Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 150 of 235
Found at i:50335618 original size:39 final size:39
Alignment explanation
Indices: 50335548--50335625 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
50335538 AAAAAGATGC
* * *
50335548 AAAAATAAATAAACAAATTATGAACATATAAAATATAAA
1 AAAAATAAATAAAAAAATTATAAACATATAAAAAATAAA
50335587 AAAAATAAATACAAAAAATTA-AATACA-ATAAAAAATAAA
1 AAAAATAAATA-AAAAAATTATAA-ACATATAAAAAATAAA
50335626 TGAGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (39 bp):
AAAAATAAATAAAAAAATTATAAACATATAAAAAATAAA
Found at i:50335951 original size:29 final size:27
Alignment explanation
Indices: 50335873--50336046 Score: 137
Period size: 29 Copynumber: 6.4 Consensus size: 27
50335863 AAAATTATAC
* *
50335873 ATAATAAATAATAAA-AAACAAAATAAT
1 ATAAT-AATAATAAATATATAAAATAAT
* *
50335900 ATAATATATAATAGA-ACA-AAAATAAT
1 ATAATA-ATAATAAATATATAAAATAAT
* *
50335926 ATAATGAATAATATATATAGTAAAATGAT
1 ATAAT-AATAATAAATATA-TAAAATAAT
*
50335955 ATAATATATAATAAATATAT-AAATAAA
1 ATAATA-ATAATAAATATATAAAATAAT
50335982 AT-AT-ATAATAAATATAT-AAATAAT
1 ATAATAATAATAAATATATAAAATAAT
* * *
50336006 ATGATAAATAATACATAAATAAAAATAAT
1 ATAAT-AATAATAAATATAT-AAAATAAT
50336035 ATATATAATAAT
1 ATA-ATAATAAT
50336047 TTTTACATAT
Statistics
Matches: 123, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
24 21 0.17
25 2 0.02
26 23 0.19
27 35 0.28
28 2 0.02
29 38 0.31
30 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
ATAATAATAATAAATATATAAAATAAT
Found at i:50335984 original size:24 final size:24
Alignment explanation
Indices: 50335957--50336029 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
50335947 AAAATGATAT
50335957 AATATATAATAAATATATAAATAA
1 AATATATAATAAATATATAAATAA
50335981 AATATATAATAAATATATAAATAA
1 AATATATAATAAATATATAAATAA
* *
50336005 TATGATA-AAT-AATACATAAATAA
1 AAT-ATATAATAAATATATAAATAA
50336028 AA
1 AA
50336030 ATAATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.29
24 29 0.64
25 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (24 bp):
AATATATAATAAATATATAAATAA
Found at i:50335988 original size:31 final size:31
Alignment explanation
Indices: 50335895--50336003 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 31
50335885 AAAAAACAAA
* *
50335895 ATAATATAATATAT-AATAGAACAAAAATAATAT
1 ATAATA-AATATATAAATA-AA-ATATATAATAT
*
50335928 AATGAAT-AATATATATAGTAAAATGATATAATAT
1 -AT-AATAAATATATA-AATAAAAT-ATATAATAT
*
50335962 ATAATAAATATATAAATAAAATATATAATAA
1 ATAATAAATATATAAATAAAATATATAATAT
50335993 ATATATAAATA
1 ATA-ATAAATA
50336004 ATATGATAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
31 11 0.17
32 17 0.27
33 18 0.28
34 12 0.19
35 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (31 bp):
ATAATAAATATATAAATAAAATATATAATAT
Found at i:50335990 original size:53 final size:52
Alignment explanation
Indices: 50335892--50336044 Score: 159
Period size: 55 Copynumber: 2.8 Consensus size: 52
50335882 AATAAAAAAC
* * *
50335892 AAAATAATATAATATATAATAGAACAAAAATAATATA-ATGAATAATATATATAGT
1 AAAATGATATAATATATAATA-AATAAAAATAATATATAT-AAT-ATATATA-AAT
*
50335947 AAAATGATATAATATATAATAAATATATAAATAAAATATATAATAAATATATAAAT
1 AAAATGATATAATATATAATAAATA-A-AAATAATATATATAAT--ATATATAAAT
*
50336003 AATATGATA-AATA-ATACATAAATAAAAATAATATATATAATA
1 AAAATGATATAATATATA-ATAAATAAAAATAATATATATAATA
50336045 ATTTTTACAT
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
51 1 0.01
53 15 0.17
54 7 0.08
55 32 0.37
56 22 0.25
57 10 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (52 bp):
AAAATGATATAATATATAATAAATAAAAATAATATATATAATATATATAAAT
Found at i:50336033 original size:17 final size:18
Alignment explanation
Indices: 50336011--50336045 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50336001 ATAATATGAT
50336011 AAATAATACATA-AATAA
1 AAATAATACATATAATAA
*
50336028 AAATAATATATATAATAA
1 AAATAATACATATAATAA
50336046 TTTTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAATACATATAATAA
Found at i:50336037 original size:51 final size:53
Alignment explanation
Indices: 50335892--50336045 Score: 143
Period size: 53 Copynumber: 2.9 Consensus size: 53
50335882 AATAAAAAAC
* * * * *
50335892 AAAATAATATAATATATAATAGAACAAAAATAATATAATGA-ATAATATATATAGT
1 AAAATAATATAATAAATAATA-AATAAATA-AATAAAAT-ATATAATAAATATAGT
* * *
50335947 AAAATGATATAATATATAATAAATATATAAATAAAATATATAATAAATATA-T
1 AAAATAATATAATAAATAATAAATAAATAAATAAAATATATAATAAATATAGT
* * *
50335999 -AAATAATATGATAAATAATACATAAATAAAAATAATATATATAATAA
1 AAAATAATATAATAAATAATAAATAAAT--AAATAAAATATATAATAA
50336046 TTTTTACATA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
51 22 0.26
52 2 0.02
53 35 0.42
54 5 0.06
55 20 0.24
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (53 bp):
AAAATAATATAATAAATAATAAATAAATAAATAAAATATATAATAAATATAGT
Found at i:50336058 original size:20 final size:19
Alignment explanation
Indices: 50336033--50336070 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
50336023 AATAAAAATA
*
50336033 ATATATATAATAATTTTTAC
1 ATATATA-AATAATGTTTAC
50336053 ATATATAAATAATGTTTA
1 ATATATAAATAATGTTTA
50336071 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATATAAATAATGTTTAC
Found at i:50340208 original size:17 final size:17
Alignment explanation
Indices: 50340186--50340222 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50340176 CACATTTCTT
50340186 GACCCTTATACTTCATA
1 GACCCTTATACTTCATA
*
50340203 GACCCTTGTACTTCATA
1 GACCCTTATACTTCATA
50340220 GAC
1 GAC
50340223 ATCAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (17 bp):
GACCCTTATACTTCATA
Found at i:50341703 original size:29 final size:29
Alignment explanation
Indices: 50341667--50341723 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
50341657 AACACATCTC
50341667 CCTTTTGTTCACCTATCCTTGTTTCTCTT
1 CCTTTTGTTCACCTATCCTTGTTTCTCTT
*
50341696 CCTTTTGTTCACCTGTCCTTGTTTCTCT
1 CCTTTTGTTCACCTATCCTTGTTTCTCT
50341724 ACCAGGGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.05, C:0.32, G:0.09, T:0.54
Consensus pattern (29 bp):
CCTTTTGTTCACCTATCCTTGTTTCTCTT
Found at i:50341912 original size:14 final size:13
Alignment explanation
Indices: 50341884--50341916 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
50341874 CAAAACCCAA
50341884 AAACCT-AAAAAT
1 AAACCTAAAAAAT
50341896 AAACCTAAAAAATT
1 AAACCTAAAAAA-T
50341910 AAACCTA
1 AAACCTA
50341917 TACTTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCTAAAAAAT
Found at i:50343647 original size:40 final size:41
Alignment explanation
Indices: 50343596--50343676 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
50343586 GGTCTCAAAA
50343596 TTATTGTTTTAGAAAATTTTT-AAATTTTA-AATTTCTTTAT
1 TTATTGTTTTAG-AAATTTTTAAAATTTTATAATTTCTTTAT
* * *
50343636 TTATTTTTTTAGAATTTTTTAAAAATTTTATAATTTTTTTA
1 TTATTGTTTTAGAAATTTTT-AAAATTTTATAATTTCTTTA
50343677 AAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 7 0.20
40 11 0.31
41 8 0.23
42 9 0.26
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (41 bp):
TTATTGTTTTAGAAATTTTTAAAATTTTATAATTTCTTTAT
Found at i:50343670 original size:19 final size:20
Alignment explanation
Indices: 50343642--50343681 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50343632 TTATTTATTT
50343642 TTTTAGAA-TTTTTTAAAAA
1 TTTTAGAATTTTTTTAAAAA
*
50343661 TTTTATAATTTTTTTAAAAA
1 TTTTAGAATTTTTTTAAAAA
50343681 T
1 T
50343682 ATAAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTTTTAAAAA
Found at i:50343689 original size:19 final size:20
Alignment explanation
Indices: 50343650--50343690 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50343640 TTTTTTAGAA
* *
50343650 TTTTTTAAAAATTTTATAAT
1 TTTTTTAAAAATTATAAAAT
50343670 TTTTTTAAAAA-TATAAAAT
1 TTTTTTAAAAATTATAAAAT
50343689 TT
1 TT
50343691 GGAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAAATTATAAAAT
Found at i:50343718 original size:18 final size:19
Alignment explanation
Indices: 50343681--50343717 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
50343671 TTTTTAAAAA
50343681 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
50343699 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
50343718 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:50343723 original size:18 final size:19
Alignment explanation
Indices: 50343687--50343743 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
50343677 AAAATATAAA
*
50343687 ATTTGGAATTTTTATAAAT
1 ATTTGGAATTTTTAAAAAT
50343706 ATTTGGAA-TTTTAAAAATT
1 ATTTGGAATTTTTAAAAA-T
*
50343725 ATATT-GATTTTTTAAAAAT
1 AT-TTGGAATTTTTAAAAAT
50343744 TTTTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.24
19 14 0.42
20 11 0.33
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTGGAATTTTTAAAAAT
Found at i:50343757 original size:20 final size:20
Alignment explanation
Indices: 50343707--50343757 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50343697 TTTATAAATA
*
50343707 TTTGGAATTTTAAAAATTAT
1 TTTGAAATTTTAAAAATTAT
* ** *
50343727 ATTGATTTTTTAAAAATTTT
1 TTTGAAATTTTAAAAATTAT
50343747 TTTGAAATTTT
1 TTTGAAATTTT
50343758 TGTTGAGAGA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTGAAATTTTAAAAATTAT
Found at i:50363695 original size:9 final size:9
Alignment explanation
Indices: 50363676--50363719 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
50363666 TAGTACTTAT
50363676 TTTTTTCTTC
1 TTTTTT-TTC
50363686 TTTTTTTTC
1 TTTTTTTTC
50363695 TTTTTTTTC
1 TTTTTTTTC
*
50363704 TTTTTTTTA
