Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 301 of 318
Found at i:94429300 original size:3 final size:3
Alignment explanation
Indices: 94429292--94429324 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
94429282 TGTATATTAA
94429292 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT AT
94429325 GGTTTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:94429600 original size:19 final size:19
Alignment explanation
Indices: 94429572--94429609 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94429562 TATACAAATG
* *
94429572 TAAAATAAATATTTGTTAT
1 TAAAAAAAATATTTATTAT
94429591 TAAAAAAAATATTTATTAT
1 TAAAAAAAATATTTATTAT
94429610 AGTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAAAAAAATATTTATTAT
Found at i:94430966 original size:18 final size:18
Alignment explanation
Indices: 94430936--94431051 Score: 99
Period size: 18 Copynumber: 6.4 Consensus size: 18
94430926 TAAATAAAAG
* * *
94430936 TACTGAATGATTGATTGT
1 TACTGAATAACTGATCGT
* *
94430954 TATTGAATAATTGATCGT
1 TACTGAATAACTGATCGT
94430972 TACTGAATAACTGATCGT
1 TACTGAATAACTGATCGT
*
94430990 TACTGAATAACTGATTC-C
1 TACTGAATAACTGA-TCGT
** * *
94431008 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATCGT
* * *
94431026 TACTGAATAACTAATTGC
1 TACTGAATAACTGATCGT
94431044 TACTGAAT
1 TACTGAAT
94431052 GATTGAATGT
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
17 1 0.01
18 77 0.96
19 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGATCGT
Found at i:94430976 original size:36 final size:36
Alignment explanation
Indices: 94430936--94431065 Score: 127
Period size: 36 Copynumber: 3.6 Consensus size: 36
94430926 TAAATAAAAG
* * * *
94430936 TACTGAATGATTGATTGTTATTGAATAATTGATCGT
1 TACTGAATAATTGATTGTTACTGAATAACTGATCGC
* *
94430972 TACTGAATAACTGATCGTTACTGAATAACTGATTC-C
1 TACTGAATAATTGATTGTTACTGAATAACTGA-TCGC
** * * *
94431008 TACTGAGCAAATGATTGTTACTGAATAACTAATTGC
1 TACTGAATAATTGATTGTTACTGAATAACTGATCGC
* *
94431044 TACTGAATGATTGAATGTTACT
1 TACTGAATAATTGATTGTTACT
94431066 AAATGAAACT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
35 1 0.01
36 72 0.96
37 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (36 bp):
TACTGAATAATTGATTGTTACTGAATAACTGATCGC
Found at i:94431065 original size:18 final size:18
Alignment explanation
Indices: 94430936--94431065 Score: 77
Period size: 18 Copynumber: 7.2 Consensus size: 18
94430926 TAAATAAAAG
* * *
94430936 TACTGAATGATTGATTGT
1 TACTGAATAACTGAATGT
* *
94430954 TATTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
94430972 TACTGAATAACTG-ATCGT
1 TACTGAATAACTGAAT-GT
* **
94430990 TACTGAATAACTGATTCC
1 TACTGAATAACTGAATGT
** * *
94431008 TACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
94431026 TACTGAATAACT-AATTGC
1 TACTGAATAACTGAA-TGT
* *
94431044 TACTGAATGATTGAATGT
1 TACTGAATAACTGAATGT
94431062 TACT
1 TACT
94431066 AAATGAAACT
Statistics
Matches: 87, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
17 2 0.02
18 82 0.94
19 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:94435238 original size:26 final size:25
Alignment explanation
Indices: 94435191--94435240 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
94435181 AAGATGCATG
94435191 TATATAAAATTTTAATAAATTAAAAA
1 TATATAAAATTTTAAT-AATTAAAAA
94435217 TATATAAAATTATTAGAT-ATTAAA
1 TATATAAAATT-TTA-ATAATTAAA
94435241 TTAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.77
27 3 0.14
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATAAAATTTTAATAATTAAAAA
Found at i:94440254 original size:14 final size:13
Alignment explanation
Indices: 94440235--94440271 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
94440225 TATAGTTTAA
94440235 ATTTAATAATATAT
1 ATTTAATAAT-TAT
94440249 ATTTAAT-ATTAT
1 ATTTAATAATTAT
94440261 ATTTAATAATT
1 ATTTAATAATT
94440272 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 5 0.23
14 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAATAATTAT
Found at i:94442933 original size:24 final size:27
Alignment explanation
Indices: 94442886--94442934 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
94442876 ACTTATAATT
94442886 TTAATATTTAATATATATAACTTTATA
1 TTAATATTTAATATATATAACTTTATA
94442913 TTAA-ATTTAAT-T-TATAACTTTA
1 TTAATATTTAATATATATAACTTTA
94442935 CTTTTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 7 0.32
27 4 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATATTTAATATATATAACTTTATA
Found at i:94450790 original size:12 final size:12
Alignment explanation
Indices: 94450738--94450805 Score: 82
Period size: 12 Copynumber: 5.7 Consensus size: 12
94450728 TGGGGCAGAT
*
94450738 GCTGAAGCTGAA
1 GCTGGAGCTGAA
*
94450750 GCTGAAGCTGAA
1 GCTGGAGCTGAA
* *
94450762 GCTGCAGCTGCA
1 GCTGGAGCTGAA
94450774 GCTGGAGCTGAA
1 GCTGGAGCTGAA
* *
94450786 GCTGGAGATGGA
1 GCTGGAGCTGAA
94450798 GCTGGAGC
1 GCTGGAGC
94450806 GGCGCCAGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.40, T:0.16
Consensus pattern (12 bp):
GCTGGAGCTGAA
Found at i:94450805 original size:6 final size:6
Alignment explanation
Indices: 94450738--94450789 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
94450728 TGGGGCAGAT
* * *
94450738 GCTGAA GCTGAA GCTGAA GCTGAA GCTGCA GCTGCA GCTGGA GCTGAA
1 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA
94450786 GCTG
1 GCTG
94450790 GAGATGGAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.37, T:0.17
Consensus pattern (6 bp):
GCTGAA
Found at i:94455471 original size:6 final size:6
Alignment explanation
Indices: 94455406--94455451 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
94455396 TGGGGCAGCT
94455406 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTG
1 GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTGAA GCTG
94455452 CACCTGGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.17
Consensus pattern (6 bp):
GCTGAA
Found at i:94456675 original size:15 final size:15
Alignment explanation
Indices: 94456655--94456708 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
94456645 ATACTACAAA
94456655 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
94456670 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
94456687 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
94456704 ATATT
1 ATATT
94456709 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:94456908 original size:13 final size:14
Alignment explanation
Indices: 94456886--94456917 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
94456876 TATATTGAAA
94456886 AATA-TAATATTTT
1 AATATTAATATTTT
94456899 -ATATTAATATTTT
1 AATATTAATATTTT
94456912 AATATT
1 AATATT
94456918 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:94462350 original size:18 final size:18
Alignment explanation
Indices: 94462310--94462352 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94462300 TGGGGCAGCT
*
94462310 GCTGAAGCTGAAGCTGCA
1 GCTGGAGCTGAAGCTGCA
* *
94462328 CCTGGAGCTGAAGCTGGA
1 GCTGGAGCTGAAGCTGCA
94462346 GCTGGAG
1 GCTGGAG
94462353 ATGGAGCGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.16
Consensus pattern (18 bp):
GCTGGAGCTGAAGCTGCA
Found at i:94463831 original size:19 final size:18
Alignment explanation
Indices: 94463809--94463858 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
94463799 ATTATTGAAC
94463809 TTAAAACATATTTAAATAT
1 TTAAAACATATTTAAA-AT
* *
94463828 TTAATACATAATTAAAAT
1 TTAAAACATATTTAAAAT
*
94463846 TATAAAAAATATT
1 T-TAAAACATATT
94463859 GACATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAACATATTTAAAAT
