Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 214 of 250
Found at i:66364745 original size:93 final size:92
Alignment explanation
Indices: 66364567--66364788 Score: 302
Period size: 93 Copynumber: 2.4 Consensus size: 92
66364557 AGTGTGCTCT
* * * * * * *
66364567 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCAACATGACAGGAAATGAATAAG
*
66364632 ACCATGGTTGAAAGATACCATGGCAAC
66 AACATGGTTGAAAGATACCATGGCAAC
66364659 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCAACATGACAGGAAAATGAATAA
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCAACATGACAGG-AAATGAATAA
66364724 GAACATGGTTGAAAGATACCATGGCAAC
65 GAACATGGTTGAAAGATACCATGGCAAC
* * * * *
66364752 ATGACA-GAAAACGAGTAAAACTATAGTTGAAAGATAC
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
66364789 TATGACATCA
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 48 0.42
93 67 0.58
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (92 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCAACATGACAGGAAATGAATAAG
AACATGGTTGAAAGATACCATGGCAAC
Found at i:66369686 original size:18 final size:18
Alignment explanation
Indices: 66369663--66369698 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
66369653 TTGTATTCAC
* *
66369663 TTATTATTCTTTCATTTT
1 TTATTAGTCGTTCATTTT
66369681 TTATTAGTCGTTCATTTT
1 TTATTAGTCGTTCATTTT
66369699 ATCTATGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATTAGTCGTTCATTTT
Found at i:66369740 original size:3 final size:3
Alignment explanation
Indices: 66369722--66369835 Score: 54
Period size: 3 Copynumber: 35.3 Consensus size: 3
66369712 TTATCATTGG
*
66369722 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TATT TAT TCAT CTATT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT T-AT -TA-T
* * * * *
66369768 TATT TAT TACC CAT TTT GTACT TA- TAT ATAT TAT TCT GAT T-T CTAT
1 TA-T TAT TA-T TAT TAT -TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT
66369814 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
66369836 TGTTTATACA
Statistics
Matches: 86, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
2 5 0.06
3 55 0.64
4 23 0.27
5 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:66369752 original size:27 final size:30
Alignment explanation
Indices: 66369711--66369767 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 30
66369701 CTATGTCTTC
*
66369711 ATTATCATTGGTA-T-TTTATT-ATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
*
66369738 ATTATCATTATTATTATTTATTCATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
66369768 TATTTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 6 0.24
30 7 0.28
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTATCATTAGTATTATTTATTCATCTATT
Found at i:66369768 original size:12 final size:11
Alignment explanation
Indices: 66369725--66369771 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
66369715 TCATTGGTAT
66369725 TTTATTATCTA
1 TTTATTATCTA
66369736 -TTATTATC-A
1 TTTATTATCTA
66369745 -TTATTAT-TA
1 TTTATTATCTA
66369754 TTTATTCATCTA
1 TTTATT-ATCTA
66369766 TTTATT
1 TTTATT
66369772 TATTACCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.28
10 13 0.41
11 2 0.06
12 8 0.25
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATTATCTA
Found at i:66369989 original size:3 final size:3
Alignment explanation
Indices: 66369971--66370008 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
66369961 TTCACTCACA
*
66369971 TAT T-T TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66370009 ATTTTATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:66378598 original size:2 final size:2
Alignment explanation
Indices: 66378591--66378618 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
66378581 TAAGATCTTT
66378591 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
66378619 AAGAGATGGT
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):
TA
Found at i:66383883 original size:18 final size:18
Alignment explanation
Indices: 66383836--66383885 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
66383826 TGTAACGAGC
*
66383836 ATAAA-TTAAAAAAATAA
1 ATAAATTTATAAAAATAA
66383853 A-AATATCTT-TAAAAATAA
1 ATAA-AT-TTATAAAAATAA
66383871 ATAAATTTATAAAAA
1 ATAAATTTATAAAAA
66383886 GTATAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 17 0.63
19 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAATTTATAAAAATAA
Found at i:66386209 original size:14 final size:17
Alignment explanation
Indices: 66386178--66386214 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
66386168 ATTATAAAGG
66386178 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
66386195 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
66386209 ATATTA
1 ATATTA
66386215 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:66386379 original size:14 final size:14
Alignment explanation
Indices: 66386362--66386412 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
66386352 AAAAACAAAA
66386362 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
66386376 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
66386390 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
66386405 G-AATAAAA
1 GAAATAAAA
66386413 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:66386423 original size:17 final size:16
Alignment explanation
Indices: 66386401--66386434 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66386391 AAGTTAAAAT
66386401 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
66386418 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
66386434 A
1 A
66386435 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:66402483 original size:18 final size:17
Alignment explanation
Indices: 66402460--66402516 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
66402450 AAAAATTATA
66402460 AATAAATTTATAATAAAT
1 AATAAATTT-TAATAAAT
*
66402478 AATAAATTTTAGAAAAATT
1 AATAAATTTTA-ATAAA-T
*
66402497 ATTAAATTTTAATAAA-
1 AATAAATTTTAATAAAT
66402513 AATA
1 AATA
66402517 TAAAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.09
17 2 0.06
18 17 0.52
19 11 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AATAAATTTTAATAAAT
Found at i:66402488 original size:19 final size:18
Alignment explanation
Indices: 66402460--66402520 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
66402450 AAAAATTATA
66402460 AATAAA-TTTATAATAAAT
1 AATAAATTTTATAA-AAAT
*
66402478 AATAAATTTTAGAAAAATT
1 AATAAATTTTATAAAAA-T
*
66402497 ATTAAATTTTAATAAAAAT
1 AATAAATTTT-ATAAAAAT
66402516 -ATAAA
1 AATAAA
66402521 AAATTAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 13 0.36
19 17 0.47
20 6 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAAATTTTATAAAAAT
Found at i:66402797 original size:48 final size:46
Alignment explanation
Indices: 66402745--66402857 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 46
66402735 TTTTACGAAA
* **
66402745 TTTATATTTCTTTACATTTTGTATAATTTTCTTATGAC-TTTATAAAAT
1 TTTATATTTCTATACA-TTT-TAT-ATTTTCTTACAACTTTTATAAAAT
* *
66402793 TTTATATTTCTATATATTTTATATTTTTTTACAACTTTTATAAAAT
1 TTTATATTTCTATACATTTTATATTTTCTTACAACTTTTATAAAAT
66402839 TTTATAATTT-TATA-ATTTT
1 TTTAT-ATTTCTATACATTTT
66402858 TTTAACAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
45 15 0.26
46 22 0.38
47 7 0.12
48 14 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (46 bp):
TTTATATTTCTATACATTTTATATTTTCTTACAACTTTTATAAAAT
Found at i:66402851 original size:18 final size:18
Alignment explanation
Indices: 66402828--66402927 Score: 55
Period size: 18 Copynumber: 5.4 Consensus size: 18
66402818 TTTTTACAAC
66402828 TTTTATAAAATTTTATAA
1 TTTTATAAAATTTTATAA
** *
66402846 TTTTATAATTTTTTTAACAA
1 TTTTATAA-AATTTT-ATAA
* * *
66402866 TTTT-TATATTTTTCTAA
1 TTTTATAAAATTTTATAA
*
66402883 TTTT-TAATA-TTTA-AA
1 TTTTATAAAATTTTATAA
66402898 TTTTTATTAAAATTTTAATAA
1 -TTTTA-TAAAATTTT-ATAA
66402919 TATTTATAA
1 T-TTTATAA
66402928 CTTTTATTGA
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 2 0.03
16 7 0.11
17 8 0.13
18 17 0.28
19 9 0.15
20 12 0.20
21 6 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATAAAATTTTATAA
Found at i:66402859 original size:10 final size:9
Alignment explanation
Indices: 66402792--66402959 Score: 66
Period size: 8 Copynumber: 18.6 Consensus size: 9
66402782 CTTTATAAAA
66402792 TTTTAT-AT
1 TTTTATAAT
*
66402800 TTCTAT-AT
1 TTTTATAAT
*
66402808 ATTTTATATTT
1 -TTTTATA-AT
* *
66402819 TTTTACAAC
1 TTTTATAAT
*
66402828 TTTTATAAAA
1 TTTTAT-AAT
66402838 TTTTATAA-
1 TTTTATAAT
66402846 TTTTATAATTT
1 TTTTATAA--T
*
66402857 TTTTAACAAT
1 TTTT-ATAAT
66402867 TTTTAT-AT
1 TTTTATAAT
*
66402875 TTTTCTAA-
1 TTTTATAAT
66402883 TTTT-TAAT
1 TTTTATAAT
*
66402891 ATTTA-AAT
1 TTTTATAAT
66402899 TTTTATTAAAAT