1 TTTTTTTTC
50363713 TTTTTTT
1 TTTTTTT
50363720 AAAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:50363699 original size:21 final size:19
Alignment explanation
Indices: 50363672--50363719 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
50363662 TTATTAGTAC
50363672 TTATTTTTTTCTTCTTTTTT
1 TTATTTTTTT-TTCTTTTTT
*
50363692 TT-CTTTTTTTTCTTTTTT
1 TTATTTTTTTTTCTTTTTT
50363710 TTATTTTTTT
1 TTATTTTTTT
50363720 AAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 12 0.48
20 2 0.08
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (19 bp):
TTATTTTTTTTTCTTTTTT
Found at i:50364003 original size:118 final size:118
Alignment explanation
Indices: 50363844--50364074 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
50363834 TTATTTCGGT
50363844 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * *
50363909 CCTACCCCGGTTACTCAGTTAGTCACGATTTGAGCCATACTCATAACCTTAGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTTAGC
****
50363962 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
50364027 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
50364075 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTTAGC
Found at i:50364901 original size:42 final size:42
Alignment explanation
Indices: 50364855--50364959 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
50364845 GGGATTATAA
* * *
50364855 GGCTGAAATAGGACTGTTTGGCTGCAGAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
* * *
50364897 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
50364939 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
50364960 TACCATGGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.25, C:0.12, G:0.34, T:0.29
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
Found at i:50365076 original size:5 final size:5
Alignment explanation
Indices: 50365066--50365137 Score: 65
Period size: 5 Copynumber: 13.8 Consensus size: 5
50365056 AATATTTAAC
*
50365066 TAAAA TAAAA TAAAA TAAAA TAAAA TAATAAA TAATAA -ATAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-A-AAA TAA-AA TAAAA TAAAA
* * *
50365113 GAAAA TAAAG GAAAA TAAAAA TAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAA
50365138 GATTGGGTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.04
5 39 0.72
6 9 0.17
7 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:50371194 original size:18 final size:18
Alignment explanation
Indices: 50371171--50371213 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
50371161 AAAAAAAGTG
* *
50371171 ATAAAAAAAGTACAAAAA
1 ATAAAAAAAGAAAAAAAA
* *
50371189 ATAAAATACGAAAAAAAA
1 ATAAAAAAAGAAAAAAAA
50371207 ATAAAAA
1 ATAAAAA
50371214 TAAAAATTAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (18 bp):
ATAAAAAAAGAAAAAAAA
Found at i:50379988 original size:3 final size:3
Alignment explanation
Indices: 50379828--50379976 Score: 131
Period size: 3 Copynumber: 48.3 Consensus size: 3
50379818 CTTTAACAAT
*
50379828 ATA ATA ATA ATA ATA ATA ATA GATAA AGA ATA ATA ATA ATA CATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA -A-TA ATA
* * * *
50379877 ATA ATA ATA ATA ATA ATA A-A GACA ACA ATA ATA AGA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
50379922 ATA ATA CTA CTA CTA ATA ATA ATA GA-A GTA ATA ATA GTA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
50379967 ATA ATA ATA A
1 ATA ATA ATA A
50379977 ATTTAATAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.01
3 112 0.91
4 7 0.06
5 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:50381523 original size:44 final size:44
Alignment explanation
Indices: 50381466--50382087 Score: 441
Period size: 44 Copynumber: 14.1 Consensus size: 44
50381456 TTATCTTTAG
* * * ** ** *
50381466 TCTGCTTCGCTGCAACTTCAAGGAGATAAGCCTGGTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
* * ** * *
50381510 TCTGCTCCACTGCAACTTTAGGAAGATAAGATCTGCCATCTTCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTAACTTCAA
** * * **
50381555 TCTATTCCACTGTAACTTCAAGGAGATAAGATCT-ACAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTAACTTCAA
* * * * * * * *
50381599 TTTTCTCTATTGCTACTTCAGGGAGAT-AGCATTAGTAGCTCCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGGTAACTTCAA
* * * *
50381643 TCTGCTCTACTGCTACTTCAGGGAGAT-AGTATTAGTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGGTAACTTCAA
* * * * * *
50381687 GCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
* * * * * *
50381731 TCTTCTCCACTACAACTTTAGGGAGATAAGACTT-GTAATTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTAACTTCAA
* * * * * * *
50381775 CCTGCTCTACTGCAACTTCAGAGAGATAAGGTTAGTGACCGT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-AACTTCAA
* *
50381819 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
* * *
50381863 TCTG-TGCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAG
1 TCTGCT-CCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
* * *
50381907 TCTGCTCTACTGCAACTTCAGGAAGATAAGACTT-GTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTAACTTCAA
* * * * * * *
50381951 CCTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGCTATCTTCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGGTAACTTCAA
* *
50381996 TCTACTCCACTGCAACTTCAGGGAGATAAGATCT-GTAACTTAAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTAACTTCAA
* * * * *
50382040 TCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
50382084 TCTG
1 TCTG
50382088 TTTCATCACA
Statistics
Matches: 458, Mismatches: 105, Indels: 30
0.77 0.18 0.05
Matches are distributed among these distances:
43 10 0.02
44 372 0.81
45 76 0.17
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAA
Found at i:50388674 original size:49 final size:48
Alignment explanation
Indices: 50388609--50388730 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 48
50388599 TCAAGTTGAT
50388609 GCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAGGCCGGC
1 GCCATGTCCCAGACATGGTCTTACACTGAC-ATCATCATCGAGGCCGGC
* *
50388658 GCCATGTCCTAGACAT-G------AC--A-ATCGTCATCGAGGCCGGC
1 GCCATGTCCCAGACATGGTCTTACACTGACATCATCATCGAGGCCGGC
50388696 GCCATGTCCCAGACATGGTCTTACACTGACA-CATC
1 GCCATGTCCCAGACATGGTCTTACACTGACATCATC
50388731 TCGTAGTCGA
Statistics
Matches: 59, Mismatches: 4, Indels: 22
0.69 0.05 0.26
Matches are distributed among these distances:
38 32 0.54
39 1 0.02
40 1 0.02
42 2 0.03
45 2 0.03
47 4 0.07
48 2 0.03
49 15 0.25
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGACATCATCATCGAGGCCGGC
Found at i:50388803 original size:46 final size:46
Alignment explanation
Indices: 50388698--50388859 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 46
50388688 AGGCCGGCGC
* * * * *
50388698 CATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTTG-AGCCGATG
*
50388743 CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTTGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTTGA-GCCGATG
* *
50388789 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTTAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACGTCTTGA-GCCGATG
50388835 CCATGTCCCAGACATGGTCTTACAC
1 -CATGTCCCAGACATGGTCTTACAC
50388860 GAGCTCATAA
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 51 0.50
47 15 0.15
48 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTTGAGCCGATG
Found at i:50396336 original size:49 final size:49
Alignment explanation
Indices: 50396271--50396401 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 49
50396261 TCTCAAGTCA
* *
50396271 ATGCCATGTTCC-AGACATGGTCTTACACTGACTATCGTC-ATC-GAGGTTG
1 ATGCCATG-TCCTAGACATGGTCTTACACTGACTATC-ACAATCTG-GGTCG
* * *
50396320 ATGCCATGTCCTAGACATGGTCTTACGCT-AGCTCTCACATATCTGTGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGA-CTATCACA-ATCTGGGTCG
*
50396370 ATGCCATATCCTAGACATGGTCTTACACTGAC
1 ATGCCATGTCCTAGACATGGTCTTACACTGAC
50396402 ACATCTGGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
48 5 0.07
49 28 0.41
50 34 0.49
51 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGACTATCACAATCTGGGTCG
Found at i:50400037 original size:3 final size:3
Alignment explanation
Indices: 50399880--50400025 Score: 109
Period size: 3 Copynumber: 48.3 Consensus size: 3
50399870 GTTTAACAAT
* * *
50399880 ATA ATA ATG ATA ATA ATA ATA ATA AT- ACA ATA ATA ATA GATAA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA
* * *
50399926 ATA A-A TATT ATA ATA ATA ATA ATA ATA ATA ATA GTA A-A GACA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * ** * * * *
50399971 ATA ATA AGA ATG ATA ATA CCA CTA CTA CTA CTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50400019 ATA ATA A
1 ATA ATA A
50400026 ATTTAATAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
2 3 0.03
3 109 0.93
4 4 0.03
5 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:50401056 original size:24 final size:24
Alignment explanation
Indices: 50401024--50401072 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50401014 ATAAAAAGAG
50401024 TTGATGATTTAATTAAAAGATAAT
1 TTGATGATTTAATTAAAAGATAAT
50401048 TTGATGATTTAATTAAAAGATAAT
1 TTGATGATTTAATTAAAAGATAAT
50401072 T
1 T
50401073 GATTGGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (24 bp):
TTGATGATTTAATTAAAAGATAAT
Found at i:50404907 original size:72 final size:72
Alignment explanation
Indices: 50404810--50404989 Score: 199
Period size: 71 Copynumber: 2.5 Consensus size: 72
50404800 CCCTTTGGTT
* *
50404810 TCAAGGCGCCCTTTGTGGGTTTTCACTTTGGCCTCTCCTTTT-TATCTTTT-TATAT-TTTTTAT
