1 ATAAGTAATATAAAACAAAATAAAAGAAAT
21073331 AT
1 AT
21073333 TTTTCATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 19 0.73
29 3 0.12
30 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (30 bp):
ATAAGTAATATAAAACAAAATAAAAGAAAT
Found at i:21073385 original size:25 final size:27
Alignment explanation
Indices: 21073357--21073406 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
21073347 AGGTTTAAAG
21073357 TAAAATAAAT-AA-TATAAAAAATAAT
1 TAAAATAAATAAATTATAAAAAATAAT
21073382 TAAAATAAATAAATTATAAAAAATA
1 TAAAATAAATAAATTATAAAAAATA
21073407 TATGTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (27 bp):
TAAAATAAATAAATTATAAAAAATAAT
Found at i:21073402 original size:16 final size:14
Alignment explanation
Indices: 21073357--21073393 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
21073347 AGGTTTAAAG
21073357 TAAAATAAATAATA
1 TAAAATAAATAATA
21073371 T-AAA-AAATAAT-
1 TAAAATAAATAATA
21073382 TAAAATAAATAA
1 TAAAATAAATAA
21073394 ATTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 10 0.48
13 9 0.43
14 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAATAAATAATA
Found at i:21075108 original size:45 final size:45
Alignment explanation
Indices: 21075059--21075644 Score: 275
Period size: 45 Copynumber: 13.1 Consensus size: 45
21075049 TAAATCTATC
*
21075059 ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGGTCTGCT
1 ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * * * * *
21075104 ATCTTCAATCTGCTCCCCG-TCT-AATACA-GAGAGGCCAAATCT-AT
1 ATCTTCGATCTGCT--TCGATGTAAACACACGA-ATGTCAGATCTGCT
*
21075148 CATCTTCGATCTGCTTCGATGTAAACACACGAATTTCAGATCTGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * * * * *
21075194 ATTTTCGATCTGCTCCCCG-TCT-AATATA-GAGACGCCAAAT-TG-T
1 ATCTTCGATCTGCT--TCGATGTAAACACACGA-ATGTCAGATCTGCT
* ** *
21075237 CATCTTCGATCTGCTTTGATGTAATTACACGAATGTCAGATCCGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * * * *
21075283 ATCTTCGATCTGCTCCCG-TCT-AATATA-GAGACGCCAAATCTG-T
1 ATCTTCGATCTGCT-TCGATGTAAACACACGA-ATGTCAGATCTGCT
* * *
21075326 CATCTTCGATCAGCTTTGATATAAACACACGAATGTCAGATCTGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* ** * * * * *
21075372 ATCTTCAATCTGC-TCCCTGTCTAATACA-GAGACGCCAAATCTG-T
1 ATCTTCGATCTGCTTCGATGT-AAACACACGA-ATGTCAGATCTGCT
* * * *
21075416 CATCTTCAATCTACTTCAATGTATACACACGAATGTCAGATCTGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * *
21075462 ATCTTTGATCTGCTCTCCG-TCT-AATACA-GAGATGCCAAATCTG-T
1 ATCTTCGATCTGCT-T-CGATGTAAACACACGA-ATGTCAGATCTGCT
* *
21075506 CATCTTCGATCTACTTCGATGTAAACACATGAATGTCAGATCTGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * * * *
21075552 ATCTTCGATCTACTCCTCG-TCTAATACA-AAG-ACGCCAAATATG-T
1 ATCTTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCTGCT
*
21075596 CATCTTTGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
1 -ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
21075642 ATC
1 ATC
21075645 GGCAAGAGGA
Statistics
Matches: 391, Mismatches: 104, Indels: 92
0.67 0.18 0.16
Matches are distributed among these distances:
42 1 0.00
43 17 0.04
44 78 0.20
45 251 0.64
46 33 0.08
47 11 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
Found at i:21075122 original size:90 final size:90
Alignment explanation
Indices: 21075014--21075644 Score: 924
Period size: 90 Copynumber: 7.0 Consensus size: 90
21075004 CCATGCTGAA
* * * * *
21075014 ATCTTTGATCTGCTCCCCGCCTAATATAGAGACGCTAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
21075079 TAAACACACGAATGTCAGGTCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
21075104 ATCTTCAATCTGCTCCCCGTCTAATACAGAGAGGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
21075169 TAAACACACGAATTTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
21075194 ATTTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAAT-TGTCATCTTCGATCTGCTTTGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
** *
21075258 TAATTACACGAATGTCAGATCCGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * *
21075283 ATCTTCGATCTGCT-CCCGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCAGCTTTGATA
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
21075347 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * * *
21075372 ATCTTCAATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCAATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
21075437 TATACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * *
21075462 ATCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
21075527 TAAACACATGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * * *
21075552 ATCTTCGATCTACTCCTCGTCTAATACAAAGACGCCAAATATGTCATCTTTGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
21075617 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
21075642 ATC
1 ATC
21075645 GGCAAGAGGA
Statistics