Found at i:94477201 original size:12 final size:12
Alignment explanation
Indices: 94477186--94477214 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
94477176 GTGAATAAAG
94477186 AAGATAAATGGA
1 AAGATAAATGGA
94477198 AAGAT-AATGGA
1 AAGATAAATGGA
94477209 AAGATA
1 AAGATA
94477215 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:94487628 original size:12 final size:12
Alignment explanation
Indices: 94487613--94487641 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
94487603 GTGAATAAAG
94487613 AAGATAAATGGA
1 AAGATAAATGGA
94487625 AAGAT-AATGGA
1 AAGATAAATGGA
94487636 AAGATA
1 AAGATA
94487642 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:94491895 original size:55 final size:54
Alignment explanation
Indices: 94491808--94492062 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 54
94491798 ATTAGGGTTT
* *
94491808 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGACACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCATAAGGC
* * * *
94491863 AAGGACATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGACACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-ATAAGGC
* * * * * *
94491918 AAAAGTC-CCATGTAAGACCATGCCAAGGCATGGCATTGTTGAG-TTCATAAGGC
1 -AAGGACACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
* * *
94491971 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--AA---
1 AAGGACACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCATAAGGC
* * * *
94492020 AAGGATACCACGTAAGACCATGCCAAGTCATGGAAATGGTAAG
1 AAGGACACCATGTAAGACCATGCCAAGACATGGAATTGGTAAG
94492063 GTATCCATGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
48 2 0.01
49 36 0.22
52 5 0.03
53 40 0.24
54 14 0.08
55 66 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGACACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCATAAGGC
Found at i:94492014 original size:108 final size:110
Alignment explanation
Indices: 94491815--94492064 Score: 313
Period size: 108 Copynumber: 2.4 Consensus size: 110
94491805 TTTAAGGATA
*
94491815 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGA
*
94491880 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAAGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTC
* * * *
94491925 CCATGTAAGACCATGCCAAGGCATGG-CATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGACACCATGTAAG
* * * *
94491987 ACCATGTCGAGACATGGCAATGGTAAGTTTC-AAAAGG----A-TA
65 ACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTC
* *
94492027 CCACGTAAGACCATGCCAAGTCATGGAAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGT
94492065 ATCCATGTAT
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
102 29 0.24
103 3 0.02
107 8 0.07
108 49 0.40
109 6 0.05
110 26 0.21
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTC
Found at i:94500006 original size:31 final size:31
Alignment explanation
Indices: 94499971--94500033 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
94499961 TTTTAAAACT
94499971 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
94500002 TACCATTGCCATGTCTCGACATGGTCTTACA
1 TACCATTGCCATGTCTCGACATGGTCTTACA
94500033 T
1 T
94500034 GGTATCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (31 bp):
TACCATTGCCATGTCTCGACATGGTCTTACA
Found at i:94500139 original size:55 final size:55
Alignment explanation
Indices: 94500002--94500205 Score: 265
Period size: 55 Copynumber: 3.7 Consensus size: 55
94499992 TGGTCTTACA
* * *
94500002 TACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAACT
* *
94500055 CACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAACT
* * *
94500110 TATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-A-AAACCT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA-CT
*
94500164 TACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
94500206 AAACCCTAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 9 0.07
55 75 0.57
56 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (55 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAACT
Found at i:94506950 original size:15 final size:15
Alignment explanation
Indices: 94506910--94506960 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
94506900 TAATATTATA
*
94506910 TATTATTTTATTAAT
1 TATTATTTTAATAAT
94506925 TCA-TATTTTAATAAT
1 T-ATTATTTTAATAAT
* *
94506940 TATTATATTAAGAA-
1 TATTATTTTAATAAT
94506954 TATTATT
1 TATTATT
94506961 AAATTGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.23
15 22 0.73
16 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTTTAATAAT
Found at i:94506971 original size:61 final size:59
Alignment explanation
Indices: 94506906--94507073 Score: 166
Period size: 61 Copynumber: 2.8 Consensus size: 59
94506896 TTTGTAATAT
* **
94506906 TATATATTATTTTATTAATTCATATTTTAATAATTATTATATTAAGAATATTATTAAA-T-TG
1 TATATATTATTTTATTAATT-ATA-TTTAATAATAATT-TATTAA-AATAGAATTAAATTATG
*
94506967 TATATTATTATTGTTA--AATTATATTTAATAGTAAATTTATTAAAATAGAATTAAATTATG
1 TATA-TATTATT-TTATTAATTATATTTAATAAT-AATTTATTAAAATAGAATTAAATTATG
*
94507027 TAT-TATTGTTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TATATATT-ATTTTATT-AATTATATTTAATAATAATT-TATTAAAAT
94507074 TTAATAACAA
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
58 17 0.19
59 17 0.19
60 15 0.16
61 32 0.35
62 7 0.08
63 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (59 bp):
TATATATTATTTTATTAATTATATTTAATAATAATTTATTAAAATAGAATTAAATTATG
Found at i:94513825 original size:7 final size:7
Alignment explanation
Indices: 94513815--94513844 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
94513805 GGGAATGGAT
94513815 TAGGGAG
1 TAGGGAG
94513822 TAGGGAG
1 TAGGGAG
94513829 TAGGGAG
1 TAGGGAG
94513836 TAGGGAG
1 TAGGGAG
94513843 TA
1 TA
94513845 ATTTGGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.17
Consensus pattern (7 bp):
TAGGGAG
Found at i:94514565 original size:83 final size:84
Alignment explanation
Indices: 94514421--94514590 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 84
94514411 CTTTTTTATG
* *
94514421 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGATAGGAAATGGTACATTTATTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
94514486 TTTATTTATTTTACTAATT
66 TTTATTTATTTTACTAATT
** *
94514505 GGGTAGAAATAGT-AAGGTATGATTAACATGTTTAATGACAGGAAATAGTACATTTTTTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
* * *
94514569 TTTATTTGTTTTGCTCATT
66 TTTATTTATTTTACTAATT
94514588 GGG
1 GGG
94514591 GCTGAGATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
83 65 0.83
84 13 0.17
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (84 bp):
GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
TTTATTTATTTTACTAATT
Found at i:94518190 original size:23 final size:23
Alignment explanation
Indices: 94518144--94518186 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
94518134 TACATTAATC
94518144 ATATTAATATTTTGTAATATTAA
1 ATATTAATATTTTGTAATATTAA
94518167 ATATTAATATTTT-T-ATATTA
1 ATATTAATATTTTGTAATATTA
94518187 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTAATATTTTGTAATATTAA
Found at i:94523122 original size:17 final size:16
Alignment explanation
Indices: 94523099--94523139 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
94523089 ATAATAAAAA
94523099 TATAATTTTAT-TATT
1 TATAATTTTATATATT
94523114 T-TAATAATTTATATATT
1 TATAAT--TTTATATATT
94523131 TATAATTTT
1 TATAATTTT
94523140 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 8 0.36
17 5 0.23