1 TCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCTCT--TTTTCT-TCTTTTCTATATCTTTTTAT
50404872 ATAG-AGAGTC
63 ATAGAAG-GTC
* * * * * *
50404882 TCAAAGTGCCCTTTGCGGGTTTTCACCTTGGCC-CTTTTTCTTCTTTTCTTTTTCTTTTTATTTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCTCTTTTTCTTCTTTTCTATATCTTTTTATATA
50404946 GAAGGTC
66 GAAGGTC
* *
50404953 TCAAAGCGCCCTTTACGGGTTTTCAATTTGGCCTCTT
1 TCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCTCTT
50404990 CCCCTCTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
69 10 0.11
70 4 0.04
71 43 0.47
72 34 0.37
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (72 bp):
TCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCTCTTTTTCTTCTTTTCTATATCTTTTTATATA
GAAGGTC
Found at i:50418925 original size:26 final size:26
Alignment explanation
Indices: 50418818--50418931 Score: 105
Period size: 25 Copynumber: 4.6 Consensus size: 26
50418808 AAAACGAAAC
50418818 AAAATA-ATATATATA-AAAC-AATTT
1 AAAATAGATA-ATATACAAACAAATTT
* * ** *
50418842 AAAGTAAATAGCATA-AAAC-ATTTT
1 AAAATAGATAATATACAAACAAATTT
* *
50418866 AAAATAAATAATATATAAACAAA-TT
1 AAAATAGATAATATACAAACAAATTT
*
50418891 AAAATAGATAATATACAAAGAAATTT
1 AAAATAGATAATATACAAACAAATTT
50418917 AAAATAGATAATATA
1 AAAATAGATAATATA
50418932 TAACACACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
24 28 0.37
25 29 0.39
26 18 0.24
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATAGATAATATACAAACAAATTT
Found at i:50418943 original size:26 final size:25
Alignment explanation
Indices: 50418818--50418945 Score: 118
Period size: 26 Copynumber: 5.1 Consensus size: 25
50418808 AAAACGAAAC
50418818 AAAATA-AT-ATATATAAAACAATTT
1 AAAATAGATAATATAT-AAACAATTT
* * ** *
50418842 AAAGTAAATAGCATA-AAACATTTT
1 AAAATAGATAATATATAAACAATTT
* *
50418866 AAAATAAATAATATATAAACAAATT
1 AAAATAGATAATATATAAACAATTT
* *
50418891 AAAATAGATAATATACAAAGAAATTT
1 AAAATAGATAATATATAAA-CAATTT
*
50418917 AAAATAGATAATATATAACACACTTT
1 AAAATAGATAATATATAA-ACAATTT
50418943 AAA
1 AAA
50418946 TAACATATAA
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
24 25 0.30
25 26 0.31
26 31 0.37
27 1 0.01
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATAGATAATATATAAACAATTT
Found at i:50419168 original size:25 final size:25
Alignment explanation
Indices: 50419129--50419209 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
50419119 AAATACAGTG
*
50419129 AAAAACTTAAAATAAATAATAATAA
1 AAAAAATTAAAATAAATAATAATAA
* *
50419154 AACAATTTAAAATAAATAAT-ATAAGA
1 AAAAAATTAAAATAAATAATAAT-A-A
50419180 AAAAAATTAAAATAAATAATAATAA
1 AAAAAATTAAAATAAATAATAATAA
*
50419205 TAAAA
1 AAAAA
50419210 CCGTTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 2 0.04
25 24 0.50
26 20 0.42
27 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (25 bp):
AAAAAATTAAAATAAATAATAATAA
Found at i:50419196 original size:26 final size:25
Alignment explanation
Indices: 50419129--50419209 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
50419119 AAATACAGTG
*
50419129 AAAAACTTAAAATAAATAATA-ATAA
1 AAAAAATTAAAATAAATAATATA-AA
* *
50419154 AACAATTTAAAATAAATAATATAAGA
1 AAAAAATTAAAATAAATAATATAA-A
*
50419180 AAAAAATTAAAATAAATAATAATAAT
1 AAAAAATTAAAATAAATAAT-ATAAA
50419206 AAAA
1 AAAA
50419210 CCGTTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
25 20 0.42
26 24 0.50
27 4 0.08
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (25 bp):
AAAAAATTAAAATAAATAATATAAA
Found at i:50422076 original size:32 final size:31
Alignment explanation
Indices: 50422034--50422125 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
50422024 TTAATTGTTA
*
50422034 TTTTGGATATATTACTTTTCACTTATTATTAT
1 TTTTGAATATATTACTTTTCACTTATTATT-T
* *
50422066 TTTTGAATATATTACTTTCCAC-T-TGATTT
1 TTTTGAATATATTACTTTTCACTTATTATTT
* * *
50422095 TTAT-AATATACTATTTTTCACTTATTATTT
1 TTTTGAATATATTACTTTTCACTTATTATTT
50422125 T
1 T
50422126 CAAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 14 0.28
29 5 0.10
30 10 0.20
31 1 0.02
32 20 0.40
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (31 bp):
TTTTGAATATATTACTTTTCACTTATTATTT
Found at i:50425943 original size:3 final size:3
Alignment explanation
Indices: 50425937--50425963 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
50425927 ACAAAAAAAA
50425937 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
50425964 TGGGCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50426069 original size:23 final size:21
Alignment explanation
Indices: 50426027--50426073 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
50426017 GAGTTGGTAG
*
50426027 TATAAATTGTAACTTTAAAAA
1 TATAAATTGTAAATTTAAAAA
*
50426048 TATATAATTTTAAATTTAAAAA
1 TATA-AATTGTAAATTTAAAAA
50426070 -ATAA
1 TATAA
50426074 TATTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 7 0.30
22 15 0.65
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAAATTGTAAATTTAAAAA
Found at i:50438430 original size:23 final size:23
Alignment explanation
Indices: 50438404--50438452 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
50438394 TTTCGACATG
*
50438404 TGAT-CAGTAAGCTCCTCTTGAGC
1 TGATGCAGTAAGCT-CTATTGAGC
50438427 TGATGGACAGTAAGCTCTATTGAGC
1 TGAT-G-CAGTAAGCTCTATTGAGC
50438452 T
1 T
50438453 AAAATGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
25 9 0.41
26 9 0.41
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
TGATGCAGTAAGCTCTATTGAGC
Found at i:50438486 original size:24 final size:23
Alignment explanation
Indices: 50438433--50438501 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
50438423 GAGCTGATGG
50438433 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTA-TGAGCTGAAA
** *
50438456 ATGGTAAGCTCTGACGAGCTGAAA
1 ACAGTAAGCTCT-ATGAGCTGAAA
50438480 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTC-TATGAGCTGA
50438502 TATATCGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 15 0.41
24 21 0.57
25 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTATGAGCTGAAA
Found at i:50447164 original size:42 final size:42
Alignment explanation
Indices: 50447117--50447318 Score: 156
Period size: 42 Copynumber: 4.6 Consensus size: 42
50447107 TGTGGTTTCG
50447117 TGTAAGACCATATTTGGGATATGGTC-TCAATATGTGATCCCA
1 TGTAAGACCATATTTGGGATATGG-CATCAATATGTGATCCCA
* ** *
50447159 TGTAAGATCATATTTGGGATATTGCATTGGCATCAATATGTGATTTCG
1 TGTAAGACCATATTTGGG--A-T--A-TGGCATCAATATGTGATCCCA
* * * * * *
50447207 TGTAAGACCATGTTTGGGACATGGCATCGATATGAGA-CATCG
1 TGTAAGACCATATTTGGGATATGGCATCAATATGTGATC-CCA
** * * *
50447249 TGTAAGACCATAGCTAGGCTATTGGCATCGATATGTGATCCCA
1 TGTAAGACCATATTTGGGATA-TGGCATCAATATGTGATCCCA
* *
50447292 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATTTGGGATATGGCAT
50447319 TGGCATCTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
42 55 0.43
43 36 0.28
44 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 32 0.25
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCAATATGTGATCCCA
Found at i:50447272 original size:90 final size:90
Alignment explanation
Indices: 50447107--50447272 Score: 192
Period size: 90 Copynumber: 1.8 Consensus size: 90
50447097 TAAGGTTATG
* * * * *
50447107 TGTGGTTTCGTGTAAGACCATATTTGGGATATGGTCTCAATATGTGATCCCATGTAAGATCATAT
1 TGTGATTTCGTGTAAGACCATATTTGGGACATGGTCTCAATATGAGATCCCATGTAAGACCATAG
* *
50447172 TTGGGATATTGCATTGGCATCAATA
66 CTAGGATATTGCATTGGCATCAATA
* * * *
50447197 TGTGATTTCGTGTAAGACCATGTTTGGGACATGG-CATCGATATGAGA-CATCGTGTAAGACCAT
1 TGTGATTTCGTGTAAGACCATATTTGGGACATGGTC-TCAATATGAGATC-CCATGTAAGACCAT
*
50447260 AGCTAGGCTATTG
64 AGCTAGGATATTG
50447273 GCATCGATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
89 2 0.03
90 60 0.97
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (90 bp):
TGTGATTTCGTGTAAGACCATATTTGGGACATGGTCTCAATATGAGATCCCATGTAAGACCATAG
CTAGGATATTGCATTGGCATCAATA
Found at i:50450345 original size:42 final size:43
Alignment explanation
Indices: 50450293--50450406 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 43
50450283 GGGCTACCGA
* *
50450293 GATTCCGTATAAGACCATATCTGGGATATGACATC-AGTATG-T
1 GATTTCGTATAAGACCATATCAGGGATATGACATCGA-TATGAT
* * * *
50450335 GATTTCGTATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGATATGACATCGATATGAT
* * *
50450378 -ATTTCATGTAAGACCATATCCGGGATATG
1 GATTTCGTATAAGACCATATCAGGGATATG
50450407 GCTTGATACG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCAGGGATATGACATCGATATGAT
Found at i:50452876 original size:34 final size:34
Alignment explanation
Indices: 50452838--50452908 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
50452828 CATGCACACC
50452838 AGATGAATGTATGAAATGTGTTGTATCACTCTTG
1 AGATGAATGTATGAAATGTGTTGTATCACTCTTG
* *
50452872 AGATGGATGTATTAAATGTGTTGTATCACTCTTG
1 AGATGAATGTATGAAATGTGTTGTATCACTCTTG
50452906 AGA
1 AGA
50452909 GACTAGGCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (34 bp):
AGATGAATGTATGAAATGTGTTGTATCACTCTTG
Found at i:50455432 original size:16 final size:16
Alignment explanation
Indices: 50455411--50455443 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50455401 TTGTATGGCG
50455411 AGAAATGTCAGTATTC
1 AGAAATGTCAGTATTC
50455427 AGAAATGTCAGTATTC
1 AGAAATGTCAGTATTC
50455443 A
1 A
50455444 CTAATCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
AGAAATGTCAGTATTC
Found at i:50462859 original size:23 final size:24
Alignment explanation
Indices: 50462829--50462885 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