1 TTTTA-T--AAT
*
66402911 TTTAATAAT
1 TTTTATAAT
* *
66402920 ATTTATAAC
1 TTTTATAAT
*
66402929 TTTTATTGAT
1 TTTTA-TAAT
66402939 TTTTAT--T
1 TTTTATAAT
*
66402946 TTCTATAAT
1 TTTTATAAT
66402955 TTTTA
1 TTTTA
66402960 ATAAAAGCGG
Statistics
Matches: 120, Mismatches: 22, Indels: 35
0.68 0.12 0.20
Matches are distributed among these distances:
7 9 0.08
8 36 0.30
9 33 0.28
10 26 0.22
11 6 0.05
12 10 0.08
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:66404664 original size:18 final size:18
Alignment explanation
Indices: 66404641--66404682 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
66404631 GATTACATCA
66404641 AAACCCAAC-AAAACCTCT
1 AAACCCAACTAAAACC-CT
66404659 AAACCC-ACTAAAACCCT
1 AAACCCAACTAAAACCCT
*
66404676 TAACCCA
1 AAACCCA
66404683 TGACCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (18 bp):
AAACCCAACTAAAACCCT
Found at i:66404781 original size:18 final size:18
Alignment explanation
Indices: 66404760--66404803 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
66404750 AGCCCCCCCC
66404760 AAAAAACCTAACCCCAAA
1 AAAAAACCTAACCCCAAA
66404778 AAAAAACCTAACCCCAAA
1 AAAAAACCTAACCCCAAA
66404796 AAAAAACC
1 AAAAAACC
66404804 AAGAAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.64, C:0.32, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAACCTAACCCCAAA
Found at i:66405141 original size:18 final size:17
Alignment explanation
Indices: 66405101--66405139 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
66405091 CCTAAAGGTG
*
66405101 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
66405118 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
66405135 ATTTT
1 ATTTT
66405140 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:66405210 original size:28 final size:29
Alignment explanation
Indices: 66405178--66405235 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 29
66405168 ATCTATATAT
66405178 ATATACATCATA-ATAAA-AAATA-TAAAAA
1 ATATACAT-ATACA-AAACAAATATTAAAAA
*
66405206 ATATATATATACAAAACAAATATTAAAAA
1 ATATACATATACAAAACAAATATTAAAAA
66405235 A
1 A
66405236 AATTTACGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 6 0.23
28 13 0.50
29 7 0.27
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (29 bp):
ATATACATATACAAAACAAATATTAAAAA
Found at i:66406798 original size:15 final size:15
Alignment explanation
Indices: 66406728--66406804 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 15
66406718 TTTATGTACA
66406728 TATGTATATATTTTT
1 TATGTATATATTTTT
* * **
66406743 TTTGTACATA-TCAT
1 TATGTATATATTTTT
* *
66406757 TAT-TTTATATTATTG
1 TATGTATATATT-TTT
66406772 T-TGTA-A-ATTTTT
1 TATGTATATATTTTT
66406784 TATGTATATATTTTT
1 TATGTATATATTTTT
66406799 TATGTA
1 TATGTA
66406805 CGTTTCCTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 12
0.65 0.18 0.18
Matches are distributed among these distances:
12 3 0.07
13 11 0.25
14 8 0.18
15 22 0.50
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (15 bp):
TATGTATATATTTTT
Found at i:66406804 original size:28 final size:28
Alignment explanation
Indices: 66406728--66406804 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 28
66406718 TTTATGTACA
*
66406728 TATGTATATATTTTTTTTGTACATATCAT
1 TATGTATATA-TTTTTTTGTAAATATCAT
* * **
66406757 TAT-TTTATATTATTGTTGTAAAT-TTTT
1 TATGTATATATT-TTTTTGTAAATATCAT
66406784 TATGTATATATTTTTTATGTA
1 TATGTATATATTTTTT-TGTA
66406805 CGTTTCCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
27 10 0.26
28 25 0.66
29 3 0.08
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (28 bp):
TATGTATATATTTTTTTGTAAATATCAT
Found at i:66408309 original size:28 final size:28
Alignment explanation
Indices: 66408271--66408326 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
66408261 TGTTGTAGTG
*
66408271 AATTTTGGAATATTAATAAGTATTGAAT
1 AATTTTAGAATATTAATAAGTATTGAAT
66408299 AATTTTAGAATATTAATAAGTATTGAAT
1 AATTTTAGAATATTAATAAGTATTGAAT
66408327 TATGTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
AATTTTAGAATATTAATAAGTATTGAAT
Found at i:66408677 original size:27 final size:26
Alignment explanation
Indices: 66408647--66408702 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
66408637 TTAAGGAACC
* *
66408647 TTAGCGCGCTCTCTGATTATTAGCACG
1 TTAG-GCGCTATCTGATTATTAGCACA
*
66408674 TTA-GTGCTATCTGATTATTAGCACA
1 TTAGGCGCTATCTGATTATTAGCACA
66408699 TTAG
1 TTAG
66408703 TGCTCTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 22 0.88
27 3 0.12
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TTAGGCGCTATCTGATTATTAGCACA
Found at i:66408686 original size:25 final size:25
Alignment explanation
Indices: 66408658--66408754 Score: 91
Period size: 25 Copynumber: 4.2 Consensus size: 25
66408648 TAGCGCGCTC
*
66408658 TCTGATTATTAGCACGTTAGTGCTA
1 TCTGATTATTAGCACATTAGTGCTA
66408683 TCTGATTATTAGCACATTAGTGC--
1 TCTGATTATTAGCACATTAGTGCTA
** * *
66408706 TCT-CCT-TTAGCACATTTGTGCTC
1 TCTGATTATTAGCACATTAGTGCTA
*
66408729 TCTG--TA-TAGCACATTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTA
66408751 TCTG
1 TCTG
66408755 TTTAATAGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
21 14 0.22
22 21 0.33
23 6 0.10
25 22 0.35
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
TCTGATTATTAGCACATTAGTGCTA
Found at i:66408741 original size:22 final size:21
Alignment explanation
Indices: 66408691--66408756 Score: 98
Period size: 22 Copynumber: 3.1 Consensus size: 21
66408681 TATCTGATTA
66408691 TTAGCACATTAGTGCTCTCCT-
1 TTAGCACATTAGTGCTCT-CTG
*
66408712 TTAGCACATTTGTGCTCTCTG
1 TTAGCACATTAGTGCTCTCTG
66408733 TATAGCACATTAGTGCTCTCTG
1 T-TAGCACATTAGTGCTCTCTG
66408755 TT
1 TT
66408757 TAATAGTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 20 0.49
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TTAGCACATTAGTGCTCTCTG
Found at i:66411811 original size:19 final size:19
Alignment explanation
Indices: 66411795--66411832 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
66411785 CATAATTTTC
*
66411795 AAAAATTGCAAATATTTAT
1 AAAAATTCCAAATATTTAT
66411814 AAAAATTCCAAAT-TTTAT
1 AAAAATTCCAAATATTTAT
66411832 A
1 A
66411833 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAATTCCAAATATTTAT
Found at i:66417618 original size:17 final size:17
Alignment explanation
Indices: 66417596--66417628 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
66417586 AATGAAAATG
66417596 TAAATAA-AACATATAAA
1 TAAATAATAACA-ATAAA
66417613 TAAATAATAACAATAA
1 TAAATAATAACAATAA
66417629 TGATAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAATAACAATAAA
Found at i:66419261 original size:5 final size:5
Alignment explanation
Indices: 66419251--66419287 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
66419241 TAGGAAAATC
66419251 TTATT TTATT TTATT TTA-T TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTA-TT TTATT TTATT TT
66419288 TTATATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:66426495 original size:175 final size:174
Alignment explanation
Indices: 66426198--66426552 Score: 615
Period size: 175 Copynumber: 2.0 Consensus size: 174
66426188 CAAAATTGAG
* *
66426198 CAAATG-GTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTCTTGATTGAAGCAAGACACC
1 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
* * *
66426262 AACATATTAAAGAGCCACGGTGAAAACAATCACCTAAATGCTGTTGCATCTTCACATGAAATTAC
66 AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGCTGTTACATCTTCACATGAAATTAC
66426327 AGCACA-CCAAGAAGGATAGAGAGAGACCATGGTGATTAGCTCTCA
131 AGCACACCCAAGAAGGATA-A-AGAGACCATGGTGATTAGCTCTCA
66426372 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
1 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
* *
66426437 AACATATTAGAGAGCCACGATGAAAACAATCACCCAAATGTTGTTACATCTTCACATGAAATTAC
66 AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGCTGTTACATCTTCACATGAAATTAC
66426502 AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
131 AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
66426546 CAAATGA
1 CAAATGA
66426553 AGCAAATTGC
Statistics
Matches: 172, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
174 37 0.22
175 123 0.72
176 12 0.07
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (174 bp):
CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGCTGTTACATCTTCACATGAAATTAC
AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
Found at i:66435763 original size:16 final size:16
Alignment explanation
Indices: 66435742--66435775 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
66435732 TCAACAATAT
66435742 TAAAA-TAAATTATAAA
1 TAAAATTAAATT-TAAA
66435758 TAAAATTAAATTTAAA
1 TAAAATTAAATTTAAA
66435774 TA
1 TA
66435776 GATAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTAAATTTAAA
Found at i:66441603 original size:27 final size:27