18 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:94523170 original size:30 final size:32
Alignment explanation
Indices: 94523129--94523191 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
94523119 AATTTATATA
94523129 TTTATAATTTTTAAAAAATT-AAAT-TAATTT
1 TTTATAATTTTTAAAAAATTAAAATATAATTT
* *
94523159 TTTATATTTTTTAAAAGATTAAAATATAATTT
1 TTTATAATTTTTAAAAAATTAAAATATAATTT
94523191 T
1 T
94523192 ATCATTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.62
31 4 0.14
32 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
TTTATAATTTTTAAAAAATTAAAATATAATTT
Found at i:94524413 original size:3 final size:3
Alignment explanation
Indices: 94524405--94524438 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
94524395 AACTATTTTT
94524405 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
94524439 CCCACACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94524977 original size:23 final size:22
Alignment explanation
Indices: 94524949--94524991 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
94524939 ATTTCACAGC
*
94524949 AAGAAAACAAAACTAAAAAAAAA
1 AAGAAAACAAAA-GAAAAAAAAA
*
94524972 AAGAAAAGAAAAGAAAAAAA
1 AAGAAAACAAAAGAAAAAAA
94524992 GGAATCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (22 bp):
AAGAAAACAAAAGAAAAAAAAA
Found at i:94525607 original size:24 final size:23
Alignment explanation
Indices: 94525570--94525616 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
94525560 ATTATATTAA
* *
94525570 AATTAAAATTAAAATATAAATAT
1 AATTAAAATAAAAAAATAAATAT
*
94525593 AATTAAAAATAAAAAAATATATAT
1 AATT-AAAATAAAAAAATAAATAT
94525617 TTTTTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATTAAAATAAAAAAATAAATAT
Found at i:94525615 original size:28 final size:26
Alignment explanation
Indices: 94525541--94525615 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 26
94525531 ACAATACACA
*
94525541 AAAAATATAATAAAAAT-TAATTATATT
1 AAAAATA-AA-AAAAATATAAATATATT
*
94525568 AAAATTAAAATTAAAATATAAATATAATT
1 AAAAATAAAA--AAAATATAAATAT-ATT
94525597 AAAAATAAAAAAATATATA
1 AAAAATAAAAAAA-ATATA
94525616 TTTTTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
25 1 0.03
26 2 0.05
27 14 0.35
28 11 0.28
29 12 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAATAAAAAAAATATAAATATATT
Found at i:94526515 original size:98 final size:98
Alignment explanation
Indices: 94526335--94526515 Score: 251
Period size: 98 Copynumber: 1.8 Consensus size: 98
94526325 GAGTTCAATC
* *
94526335 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGGTAAAATTTTATCAATATTATTTTT
1 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAATATTATTTAT
*
94526400 TTTGATTTTTTGTTATAAAAATCTGGTTAAAAT
66 TTTGATTTTTTGATATAAAAATCTGGTTAAAAT
* * * *
94526433 TATTAAGAATAAGTAATGTTAATT-AATTTTTAATAATAGATAAAATTTTATTAATAATATATTT
1 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAAT-AT-TATTT
94526497 ATTTT-ATGTTTTT-ATATAA
64 ATTTTGAT-TTTTTGATATAA
94526516 TTGAGTTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
97 28 0.38
98 31 0.42
99 14 0.19
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (98 bp):
TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAATATTATTTAT
TTTGATTTTTTGATATAAAAATCTGGTTAAAAT
Found at i:94529693 original size:6 final size:6
Alignment explanation
Indices: 94529682--94529797 Score: 160
Period size: 6 Copynumber: 19.0 Consensus size: 6
94529672 TTTAGATGGT
* * * *
94529682 CATACA CATACA CATACA CATACA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
* *
94529730 TATATA CATATA CATATA CATATA CATATA CATATA TATATACA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATAT--A CATATA
94529780 CATATA CATATA CATATA
1 CATATA CATATA CATATA
94529798 AAGACGATAC
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
6 98 0.95
8 5 0.05
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (6 bp):
CATATA
Found at i:94530190 original size:219 final size:219
Alignment explanation
Indices: 94529811--94530254 Score: 834
Period size: 219 Copynumber: 2.0 Consensus size: 219
94529801 ACGATACATC
94529811 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
94529876 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGGTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
94529941 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
94530006 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
* * *
94530030 TACAGATTGTTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCTCATAAATTTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
94530095 CTATGAACCAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
*
94530160 AGAAGCTATGTAGAAGTAATGCATGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
94530225 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
94530249 TACAGA
1 TACAGA
94530255 CCTCGCTTCT
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (219 bp):
TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
ATCATTCAAAGCTATATCAGAAAG
Found at i:94539049 original size:37 final size:37
Alignment explanation
Indices: 94538999--94539109 Score: 204
Period size: 37 Copynumber: 3.0 Consensus size: 37
94538989 CTCCACTGTA
94538999 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
*
94539036 ACGCATGATAATGCATCAACATCCTATTTTCATTTCT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
*
94539073 ACGCATGACAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
94539110 GGGACTATAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (37 bp):
ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
Found at i:94544064 original size:19 final size:20
Alignment explanation
Indices: 94544027--94544066 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
94544017 AATACAAAAT
*
94544027 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAACTTTTAAA
94544047 AATTCAAAAT-ACTTTTAAA
1 AATTCAAAATAACTTTTAAA
94544066 A
1 A
94544067 TTTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAACTTTTAAA
Found at i:94544952 original size:22 final size:22
Alignment explanation
Indices: 94544911--94544952 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
94544901 TGCCCGGGCC
* **
94544911 TTAAAATAAATAAACCAAATTT
1 TTAAAAAAAATAAAAAAAATTT
94544933 TTAAAAAAAATAAAAAAAAT
1 TTAAAAAAAATAAAAAAAAT
94544953 CAAAATGCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAAAAAATAAAAAAAATTT
Found at i:94545290 original size:22 final size:23
Alignment explanation
Indices: 94545265--94545314 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
94545255 GGGATTAATG
**
94545265 GTATTTTGAGG-AAGAATCGATT
1 GTATTTTGAGGAAAGAAGAGATT
*
94545287 GTATTTTGGGGAAAGAAGAGATT
1 GTATTTTGAGGAAAGAAGAGATT
94545310 GTATT
1 GTATT
94545315 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (23 bp):
GTATTTTGAGGAAAGAAGAGATT
Found at i:94546028 original size:39 final size:40
Alignment explanation
Indices: 94545918--94546071 Score: 251
Period size: 39 Copynumber: 3.9 Consensus size: 40
94545908 ATAAAGCATG
94545918 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT-
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
94545957 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
94545998 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
94546037 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
94546072 GAGTGGAATC
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 57 0.52
40 52 0.47
41 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:94546073 original size:79 final size:80
Alignment explanation