50462819 GAGCTAATGG
**
50462829 ACAGTAAGCTCTATTGAGCT-CAA
1 ACAGTAAGCTCTAACGAGCTACAA
*
50462852 ACAGTAAGCTCTAACGAGCTAGAA
1 ACAGTAAGCTCTAACGAGCTACAA
50462876 ACAGTAAGCT
1 ACAGTAAGCT
50462886 GTTATGAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTACAA
Found at i:50462894 original size:24 final size:22
Alignment explanation
Indices: 50462829--50462895 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
50462819 GAGCTAATGG
*
50462829 ACAGTAAGCTCTATTGAGCTCAA
1 ACAGTAAGCTTTA-TGAGCTCAA
* * *
50462852 ACAGTAAGCTCTAACGAGCTAGAA
1 ACAGTAAGCT-TTATGAGCT-CAA
50462876 ACAGTAAGCTGTTATGAGCT
1 ACAGTAAGCT-TTATGAGCT
50462896 GATATATTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
ACAGTAAGCTTTATGAGCTCAA
Found at i:50463416 original size:29 final size:29
Alignment explanation
Indices: 50463379--50463436 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
50463369 ATTTGGTACA
50463379 AACCCATGCTTAG-TCGAATTTCATACATG
1 AACCCATGCTTAGCT-GAATTTCATACATG
50463408 AACCCATGCTTAGCTGAATTTCATACATG
1 AACCCATGCTTAGCTGAATTTCATACATG
50463437 TTACTAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (29 bp):
AACCCATGCTTAGCTGAATTTCATACATG
Found at i:50469928 original size:28 final size:28
Alignment explanation
Indices: 50469896--50469961 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
50469886 TCCCTAGCCT
* *
50469896 GTGTCCCTCACACTACCTAGACATGCCC
1 GTGTCCCTCACACGACCTAGACACGCCC
*
50469924 GTGTCCCTCACACGGCCTAGACACGCCC
1 GTGTCCCTCACACGACCTAGACACGCCC
50469952 GTGT-CCTCAC
1 GTGTCCCTCAC
50469962 CCGTGTCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.18, C:0.44, G:0.18, T:0.20
Consensus pattern (28 bp):
GTGTCCCTCACACGACCTAGACACGCCC
Found at i:50482000 original size:23 final size:23
Alignment explanation
Indices: 50481970--50482018 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
50481960 GGATGGTAAG
50481970 ATTCTACGGGTCGAATCAGGAGA
1 ATTCTACGGGTCGAATCAGGAGA
50481993 ATTCTACGGGTCGAATCAGGAGA
1 ATTCTACGGGTCGAATCAGGAGA
50482016 ATT
1 ATT
50482019 GGGTTTGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (23 bp):
ATTCTACGGGTCGAATCAGGAGA
Found at i:50495180 original size:28 final size:28
Alignment explanation
Indices: 50495144--50495201 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50495134 AATCTATAAT
50495144 TTATCAAACTCTCCATTATATTATTAAA
1 TTATCAAACTCTCCATTATATTATTAAA
50495172 TTATCAAACTCTCCATTATATTATTAAA
1 TTATCAAACTCTCCATTATATTATTAAA
50495200 TT
1 TT
50495202 CCCAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (28 bp):
TTATCAAACTCTCCATTATATTATTAAA
Found at i:50495445 original size:48 final size:48
Alignment explanation
Indices: 50495370--50495473 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
50495360 TATTCATATT
*
50495370 AATT-TATACTTATTATTTCATATTAATTATTACTTAATTAACTTTAC
1 AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
* * * *
50495417 AATTGTATACCTATTATTTTATATTAATTATTATTTAATTAATTTTAT
1 AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
50495465 AATTGTATA
1 AATTGTATA
50495474 TTAATTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 4 0.08
48 47 0.92
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (48 bp):
AATTGTATACCTATTATTTCATATTAATTATTACTTAATTAACTTTAC
Found at i:50495450 original size:17 final size:17
Alignment explanation
Indices: 50495428--50495480 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 17
50495418 ATTGTATACC
50495428 TATTATTTTATATTAAT
1 TATTATTTTATATTAAT
50495445 TATTA-TTTA-ATTAAT
1 TATTATTTTATATTAAT
50495460 T-TTATAATTGTATATTAAT
1 TATTAT--TT-TATATTAAT
50495479 TA
1 TA
50495481 AAATTGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.10
15 7 0.23
16 4 0.13
17 7 0.23
18 2 0.07
19 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTTTATATTAAT
Found at i:50497806 original size:22 final size:22
Alignment explanation
Indices: 50497759--50497880 Score: 120
Period size: 22 Copynumber: 5.4 Consensus size: 22
50497749 CACACCAGTA
* *
50497759 TATGAAAGCCCTTTTATGAGATG
1 TATGAGAGCCC-TTTATGAGACG
* * *
50497782 TATGAGAGCCCTTAATGGGATG
1 TATGAGAGCCCTTTATGAGACG
* *
50497804 TATGAGAGCCTTTTTTATGAGACA
1 TATGAGAGCC--CTTTATGAGACG
*
50497828 TATGAGAACCCTTTAT-AGGACG
1 TATGAGAGCCCTTTATGA-GACG
*
50497850 TATGAGAGCTCTTTATGAGACG
1 TATGAGAGCCCTTTATGAGACG
50497872 TATGAGAGC
1 TATGAGAGC
50497881 TCTTATGGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.01
22 54 0.66
23 11 0.13
24 16 0.20
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:50497825 original size:46 final size:43
Alignment explanation
Indices: 50497770--50497889 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 43
50497760 ATGAAAGCCC
* *
50497770 TTTTATGAGATGTATGAGAGCCCTTAATGGGATGTATGAGAGCCTT
1 TTTTATGAGACGTATGAGAGCCCTT-ATGGGACGTATGAGAG-C-T
* * *
50497816 TTTTATGAGACATATGAGAACCCTTTATAGGACGTATGAGAGCT
1 TTTTATGAGACGTATGAGAGCCC-TTATGGGACGTATGAGAGCT
* *
50497860 CTTTATGAGACGTATGAGAGCTCTTATGGG
1 TTTTATGAGACGTATGAGAGCCCTTATGGG
50497890 TGGCAAAGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.10
44 20 0.32
45 1 0.02
46 34 0.54
47 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTTATGAGACGTATGAGAGCCCTTATGGGACGTATGAGAGCT
Found at i:50499800 original size:14 final size:14
Alignment explanation
Indices: 50499783--50499813 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50499773 ATAAGTAAAT
50499783 TAAATATTATATTA
1 TAAATATTATATTA
*
50499797 TAAATGTTATATTA
1 TAAATATTATATTA
50499811 TAA
1 TAA
50499814 TATAAAACAT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATATTATATTA
Found at i:50504747 original size:22 final size:22
Alignment explanation
Indices: 50504706--50504747 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50504696 TAAGAGCACC
*
50504706 AAAATCCACAAATCTACTAATA
1 AAAATCCACAAATATACTAATA
* *
50504728 AAAATCCATAAATATGCTAA
1 AAAATCCACAAATATACTAA
50504748 GTATTTGGGG
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:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATCCACAAATATACTAATA
Found at i:50513402 original size:50 final size:50
Alignment explanation
Indices: 50513315--50513414 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
50513305 CAAACACCCA
* *
50513315 TAATAAGCTCAGATCTGAATTACCAGTCTAGGCTAAATTCAGATCCTAGT
1 TAATAAGCTCAGATCTGAATTACCAGTCCAGGCTAAATTCAGACCCTAGT
* * *
50513365 TAATGAGCTCGGATCTGAATTACCAGTCCAGGTTAAATTCAGACCCTAGT
1 TAATAAGCTCAGATCTGAATTACCAGTCCAGGCTAAATTCAGACCCTAGT
50513415 CGGATTACCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (50 bp):
TAATAAGCTCAGATCTGAATTACCAGTCCAGGCTAAATTCAGACCCTAGT
Found at i:50525164 original size:185 final size:185
Alignment explanation
Indices: 50524852--50525221 Score: 722
Period size: 185 Copynumber: 2.0 Consensus size: 185
50524842 TTCATGAAAA
50524852 TCACCTAGAAAAAGATGTTTAACACACATCCAACTTTCATATTCCTCCATAAAACATCAAGGAAT
1 TCACCTAGAAAAAGATGTTTAACACACATCCAACTTTCATATTCCTCCATAAAACATCAAGGAAT
50524917 AAACATGTCACACATGGGTCACTTTACATACATGAACCCTAACTCAAAATATGGGTAGAAATGGA
66 AAACATGTCACACATGGGTCACTTTACATACATGAACCCTAACTCAAAATATGGGTAGAAATGGA
50524982 GAGAGTAAGTTACTGGGATTTTAAAAATATGAATAACATTAAAAACGGGGCTTGT
131 GAGAGTAAGTTACTGGGATTTTAAAAATATGAATAACATTAAAAACGGGGCTTGT
* *
50525037 TCACCTAGAAAAAGATGTTTAACACACATCCAACTTTCATATTCCTCCATAAATCTTCAAGGAAT
1 TCACCTAGAAAAAGATGTTTAACACACATCCAACTTTCATATTCCTCCATAAAACATCAAGGAAT
50525102 AAACATGTCACACATGGGTCACTTTACATACATGAACCCTAACTCAAAATATGGGTAGAAATGGA
66 AAACATGTCACACATGGGTCACTTTACATACATGAACCCTAACTCAAAATATGGGTAGAAATGGA
50525167 GAGAGTAAGTTACTGGGATTTTAAAAATATGAATAACATTAAAAACGGGGCTTGT
131 GAGAGTAAGTTACTGGGATTTTAAAAATATGAATAACATTAAAAACGGGGCTTGT
50525222 GAGCACTTAC
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 183 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (185 bp):
TCACCTAGAAAAAGATGTTTAACACACATCCAACTTTCATATTCCTCCATAAAACATCAAGGAAT
AAACATGTCACACATGGGTCACTTTACATACATGAACCCTAACTCAAAATATGGGTAGAAATGGA
GAGAGTAAGTTACTGGGATTTTAAAAATATGAATAACATTAAAAACGGGGCTTGT
Found at i:50526526 original size:42 final size:41
Alignment explanation
Indices: 50526413--50526568 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 41
50526403 GTACTACACC
* * ** * *
50526413 AATGCCATATCCCAGATATGGTTTTACATGGGATCTCGTCT
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
**
50526454 AGATGCCAGTAGACCA-ACTATGGTCTTACACGAAATCTCATAT
1 A-ATGCCA-TATCCCAGA-TATGGTCTTACACGAAATCTCATAT
** *
50526497 CAATGCCATATCCCAGATATGGTCTTACACGAAGCCTTATAAT
1 -AATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-AT
* **
50526540 GATGCCATATCCCAGATATTATCTTACAC
1 AATGCCATATCCCAGATATGGTCTTACAC
50526569 ATAGCCTCAG
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 58 0.62
43 33 0.35
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:50527914 original size:22 final size:21
Alignment explanation
Indices: 50527864--50527939 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 21
50527854 TGGCCTGCAG
*
50527864 CACGGGTGTGT-CCTATGGTCA
1 CACGGGTGTGTCCCT-TGGACA
50527885 CACGGGTGTGTCCCTTGGACAA
1 CACGGGTGTGTCCCTTGGAC-A
* *
50527907 TACGGGTGTGTCCCTTAGACCA
1 CACGGGTGTGTCCCTTGGA-CA
50527929 CACGGGTGTGT
1 CACGGGTGTGT
50527940 GAGCCCTGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
21 15 0.31
22 32 0.67
23 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.33, T:0.26
Consensus pattern (21 bp):
CACGGGTGTGTCCCTTGGACA
Found at i:50531081 original size:42 final size:42