Alignment explanation
Indices: 66441560--66441621 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
66441550 TATTTTTAAT
66441560 TCTATTATTATACTTTTTAAAATATTTA
1 TCTATTATTATACTTTTTAAAAT-TTTA
* *
66441588 TCTATTTTTATATTTTTTAAAATTTTA
1 TCTATTATTATACTTTTTAAAATTTTA
*
66441615 TATATTA
1 TCTATTA
66441622 ATATTTCCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (27 bp):
TCTATTATTATACTTTTTAAAATTTTA
Found at i:66447016 original size:27 final size:27
Alignment explanation
Indices: 66446986--66447037 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
66446976 TTTAAAACGT
*
66446986 AAATTACAAATATAATTTTATAAATAA
1 AAATTACAAAAATAATTTTATAAATAA
* * *
66447013 AAATTATAAAAATTATTTTTTAAAT
1 AAATTACAAAAATAATTTTATAAAT
66447038 CCATATTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATTACAAAAATAATTTTATAAATAA
Found at i:66453023 original size:14 final size:14
Alignment explanation
Indices: 66453004--66453032 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
66452994 TACAATATAT
66453004 ATAAGAATTATACG
1 ATAAGAATTATACG
66453018 ATAAGAATTATACG
1 ATAAGAATTATACG
66453032 A
1 A
66453033 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:66456005 original size:35 final size:40
Alignment explanation
Indices: 66455952--66456028 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 40
66455942 TATAAAATTC
66455952 TAAAAAATTATATTTA-TT-T-GT-GTTTTTTAATAT-AA
1 TAAAAAATTATATTTATTTATGGTAGTTTTTTAATATGAA
*
66455987 TAAAACATT-TATTATATTTATGGTAGTTTTTTAATATGAA
1 TAAAAAATTATATT-TATTTATGGTAGTTTTTTAATATGAA
66456027 TA
1 TA
66456029 CTTTTTAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
34 4 0.11
35 10 0.29
36 2 0.06
37 1 0.03
38 2 0.06
39 12 0.34
40 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (40 bp):
TAAAAAATTATATTTATTTATGGTAGTTTTTTAATATGAA
Found at i:66466051 original size:21 final size:22
Alignment explanation
Indices: 66466026--66466066 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66466016 TCGATTCAAT
66466026 AATAAAAAATAAA-ATAAAATA
1 AATAAAAAATAAATATAAAATA
**
66466047 AATAAATTATAAATATAAAA
1 AATAAAAAATAAATATAAAA
66466067 ACTCATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAAAAAATAAATATAAAATA
Found at i:66468144 original size:19 final size:20
Alignment explanation
Indices: 66468108--66468146 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
66468098 AATTTAAAAG
* *
66468108 TTTTTGAAAATTTATAATTA
1 TTTTTAAAAATATATAATTA
66468128 TTTTTAAAAATAT-TAATTA
1 TTTTTAAAAATATATAATTA
66468147 AAAAGCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATATATAATTA
Found at i:66468769 original size:31 final size:31
Alignment explanation
Indices: 66468720--66468797 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
66468710 TATAGATATT
* *
66468720 AAAT-TAAACATTAAAATTAAA-CTTGAATGTC
1 AAATCTAAACACT-AAATTAAATATTGAA-GTC
*
66468751 AAATCTAAACACTAAATTAAATATTGAAGTT
1 AAATCTAAACACTAAATTAAATATTGAAGTC
*
66468782 AAATCTAAATACTAAA
1 AAATCTAAACACTAAA
66468798 CCATATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 29 0.71
32 12 0.29
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (31 bp):
AAATCTAAACACTAAATTAAATATTGAAGTC
Found at i:66468806 original size:31 final size:32
Alignment explanation
Indices: 66468742--66468806 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
66468732 AAAATTAAAC
**
66468742 TTGAATGTCAAATCTAAACACTAAATTAAATA
1 TTGAATGTCAAATCTAAACACTAAACCAAATA
* * *
66468774 TTGAA-GTTAAATCTAAATACTAAACCATATA
1 TTGAATGTCAAATCTAAACACTAAACCAAATA
66468805 TT
1 TT
66468807 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (32 bp):
TTGAATGTCAAATCTAAACACTAAACCAAATA
Found at i:66480766 original size:22 final size:21
Alignment explanation
Indices: 66480726--66480775 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
66480716 GCCTCCAGCG
66480726 CGCCTCCGTACGACCCCCTGCA
1 CGCCTCCGTACGACCCCCT-CA
* *
66480748 CGCCTCCGTATG-CCACCCTCG
1 CGCCTCCGTACGACC-CCCTCA
66480769 CGCCTCC
1 CGCCTCC
66480776 ACGTTGCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.10, C:0.56, G:0.18, T:0.16
Consensus pattern (21 bp):
CGCCTCCGTACGACCCCCTCA
Found at i:66482958 original size:132 final size:131
Alignment explanation
Indices: 66482755--66483010 Score: 349
Period size: 132 Copynumber: 1.9 Consensus size: 131
66482745 TTATTCATTT
* * *
66482755 AAAAGTTCTTTAAAACAAAGACAATGTTCGATGTTTGACAATTCGGGAATCGTGCCCTATCGTGC
1 AAAAATTCTTTAAAACAAAGACAACGTTCGATGTTAGACAATTCGGGAATCGTGCCCTATCGTGC
* * * * *
66482820 TGGGTTGCAATT-TCCCGTTTGTTCAAAATAATTGAATAT-TCTTTTGGAATTTCACTCATGTCT
66 TGGGTTGCAATTGT-CCATTTGTCCAAAATAATCGAACATCCCTTTT-GAATTTCACTCATGTCT
66482883 TTA
129 TTA
*
66482886 AAAAATTCTTTAAAACGAAGGA-AACGTTCGATGCTTAG-CAATTCGGGGAATCGTGCCCTATCG
1 AAAAATTCTTTAAAAC-AAAGACAACGTTCGATG-TTAGACAATTC-GGGAATCGTGCCCTATCG
*
66482949 TGCTGGGTTGCAATTGTCCATTTGTCCAAAATAATCGAACGTCCCTTTTGAATTTCACTCAT
63 TGCTGGGTTGCAATTGTCCATTTGTCCAAAATAATCGAACATCCCTTTTGAATTTCACTCAT
66483011 ATTTTCTAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
131 31 0.28
132 73 0.66
133 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAAATTCTTTAAAACAAAGACAACGTTCGATGTTAGACAATTCGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTGTCCATTTGTCCAAAATAATCGAACATCCCTTTTGAATTTCACTCATGTCTTT
A
Found at i:66499685 original size:14 final size:14
Alignment explanation
Indices: 66499652--66499692 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
66499642 TTTTTATTTC
*
66499652 AAAATGTCACAAAA
1 AAAATGTAACAAAA
66499666 ACAAATGTAACAAAA
1 A-AAATGTAACAAAA
*
66499681 AAAATTTAACAA
1 AAAATGTAACAA
66499693 TGTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (14 bp):
AAAATGTAACAAAA
Found at i:66501924 original size:15 final size:15
Alignment explanation
Indices: 66501904--66501935 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
66501894 TAAACTTAAA
66501904 TTTAATATTTAAATT
1 TTTAATATTTAAATT
66501919 TTTAATATTTAAATT
1 TTTAATATTTAAATT
66501934 TT
1 TT
66501936 CGACACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATATTTAAATT
Found at i:66502483 original size:11 final size:9
Alignment explanation
Indices: 66502454--66502569 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 9
66502444 ATTATGGCTA
66502454 TTATAATTT
1 TTATAATTT
66502463 TTATATATTT
1 TTATA-ATTT
66502473 GTCTATAA-TT
1 -T-TATAATTT
66502483 TTA-AATTTTT
1 TTATAA--TTT
66502493 TTCATAATATT
1 TT-ATAAT-TT
*
66502504 TTATAATAT
1 TTATAATTT
* *
66502513 ATA-AAATT
1 TTATAATTT
*
66502521 TTA-CATTT
1 TTATAATTT
*
66502529 TTCTAAATTT
1 TTAT-AATTT
66502539 ATTATAATTT
1 -TTATAATTT
* *
66502549 ATAAAATTT
1 TTATAATTT
*
66502558 TAATAATTT
1 TTATAATTT
66502567 TTA
1 TTA
66502570 GGATTAAATA
Statistics
Matches: 79, Mismatches: 16, Indels: 24
0.66 0.13 0.20
Matches are distributed among these distances:
7 2 0.03
8 12 0.15
9 24 0.30
10 25 0.32
11 10 0.13
12 6 0.08
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TTATAATTT
Found at i:66502521 original size:17 final size:17
Alignment explanation
Indices: 66502496--66502566 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
66502486 AATTTTTTTC
* *
66502496 ATAATATTTTATAATAT
1 ATAAAATTTTATAATTT
* *
66502513 ATAAAATTTTACATTTTT
1 ATAAAATTTTATA-ATTT
* *
66502531 CTAAATTTATTATAATTT
1 ATAAAATT-TTATAATTT
66502549 ATAAAATTTTAATAATTT
1 ATAAAATTTT-ATAATTT
66502567 TTAGGATTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 13 0.32
18 24 0.59
19 4 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAAAATTTTATAATTT
Found at i:66502523 original size:38 final size:36
Alignment explanation
Indices: 66502479--66502560 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
66502469 ATTTGTCTAT
*
66502479 AATTTTAAATTTTTTTCATAATATT-TTATAATATATAA
1 AATTTTAAATTTTTCT-A-AAT-TTATTATAATATATAA
* *
66502517 AATTTTACATTTTTCTAAATTTATTATAATTTATAA
1 AATTTTAAATTTTTCTAAATTTATTATAATATATAA
66502553 AATTTTAA
1 AATTTTAA
66502561 TAATTTTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 22 0.56
37 1 0.03
38 14 0.36
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (36 bp):
AATTTTAAATTTTTCTAAATTTATTATAATATATAA
Found at i:66502553 original size:18 final size:18
Alignment explanation
Indices: 66502496--66502566 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 18
66502486 AATTTTTTTC
* *
66502496 ATAATATTTT-ATAATAT
1 ATAAAATTTTAATAATTT
*
66502513 ATAAAATTTTACAT-TTTT
1 ATAAAATTTTA-ATAATTT
* *
66502531 CT-AAATTTATTATAATTT
1 ATAAAATTT-TAATAATTT
66502549 ATAAAATTTTAATAATTT
1 ATAAAATTTTAATAATTT
66502567 TTAGGATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
17 17 0.41
18 16 0.39
19 8 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAAAATTTTAATAATTT
Found at i:66506012 original size:5 final size:5