Matches: 486, Mismatches: 53, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
88 25 0.05
89 113 0.23
90 348 0.72
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:21076689 original size:43 final size:45
Alignment explanation
Indices: 21076605--21076705 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 45
21076595 ACACAAATGT
*
21076605 CAAATCTGCTATCTTCGATCTGCTCCTCGCCTAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCCTCGCATAATACAGAGACGC
* * *
21076650 CAAATCTGCT-TCTTCGATTTGTTCC-C-CATCAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCCTCGCAT-AATACAGAGACGC
21076693 CAAATCTGCTATC
1 CAAATCTGCTATC
21076706 GGTGATCTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 2 0.04
43 23 0.46
44 15 0.30
45 10 0.20
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (45 bp):
CAAATCTGCTATCTTCGATCTGCTCCTCGCATAATACAGAGACGC
Found at i:21078796 original size:80 final size:80
Alignment explanation
Indices: 21078712--21078860 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21078702 TATGGTAACC
* * * *
21078712 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21078776 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21078792 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21078857 CCGG
66 CCGG
21078861 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21078802 original size:40 final size:38
Alignment explanation
Indices: 21078753--21078860 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21078743 ATCACGATTT
*
21078753 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21078793 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21078833 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21078861 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21080580 original size:43 final size:45
Alignment explanation
Indices: 21080518--21080633 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 45
21080508 GCATTGACAC
*
21080518 TAAGACAAGGATACATGTAAGACCATG-TTGGAACATGGCATTT-G
1 TAAGATAAGGATACATGTAAGACCATGTTTGGAACAT-GCATTTGG
*
21080562 TAA-A-CAGGATACCATGTAAGACCATGTTTGGAACATGCATTTGG
1 TAAGATAAGGATA-CATGTAAGACCATGTTTGGAACATGCATTTGG
21080606 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATA-CATGTAAGACCATG
21080634 CCAAGGCATG
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
42 6 0.09
43 21 0.33
44 16 0.25
45 1 0.02
46 20 0.31
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (45 bp):
TAAGATAAGGATACATGTAAGACCATGTTTGGAACATGCATTTGG
Found at i:21080676 original size:54 final size:54
Alignment explanation
Indices: 21080612--21080817 Score: 240
Period size: 55 Copynumber: 3.9 Consensus size: 54
21080602 TTGGTAAGAT
* *
21080612 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
21080666 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
21080721 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
21080774 AA--ATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
21080818 AAAAAGGAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
51 35 0.26
52 2 0.02
53 7 0.05
54 42 0.32
55 43 0.32
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:21086405 original size:29 final size:29
Alignment explanation
Indices: 21086348--21086406 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
21086338 TCCGAGCCTA
* *
21086348 GGGGCAAAATCGTAATTCTGTAAAGGTTT
1 GGGGCAAAATCGTAATTCTGAAAAAGTTT
* *
21086377 GGGGCAAAATTGTAATTTTGAAAAAGTTT
1 GGGGCAAAATCGTAATTCTGAAAAAGTTT
21086406 G
1 G
21086407 AATTAGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (29 bp):
GGGGCAAAATCGTAATTCTGAAAAAGTTT
Found at i:21087211 original size:47 final size:47
Alignment explanation
Indices: 21087160--21087281 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
21087150 GCATTGACAC
21087160 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGA-ATTTAG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACAT-GACATTTAG
*
21087207 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTAG
* *
21087254 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
21087282 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 2 0.03
47 69 0.97
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTAG
Found at i:21087318 original size:54 final size:54
Alignment explanation
Indices: 21087254--21087466 Score: 252
Period size: 54 Copynumber: 4.0 Consensus size: 54
21087244 TGACATTTGG
* * *
21087254 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * * *
21087308 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTA
* * *
21087363 TAAGGCAAAGG-T-CCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * * * *
21087415 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
21087467 AAAAAGGAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
51 4 0.03
52 7 0.05
53 36 0.26
54 79 0.57
55 8 0.06
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
Done.