Indices: 94545918--94546071 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 80
94545908 ATAAAGCATG
94545918 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
*
94545983 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
*
94545998 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGT-AGTTTTAATTAATAAT-AAAACAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGA-TTTTAATTAATAATAAAAACAAA
*
94546060 GTAGCATGGGGG
65 ATAGCATGGGGG
94546072 GAGTGGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 19 0.27
79 36 0.51
80 15 0.21
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGATTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:94546622 original size:2 final size:2
Alignment explanation
Indices: 94546595--94546647 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
94546585 AAATATTTTA
* *
94546595 AT AT -T AT AT -T AT GT AT AC AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94546634 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
94546648 CTTTTAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:94550592 original size:13 final size:13
Alignment explanation
Indices: 94550574--94550598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94550564 AAAATGTCAT
94550574 AATATTAATATTA
1 AATATTAATATTA
94550587 AATATTAATATT
1 AATATTAATATT
94550599 TACAGGCTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTAATATTA
Found at i:94550620 original size:66 final size:66
Alignment explanation
Indices: 94550514--94550639 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 66
94550504 TAGCTTCGTA
*
94550514 AATATTAAATATTAATATTTATAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
94550579 T
66 T
* *
94550580 AATATTAAATATTAATATTTACAGGCTTGGTTTATAAAAATAGGGTTTTGAAAATGTCAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
94550640 TTTCAGCACT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.40
Consensus pattern (66 bp):
AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
T
Found at i:94556128 original size:25 final size:25
Alignment explanation
Indices: 94556100--94556202 Score: 68
Period size: 25 Copynumber: 4.2 Consensus size: 25
94556090 GGCTTTTTGT
94556100 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCTGATTAATGGCTCTCCG
* * * **
94556125 GAGCTTCCCGA-T-ATGACTCGCTT
1 GAGCTTCCTGATTAATGGCTCTCCG
* * * *
94556148 GAACTT-CTCAATACATGGCTATCCG
1 GAGCTTCCTGATTA-ATGGCTCTCCG
* * *
94556173 GAGCTTCCTGTTTAATAGCTCTTCG
1 GAGCTTCCTGATTAATGGCTCTCCG
94556198 GAGCT
1 GAGCT
94556203 ACCCGTTATT
Statistics
Matches: 54, Mismatches: 20, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
22 2 0.04
23 13 0.24
24 1 0.02
25 34 0.63
26 4 0.07
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCCG
Found at i:94564590 original size:23 final size:23
Alignment explanation
Indices: 94564562--94564607 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
94564552 CATTTTGTAG
*
94564562 CAACCCTTTTCAATAAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
*
94564585 CAACCCTTTTAAATGAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
94564608 TCTTCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (23 bp):
CAACCCTTTTAAATAAGAATTCT
Found at i:94565578 original size:22 final size:21
Alignment explanation
Indices: 94565553--94565594 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
94565543 AATTATTTTA
*
94565553 ATATTTTGTATAATATATATAT
1 ATATTTTGTAAAATA-ATATAT
*
94565575 ATATTTTTTAAAATAATATA
1 ATATTTTGTAAAATAATATA
94565595 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTTTGTAAAATAATATAT
Found at i:94570580 original size:26 final size:26
Alignment explanation
Indices: 94570551--94570660 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
94570541 TGATACAAAT
94570551 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
94570577 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94570603 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94570629 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
94570655 AGATAA
1 TGATAA
94570661 GAATATCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94572198 original size:26 final size:26
Alignment explanation
Indices: 94572146--94572198 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94572136 TTTACAGTTT
*
94572146 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
94572172 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
94572198 T
1 T
94572199 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:94574348 original size:40 final size:37
Alignment explanation
Indices: 94574282--94574416 Score: 161
Period size: 35 Copynumber: 3.7 Consensus size: 37
94574272 CATGGAAAAG
*
94574282 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAAT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
94574317 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * *
94574357 TAAGAAATGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
94574392 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
94574417 ATGAGAAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
35 50 0.59
38 2 0.02
39 2 0.02
40 31 0.36
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:94575190 original size:2 final size:2
Alignment explanation
Indices: 94575183--94575223 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94575173 TATGTACGTA
94575183 AT AT 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 AT AT A
94575224 AATAGTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94575429 original size:22 final size:21
Alignment explanation
Indices: 94575388--94575444 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
94575378 AAATATATAC
94575388 ATAATAA-TATTAA-AAT-AAA
1 ATAATAAGTA-TAATAATGAAA
94575407 ATAATAAGTGATAATAATGAAA
1 ATAATAAGT-ATAATAATGAAA
*
94575429 ATAATAGGTATAATAA
1 ATAATAAGTATAATAA
94575445 ATAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 11 0.33
22 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAATAAGTATAATAATGAAA
Found at i:94575453 original size:21 final size:22
Alignment explanation
Indices: 94575400--94575454 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
94575390 AATAATATTA
94575400 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGTGATAAT
*
94575422 -AATGAAAATAATAGGT-ATAAT
1 AAAT-AAAATAATAAGTGATAAT
*
94575443 AAATAATATAAT
1 AAATAAAATAAT
94575455 GATATATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATAAAATAATAAGTGATAAT
Found at i:94577063 original size:30 final size:30
Alignment explanation
Indices: 94577008--94577067 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
94576998 GTTTCTTGTG
94577008 TTTAATTTAGTGGGTTGGGCTGTTAGGTTTT
1 TTTAATTTA-TGGGTTGGGCTGTTAGGTTTT
94577039 TTTAATTT-TGGGTTTGGG-TAGTTAGGTTT
1 TTTAATTTATGGG-TTGGGCT-GTTAGGTTT
94577068 AGATTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 14 0.52
31 8 0.30
ACGTcount: A:0.13, C:0.02, G:0.32, T:0.53
Consensus pattern (30 bp):
TTTAATTTATGGGTTGGGCTGTTAGGTTTT
Found at i:94580082 original size:26 final size:24
Alignment explanation
Indices: 94580019--94580070 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
94580009 CACAAAGAAA
*
94580019 CATATTGGGAAGCTCACGAAGAGC
1 CATATCGGGAAGCTCACGAAGAGC
94580043 C-TATCGGGAAGCTCACGAAGAGC
1 CATATCGGGAAGCTCACGAAGAGC
94580066 CATAT
1 CATAT
94580071 ATCGGGACGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (24 bp):
CATATCGGGAAGCTCACGAAGAGC
Found at i:94582225 original size:18 final size:20
Alignment explanation