Alignment explanation
Indices: 66506002--66506030 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
66505992 GAAGTTCCGA
66506002 CTTCC CTTCC CTTCC CTTCC CTTCC CTTC
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTC
66506031 TTTCTCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
CTTCC
Found at i:66510558 original size:18 final size:18
Alignment explanation
Indices: 66510537--66510581 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
66510527 CATTCTTCTC
66510537 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
66510555 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
66510573 CCCTTTCCC
1 CCCTTTCCC
66510582 GTTTCGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTTCCCCTTCTCCTT
Found at i:66515323 original size:15 final size:15
Alignment explanation
Indices: 66515303--66515332 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66515293 TTTAATCCTT
*
66515303 TATAAATTATAAAAA
1 TATAAACTATAAAAA
66515318 TATAAACTATAAAAA
1 TATAAACTATAAAAA
66515333 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:66517820 original size:32 final size:34
Alignment explanation
Indices: 66517784--66517848 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
66517774 TAACAGTGGT
*
66517784 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
66517816 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
66517849 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:66518073 original size:22 final size:22
Alignment explanation
Indices: 66518048--66518101 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
66518038 TGAGGCAAAG
66518048 CCTCCAGTACGTGGACAAGCCA
1 CCTCCAGTACGTGGACAAGCCA
66518070 CCTCCAGTACGTGGACAAGCCA
1 CCTCCAGTACGTGGACAAGCCA
*
66518092 CCTCTAGTAC
1 CCTCCAGTAC
66518102 TTCCTCCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.37, G:0.20, T:0.17
Consensus pattern (22 bp):
CCTCCAGTACGTGGACAAGCCA
Found at i:66519757 original size:26 final size:26
Alignment explanation
Indices: 66519721--66519830 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
66519711 CATGAAATTC
66519721 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
66519747 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
66519773 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
66519799 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
66519825 TTATCA
1 TTATCA
66519831 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:66521641 original size:18 final size:17
Alignment explanation
Indices: 66521618--66521665 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
66521608 TTTTAATATC
66521618 ATTATTATTATTTCTAAT
1 ATTATTATTATTTC-AAT
*
66521636 ATTATTAATCTA-ATCAAT
1 ATTATT-AT-TATTTCAAT
66521654 ATTATTATTATT
1 ATTATTATTATT
66521666 ATTATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 2 0.08
17 2 0.08
18 15 0.60
19 4 0.16
20 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATTATTTCAAT
Found at i:66521701 original size:21 final size:21
Alignment explanation
Indices: 66521668--66521725 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
66521658 TTATTATTAT
66521668 TATTATTACTATATTA-GTGTA
1 TATTATTACTATA-TACGTGTA
* *
66521689 TATTCTTATTATATACGTGTA
1 TATTATTACTATATACGTGTA
66521710 TA-TATATACTTATATA
1 TATTAT-TAC-TATATA
66521726 TAACACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.13
21 20 0.67
22 6 0.20
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (21 bp):
TATTATTACTATATACGTGTA
Found at i:66521799 original size:3 final size:3
Alignment explanation
Indices: 66521793--66521841 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
66521783 TTTGTATTTC
66521793 ATT ATT ATT -TCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66521838 ATT A
1 ATT A
66521842 ATAGTGTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:66521888 original size:163 final size:160
Alignment explanation
Indices: 66521653--66521993 Score: 517
Period size: 163 Copynumber: 2.1 Consensus size: 160
66521643 ATCTAATCAA
* *
66521653 TATTATTATTATTATTATTATTACTATATTAGTGTATATTCTTATTATATACGTGTATATATATA
1 TATTATTATTATTATTATTATTACTATAATAGTGTATATTCTTATTATATACGTGAATATATATA
*
66521718 CTTATATATAACACTATTTTTAATTACTTTATTTTTAATAAT-ATTATTATATTATGTTTA-TTT
66 CTTATATATAACACTATTTTTAATTACTTTA-TTTTAAT-ATCATTATTATATTATATTTACTTT
* *
66521781 TTTTTGTATTTCATTATTATT-TCTATTATTAT
129 TTTTTGTATTTCATTACTATTGT-TAGTATTAT
*
66521813 TATTATTATTATTATTATTATTATTATTAATAGTGTATATTCTTATTATATACATGTGAATATAT
1 TATTATTATTATTATTATTATTACTA-TAATAGTGTATATTCTTATTATATAC--GTGAATATAT
*
66521878 ATAGTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTACTT
63 ATACTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTACTT
*
66521943 TTTTTTGTATTTCATTGCTATTGTTAGTATTAT
128 TTTTTTGTATTTCATTACTATTGTTAGTATTAT
*
66521976 TATCATTATTATATATTA
1 TATTATTATTAT-TATTA
66521994 GTGTATATTT
Statistics
Matches: 165, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
160 25 0.15
161 27 0.16
162 24 0.15
163 83 0.50
164 6 0.04
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (160 bp):
TATTATTATTATTATTATTATTACTATAATAGTGTATATTCTTATTATATACGTGAATATATATA
CTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTACTTTTT
TTTGTATTTCATTACTATTGTTAGTATTAT
Found at i:66522118 original size:148 final size:147
Alignment explanation
Indices: 66521804--66522118 Score: 347
Period size: 148 Copynumber: 2.1 Consensus size: 147
66521794 TTATTATTTC
* *
66521804 TATTATTATTATTATTATTATTATTATTATTATTATTAATAGTGTATATTCTTATTATATACATG
1 TATTATTATTATTATTAGTATTATTATCATTATTATTAATAGTGTATATTCTTATTATATACATG
66521869 TGAATATATATAGTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTA
66 TGAATATATATAGTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTA
* * **
66521934 TATTTACTTTTTTTTGTA
131 TATTTA-TTGTATTTCAA
** * *
66521952 T-TTCATTGCTATTGTTAGTATTATTATCATTATTATATATTAGTGTATATT-TTA-T-TATACA
1 TATT-ATTATTATTATTAGTATTATTATCATTATTAT-TAATAGTGTATATTCTTATTATATACA
* ** * * *
66522013 TGT-ATATGTATATATATTTATATATAGTATTATTTTTTTATTACTTTATTTTAATATCTTTATT
64 TGTGA-A--TATATATAGTTATATATAACACTA-TTTTTAATTACTTTATTTTAATATCATTATT
*
66522077 ATATT-TGCTTT-TTGTATTTCAA
125 ATATTAT-ATTTATTGTATTTCAA
66522099 TATTATTATTATATATTAGT
1 TATTATTATTAT-TATTAGT
66522119 GTATATTTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
145 1 0.01
146 10 0.07
147 17 0.12
148 60 0.43
149 50 0.36
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (147 bp):
TATTATTATTATTATTAGTATTATTATCATTATTATTAATAGTGTATATTCTTATTATATACATG
TGAATATATATAGTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTA
TATTTATTGTATTTCAA
Found at i:66522197 original size:11 final size:11
Alignment explanation
Indices: 66522181--66522236 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
66522171 TTATTTCTAA
66522181 TATGTATATAT
1 TATGTATATAT
*
66522192 TATGTAAATAT
1 TATGTATATAT
* *
66522203 TTTAATACTATAT
1 TAT-GTA-TATAT
66522216 TATGTATATAT
1 TATGTATATAT
*
66522227 T-TTTATATAT
1 TATGTATATAT
66522237 GTTATGTACA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.22
11 18 0.50
12 4 0.11
13 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (11 bp):
TATGTATATAT
Found at i:66522215 original size:24 final size:23
Alignment explanation
Indices: 66522185--66522244 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 23
66522175 TTCTAATATG
66522185 TATATATTATGTAAATATTTTAA
1 TATATATTATGTAAATATTTTAA
* *
66522208 TACTATATTATGTATATATTTTTA
1 TA-TATATTATGTAAATATTTTAA
*
66522232 TATATGTTATGTA
1 TATATATTATGTA
66522245 CATTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 12 0.36
24 21 0.64
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.55
Consensus pattern (23 bp):
TATATATTATGTAAATATTTTAA
Found at i:66522351 original size:20 final size:22
Alignment explanation
Indices: 66522326--66522368 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
66522316 TATACTATCT
66522326 TATGTA-TG-TATTTCTAATAC
1 TATGTATTGATATTTCTAATAC
66522346 TATGTATTGTATATTTCTAATAC
1 TATGTATTG-ATATTTCTAATAC
66522369 CATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 2 0.10
23 12 0.60
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGTATTGATATTTCTAATAC
Found at i:66522671 original size:12 final size:12
Alignment explanation
Indices: 66522656--66522769 Score: 53
Period size: 12 Copynumber: 9.3 Consensus size: 12
66522646 TTTTTACCCC
66522656 TATTATATTTAT
1 TATTATATTTAT
*
66522668 TATTA-ATATTAG
1 TATTATAT-TTAT
66522680 TA-TATATATT-T
1 TATTATAT-TTAT
*
66522691 TATTATACGTGTA-
1 TATTATA--TTTAT
66522704 TATATATACTTT-T
1 TAT-TATA-TTTAT
66522717 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
66522732 T-TT-TATATAT
1 TATTATATTTAT
*
66522742 CATTATATTTAT
1 TATTATATTTAT
*
66522754 TATTATACTTAT