Alignment explanation
Indices: 50530979--50531081 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
50530969 CCTAGACGTG
* * * * * *
50530979 GTCTTACATGGGATCTCACATCGATGCCATATCCTAGATATG
1 GTCTTATATGAGATCTCATATCAATGCCATATCCGAGATATC
* * *
50531021 GTCTTATACGAAATCTCATATCAATGCCATATCCGATATATC
1 GTCTTATATGAGATCTCATATCAATGCCATATCCGAGATATC
50531063 GTCTTATATGAGATCTCAT
1 GTCTTATATGAGATCTCAT
50531082 GAACCCAATG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (42 bp):
GTCTTATATGAGATCTCATATCAATGCCATATCCGAGATATC
Found at i:50537214 original size:50 final size:52
Alignment explanation
Indices: 50537158--50537272 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 52
50537148 TAAAGTTATT
* *
50537158 CATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGACATG
1 CATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
* *
50537208 CTTTATGTAA-TCCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGTCATG
1 CATTATGTAACT-CTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
*
50537260 CATTAAGTAACTC
1 CATTATGTAACTC
50537273 ATTTGTTCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 21 0.38
51 12 0.22
52 20 0.36
53 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (52 bp):
CATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTAAAATAAGACATG
Found at i:50537648 original size:69 final size:69
Alignment explanation
Indices: 50537537--50537666 Score: 242
Period size: 69 Copynumber: 1.9 Consensus size: 69
50537527 CTTGTAGATA
* *
50537537 ACTATTCATATGGCTAATTGACTCTTCAAGTTTGGACGTTTTTCAAGCCTTCAAAGATCATTATG
1 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGACCTTTTTCAAGCCTTCAAAGATCATTATG
50537602 AGTG
66 AGTG
50537606 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGACCTTTTTCAAGCCTTCAAAGATCAT
1 ACTATTCATATGGCTAATTGACTATTCAAGTTTGGACCTTTTTCAAGCCTTCAAAGATCAT
50537667 CATAGTGGCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (69 bp):
ACTATTCATATGGCTAATTGACTATTCAAGTTTGGACCTTTTTCAAGCCTTCAAAGATCATTATG
AGTG
Found at i:50539696 original size:16 final size:18
Alignment explanation
Indices: 50539664--50539697 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
50539654 AAGTTGTGAG
50539664 AGAAGAGAATGAAAAAGA
1 AGAAGAGAATGAAAAAGA
50539682 AGAAGAG-AT-AAAAAGA
1 AGAAGAGAATGAAAAAGA
50539698 GAATGTGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (18 bp):
AGAAGAGAATGAAAAAGA
Found at i:50539700 original size:15 final size:17
Alignment explanation
Indices: 50539662--50539700 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
50539652 AGAAGTTGTG
50539662 AGAGAAGAGAATGAAAA
1 AGAGAAGAGAATGAAAA
50539679 AGAAGAAGAG-AT-AAAA
1 AG-AGAAGAGAATGAAAA
50539695 AGAGAA
1 AGAGAA
50539701 TGTGAGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 4 0.19
18 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (17 bp):
AGAGAAGAGAATGAAAA
Found at i:50541776 original size:96 final size:96
Alignment explanation
Indices: 50541609--50541799 Score: 244
Period size: 96 Copynumber: 2.0 Consensus size: 96
50541599 CTTCTTTTTA
*
50541609 CTCCTTTTAGCCCTCTTGGCTTCGAATTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCTTGTC
1 CTCCTTTTAGCCCTCTTGGCTTCGAATTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCATGTC
* ** *
50541674 CGCTCCATCGTTCCCTTCGATGACAGACTTG
66 CACTCCATCGTTCCCACCAATGACAGACTTG
* * *
50541705 CTCCTATTT-GCCCTCTTGGCTTC-AGCTTTTCCCTT-ACTCGAACCAAGCTTTTTGGGCTCCAT
1 CTCCT-TTTAGCCCTCTTGGCTTCGA-ATTTTCCCTTGA-TCAAACCAAGCTTCTTGGGCTCCAT
* *
50541767 GTCTACTCCATCGTTTCCACCAATGACAGACTT
63 GTCCACTCCATCGTTCCCACCAATGACAGACTT
50541800 CCTCAGACAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
95 2 0.02
96 77 0.94
97 3 0.04
ACGTcount: A:0.16, C:0.34, G:0.15, T:0.36
Consensus pattern (96 bp):
CTCCTTTTAGCCCTCTTGGCTTCGAATTTTCCCTTGATCAAACCAAGCTTCTTGGGCTCCATGTC
CACTCCATCGTTCCCACCAATGACAGACTTG
Found at i:50548253 original size:30 final size:31
Alignment explanation
Indices: 50548207--50548283 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
50548197 GGCTGTGTGA
*
50548207 CACACGGACGTGTGGGCCCACA-CGATAAAC
1 CACACGGGCGTGTGGGCCCACATCGATAAAC
* * * *
50548237 CACATGGGCTTGTGGGCCCACATGGGTAAAC
1 CACACGGGCGTGTGGGCCCACATCGATAAAC
50548268 CACACGGGCGTGTGGG
1 CACACGGGCGTGTGGG
50548284 ATTCTGGGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 19 0.49
31 20 0.51
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (31 bp):
CACACGGGCGTGTGGGCCCACATCGATAAAC
Found at i:50548355 original size:17 final size:18
Alignment explanation
Indices: 50548333--50548366 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50548323 ATTTGGGCCA
50548333 TGTGGG-CAACACGGGCG
1 TGTGGGCCAACACGGGCG
*
50548350 TGTGGGCCCACACGGGC
1 TGTGGGCCAACACGGGC
50548367 AGACAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.29, G:0.44, T:0.12
Consensus pattern (18 bp):
TGTGGGCCAACACGGGCG
Found at i:50549757 original size:9 final size:9
Alignment explanation
Indices: 50549743--50549768 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50549733 TTCAAACACA
50549743 TACCAAATG
1 TACCAAATG
50549752 TACCAAATG
1 TACCAAATG
50549761 TACCAAAT
1 TACCAAAT
50549769 CTCACATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (9 bp):
TACCAAATG
Found at i:50551013 original size:20 final size:20
Alignment explanation
Indices: 50550988--50551027 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50550978 AATTGTAGAT
50550988 AGAGGCA-CAAATGTGCAATC
1 AGAGGCATCAAA-GTGCAATC
*
50551008 AGAGGCATCGAAGTGCAATC
1 AGAGGCATCAAAGTGCAATC
50551028 CCATACAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.15
Consensus pattern (20 bp):
AGAGGCATCAAAGTGCAATC
Found at i:50553550 original size:8 final size:8
Alignment explanation
Indices: 50553536--50553571 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
50553526 AATTGGATTG
50553536 AATTTTTT
1 AATTTTTT
*
50553544 GATTTTTT
1 AATTTTTT
50553552 AATTTTTTT
1 AA-TTTTTT
50553561 AATTTTTT
1 AATTTTTT
50553569 AAT
1 AAT
50553572 AATTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (8 bp):
AATTTTTT
Found at i:50553560 original size:17 final size:17
Alignment explanation
Indices: 50553538--50553571 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50553528 TTGGATTGAA
*
50553538 TTTTTTGATTTTTTAAT
1 TTTTTTAATTTTTTAAT
50553555 TTTTTTAATTTTTTAAT
1 TTTTTTAATTTTTTAAT
50553572 AATTTATTTA
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:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTAATTTTTTAAT
Found at i:50558599 original size:31 final size:31
Alignment explanation
Indices: 50558562--50558630 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
50558552 CTAACAAACT
50558562 CTAACAAACTCAACTTCCTACTACTAACAAG
1 CTAACAAACTCAACTTCCTACTACTAACAAG
* * *
50558593 CTAACAAACTTAGCTTCCTACTACTAACCAG
1 CTAACAAACTCAACTTCCTACTACTAACAAG
50558624 CTAACAA
1 CTAACAA
50558631 TCTCCTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.23
Consensus pattern (31 bp):
CTAACAAACTCAACTTCCTACTACTAACAAG
Found at i:50560671 original size:114 final size:114
Alignment explanation
Indices: 50560471--50560718 Score: 496
Period size: 114 Copynumber: 2.2 Consensus size: 114
50560461 TAGGGTCTGA
50560471 ATTTAGCCTGGACTGGTAATTCAGACCCGAGCTCATTAAGGGTGTTTGTCACTATAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGACCCGAGCTCATTAAGGGTGTTTGTCACTATAAGGGATTTA
50560536 GCCTGGATTTGCAATCCCAACAACACTCCATGAATTTATATTACGGGGG
66 GCCTGGATTTGCAATCCCAACAACACTCCATGAATTTATATTACGGGGG
50560585 ATTTAGCCTGGACTGGTAATTCAGACCCGAGCTCATTAAGGGTGTTTGTCACTATAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGACCCGAGCTCATTAAGGGTGTTTGTCACTATAAGGGATTTA
50560650 GCCTGGATTTGCAATCCCAACAACACTCCATGAATTTATATTACGGGGG
66 GCCTGGATTTGCAATCCCAACAACACTCCATGAATTTATATTACGGGGG
50560699 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
50560719 CCTGCCATAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 134 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (114 bp):
ATTTAGCCTGGACTGGTAATTCAGACCCGAGCTCATTAAGGGTGTTTGTCACTATAAGGGATTTA
GCCTGGATTTGCAATCCCAACAACACTCCATGAATTTATATTACGGGGG
Found at i:50569900 original size:34 final size:34
Alignment explanation
Indices: 50569840--50569910 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
50569830 ATACATTACT
** *
50569840 CAAGCTAACAAACTCAGCTTTTTACTCCTACTAA
1 CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
* * *
50569874 CAAGCTAACAACCTTAGCTTCCTACTCATTCTAA
1 CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
50569908 CAA
1 CAA
50569911 TCTCCCTAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.28
Consensus pattern (34 bp):
CAAGCTAACAAACTCAGCTTCCTACTCATACTAA
Found at i:50584811 original size:79 final size:81
Alignment explanation
Indices: 50584675--50584857 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
50584665 TCGAATGATG
* *
50584675 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
50584739 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
50584754 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
50584816 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
50584834 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
50584858 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:50584873 original size:40 final size:40
Alignment explanation
Indices: 50584676--50584859 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
50584666 CGAATGATGT
* * * *