Indices: 94582198--94582246 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
94582188 TAATTAATAA
* *
94582198 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
94582219 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
94582239 T-AAATAAT
1 TAAAATAAT
94582247 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:94582235 original size:20 final size:21
Alignment explanation
Indices: 94582198--94582257 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
94582188 TAATTAATAA
*
94582198 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
94582219 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
94582239 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
94582258 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:94582800 original size:42 final size:42
Alignment explanation
Indices: 94582741--94582825 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
94582731 TTGCTTTCCG
**
94582741 TTTAGCTCTTACGAGCTTTTGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
94582783 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
94582825 T
1 T
94582826 AACCCTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
Found at i:94582828 original size:20 final size:20
Alignment explanation
Indices: 94582761--94582828 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
94582751 ACGAGCTTTT
94582761 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
* * * * *
94582781 GTTTTAGCTCTTACGAGCTTCC
1 G--TTAACTCATATGAGTTTCA
94582803 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
94582823 GTTAAC
1 GTTAAC
94582829 CCTTTTGGGG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 21 0.58
22 15 0.42
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:94582905 original size:39 final size:39
Alignment explanation
Indices: 94582859--94582998 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
94582849 GCTCTGATAA
94582859 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
*
94582898 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
* *
94582937 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
* *
94582976 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
94582999 AGATCATGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
Found at i:94604759 original size:3 final size:3
Alignment explanation
Indices: 94604751--94604781 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94604741 CCACATAGTA
94604751 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
94604782 TCCGCATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:94605020 original size:15 final size:14
Alignment explanation
Indices: 94605000--94605046 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
94604990 TTTATCAGTA
94605000 AATAATATATAAAAT
1 AATAATAT-TAAAAT
94605015 AATAATATTGAAAAT
1 AATAATATT-AAAAT
* *
94605030 AATTATTTTAAAAT
1 AATAATATTAAAAT
94605044 AAT
1 AAT
94605047 TAAAAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATTAAAAT
Found at i:94605411 original size:5 final size:5
Alignment explanation
Indices: 94605401--94605433 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
94605391 CAAATTACTT
94605401 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
94605434 GAGGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:94610944 original size:3 final size:3
Alignment explanation
Indices: 94610936--94611006 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
94610926 AACACTCAAC
94610936 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
94610984 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
94611007 GCATCCAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:94613652 original size:21 final size:21
Alignment explanation
Indices: 94613628--94613672 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94613618 GTTTGATGTC
*
94613628 ACTAAAATTAGTTGTATGTTT
1 ACTAAAATTAGTTGTATGATT
* *
94613649 ACTAAATTTAGTTGTTTGATT
1 ACTAAAATTAGTTGTATGATT
94613670 ACT
1 ACT
94613673 CGTTATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (21 bp):
ACTAAAATTAGTTGTATGATT
Found at i:94617315 original size:14 final size:14
Alignment explanation
Indices: 94617292--94617321 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94617282 TTGAAAATAT
94617292 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
94617306 GTTGATTTGGATTG
1 GTTGAATTGGATTG
94617320 GT
1 GT
94617322 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:94621141 original size:18 final size:18
Alignment explanation
Indices: 94621118--94621158 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
94621108 TACTTTTCTC
94621118 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
94621136 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
94621154 TTTCT
1 TTTCT
94621159 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:94621356 original size:38 final size:39
Alignment explanation
Indices: 94621272--94621365 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
94621262 ACCAATATGG
*
94621272 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
94621311 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* *
94621349 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
94621366 AATCTATCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.40
39 25 0.53
40 3 0.06
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:94622327 original size:18 final size:17
Alignment explanation
Indices: 94622299--94622332 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
94622289 AAAAACCCTA
94622299 TTTTCTCTTTTCTTTCT
1 TTTTCTCTTTTCTTTCT
94622316 TTTTCTTCTTTTCTTTC
1 TTTTC-TCTTTTCTTTC
94622333 CCCTGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTCTTTTCTTTCT
Found at i:94622910 original size:13 final size:13
Alignment explanation
Indices: 94622892--94622917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94622882 ACTTTTACCC
94622892 TTTATTCAATTTA
1 TTTATTCAATTTA
94622905 TTTATTCAATTTA
1 TTTATTCAATTTA
94622918 ATCCTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTCAATTTA
Found at i:94627588 original size:14 final size:14
Alignment explanation
Indices: 94627565--94627594 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94627555 TTGAAAATAT
94627565 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
94627579 GTTGATTTGGATTG
1 GTTGAATTGGATTG
94627593 GT
1 GT
94627595 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:94629808 original size:51 final size:51
Alignment explanation
Indices: 94629723--94629837 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
94629713 TTGTGTCGAC
* * *
94629723 TACTGTTACTGTTCCGGATTCGTTTCGAAGAGGTACTCTGTACTTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
*
94629774 TACTGTTACTGTTTCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
* *
94629825 TACTATTAATGTT
1 TACTGTTACTGTT
94629838 ACTGTTCCGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (51 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCTTACTGT
Found at i:94629828 original size:57 final size:59
Alignment explanation
Indices: 94629763--94629903 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 59
94629753 AGGTACTCTG
* * * *
94629763 TACT-TTACTGTTACTGTTACTGTTTCGGATTCGTTCCGAAAAGGTAC-TCTGTACC-T
1 TACTGTTACTATTAATGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTTCTGTACCGC
* ** *
94629819 TACTGTTACTATTAATGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCGC
1 TACTGTTACTATTAATGTTACTGTTCCGGATTCGTTCCGAAAAGGTAC-TTCTGTACCGC