1 TATTATATTTAT
66522766 TATT
1 TATT
66522770 TTCACTATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
10 3 0.04
11 9 0.11
12 41 0.52
13 16 0.20
14 8 0.10
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:66522728 original size:24 final size:22
Alignment explanation
Indices: 66522659--66522759 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
66522649 TTACCCCTAT
66522659 TATAT-TTATTATTAATATTAGTA
1 TATATATT-TTATT-ATATTAGTA
66522682 TATATATTTTATTATACGTGTA-TA
1 TATATATTTTATTATA--T-TAGTA
*
66522706 TATATACTTT-TTATATATAGTA
1 TATATATTTTATTATAT-TAGTA
* *
66522728 T-TAT-TTTTA-TATATCATTA
1 TATATATTTTATTATATTAGTA
*
66522747 TATTTATTATTAT
1 TATATATT-TTAT
66522760 ACTTATTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 8 0.13
22 9 0.15
23 15 0.24
24 14 0.23
25 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (22 bp):
TATATATTTTATTATATTAGTA
Found at i:66522736 original size:18 final size:18
Alignment explanation
Indices: 66522713--66522771 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
66522703 ATATATATAC
*
66522713 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
66522731 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
66522749 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
66522768 TTTT
1 TTTT
66522772 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:66526085 original size:39 final size:39
Alignment explanation
Indices: 66526024--66526137 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
66526014 CAGTGATGTT
* *
66526024 TATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
66526063 TATCCGGACTTAAGGTCCGCAGGTTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
66526102 TAACAGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
66526138 ATATGTCCTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:66526174 original size:78 final size:78
Alignment explanation
Indices: 66526029--66526181 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 78
66526019 ATGTTTATCC
* * * * * * *
66526029 GGACTTAGGGTCTGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGTTATGTGC
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGTTACGAGC
66526094 TGGAATTATAACA
66 TGGAATTATAACA
*
66526107 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCTGG-C-TAAAGTCCCGCAGGCTT-CG
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAGG-TTACG
*
66526169 AGCTGGTATTATA
63 AGCTGGAATTATA
66526182 CCGGGTTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
77 5 0.08
78 54 0.86
79 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (78 bp):
GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGTTACGAGC
TGGAATTATAACA
Found at i:66538438 original size:76 final size:75
Alignment explanation
Indices: 66538266--66538838 Score: 639
Period size: 76 Copynumber: 7.3 Consensus size: 75
66538256 TCTGTTTCAG
* * * *
66538266 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTAAGGTATTTTTAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
*
66538331 TCTTTCAAAA
66 TTTTTCAAAA
* *
66538341 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCT
*
66538406 GTCTTTCAAAA
65 GTTTTTCAAAA
* *
66538417 AAATCAACTCATATTGTGAGAGGTGAGTTTAGCCTCAAGACACGCTGAGGTAATTTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCT
*
66538482 ATTTTTCAAAA
65 GTTTTTCAAAA
*
66538493 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCT
***
66538557 GTTCATAAAAAAA
65 GTT--TTTCAAAA
* * *
66538570 AAATCAACTCATTTTGCGAG-GGTGAGTTGAGCCTC-CGCTCACATGCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAATTT
*
66538633 CTGTTTTTCAATTTCTGTTCGTCA
63 CTGTTTTTCAA-----------AA
* *
66538657 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
* *
66538722 TTTTTTATGTTTCAA
66 TTTTTCA-----AAA
**
66538737 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
66538802 TTTTTTCAAAAA
66 -TTTTTC-AAAA
* *
66538814 AAATCGAGCTCATATTGCAAGAGGT
1 AAATC-AACTCATATTGCGAGAGGT
66538839 CATACGCTAA
Statistics
Matches: 432, Mismatches: 38, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
75 56 0.13
76 164 0.38
77 36 0.08
78 38 0.09
80 64 0.15
81 5 0.01
82 1 0.00
86 32 0.07
87 20 0.05
88 15 0.03
89 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
TTTTTCAAAA
Found at i:66538642 original size:14 final size:14
Alignment explanation
Indices: 66538623--66538651 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
66538613 TGCTGAGGTA
66538623 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
66538637 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
66538651 T
1 T
66538652 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:66538715 original size:86 final size:82
Alignment explanation
Indices: 66538491--66538807 Score: 357
Period size: 80 Copynumber: 3.9 Consensus size: 82
66538481 TATTTTTCAA
* * *
66538491 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT-ATTTTCAATTT
* *****
66538555 CTG-----TTCATAAAAA
65 CTGTTTTTTTTATGTTTC
* * *
66538568 AAAAATCAACTCATTTTGCGAG-GGTGAGTTGAGCCTCCGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACATGCTGAGGTATTTTCAATT
*
66538632 TCTGTTTTTCAATTTCTGTTCGTC
64 TCTGTTTTT---TTTATGTT--TC
66538656 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
66538720 TG--TTTTTTATGTTTC
66 TGTTTTTTTTATGTTTC
* *
66538735 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
66538800 TGTTTTTT
66 TGTTTTTT
66538808 CAAAAAAAAT
Statistics
Matches: 204, Mismatches: 19, Indels: 29
0.81 0.08 0.12
Matches are distributed among these distances:
76 14 0.07
77 26 0.13
78 19 0.09
79 2 0.01
80 64 0.31
81 7 0.03
82 4 0.02
84 3 0.01
86 29 0.14
87 20 0.10
88 16 0.08
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (82 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTC
TGTTTTTTTTATGTTTC
Found at i:66538766 original size:80 final size:77
Alignment explanation
Indices: 66538656--66538838 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 77
66538646 TCTGTTCGTC
* *
66538656 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT-ATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTTC
* *
66538720 TGTTTTTTATGTTTCA
66 TGTTTTTCA----TAA
**
66538736 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT-ATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTTC
*
66538800 TGTTTTTTCAAAA
66 TG-TTTTTCATAA
* *
66538813 AAAATCGAGCTCATATTGCAAGAGGT
1 AAAATC-AACTCATATTGCGAGAGGT
66538839 CATACGCTAA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
77 7 0.07
78 17 0.18
80 64 0.68
81 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTTC
TGTTTTTCATAA
Found at i:66540376 original size:3 final size:3
Alignment explanation
Indices: 66540370--66540397 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
66540360 TAATCTAATC
66540370 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
66540398 CTATATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:66540563 original size:19 final size:21
Alignment explanation
Indices: 66540536--66540591 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
66540526 CTAGTATTAT
66540536 TATTATTATTAT-TA-GTGTA
1 TATTATTATTATATACGTGTA
*
66540555 TATTCTTATTATATACGTGTA
1 TATTATTATTATATACGTGTA
66540576 TA-TATATACTTATATA
1 TATTAT-TA-TTATATA
66540592 TAACACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 9 0.29
22 7 0.23
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (21 bp):
TATTATTATTATATACGTGTA
Found at i:66540570 original size:144 final size:144
Alignment explanation
Indices: 66540368--66540847 Score: 546
Period size: 144 Copynumber: 3.3 Consensus size: 144
66540358 ATTAATCTAA
* * *
66540368 TCATTATTATTATTATTATTATTATTATTACTATATTAGTGTATATTCTTATTATATACGTGTA-
1 TCATTATTATTATTAGTATTATTATTATTA-T-TATTAGTGTATATTCTTATTATACACGTATAG
*
66540432 CATATATACTTATATATAACACTATTTTTAATTACTTTATTTTTAATATTATTATTATATTATGT
64 TATATATACTTATATATAACACTATTTTTAATTACTTTA-TTTTAATATTATTATTATATTATGT
66540497 TTATTTTTTTTTGTATT
128 TTATTTTTTTTTGTATT
* *
66540514 TCATTATTATT-TCTAGTATTATTATTATTATTATTAGTGTATATTCTTATTATATACGTGTA-T
1 TCATTATTATTAT-TAGTATTATTATTATTATTATTAGTGTATATTCTTATTATACACGTATAGT
* *
66540577 ATATATACTTATATATAACACTATTTTTTAATTACTTTATTTTAATATCATTATTATATTATATT
65 ATATATACTTATATATAACACTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTATGTT
*
66540642 TA--CTTTTTTGTATT
129 TATTTTTTTTTGTATT
** * * *
66540656 TCATTGCTATTGTTAGTATTATTATCATTATTATATATTAGTGTATATTTTTATTATACATGTAT
1 TCATTATTATTATTAGTATTA-T-T-ATTATTAT-TATTAGTGTATATTCTTATTATACACGTAT
* ** * *
66540721 ATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATCT-TTATTATATT-
62 A-GTATATATACTTATATATAACACTATTTTTAATTACTTTATTTTAATAT-TATTATTATATTA
* * * **
66540784 TGCTT-TTTGTATTTCAATAT
125 TGTTTATTTTTTTTTGTAT-T
* * *