50584676 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
50584716 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
50584756 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50584794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50584835 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50584860 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:50584881 original size:79 final size:79
Alignment explanation
Indices: 50584728--50584892 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
50584718 GGACTAAGAT
* **
50584728 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
50584793 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
50584807 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
50584870 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
50584886 CCGAAGG
1 CCGAAGG
50584893 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:50602508 original size:24 final size:24
Alignment explanation
Indices: 50602480--50602550 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
50602470 TAACAAAAGC
*
50602480 AAAAACAG-AAACAACAATCAAAAT
1 AAAAA-AGCAAACAACAATAAAAAT
* *
50602504 AAAAATGCTAACAACAATAAAAAT
1 AAAAAAGCAAACAACAATAAAAAT
**
50602528 AAATAAAGTGAA-AACAATAAAAA
1 AAA-AAAGCAAACAACAATAAAAA
50602551 CAAGTGCACA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 33 0.85
25 5 0.13
ACGTcount: A:0.70, C:0.11, G:0.06, T:0.13
Consensus pattern (24 bp):
AAAAAAGCAAACAACAATAAAAAT
Found at i:50610918 original size:47 final size:47
Alignment explanation
Indices: 50610854--50611054 Score: 199
Period size: 47 Copynumber: 4.2 Consensus size: 47
50610844 CAAGGCAACA
* *
50610854 TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * **
50610902 TGTTG-TATGAGCTTCCGTATAAGACAATATTTGGGATATGGCATCGG
1 TG-TGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * ** *
50610949 TGTGATATGTGCTTCTGTGTAAGACCATATTTGGGATATGGCATCAG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * * * *
50610996 TGTGATATGTG-ATCTGTGTAAGACCATGGCTGGGCTATGGCTTCAGTG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATC-G-G
50611044 TGTGATATGTG
1 TGTGATATGTG
50611055 ACTATGTGCA
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
46 29 0.22
47 81 0.62
48 19 0.15
49 2 0.02
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:50614164 original size:192 final size:192
Alignment explanation
Indices: 50613837--50614230 Score: 779
Period size: 192 Copynumber: 2.1 Consensus size: 192
50613827 ATCCATCAAA
50613837 TTTTCCTTTCATTCAACCGAGATTTCTTTCTCCTTGATCAAAAATGTCAATGTTTCATAAAATTT
1 TTTTCCTTTCATTCAACCGAGATTTCTTTCTCCTTGATCAAAAATGTCAATGTTTCATAAAATTT
50613902 CATATAATGAACATTTAAATCATATTCATATCAAAAACATGCATTTCAAGCATTTAAGAATATAA
66 CATATAATGAACATTTAAATCATATTCATATCAAAAACATGCATTTCAAGCATTTAAGAATATAA
50613967 TTCAAGTTACACGAACTTACCTTGATACTTGTTTGTGTACAAAAATCTACTAATCCTGAACT
131 TTCAAGTTACACGAACTTACCTTGATACTTGTTTGTGTACAAAAATCTACTAATCCTGAACT
*
50614029 TTTTCCTTTCATTCAACCGAGATTTCTTTCTCCTTGATCAAATATGTCAATGTTTCATAAAATTT
1 TTTTCCTTTCATTCAACCGAGATTTCTTTCTCCTTGATCAAAAATGTCAATGTTTCATAAAATTT
50614094 CATATAATGAACATTTAAATCATATTCATATCAAAAACATGCATTTCAAGCATTTAAGAATATAA
66 CATATAATGAACATTTAAATCATATTCATATCAAAAACATGCATTTCAAGCATTTAAGAATATAA
50614159 TTCAAGTTACACGAACTTACCTTGATACTTGTTTGTGTACAAAAATCTACTAATCCTGAACT
131 TTCAAGTTACACGAACTTACCTTGATACTTGTTTGTGTACAAAAATCTACTAATCCTGAACT
50614221 TTTTCCTTTC
1 TTTTCCTTTC
50614231 CTCGATCTAG
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 201 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.39
Consensus pattern (192 bp):
TTTTCCTTTCATTCAACCGAGATTTCTTTCTCCTTGATCAAAAATGTCAATGTTTCATAAAATTT
CATATAATGAACATTTAAATCATATTCATATCAAAAACATGCATTTCAAGCATTTAAGAATATAA
TTCAAGTTACACGAACTTACCTTGATACTTGTTTGTGTACAAAAATCTACTAATCCTGAACT
Found at i:50627147 original size:46 final size:46
Alignment explanation
Indices: 50627089--50627309 Score: 227
Period size: 46 Copynumber: 4.7 Consensus size: 46
50627079 TTTGTTTTGT
* *
50627089 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
* *
50627135 GAGCCAGTGTAAGACCATGTCTGGGACAGGGCATCAG--T-ATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCATT---ACGA
* * * * *
50627183 GAGCTAGTGTACGACATGTCTAGGACATGCATCGACCTCGA-GACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ATTACG-A
*
50627230 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
*
50627275 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
50627310 AGCACCTTAC
Statistics
Matches: 143, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
45 5 0.03
46 71 0.50
47 39 0.27
48 27 0.19
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
Found at i:50627309 original size:94 final size:92
Alignment explanation
Indices: 50627089--50627309 Score: 245
Period size: 94 Copynumber: 2.4 Consensus size: 92
50627079 TTTGTTTTGT
* * * *
50627089 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCATGACGAGAGCCAGTGTAAGACCATG
50627154 TCTGGGACAGGGCATCAGTATTGAGACGA
66 TCTGGGACAGGGCATCAGTATT--GACGA
*
50627183 GAGCTAGTGTACGACATGTCTAGGACATGCATCGACCTCGA-GACGTA-AGCCAGTGTAAGA-CA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTC-ATGACG-AGAGCCAGTGTAAGACCA
* * *
50627245 TGTCTGGGACA-TGCATCGGCCTCATT-ATGA
64 TGTCTGGGACAGGGCATCAG--T-ATTGACGA
*
50627275 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATC
50627310 AGCACCTTAC
Statistics
Matches: 110, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
92 21 0.19
93 27 0.25
94 57 0.52
95 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCATGACGAGAGCCAGTGTAAGACCATG
TCTGGGACAGGGCATCAGTATTGACGA
Found at i:50631312 original size:33 final size:33
Alignment explanation
Indices: 50631270--50631342 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
50631260 TTGCAAACCT
*
50631270 TGAGAGACAAGAAATTGTACGCTAAGTTCAGTA
1 TGAGTGACAAGAAATTGTACGCTAAGTTCAGTA
*
50631303 TGAGTGACAAGAAATTGTATGCTAAGTTCAGTA
1 TGAGTGACAAGAAATTGTACGCTAAGTTCAGTA
50631336 TGAGTGA
1 TGAGTGA
50631343 AATTTATCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (33 bp):
TGAGTGACAAGAAATTGTACGCTAAGTTCAGTA
Found at i:50636253 original size:15 final size:15
Alignment explanation
Indices: 50636233--50636275 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
50636223 TGCTGTAAAT
*
50636233 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
50636248 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
50636263 TGGATTTCTTTAT
1 TGGATTTCTTTAT
50636276 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:50647200 original size:40 final size:40
Alignment explanation
Indices: 50647145--50647355 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
50647135 ATTTGAATGA
*
50647145 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
50647185 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
50647225 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
50647265 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
50647305 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
50647345 TATCC-GGCTAA
1 TATCCGGGCTAA
50647356 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:50649210 original size:54 final size:54
Alignment explanation
Indices: 50649128--50649259 Score: 264
Period size: 54 Copynumber: 2.4 Consensus size: 54
50649118 TAGGGTCTAA
50649128 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTACGATACGAGAG
1 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTACGATACGAGAG
50649182 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTACGATACGAGAG
1 ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTACGATACGAGAG
50649236 ATTTAGCCTGGACTGGTAATCCCG
1 ATTTAGCCTGGACTGGTAATCCCG
50649260 CCATAAGATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCCGACATCACCTTATGAGTTTACGATACGAGAG
Found at i:50654599 original size:47 final size:47
Alignment explanation
Indices: 50654526--50654794 Score: 152
Period size: 46 Copynumber: 5.7 Consensus size: 47
50654516 TTTGTTTTGT
* *
50654526 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
* *
50654572 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGG---TATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT-ATGA
* *
50654617 CGATAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-C-C-TTGA-GA
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATT-ATGA
* * **
50654663 CGTAAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCTACAAGATGA
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
* * * * * * * *
50654712 TAGTCAATGTAAGACCATGTTTGGGACATGGTATCGACTTGAGA-TAT--
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC--CACATTATGA
*
50654759 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
50654795 ACACCTTACC
Statistics
Matches: 178, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
45 5 0.03
46 72 0.40
47 70 0.39
48 25 0.14
49 4 0.02
50 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
Found at i:50654677 original size:46 final size:47
Alignment explanation
Indices: 50654573--50654793 Score: 204
Period size: 46 Copynumber: 4.7 Consensus size: 47
50654563 ACATTATGAG
** **
50654573 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAGACGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGACGA
*
50654620 TAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAGACGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGACG-A