*
94629879 TACTGTTACTATTATTGTTACTGTT
1 TACTGTTACTATTAATGTTACTGTT
94629904 ACCGTTACTG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
56 4 0.06
57 37 0.51
59 7 0.10
60 24 0.33
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (59 bp):
TACTGTTACTATTAATGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTTCTGTACCGC
Found at i:94630079 original size:18 final size:18
Alignment explanation
Indices: 94630036--94630082 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
94630026 TATTAAAGAC
* *
94630036 TGACTGCTACTGAATAAT
1 TGACTGTTACTGAATAAA
94630054 TGACTGTTACTGAATAAA
1 TGACTGTTACTGAATAAA
*
94630072 TGATTGTTACT
1 TGACTGTTACT
94630083 AATTAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (18 bp):
TGACTGTTACTGAATAAA
Found at i:94633526 original size:6 final size:6
Alignment explanation
Indices: 94633517--94633577 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
94633507 ATAGAAGAAC
* * * * *
94633517 AAGATG AAGATG AAGAT- AACGTTG AAGATG AATATG GAGATG GAGGTG
1 AAGATG AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGATG
94633565 AAGATG AAGATG A
1 AAGATG AAGATG A
94633578 TAATAATGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 2 0.04
6 41 0.91
7 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.34, T:0.20
Consensus pattern (6 bp):
AAGATG
Found at i:94637365 original size:20 final size:20
Alignment explanation
Indices: 94637340--94637379 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
94637330 TTTCAAAAAG
94637340 TTAGAAAAGATCAGACATGA
1 TTAGAAAAGATCAGACATGA
*
94637360 TTAGAAAAGATCGGACATGA
1 TTAGAAAAGATCAGACATGA
94637380 CTCACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGATCAGACATGA
Found at i:94640326 original size:5 final size:5
Alignment explanation
Indices: 94640311--94640343 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
94640301 TCTATCTGTG
94640311 AAAATT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94640344 GAACATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:94644765 original size:5 final size:5
Alignment explanation
Indices: 94644755--94644786 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94644745 CAATTTGTGA
94644755 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94644787 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94644780 original size:9 final size:9
Alignment explanation
Indices: 94644756--94644786 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
94644746 AATTTGTGAA
94644756 AAATAAAAT
1 AAATAAAAT
94644765 AAAATAAAAT
1 -AAATAAAAT
94644775 AAATAAAAT
1 AAATAAAAT
94644784 AAA
1 AAA
94644787 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:94648310 original size:2 final size:2
Alignment explanation
Indices: 94648303--94648332 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94648293 TTAGTACTCA
94648303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94648333 TTTGCAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94648388 original size:3 final size:3
Alignment explanation
Indices: 94648380--94648440 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
94648370 TGTTTCAAGG
94648380 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94648428 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
94648441 ATACTATTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:94648588 original size:29 final size:29
Alignment explanation
Indices: 94648556--94648624 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
94648546 TGAGAAATAT
* **
94648556 ATTATATATTTAATTTTTTTAAAAATTAA
1 ATTATAAATTTAATCATTTTAAAAATTAA
* *
94648585 ATTA-AAATTTTATCATTTTAAAGATTAA
1 ATTATAAATTTAATCATTTTAAAAATTAA
*
94648613 AATATAAATTTA
1 ATTATAAATTTA
94648625 TTGTATACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTATAAATTTAATCATTTTAAAAATTAA
Found at i:94658809 original size:13 final size:13
Alignment explanation
Indices: 94658791--94658829 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
94658781 AGTTTGGCAA
94658791 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
94658804 TGCTTTTGAGAAG
1 TGCTTTTAAAAAG
94658817 TGCTTTTGAAAAA
1 TGCTTTT-AAAAA
94658830 TTTGGTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:94670795 original size:16 final size:16
Alignment explanation
Indices: 94670754--94670795 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
94670744 TGAATTATTT
* *
94670754 TAATTATTTATATTTA
1 TAATTTTTTATAATTA
*
94670770 T-ATTTATTATAATTA
1 TAATTTTTTATAATTA
94670785 TAATTTTTTAT
1 TAATTTTTTAT
94670796 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATTTTTTATAATTA
Found at i:94679620 original size:13 final size:13
Alignment explanation
Indices: 94679563--94679628 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
94679553 TTTTATGTAT
*
94679563 AAATTTCTTTA-A
1 AAATATCTTTATA
94679575 AAATATCTTTATA
1 AAATATCTTTATA
* * * *
94679588 AAAAATATCTACTT
1 AAATATCTTTA-TA
94679602 AAATATCTTTATA
1 AAATATCTTTATA
94679615 AAATATCTTTATA
1 AAATATCTTTATA
94679628 A
1 A
94679629 GAAAAGGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
12 10 0.23
13 24 0.56
14 9 0.21
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATCTTTATA
Found at i:94682626 original size:56 final size:56
Alignment explanation
Indices: 94682540--94682655 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
94682530 ATATTTCTGG
*
94682540 TTTTGTTGTGTGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
*
94682596 TTTTGTTGTATGGTGTACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
94682652 TTTT
1 TTTT
94682656 CTTATTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (56 bp):
TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
Found at i:94686664 original size:15 final size:16
Alignment explanation
Indices: 94686644--94686677 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
94686634 AATTTTTTAA
94686644 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
94686659 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
94686675 AAA
1 AAA
94686678 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:94687770 original size:2 final size:2
Alignment explanation
Indices: 94687763--94687790 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
94687753 AATTGTTCGA
94687763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94687791 TTGTTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94690297 original size:61 final size:61
Alignment explanation
Indices: 94690185--94690337 Score: 234
Period size: 61 Copynumber: 2.5 Consensus size: 61
94690175 ATTTGACCTA
* * * *
94690185 AAAAAAGCTTAGGTACCAAATTAGAAAAAAAAAATAGCAAGTTCAAGTATCAAATTGGACCC
1 AAAAAAGTTTAGGTACCAAATTAG-GAAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
* *
94690247 AACAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAATTATCAAATTAGACCC
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
*
94690308 AAAAAAGTTTAGGCACCAAATTAGGAAAAA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
94690338 TGTCAAGTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 61 0.73
62 22 0.27
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (61 bp):
AAAAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
Found at i:94690348 original size:30 final size:31
Alignment explanation
Indices: 94690312--94690377 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
94690302 AGACCCAAAA
* **
94690312 AAGTTTAGGCACCAAATT-AGGAAAAATGTC
1 AAGTTTAGACACCAAATTAAAAAAAAATGTC
*