66540804 T-ATTATTATTATTATTATTATTATTATTATTATTATTATATATT
1 TCATTATTATTATTAGTATTATTATTATTATTATTAGTGTATATT
66540848 AGTGTATATT
Statistics
Matches: 291, Mismatches: 30, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
142 28 0.10
143 14 0.05
144 89 0.31
145 26 0.09
146 58 0.20
147 54 0.19
148 22 0.08
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (144 bp):
TCATTATTATTATTAGTATTATTATTATTATTATTAGTGTATATTCTTATTATACACGTATAGTA
TATATACTTATATATAACACTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTA
TTTTTTTTTGTATT
Found at i:66540809 original size:3 final size:3
Alignment explanation
Indices: 66540801--66540848 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
66540791 TGTATTTCAA
66540801 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
66540847 TA
1 TA
66540849 GTGTATATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:66540881 original size:28 final size:27
Alignment explanation
Indices: 66540840--66541024 Score: 81
Period size: 24 Copynumber: 7.3 Consensus size: 27
66540830 TTATTATTAT
66540840 TATATA-TTAGTGTATATTTTTATATATG
1 TATATATTTA-TGTATATTTTTA-ATATG
*
66540868 TATATATTTATGTAGTATTATTAATA-G
1 TATATATTTATGTA-TATTTTTAATATG
* *
66540895 T-CAT-TTT-T-T-TATTTCTAATATG
1 TATATATTTATGTATATTTTTAATATG
*
66540917 TATATA-TTATGTAAATATTTTAATA--
1 TATATATTTATGTATAT-TTTTAATATG
*
66540942 -CTATA-TTATGTATATATTTT--T-T-
1 TATATATTTATGTATAT-TTTTAATATG
66540964 TATATATGTTATGTATATTTTTTAAATAT-
1 TATATAT-TTATGTATA-TTTTT-AATATG
*
66540993 TATAT-TTT-T-TATA-TATT-ATGATG
1 TATATATTTATGTATATTTTTAAT-ATG
66541016 TATATATTT
1 TATATATTT
66541025 TAATATCATT
Statistics
Matches: 125, Mismatches: 11, Indels: 46
0.69 0.06 0.25
Matches are distributed among these distances:
21 11 0.09
22 5 0.04
23 17 0.14
24 23 0.18
25 21 0.17
26 6 0.05
27 11 0.09
28 15 0.12
29 16 0.13
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (27 bp):
TATATATTTATGTATATTTTTAATATG
Found at i:66540992 original size:24 final size:23
Alignment explanation
Indices: 66540917--66540998 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 23
66540907 TTCTAATATG
* *
66540917 TATATATTATGTAAATATTTTAA
1 TATATATTATGTATATTTTTTAA
*
66540940 TACTATATTATGTATATATTTTTTTA
1 TA-TATATTATG--TATATTTTTTAA
*
66540966 TATATGTTATGTATATTTTTTAAA
1 TATATATTATGTATATTTTTT-AA
66540990 TATTATATT
1 TA-TATATT
66540999 TTTTATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 12 0.25
24 12 0.25
25 13 0.27
26 11 0.23
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (23 bp):
TATATATTATGTATATTTTTTAA
Found at i:66540998 original size:16 final size:16
Alignment explanation
Indices: 66540977--66541011 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
66540967 ATATGTTATG
66540977 TATATTTTTTAAATAT
1 TATATTTTTTAAATAT
*
66540993 TATATTTTTTATATAT
1 TATATTTTTTAAATAT
66541009 TAT
1 TAT
66541012 GATGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTTTTTAAATAT
Found at i:66541061 original size:85 final size:87
Alignment explanation
Indices: 66540917--66541091 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 87
66540907 TTCTAATATG
* * * *
66540917 TATATATTATGTAAATATTTTAATACTATATTATGTATATATTTTTTTATATATGTTATGTATAT
1 TATATATGATGTAAATATTTTAATACTACATTATGTATATATATTTTTATATATCTTATGTATAT
* * *
66540982 -TTTTTAAATATTATATTTTTTA
66 ATTTCT-AATACTATATATTTTA
*
66541004 TATATTATGATGTATATATTTTAATA-T-CATTA-GT-TATATATTTTTATACTATCTTATGTAT
1 TATA-TATGATGTAAATATTTTAATACTACATTATGTATATATATTTTTATA-TATCTTATGTAT
*
66541065 GTATTTCTAATACTATATATTTTA
64 ATATTTCTAATACTATATATTTTA
66541089 TAT
1 TAT
66541092 TTCTAATGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
84 13 0.17
85 31 0.41
86 8 0.11
87 5 0.07
88 19 0.25
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (87 bp):
TATATATGATGTAAATATTTTAATACTACATTATGTATATATATTTTTATATATCTTATGTATAT
ATTTCTAATACTATATATTTTA
Found at i:66543943 original size:12 final size:12
Alignment explanation
Indices: 66543928--66543989 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
66543918 ATTTATAACT
66543928 TTATTATATATA
1 TTATTATATATA
66543940 TTATTATATATA
1 TTATTATATATA
* *
66543952 TTCTTA-ATGT-
1 TTATTATATATA
* *
66543962 TTAAGTAAATATA
1 TT-ATTATATATA
66543975 -TATTATATATA
1 TTATTATATATA
66543986 TTAT
1 TTAT
66543990 ATTATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 2 0.05
11 13 0.33
12 24 0.62
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (12 bp):
TTATTATATATA
Found at i:66545917 original size:93 final size:93
Alignment explanation
Indices: 66545810--66545979 Score: 288
Period size: 94 Copynumber: 1.8 Consensus size: 93
66545800 GCCCATAAGT
* *
66545810 GAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCACATCCATAAGTGAACTCGGACTCAACTCA
66545874 ACGAGTTCTGATGCCTAGTTACATCTCAC
66 ACGAGTTC-GATGCCTAGTTACATCTCAC
* *
66545903 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCACATCCATAAGTGAACTCGGACTCAACTCA
66545968 ACGAGTTCGATG
66 ACGAGTTCGATG
66545980 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 32 0.44
94 40 0.56
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGATGCCTAGTTACATCTCAC
Found at i:66545954 original size:47 final size:47
Alignment explanation
Indices: 66545802--66545976 Score: 216
Period size: 47 Copynumber: 3.7 Consensus size: 47
66545792 TGTAACCCGC
* * *
66545802 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
66545848 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-AGTTCACAT
* * *
66545898 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
66545942 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
66545977 ATGTTCAACC
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 1 0.01
46 36 0.32
47 54 0.49
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:66553507 original size:47 final size:47
Alignment explanation
Indices: 66553355--66553529 Score: 225
Period size: 47 Copynumber: 3.7 Consensus size: 47
66553345 TGTAACCCGC
* * *
66553355 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
66553401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * *
66553451 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
66553495 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
66553530 AATGTTCAAC
Statistics
Matches: 112, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 37 0.33
47 56 0.50
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:66555105 original size:24 final size:24
Alignment explanation
Indices: 66555078--66555124 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
66555068 ATTGAAATGG
66555078 ATTG-ATTTAGTATCTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
66555102 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
66555125 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:66555146 original size:21 final size:21
Alignment explanation
Indices: 66555095--66555148 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
66555085 TAGTATCTGA
* *
66555095 TGAATTTATTGA-ATTTATAT
1 TGAATATATTGATATATATAT
*
66555115 TGATTGA-ATTGATATATATAT
1 TGAAT-ATATTGATATATATAT
66555136 TGAATATATTGAT
1 TGAATATATTGAT
66555149 TTTTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (21 bp):
TGAATATATTGATATATATAT
Found at i:66555372 original size:37 final size:40
Alignment explanation
Indices: 66555282--66555389 Score: 132
Period size: 37 Copynumber: 2.7 Consensus size: 40
66555272 ACTTCAAGTT
* *
66555282 GATGAGACACTGGGTATCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATCC
* *
66555323 GATGAGGCACTGGGTGTCAA-TT-TACTTCGGTTTAA-CC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
*
66555360 GATGAGACACTGGGTGTCAAATTATTACTT
1 GATGAGACACTGGGTGTCAATTTA-TACTT
66555390 TGAATTATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 20 0.34
38 14 0.24
40 7 0.12
41 18 0.31
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
Found at i:66555607 original size:24 final size:24
Alignment explanation
Indices: 66555560--66555607 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
66555550 GAAATATGCA
*
66555560 CATGAAATGCATGAATTATGTGTT
1 CATGAAATGCATAAATTATGTGTT
*
66555584 CATGAAATGGATAATATTAT-TGTT
1 CATGAAATGCATAA-ATTATGTGTT
66555608 AATTGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (24 bp):
CATGAAATGCATAAATTATGTGTT
Found at i:66557459 original size:126 final size:126
Alignment explanation
Indices: 66557234--66557477 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
66557224 ATTTTAGCCT
*
66557234 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
66557299 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* * *
66557360 TAAGAGGATATTTGAATATTCAAGACAAATAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
66557425 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAG
66557478 AAGATCAATG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:66557951 original size:14 final size:14
Alignment explanation
Indices: 66557932--66557962 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
66557922 ATATATTTAC
*
66557932 ATAATAAATATATA
1 ATAATAAATAAATA
66557946 ATAATAAATAAATA
1 ATAATAAATAAATA
66557960 ATA
1 ATA
66557963 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:66557956 original size:21 final size:21
Alignment explanation
Indices: 66557915--66557970 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
66557905 TAACTTTGCT
* *
66557915 TAAATATAT-ATATTTACATAA
1 TAAATATATAATA-ATAAATAA
66557936 TAAATATATAATAATAAATAA
1 TAAATATATAATAATAAATAA
*
66557957 -ATA-ATATAATAATA
1 TAAATATATAATAATA
66557971 TGAAACATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 11 0.35
20 2 0.06
21 15 0.48
22 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATATAATAATAAATAA
Found at i:66557963 original size:19 final size:18
Alignment explanation
Indices: 66557934--66557970 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
66557924 ATATTTACAT
66557934 AATAAATATATAATAATA
1 AATAAATATATAATAATA
66557952 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
66557971 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:66558831 original size:133 final size:133
Alignment explanation
Indices: 66558649--66558949 Score: 424
Period size: 133 Copynumber: 2.3 Consensus size: 133
66558639 CTGGTATGTT
* * *
66558649 TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTACCGATA
1 TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTACATTACCGATA
* * ** *
66558714 CATGGAGATAAGATTCATCAAAATTTAATCTCCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGT
66 CATGGAGATAAGATTCACCAAAACTTAATCTCCTCCGCTCCTGCTCAACGAAGATAAGATCTAGT
66558779 AAA
131 AAA
* * * **
66558782 TAGCCTGCTCCACTCCTGCTCAATGAAGATAAGGCTGGTGGCTGAAATCTGCTACATTGTCGATA
1 TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTACATTACCGATA
* * *
66558847 CATGGAGATAAGATTCACCAAAACTTGATTTGCTCCGCTCCTGCTCAACGAAGATAAGATCTAGT
66 CATGGAGATAAGATTCACCAAAACTTAATCTCCTCCGCTCCTGCTCAACGAAGATAAGATCTAGT
**
66558912 ATT
131 AAA
*
66558915 TAGCCTGCTCCACTCCTGCTCAGTG-GGATAAGGCT
1 TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
66558950 TGCCGAAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
132 9 0.06
133 139 0.94
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (133 bp):
TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGACTGAAATCTGCTACATTACCGATA
CATGGAGATAAGATTCACCAAAACTTAATCTCCTCCGCTCCTGCTCAACGAAGATAAGATCTAGT
AAA
Found at i:66560260 original size:13 final size:13
Alignment explanation
Indices: 66560242--66560281 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
66560232 TTTTTCTCTT
66560242 CTTTTTCCTTTTC
1 CTTTTTCCTTTTC
*
66560255 CTTTTTTCTCTTTC
1 CTTTTTCCT-TTTC
66560269 CTTTTTCTCTTTT
1 CTTTTTC-CTTTT
66560282 TTTTTGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTTCCTTTTC
Found at i:66560262 original size:14 final size:14
Alignment explanation
Indices: 66560232--66560280 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 14
66560222 CTCTTTTTTA
66560232 TTTTTCTC-TT-CT
1 TTTTTCTCTTTCCT
*
66560244 TTTTCCT-TTTCCT
1 TTTTTCTCTTTCCT
66560257 TTTTTCTCTTTCC-
1 TTTTTCTCTTTCCT
66560270 TTTTTCTCTTT
1 TTTTTCTCTTT
66560281 TTTTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.25
13 19 0.59
14 5 0.16
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCTCTTTCCT
Found at i:66560281 original size:20 final size:20
Alignment explanation
Indices: 66560232--66560281 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
66560222 CTCTTTTTTA
*
66560232 TTTTTCTC--TTCTTTTTCC
1 TTTTTCTCTTTTCTCTTTCC
* *
66560250 TTTTCCTTTTTTCTCTTTCC
1 TTTTTCTCTTTTCTCTTTCC
66560270 TTTTTCTCTTTT
1 TTTTTCTCTTTT
66560282 TTTTTGAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.24
20 19 0.76
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCTCTTTTCTCTTTCC
Found at i:66560284 original size:25 final size:25
Alignment explanation
Indices: 66560220--66560286 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
66560210 TTTCTTTTCA
*
66560220 TTCTCTTTTTTATTTTTCTCTTCTTT
1 TTCTCTTTTTT-TTTCTCTCTTCTTT
66560246 TTC-CTTTTCCTTTTT-TCTCTTTCCTTT
1 TTCTCTTTT--TTTTTCTCTC-TT-CTTT
66560273 TTCTCTTTTTTTTT
1 TTCTCTTTTTTTTT
66560287 GAAAGTGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
25 9 0.25
26 13 0.36
27 9 0.25
28 5 0.14
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (25 bp):
TTCTCTTTTTTTTTCTCTCTTCTTT
Found at i:66560286 original size:13 final size:13
Alignment explanation
Indices: 66560220--66560286 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
66560210 TTTCTTTTCA
66560220 TTCTCTTTTTTATT
1 TTCTCTTTTTT-TT
* *
66560234 TT-TCTCTTCTTT
1 TTCTCTTTTTTTT
66560246 TTC-CTTTTCCTTTT
1 TTCTCTTTT--TTTT
**
66560260 TTCTCTTTCCTTT
1 TTCTCTTTTTTTT
66560273 TTCTCTTTTTTTT
1 TTCTCTTTTTTTT
66560286 T
1 T
66560287 GAAAGTGAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
12 8 0.20
13 21 0.51
14 8 0.20
15 4 0.10
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTCTTTTTTTT
Found at i:66562321 original size:47 final size:45
Alignment explanation
Indices: 66562200--66562324 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 45
66562190 CTTTACATAA
* * * *
66562200 TGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTATAC--AATCACATATCACAC
* *
66562247 TGATGTCATATCCCAGATATGGTCTTATACAATAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTATACAAT--CACATATCACAC
66562294 TGATGCCATATCCCAGATATGGTCTTATACA
1 TGATGCCATATCCCAGATATGGTCTTATACA
66562325 GAAATCACTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.04
47 66 0.96
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
TGATGCCATATCCCAGATATGGTCTTATACAATCACATATCACAC
Found at i:66562341 original size:7 final size:7
Alignment explanation
Indices: 66562329--66562357 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
66562319 TATACAGAAA
66562329 TCACTTG
1 TCACTTG
66562336 TCACTTG
1 TCACTTG
66562343 TCACTTG
1 TCACTTG
66562350 TCACTTG
1 TCACTTG
66562357 T
1 T
66562358 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:66562391 original size:31 final size:31
Alignment explanation
Indices: 66562356--66562564 Score: 294
Period size: 31 Copynumber: 6.7 Consensus size: 31
66562346 CTTGTCACTT
* *
66562356 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
66562387 GTAGCTGGTGCTATCA-TTTTCCACTGATCAG
1 GTAGCCGAAGCTACCACTTTT-CACTGATCAG
*
66562418 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
66562449 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
66562480 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
66562511 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
66562542 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
66562565 GTTGTCATTT
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 3 0.02
31 153 0.96
32 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:66562648 original size:50 final size:50
Alignment explanation
Indices: 66562542--66562718 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
66562532 CACTGATCAG
* * * *
66562542 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
66562593 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
66562643 GTAGCCGAAGTTATTACTTATCACTTTTATTTGTCCTTGATCAGATCAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
66562693 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
66562719 GTTTCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:66566210 original size:21 final size:21
Alignment explanation
Indices: 66566184--66566228 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
66566174 GCTGGCTCAT
*
66566184 CATGTTGTTT-TGTGACTCCAG
1 CATGTT-TTTCTGGGACTCCAG
66566205 CATGTTTTTCTGGGACTCCAG
1 CATGTTTTTCTGGGACTCCAG
66566226 CAT
1 CAT
66566229 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
CATGTTTTTCTGGGACTCCAG
Found at i:66570165 original size:21 final size:21
Alignment explanation
Indices: 66570127--66570177 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
66570117 TAATAATATT
* *
66570127 AAAAACATGATGATAATAACA
1 AAAAATATGATGACAATAACA
*
66570148 AAAAATATGTTGACAATAACA
1 AAAAATATGATGACAATAACA
**
66570169 TTAAATATG
1 AAAAATATG
66570178 GGGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAATATGATGACAATAACA
Found at i:66570393 original size:14 final size:14
Alignment explanation
Indices: 66570374--66570405 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
66570364 ATATATTTAC
*
66570374 ATAATAAATATATA
1 ATAATAAATAAATA
66570388 ATAATAAATAAATA
1 ATAATAAATAAATA
66570402 ATAA
1 ATAA