** *
50654667 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTACAAGATGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-TGAGACGA
* * * * * *
50654712 TAGTCAATGTAAGACCATGTTTGGGACATGGTATC-GACTTGAGA-TA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGACGA
*
50654758 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 --AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
50654794 GACACCTTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 62 0.43
47 61 0.42
48 18 0.12
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGACGA
Found at i:50654786 original size:140 final size:141
Alignment explanation
Indices: 50654531--50654793 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 141
50654521 TTTGTGAGCT
* * ** *
50654531 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* * *
50654596 GACATGGCATTGGTATTGAGACGATAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTTG
66 GACATGGCATTCGTATTGAGACGATAGCCAGTGTAAGACATGTCTAGGACATGGCATCAGCCTTG
50654660 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
50654671 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGATAGTCAATGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
* *
50654736 GACATGGTA-TCG-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
66 GACATGGCATTCGTA-TTGAGACGAT-AGCCAGTGTAAGA-CATGTCTAGGACATGGCATC
50654794 GACACCTTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 3 0.03
139 20 0.19
140 77 0.73
141 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACCATGTCTGG
GACATGGCATTCGTATTGAGACGATAGCCAGTGTAAGACATGTCTAGGACATGGCATCAGCCTTG
AGACGTAAGCC
Found at i:50654795 original size:47 final size:46
Alignment explanation
Indices: 50654573--50654796 Score: 210
Period size: 47 Copynumber: 4.8 Consensus size: 46
50654563 ACATTATGAG
* *
50654573 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGTA-TTGAGACGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTGAGA-TAT
* *
50654621 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA--TAT
**
50654667 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACAAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-TGAGAT-AT
* * * *
50654713 AGTCAATGTAAGACCATGTTTGGGACATGGTATCGACTTGAGATAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
*
50654759 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
50654797 ACCTTACCCA
Statistics
Matches: 145, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 57 0.39
47 64 0.44
48 18 0.12
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
Found at i:50657734 original size:161 final size:161
Alignment explanation
Indices: 50657561--50657882 Score: 554
Period size: 161 Copynumber: 2.0 Consensus size: 161
50657551 TGTCTAGATG
* * *
50657561 TTCCCTTAGGGACATCAATCCTAGGTTTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
1 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
** * *
50657626 AGTCCTTCATCCAAAAATTGACTCACCACATTTTCATCAATCAACCCCCTTAAAGGTTTAGCTGC
66 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
*
50657691 TCATGCTGAAAATACAACTAAAAACCATGGA
131 TCATGCTAAAAATACAACTAAAAACCATGGA
50657722 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
1 TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
*
50657787 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAACGGTTTAGCTGC
66 AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
*
50657852 TCATGCTAAAAATACAACTAACAACCATGGA
131 TCATGCTAAAAATACAACTAAAAACCATGGA
50657883 AATGAAAAGT
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
161 151 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (161 bp):
TTCCCTTAGGGACATCAACCCTAAGATTTTAGGTTCATTCAAATTAATCCAATTTATTAAGATTT
AGTCCTTCATCCAAAAATCAACTCACCACATTTCCATCAACCAACCCCCTTAAAGGTTTAGCTGC
TCATGCTAAAAATACAACTAAAAACCATGGA
Found at i:50661553 original size:114 final size:114
Alignment explanation
Indices: 50661353--50661578 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 114
50661343 ATGAGGCCAG
* * * *
50661353 GCCGTACGCACAAGACACGGCCATGTAATGGCCAGGCAGACCGTGTGTGATACATGGGCCGGATA
1 GCCGTACGCACAAGACACGACCATGTAATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
* *
50661418 GATTTTGGCCGTGTGGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
66 GATTTGGGCCGTGTAGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
* * * *
50661467 GCCGTGCGCACAAGACACTACCGTGTGATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
1 GCCGTACGCACAAGACACGACCATGTAATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
*
50661532 GATTTGGGCCGTGTAGGCCACACGGGCATGTGGGATTTTTTGCCAGG
66 GATTTGGGCCGTGTAGGCCACACGGGCATGTGGGATTTTTGGCCAGG
50661579 CTGTGTGATC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (114 bp):
GCCGTACGCACAAGACACGACCATGTAATGGCCAGGCAGACCGTGTGTAATACATAGGCCGGACA
GATTTGGGCCGTGTAGGCCACACGGGCATGTGGGATTTTTGGCCAGGTA
Found at i:50662899 original size:25 final size:25
Alignment explanation
Indices: 50662853--50662901 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50662843 TTGTTTTTGA
* *
50662853 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
50662878 TAGTATATATTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
50662902 ATAAACTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:50666035 original size:42 final size:42
Alignment explanation
Indices: 50665972--50666094 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
50665962 AATTTGTGAT
* *
50665972 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCCTATCTGGGACATTGGCATCGTATATGA
** * *
50666014 TTTTGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCCTATCTGGGACATTGGCATCG-TATATGA
* * *
50666057 TTACATGTAAGACCAC-ATCTGGGACGTTGGCATTGTAT
1 TTACGTGTAAGACC-CTATCTGGGACATTGGCATCGTAT
50666095 GAGCTTATGA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 33 0.49
43 33 0.49
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCCTATCTGGGACATTGGCATCGTATATGA
Found at i:50674816 original size:16 final size:16
Alignment explanation
Indices: 50674795--50674837 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
50674785 CTATTTTTTA
50674795 TTATTTATTCTTATTT
1 TTATTTATTCTTATTT
50674811 TTATTTTATT-TTATTT
1 TTA-TTTATTCTTATTT
50674827 TTATTT-TTCTT
1 TTATTTATTCTT
50674838 TTGATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 5 0.20
16 12 0.48
17 6 0.24
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTATTCTTATTT
Found at i:50674819 original size:5 final size:5
Alignment explanation
Indices: 50674786--50674876 Score: 55
Period size: 5 Copynumber: 17.2 Consensus size: 5
50674776 TGAATCCTCC
50674786 TATTT T-TTAT TA-TT TATTCT TATTTT TATTT TATTT TATTTT TATTTT
1 TATTT TATT-T TATTT TATT-T TA-TTT TATTT TATTT TA-TTT TA-TTT
* *
50674834 TCTTT TGATTTT TATTT TCATTT CAATTT TA--T TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATTT TATTT TATTT T
50674877 GAAAGACATA
Statistics
Matches: 70, Mismatches: 4, Indels: 24
0.71 0.04 0.24
Matches are distributed among these distances:
3 3 0.04
4 5 0.07
5 31 0.44
6 25 0.36
7 6 0.09
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:50674830 original size:35 final size:36
Alignment explanation
Indices: 50674789--50674878 Score: 114
Period size: 35 Copynumber: 2.5 Consensus size: 36
50674779 ATCCTCCTAT
*
50674789 TTTTTATTATTTATTCTT-ATTTTTATTTT-ATTTTA
1 TTTTTATTATTTATT-TTGATTTTTATTTTCATTTCA
*
50674824 TTTTTATT-TTTCTTTTGATTTTTATTTTCATTTCA
1 TTTTTATTATTTATTTTGATTTTTATTTTCATTTCA
*
50674859 ATTTTATTATTTTATTTTGA
1 TTTTTATTA-TTTATTTTGA
50674879 AAGACATATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.04
34 16 0.34
35 20 0.43
37 9 0.19
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (36 bp):
TTTTTATTATTTATTTTGATTTTTATTTTCATTTCA
Found at i:50674846 original size:7 final size:6
Alignment explanation
Indices: 50674789--50674856 Score: 77
Period size: 6 Copynumber: 11.5 Consensus size: 6
50674779 ATCCTCCTAT
* *
50674789 TTTTTA TTATTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTC
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
50674836 TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTT
50674857 CAATTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 10 0.19
6 37 0.70
7 6 0.11
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:50674851 original size:12 final size:11
Alignment explanation
Indices: 50674790--50674876 Score: 77
Period size: 12 Copynumber: 7.4 Consensus size: 11
50674780 TCCTCCTATT
50674790 TTTTATTATTTA
1 TTTTATT-TTTA
50674802 TTCTTATTTTTA
1 TT-TTATTTTTA
50674814 TTTTA-TTTTA
1 TTTTATTTTTA
*
50674824 TTTTTATTTTTC
1 -TTTTATTTTTA
50674836 TTTTGATTTTTA
1 TTTT-ATTTTTA
**
50674848 TTTTCATTTCAA
1 TTTT-ATTTTTA
50674860 TTTTATTATTTTA
1 TTTTA-T-TTTTA
50674873 TTTT
1 TTTT
50674877 GAAAGACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
10 5 0.08
11 13 0.21
12 32 0.52
13 12 0.19
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:50674852 original size:17 final size:16
Alignment explanation
Indices: 50674805--50674866 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 16
50674795 TTATTTATTC
*
50674805 TTATTTTTATTTTATT
1 TTATTTTTATTTTCTT
50674821 TTATTTTTATTTTTCTT
1 TTATTTTTA-TTTTCTT
50674838 TTGATTTTTATTTTCATT
1 TT-ATTTTTATTTTC-TT
* *
50674856 TCAATTTTATT
1 TTATTTTTATT
50674867 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
16 9 0.22
17 21 0.52
18 10 0.25
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTATTTTCTT
Found at i:50682868 original size:27 final size:26
Alignment explanation