94690342 AAGTTTAGATACCAAATTAAAAAAAAATGTC
1 AAGTTTAGACACCAAATTAAAAAAAAATGTC
94690373 AAGTT
1 AAGTT
94690378 CATTTACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (31 bp):
AAGTTTAGACACCAAATTAAAAAAAAATGTC
Found at i:94691847 original size:26 final size:25
Alignment explanation
Indices: 94691804--94691852 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
94691794 TACAACCTAA
94691804 ACCCACAAACCCAAACAATAACCCTT
1 ACCCACAAACCCAAACAA-AACCCTT
*
94691830 ACCCA-AAACCCATTACAAAACCC
1 ACCCACAAACCCA-AACAAAACCC
94691853 AAATACCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (25 bp):
ACCCACAAACCCAAACAAAACCCTT
Found at i:94692986 original size:12 final size:12
Alignment explanation
Indices: 94692971--94693013 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
94692961 ATATTGTTAT
* *
94692971 TATTATTCCTAA
1 TATTATTACTAC
*
94692983 TATTATTAATAC
1 TATTATTACTAC
*
94692995 TATTATTTCTAC
1 TATTATTACTAC
94693007 TATTATT
1 TATTATT
94693014 GTTATTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:94693150 original size:29 final size:29
Alignment explanation
Indices: 94693083--94693150 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
94693073 TTACTATTTT
94693083 TAGTATTATTATTATATGTAATATTAGTA
1 TAGTATTATTATTATATGTAATATTAGTA
* *
94693112 TAGGTTTTATTA-TATATGTACGTATATA-TA
1 TA-GTATTATTATTATATGTA-ATAT-TAGTA
94693142 TAGTATTAT
1 TAGTATTAT
94693151 CTTAATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 15 0.45
31 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (29 bp):
TAGTATTATTATTATATGTAATATTAGTA
Found at i:94693753 original size:20 final size:20
Alignment explanation
Indices: 94693730--94693768 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94693720 CCCATGTATA
*
94693730 TATTATTATTACATTTATTT
1 TATTACTATTACATTTATTT
* *
94693750 TATTCCTATTATATTTATT
1 TATTACTATTACATTTATT
94693769 ATTAGTACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTACATTTATTT
Found at i:94693999 original size:2 final size:2
Alignment explanation
Indices: 94693992--94694028 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
94693982 TTAAATATGT
94693992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94694029 GTATGTATTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94695023 original size:13 final size:13
Alignment explanation
Indices: 94695005--94695041 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
94694995 CTGGCCCACC
94695005 TATATTAATTTTT
1 TATATTAATTTTT
94695018 TATATT-ATTTTT
1 TATATTAATTTTT
94695030 TATA-TAATTTTT
1 TATATTAATTTTT
94695042 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.04
12 16 0.70
13 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:94695040 original size:11 final size:12
Alignment explanation
Indices: 94695005--94695042 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
94694995 CTGGCCCACC
94695005 TATATTAATTTTT
1 TATATTAA-TTTT
*
94695018 TATATTATTTTT
1 TATATTAATTTT
94695030 TATA-TAATTTT
1 TATATTAATTTT
94695041 TA
1 TA
94695043 AATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 8 0.35
12 8 0.35
13 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:94696108 original size:21 final size:19
Alignment explanation
Indices: 94696052--94696112 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
94696042 TAATTATTTA
94696052 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
94696071 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
94696090 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
94696111 TT
1 TT
94696113 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:94696514 original size:28 final size:28
Alignment explanation
Indices: 94696473--94696526 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
94696463 TAACAATTAG
94696473 ATTTTAATTATT-AAATAAAAAATAAGA
1 ATTTTAATTATTAAAATAAAAAATAAGA
* *
94696500 ATTTTAAATTCTTAAAATTAAAAATAA
1 ATTTT-AATTATTAAAATAAAAAATAA
94696527 AGAGATTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 6 0.26
29 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
ATTTTAATTATTAAAATAAAAAATAAGA
Found at i:94696954 original size:29 final size:30
Alignment explanation
Indices: 94696919--94697006 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
94696909 AAAAATTCAA
94696919 ATAAAATTATAAAAACTATTTTTAAAAA-TT
1 ATAAAATTATAAAAACT-TTTTTAAAAATTT
* * *
94696949 A-AAAATCAT-TAAAC-TTATTAAAAATTT
1 ATAAAATTATAAAAACTTTTTTAAAAATTT
* *
94696976 ATAAAACTATAAAAACTTTTTTTAAATATTT
1 ATAAAATTATAAAAAC-TTTTTTAAAAATTT
94697007 TTATATTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
26 9 0.20
27 3 0.07
28 10 0.22
29 11 0.24
30 1 0.02
31 11 0.24
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATTATAAAAACTTTTTTAAAAATTT
Found at i:94697742 original size:30 final size:32
Alignment explanation
Indices: 94697690--94697750 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
94697680 AATATTTGAA
* **
94697690 ATTTTTTTGTCTCAATTTGATAT-TGAATTTG
1 ATTTTATTGTCTCAATCCGATATATGAATTTG
94697721 ATTTTATTGT-TCAATCCGATATATGAATTT
1 ATTTTATTGTCTCAATCCGATATATGAATTT
94697751 TCTTTTGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.54
Consensus pattern (32 bp):
ATTTTATTGTCTCAATCCGATATATGAATTTG
Found at i:94699065 original size:18 final size:19
Alignment explanation
Indices: 94699012--94699076 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
94699002 TACAAAATAA
94699012 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
*
94699032 TCAAAATAAATTTAAAAA-
1 TCAAAATAATTTTAAAAAT
94699050 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
94699069 TCTAAAAT
1 TC-AAAAT
94699077 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 13 0.32
19 7 0.17
20 17 0.43
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:94699078 original size:18 final size:18
Alignment explanation
Indices: 94699010--94699081 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
94699000 AATACAAAAT
94699010 AATCAAAATAATTT-TCAAA
1 AATCAAAAT-ATTTAT-AAA
*
94699029 AATTCAAAATAAATT-TAAA
1 AA-TCAAAAT-ATTTATAAA
94699048 AATCAAAATATTTATAAA
1 AATCAAAATATTTATAAA
*
94699066 AATTCTAAA-ATTTATA
1 AA-TCAAAATATTTATA
94699082 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.06
18 20 0.43
19 12 0.26
20 12 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AATCAAAATATTTATAAA
Found at i:94700090 original size:28 final size:27
Alignment explanation
Indices: 94700042--94700103 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
94700032 TCTAAACTAG
*
94700042 AAATTTTTTTATTTGGTATTTGAATATTT
1 AAATTTTTTTATTT-GAATTT-AATATTT
*
94700071 AAATTTTTTTATCTT-AATTTAGTATTT
1 AAATTTTTTTAT-TTGAATTTAATATTT
*
94700098 TAATTT
1 AAATTT
94700104 GATTTATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.38
28 4 0.14
29 12 0.41
30 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (27 bp):
AAATTTTTTTATTTGAATTTAATATTT
Found at i:94700676 original size:17 final size:17
Alignment explanation
Indices: 94700656--94700724 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
94700646 GCCTTCACAC
*
94700656 CTTTTTGTTTTCTTTTT
1 CTTTTTATTTTCTTTTT
*
94700673 C-TTTTATTTTCATATTT
1 CTTTTTATTTTC-TTTTT
*
94700690 CTTTTGTTTTTTC-TTTT
1 CTTTT-TATTTTCTTTTT
* *
94700707 ATTTTCATATTTCTTTTT
1 CTTTTTAT-TTTCTTTTT
94700725 TTTATTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 10 0.25
17 17 0.43
18 7 0.17
19 6 0.15
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.77
Consensus pattern (17 bp):
CTTTTTATTTTCTTTTT