66570406 AATAATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:66574353 original size:19 final size:19
Alignment explanation
Indices: 66574317--66574368 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
66574307 ATTTAAAAGA
* * *
66574317 CTAAAAAGTTCTAGAAATT
1 CTAAAAAATTATAAAAATT
*
66574336 GTAAAAAATTATAAAAATT
1 CTAAAAAATTATAAAAATT
*
66574355 CTTAAAAATTATAA
1 CTAAAAAATTATAA
66574369 TTCTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
CTAAAAAATTATAAAAATT
Found at i:66576906 original size:43 final size:43
Alignment explanation
Indices: 66576806--66576910 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
66576796 TCACATATCG
* ** *
66576806 ATGCCACTGTCCCAGACAGGGCCTTACACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATCGCCTTACACAAAATCATATAACA
* * * *
66576849 ATGTCAACGCCCCAGACATCGCCTTACACATAACTACA-AT-ACA
1 ATGCCAATGTCCCAGACATCGCCTTACACA-AAAT-CATATAACA
66576892 ATGCCAATGTCCCAGACAT
1 ATGCCAATGTCCCAGACAT
66576911 GGTCCTACAT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 42 0.86
44 5 0.10
45 2 0.04
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.19
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATCGCCTTACACAAAATCATATAACA
Found at i:66578396 original size:26 final size:26
Alignment explanation
Indices: 66578360--66578414 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
66578350 TGTTACTATA
66578360 TTGTATCTTGCTATTTTAGCCATTGT
1 TTGTATCTTGCTATTTTAGCCATTGT
66578386 TTGTATCTTGCTATTTTAGCCATTGT
1 TTGTATCTTGCTATTTTAGCCATTGT
66578412 TTG
1 TTG
66578415 ATAGGGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.16, T:0.55
Consensus pattern (26 bp):
TTGTATCTTGCTATTTTAGCCATTGT
Found at i:66578575 original size:13 final size:13
Alignment explanation
Indices: 66578557--66578581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66578547 AGAGTAAAAT
66578557 TTTTGTTGTTTGG
1 TTTTGTTGTTTGG
66578570 TTTTGTTGTTTG
1 TTTTGTTGTTTG
66578582 AGATCTCAAT
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:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTTTGTTGTTTGG
Found at i:66590150 original size:41 final size:41
Alignment explanation
Indices: 66590095--66590333 Score: 281
Period size: 41 Copynumber: 5.8 Consensus size: 41
66590085 GAATGTAATA
* * *
66590095 CAGACGTTACGTCTAGCAAGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
66590136 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
*
66590177 CAGACTTTAAGTCTAGTAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
66590218 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
66590259 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
66590300 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
66590334 ATCTGTTTAA
Statistics
Matches: 178, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 165 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:66593036 original size:17 final size:17
Alignment explanation
Indices: 66593016--66593049 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66593006 ATGTTTAGGT
66593016 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
66593033 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
66593050 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:66594464 original size:20 final size:18
Alignment explanation
Indices: 66594423--66594466 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
66594413 TCATAAAATG
* *
66594423 AAAATTCAATGTAATCCT
1 AAAATTCAAAGTAATCCC
66594441 AAAATTCAAGAGTCAATCCC
1 AAAATTCAA-AGT-AATCCC
66594461 AAAATT
1 AAAATT
66594467 TTACATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAATTCAAAGTAATCCC
Found at i:66604355 original size:6 final size:6
Alignment explanation
Indices: 66604346--66604373 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66604336 ACAAAAGAAA
66604346 ATGGGC ATGGGC ATGGGC ATGGGC ATGG
1 ATGGGC ATGGGC ATGGGC ATGGGC ATGG
66604374 TAAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.50, T:0.18
Consensus pattern (6 bp):
ATGGGC
Found at i:66604783 original size:120 final size:120
Alignment explanation
Indices: 66604639--66605175 Score: 1029
Period size: 120 Copynumber: 4.5 Consensus size: 120
66604629 TAATAAATGG
66604639 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
66604704 TTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
*
66604759 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
66604824 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66604879 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
66604944 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
* *
66604999 TAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
66605064 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAATAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66605119 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66605176 TAAATATGAT
Statistics
Matches: 409, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 409 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
Found at i:66604792 original size:18 final size:17
Alignment explanation
Indices: 66604764--66604798 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
66604754 ATTATTAAGA
*
66604764 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
66604781 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
66604799 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:66605032 original size:18 final size:17
Alignment explanation
Indices: 66605004--66605038 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
66604994 ATTATTAAGA
66605004 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
66605021 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
66605039 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:66605419 original size:16 final size:16
Alignment explanation
Indices: 66605394--66605462 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
66605384 GATTAGCTAT
*
66605394 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
66605410 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
66605427 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
66605443 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
66605459 TACA
1 TACA
66605463 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66605437 original size:33 final size:32
Alignment explanation
Indices: 66605394--66605462 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
66605384 GATTAGCTAT
66605394 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
66605427 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
66605459 TACA
1 TACA
66605463 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:66613661 original size:10 final size:10
Alignment explanation
Indices: 66613646--66613711 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
66613636 TCCTCCTATC
66613646 CAAATTCTCT
1 CAAATTCTCT
66613656 CAAATTCTCT
1 CAAATTCTCT
66613666 CAAATTCT-T
1 CAAATTCTCT
66613675 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
66613688 CATATTCTCT
1 CAAATTCTCT
*
66613698 CAAATTTTCT
1 CAAATTCTCT
66613708 CAAA
1 CAAA
66613712 GCTATCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.02
10 39 0.80
12 8 0.16
13 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:66613684 original size:32 final size:32
Alignment explanation
Indices: 66613647--66613711 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
66613637 CCTCCTATCC
66613647 AAATTCTCTCAAATTCTCTCAAATTCTTC-CAA
1 AAATTCTCTCAAATTCTCTCAAATT-TTCTCAA
*
66613679 AAATTCTCTCATATTCTCTCAAATTTTCTCAA
1 AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
66613711 A
1 A
66613712 GCTATCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
Found at i:66613701 original size:22 final size:22
Alignment explanation
Indices: 66613646--66613701 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
66613636 TCCTCCTATC
66613646 CAAATTCTCTC--AAATTCTCT
1 CAAATTCTCTCAAAAATTCTCT
66613666 CAAATTCT-TCCAAAAATTCTCT
1 CAAATTCTCT-CAAAAATTCTCT
*
66613688 CATATTCTCTCAAA
1 CAAATTCTCTCAAA
66613702 TTTTCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
22 20 0.65
23 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
CAAATTCTCTCAAAAATTCTCT
Found at i:66613914 original size:48 final size:48
Alignment explanation
Indices: 66613862--66613959 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
66613852 AGTGATAATT
* ** *
66613862 TTAATATTTCCATAGTATTTAATATTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
* *
66613910 TTAATTTTTCAATACAATTTAATATTTTTTTCATTTATACAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
66613958 TT
1 TT
66613960 TTAATTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (48 bp):
TTAATATTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
Done.