Indices: 50682834--50682886 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
50682824 ATTTAATTAC
50682834 ATAAATATTATT-TTATTAATATTTTA
1 ATAAATATT-TTATTATTAATATTTTA
* *
50682860 ATAAGATATTTTATTTTTATTATTTTA
1 ATAA-ATATTTTATTATTAATATTTTA
50682887 TTATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATAAATATTTTATTATTAATATTTTA
Found at i:50682887 original size:8 final size:8
Alignment explanation
Indices: 50682866--50682897 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
50682856 TTTAATAAGA
50682866 TATTTTA-
1 TATTTTAT
50682873 T-TTTTAT
1 TATTTTAT
50682880 TATTTTAT
1 TATTTTAT
50682888 TATTTTAT
1 TATTTTAT
50682896 TA
1 TA
50682898 GTATATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.22
7 2 0.09
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:50684162 original size:46 final size:46
Alignment explanation
Indices: 50684085--50684172 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
50684075 TCTCTAATAT
50684085 GAAACGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATAC
1 GAAACGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATAC
* * *
50684131 GAAATGTGTAAGACCATGGTTGAAAGTTACCATGGCAACCTG
1 GAAACGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTG
50684173 GTACTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (46 bp):
GAAACGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATAC
Found at i:50684806 original size:46 final size:46
Alignment explanation
Indices: 50684754--50684846 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
50684744 GAGTGTGCTC
*
50684754 CCTGATATGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAA
1 CCTGATACGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAA
* *
50684800 CCTGATACGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATACGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAA
50684846 C
1 C
50684847 ATAGCAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (46 bp):
CCTGATACGAAATGTGTAAGACCATGGTTGAAACATACCATGGCAA
Found at i:50699616 original size:15 final size:15
Alignment explanation
Indices: 50699593--50699622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50699583 AAACATACAT
*
50699593 CCAGGACCAAACCGA
1 CCAGAACCAAACCGA
50699608 CCAGAACCAAACCGA
1 CCAGAACCAAACCGA
50699623 TCTACCCAAA
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:0.43, C:0.40, G:0.17, T:0.00
Consensus pattern (15 bp):
CCAGAACCAAACCGA
Found at i:50699688 original size:13 final size:13
Alignment explanation
Indices: 50699670--50699697 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50699660 GGGAGTATAC
50699670 TTAACCCTTCTCT
1 TTAACCCTTCTCT
50699683 TTAACCCTTCTCT
1 TTAACCCTTCTCT
50699696 TT
1 TT
50699698 CTTATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAACCCTTCTCT
Found at i:50699953 original size:145 final size:144
Alignment explanation
Indices: 50699690--50699957 Score: 421
Period size: 145 Copynumber: 1.8 Consensus size: 144
50699680 TCTTTAACCC
* * *
50699690 TTCTCTTTCTTATTTATTCTTTTATTATTACACATTGAACGTAATGTGGGTTAAGTAGGGGGTGT
1 TTCTCTTTCTTATTTATTCTTTTATTATTACACATTGAACG-AATGTAGGTTAAATAGGGCGTGT
* *
50699755 TGGATTAGTAAATATGCATGATTGTCTCTCTTTCGCATTTGTTAATTCTTATGCTAGGACAAGGA
65 TGAATTAGTAAATATGCATGATTGTCTCTCTTTCACATTTGTTAATTCTTATGCTAGGACAAGGA
50699820 GAGTATACTTGACTG
130 GAGTATACTTGACTG
**
50699835 TTCTCTTTCTTATTTATTCTTTTATTATTACGTATTGAGGAC-AATGTAGGTTAAATAGGGCGTG
1 TTCTCTTTCTTATTTATTCTTTTATTATTACACATTGA--ACGAATGTAGGTTAAATAGGGCGTG
* *
50699899 TTGAATTAGTAAGTATGCATGATTGTTTCTCTTTCACATTTGTTAATTCTTATGCTAGG
64 TTGAATTAGTAAATATGCATGATTGTCTCTCTTTCACATTTGTTAATTCTTATGCTAGG
50699958 TTTATTCGTT
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
145 110 0.98
147 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (144 bp):
TTCTCTTTCTTATTTATTCTTTTATTATTACACATTGAACGAATGTAGGTTAAATAGGGCGTGTT
GAATTAGTAAATATGCATGATTGTCTCTCTTTCACATTTGTTAATTCTTATGCTAGGACAAGGAG
AGTATACTTGACTG
Found at i:50701744 original size:6 final size:6
Alignment explanation
Indices: 50701728--50701775 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
50701718 CACCGATCTT
* *
50701728 CCCTTC TCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CACTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
50701776 TCCCATCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTTC
Found at i:50704348 original size:18 final size:18
Alignment explanation
Indices: 50704278--50704355 Score: 50
Period size: 18 Copynumber: 4.0 Consensus size: 18
50704268 CAATTAAACC
*
50704278 ATTTGATTGATATATTTA
1 ATTTGATTTATATATTTA
*
50704296 ATTTGATTCCTTTAT-TTATA
1 ATTTGATT--TATATATT-TA
*
50704316 ATTGAGTATTATTATATATTTA
1 ATT-TG-A-T-TTATATATTTA
*
50704338 ATTTGATTTATTTATTTA
1 ATTTGATTTATATATTTA
50704356 TAAATAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
18 18 0.39
19 3 0.07
20 9 0.20
21 2 0.04
22 10 0.22
23 3 0.07
24 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (18 bp):
ATTTGATTTATATATTTA
Found at i:50704436 original size:18 final size:18
Alignment explanation
Indices: 50704394--50704430 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50704384 ACAATTTAAA
50704394 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
50704412 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
50704430 A
1 A
50704431 AGTAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:50704557 original size:20 final size:19
Alignment explanation
Indices: 50704512--50704549 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50704502 CATCCAAACA
*
50704512 CCAGAAAAGTAAATTATTT
1 CCAGAAAAGTAAATCATTT
*
50704531 CTAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
50704550 TCCGGAAATT
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:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:50704563 original size:14 final size:14
Alignment explanation
Indices: 50704541--50704578 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
50704531 CTAGAAAAGT
*
50704541 AAATCATTTTCCGG
1 AAATTATTTTCCGG
50704555 AAATTATTTTCCGG
1 AAATTATTTTCCGG
*
50704569 AAAATATTTT
1 AAATTATTTT
50704579 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (14 bp):
AAATTATTTTCCGG
Found at i:50704673 original size:6 final size:6
Alignment explanation
Indices: 50704662--50704699 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
50704652 ATATGATTTG
50704662 ATTTTT ATTTTT ATTGATTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATT--TTT ATTTTT ATTTTT ATTTTT
50704700 TCTTCTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:50704687 original size:20 final size:21
Alignment explanation
Indices: 50704655--50704696 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
50704645 TTCGTGGATA
50704655 TGATTTGATTTTTATTTTTAT
1 TGATTTGATTTTTATTTTTAT
50704676 TGATTT-ATTTTTATTTTTAT
1 TGATTTGATTTTTATTTTTAT
50704696 T
1 T
50704697 TTTTCTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (21 bp):
TGATTTGATTTTTATTTTTAT
Found at i:50705290 original size:17 final size:18
Alignment explanation
Indices: 50705268--50705322 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 18
50705258 ACACGGGCAT
*
50705268 GCCACACA-GGTATGTGG
1 GCCACACAGGGCATGTGG
50705285 GCCACA-AGGGCATGTGG
1 GCCACACAGGGCATGTGG
* *
50705302 GCC-CACATGAGCATATGG
1 GCCACACA-GGGCATGTGG
50705320 GCC
1 GCC
50705323 CAAAATTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.09
17 18 0.56
18 11 0.34
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.15
Consensus pattern (18 bp):
GCCACACAGGGCATGTGG
Found at i:50705315 original size:18 final size:18
Alignment explanation
Indices: 50705279--50705324 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
50705269 CCACACAGGT
*
50705279 ATGTGGG-CCACAAGGGC
1 ATGTGGGCCCACAAGAGC
*
50705296 ATGTGGGCCCACATGAGC
1 ATGTGGGCCCACAAGAGC
*
50705314 ATATGGGCCCA
1 ATGTGGGCCCA
50705325 AAATTCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (18 bp):
ATGTGGGCCCACAAGAGC
Found at i:50711178 original size:68 final size:67
Alignment explanation
Indices: 50711124--50711335 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 67
50711114 ATACTATATA
* *
50711124 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAAAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
50711189 AAT
65 AAT
50711192 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
50711257 AAT
65 AAT
50711260 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
50711325 AAT
65 AAT
50711328 GTAGCTAG
1 GTAGCTAG
50711336 ATCGCATGAT
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 142 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:50711232 original size:38 final size:38
Alignment explanation
Indices: 50711190--50711301 Score: 91
Period size: 38 Copynumber: 3.2 Consensus size: 38
50711180 TGAGAGATAA
50711190 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
* * * **
50711228 ATGTAG--A---CA-A-GAGAGCTACGTGAGA-G-AT-AA
1 ATGTAGCTAGGTCACATGTGTGATACG-G-GATGTATCCC
50711258 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
50711296 ATGTAG
1 ATGTAG
50711302 ACAAGAGAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 24
0.60 0.12 0.28
Matches are distributed among these distances:
30 6 0.12
31 9 0.17
32 4 0.08
33 4 0.08
35 4 0.08
36 4 0.08
37 9 0.17
38 12 0.23
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (38 bp):
ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
Done.