Found at i:94700700 original size:29 final size:28
Alignment explanation
Indices: 94700663--94700740 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 28
94700653 CACCTTTTTG
*
94700663 TTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTTTTTTTCTTTTATTTTCATATTTC
94700691 TTTTGTTTTTTCTTTTATTTTCATATTTC
1 TTTT-TTTTTTCTTTTATTTTCATATTTC
*
94700720 TTTTTTTTATTTTTTTATTTT
1 TTTTTTTT-TTCTTTTATTTT
94700741 GTTCCTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 8 0.17
29 38 0.83
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.79
Consensus pattern (28 bp):
TTTTTTTTTTCTTTTATTTTCATATTTC
Found at i:94700738 original size:21 final size:20
Alignment explanation
Indices: 94700685--94700740 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
94700675 TTTATTTTCA
*
94700685 TATTTCTTTTGTTTTTTCTTT
1 TATTT-TTTTATTTTTTCTTT
** *
94700706 TATTTTCATATTTCTTTTTTT
1 TATTTTTTTATTT-TTTCTTT
94700727 TATTTTTTTATTTT
1 TATTTTTTTATTTT
94700741 GTTCCTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (20 bp):
TATTTTTTTATTTTTTCTTT
Found at i:94700775 original size:9 final size:9
Alignment explanation
Indices: 94700761--94700831 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
94700751 AAATTTTATC
94700761 TTTTTATTT
1 TTTTTATTT
*
94700770 TTTTTACTT
1 TTTTTATTT
*
94700779 TTTTGA-TT
1 TTTTTATTT
*
94700787 TTTTT-CTT
1 TTTTTATTT
* *
94700795 ATTTCATTT
1 TTTTTATTT
*
94700804 TGTTTATTT
1 TTTTTATTT
94700813 TGTTTTATTT
1 T-TTTTATTT
94700823 TTTATTATT
1 TTT-TTATT
94700832 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 11 0.23
9 24 0.50
10 13 0.27
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:94700803 original size:16 final size:17
Alignment explanation
Indices: 94700768--94700809 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
94700758 ATCTTTTTAT
* *
94700768 TTTTTTTACTTTTTTGA
1 TTTTTTTACTTATTTCA
94700785 TTTTTTT-CTTATTTCA
1 TTTTTTTACTTATTTCA
94700801 TTTTGTTTA
1 TTTT-TTTA
94700810 TTTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTATTTCA
Found at i:94700804 original size:24 final size:24
Alignment explanation
Indices: 94700777--94700822 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
94700767 TTTTTTTTAC
*
94700777 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
94700801 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
94700823 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:94700824 original size:34 final size:32
Alignment explanation
Indices: 94700753--94700831 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 32
94700743 TCCTTAATAA
* *
94700753 ATTTTATCTT-TTTATTTTTTTTACTTTTTTG
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
* *
94700784 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTG
*
94700819 ATTTTTTATTATT
1 ATTTTTTCTTATT
94700832 AACTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 3 0.08
34 23 0.59
35 4 0.10
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
Found at i:94701271 original size:4 final size:4
Alignment explanation
Indices: 94701262--94701288 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
94701252 ACCCAAACAC
94701262 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
94701289 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:94701369 original size:22 final size:22
Alignment explanation
Indices: 94701329--94701370 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94701319 TGGCCACCCA
*
94701329 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
94701351 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
94701371 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:94701526 original size:25 final size:23
Alignment explanation
Indices: 94701469--94701544 Score: 86
Period size: 20 Copynumber: 3.3 Consensus size: 23
94701459 TTGTTCTTTG
*
94701469 TTTTGGAAGAGGTTTTTTTTATT
1 TTTTGGAAGAGGTTTTTTTTGTT
94701492 TTTT-G--GAGGTTTTTTTTGTT
1 TTTTGGAAGAGGTTTTTTTTGTT
*
94701512 TTTTGGAAAGAAGGTTGTTTTTGTT
1 TTTTGG-AAG-AGGTTTTTTTTGTT
*
94701537 TCTTGGAA
1 TTTTGGAA
94701545 AGGCTAGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 18 0.40
21 1 0.02
22 1 0.02
23 4 0.09
24 3 0.07
25 18 0.40
ACGTcount: A:0.16, C:0.01, G:0.25, T:0.58
Consensus pattern (23 bp):
TTTTGGAAGAGGTTTTTTTTGTT
Found at i:94701545 original size:25 final size:25
Alignment explanation
Indices: 94701498--94701546 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94701488 TATTTTTTGG
* *
94701498 AGGTTTTTTTTGTTTTTTGGAAAGA
1 AGGTTGTTTTTGTTTCTTGGAAAGA
94701523 AGGTTGTTTTTGTTTCTTGGAAAG
1 AGGTTGTTTTTGTTTCTTGGAAAG
94701547 GCTAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (25 bp):
AGGTTGTTTTTGTTTCTTGGAAAGA
Found at i:94701861 original size:3 final size:3
Alignment explanation
Indices: 94701855--94701935 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
94701845 TTTTATTTTT
* *
94701855 TTA TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A
94701901 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
94701936 ATATGCCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 7 0.11
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:94701869 original size:12 final size:12
Alignment explanation
Indices: 94701847--94701935 Score: 78
Period size: 12 Copynumber: 7.3 Consensus size: 12
94701837 GAGCTTTGTT
*
94701847 TTATT-TTTTTA
1 TTATTATTTATA
*
94701858 TTATTATTTTTA
1 TTATTATTTATA
*
94701870 CTATTATTTATA
1 TTATTATTTATA
94701882 TTATTA-TTATTA
1 TTATTATTTA-TA
94701894 TT-TCTCATGTATATA
1 TTAT-T-AT-T-TATA
94701909 TTATTATTTATA
1 TTATTATTTATA
94701921 TTATTA-TTATA
1 TTATTATTTATA
94701932 TTAT
1 TTAT
94701936 ATATGCCCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
11 18 0.27
12 36 0.54
13 2 0.03
14 2 0.03
15 6 0.09
16 3 0.04
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:94701928 original size:18 final size:18
Alignment explanation
Indices: 94701855--94701939 Score: 88
Period size: 18 Copynumber: 4.7 Consensus size: 18
94701845 TTTTATTTTT
94701855 TTATTA-TTAT-TT-TTA
1 TTATTATTTATATTATTA
*
94701870 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
94701888 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
94701909 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
94701927 TTA-TATTATATAT
1 TTATTATT-TATAT
94701940 GCCCTCTCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.08
16 4 0.07
17 6 0.10
18 22 0.37
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:94701937 original size:30 final size:31
Alignment explanation
Indices: 94701846--94701939 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 31
94701836 AGAGCTTTGT
* *
94701846 TTTATTT-TTTTATTATTAT-TTTTACTATTA
1 TTTATTTATATTATTATTATATTATA-TATTA
*
94701876 TTTATATTATTATTATTATTTCTCATGTATATATTA
1 TTTAT-TTA-TATTATTA-TTAT-AT-TATATATTA
94701912 -TTATTTATATTATTATTATATTATATAT
1 TTTATTTATATTATTATTATATTATATAT
94701940 GCCCTCTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
30 12 0.23
31 4 0.08
32 3 0.06
33 15 0.28
34 6 0.11
35 4 0.08
36 6 0.11
37 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTATTTATATTATTATTATATTATATATTA
Found at i:94703380 original size:11 final size:11
Alignment explanation
Indices: 94703364--94703393 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
94703354 TAACATTAAG
94703364 AATATATATAT
1 AATATATATAT
*
94703375 AATATAAATAT
1 AATATATATAT
94703386 AATATATA
1 AATATATA
94703394 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Done.