Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 143 of 325
Found at i:43726801 original size:27 final size:27
Alignment explanation
Indices: 43726771--43726860 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
43726761 TTTAGTTAAC
* * * *
43726771 TAAAGTTACCGAAATACCCTTAGTTTG
1 TAAAATTACTGAAATACCCTCAATTTG
*
43726798 TAAAAATACTGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCAATTTG
* * *
43726825 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCAATTTG
43726852 TAAAATTAC
1 TAAAATTAC
43726861 CAAAGTACCC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCAATTTG
Found at i:43726885 original size:27 final size:27
Alignment explanation
Indices: 43726855--43726915 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
43726845 CGACTTGTAA
43726855 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
43726882 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
43726909 AATTACC
1 AATTACC
43726916 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:43726918 original size:27 final size:27
Alignment explanation
Indices: 43726866--43727076 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
43726856 ATTACCAAAG
* *
43726866 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43726893 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
43726920 TACCC-CTAATTTACAAAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
43726947 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43726974 TACCTTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
43727001 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43727028 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43727055 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43727077 TAAAATACCC
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43727085 original size:27 final size:27
Alignment explanation
Indices: 43727001--43727224 Score: 89
Period size: 27 Copynumber: 8.2 Consensus size: 27
43726991 ATTACAGTTT
* * ***
43727001 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
43727028 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
43727055 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *** **
43727082 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * ** *
43727109 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
43727136 TACCC-CTAATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
43727163 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
43727192 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
43727219 TACCCT
1 TACCCT
43727225 TGGTTTGTAG
Statistics
Matches: 156, Mismatches: 30, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.02
27 126 0.81
28 8 0.05
29 19 0.12
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:43727103 original size:54 final size:54
Alignment explanation
Indices: 43726853--43727088 Score: 181
Period size: 54 Copynumber: 4.4 Consensus size: 54
43726843 TTCGACTTGT
* * ** *
43726853 AAAATTACCAAAGTACCCCCGATTTACAGAATTATC-GTTTTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTA-CAGTTTTACCCTCGATTTAC
* ***** * * * *
43726907 ATAATTACCGTTTTACCCCTAATTTACAAAATTATCA-TTTTACCCTCGACTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTA-CAGTTTTACCCTCGATTTAC
* ***** *
43726961 AGAATTACCGTTTTA-CCTTCGATTTACAGAATTACAGTTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTT-GATTTACAGAATTACAGTTTTACCCTCGATTTAC
* *** *
43727015 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACAGTTTTACCCTCGATTTAC
43727069 AAAATTACTAAAATACCCTT
1 AAAATTACTAAAATACCCTT
43727089 AGTTTGTGAA
Statistics
Matches: 154, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
53 5 0.03
54 145 0.94
55 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAGAATTACAGTTTTACCCTCGATTTAC
Found at i:43727230 original size:27 final size:27
Alignment explanation
Indices: 43727028--43727226 Score: 125
Period size: 27 Copynumber: 7.3 Consensus size: 27
43727018 ATTACTATTT
* ***
43727028 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* *
43727055 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** *
43727082 TACCCTT-AGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
* ** ** **
43727109 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * * *
43727136 TACCCCTAATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43727163 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
43727192 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43727219 TACCCTTG
1 TACCCTTG
43727227 GTTTGTAGAT
Statistics
Matches: 133, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.01
27 106 0.80
28 8 0.06
29 18 0.14
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:43727348 original size:27 final size:27
Alignment explanation
Indices: 43727271--43727348 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
43727261 AAATGCCTAA
*
43727271 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* *
43727298 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
43727325 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
43727349 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:43728597 original size:9 final size:9
Alignment explanation
Indices: 43728585--43728661 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
43728575 TTTGATAAAC
43728585 ATGATATGT
1 ATGATATGT
43728594 ATGATATGT
1 ATGATATGT
43728603 ACATGATATGT
1 --ATGATATGT
*
43728614 ATGATATGCAC
1 ATGATATG--T
*
43728625 ATGACATGT
1 ATGATATGT
*
43728634 ATGATATGCAC
1 ATGATATG--T
43728645 ATGATATGT
1 ATGATATGT
43728654 ATGATATG
1 ATGATATG
43728662 CACACGAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:43728610 original size:11 final size:11
Alignment explanation
Indices: 43728583--43728654 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 11
43728573 ATTTTGATAA
43728583 ACATGATATGT
1 ACATGATATGT
43728594 --ATGATATGT
1 ACATGATATGT
43728603 ACATGATATGT
1 ACATGATATGT
*
43728614 --ATGATATGC
1 ACATGATATGT
*
43728623 ACATGACATGT
1 ACATGATATGT
*
43728634 --ATGATATGC
1 ACATGATATGT
43728643 ACATGATATGT
1 ACATGATATGT
43728654 A
1 A
43728655 TGATATGCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (11 bp):
ACATGATATGT
Found at i:43728673 original size:20 final size:20
Alignment explanation
Indices: 43728583--43728665 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
43728573 ATTTTGATAA
*
43728583 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
43728603 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43728623 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43728643 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43728663 ACA
1 ACA
43728666 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43728826 original size:47 final size:47
Alignment explanation
Indices: 43728718--43728858 Score: 189
Period size: 47 Copynumber: 3.0 Consensus size: 47
43728708 GGAGAAGTGA
*
43728718 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
*
43728764 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
43728812 AAAAGGGCTT-TGCCCCAGTTGTTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTT-ATAAAAG-GGCTTATGCC-CCAGTTAT
43728859 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
46 23 0.27
47 32 0.37
48 31 0.36
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:43728838 original size:23 final size:24
Alignment explanation
Indices: 43728718--43728858 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
43728708 GGAGAAGTGA
43728718 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43728742 -AAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
43728764 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
43728788 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43728812 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43728835 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43728859 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 9
0.88 0.04 0.07
Matches are distributed among these distances:
22 9 0.08
23 42 0.39
24 49 0.46
25 7 0.07
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43729086 original size:31 final size:31
Alignment explanation
Indices: 43729051--43729114 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43729041 CGTTTACAGT
*
43729051 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43729082 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43729113 AA
1 AA
43729115 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43731979 original size:27 final size:27
Alignment explanation
Indices: 43731903--43731992 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
43731893 TTTAGTTTAC
* *
43731903 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
43731930 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
43731957 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
43731984 TAAAATTAC
1 TAAAATTAC
43731993 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:43732002 original size:54 final size:53
Alignment explanation
Indices: 43731903--43732008 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
43731893 TTTAGTTTAC
* *
43731903 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
43731957 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
43732009 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:43732068 original size:27 final size:27
Alignment explanation
Indices: 43731998--43732206 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
43731988 ATTACCAAAG
*
43731998 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43732024 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43732050 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
43732077 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43732104 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
43732131 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
43732158 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43732185 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43732207 TAAAATACCC
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
26 30 0.18
27 134 0.81
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43732215 original size:27 final size:27
Alignment explanation
Indices: 43732104--43732354 Score: 100
Period size: 27 Copynumber: 9.2 Consensus size: 27
43732094 ATTACCGTTT
* ***
43732104 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
43732131 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ****
43732158 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
43732185 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *** **
43732212 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
43732239 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
43732266 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
43732293 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
43732322 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
43732349 TACCCT
1 TACCCT
43732355 TGGTTTGTAG
Statistics
Matches: 183, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.02
27 152 0.83
28 9 0.05
29 19 0.10
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:43732216 original size:81 final size:81
Alignment explanation
Indices: 43731944--43732217 Score: 218
Period size: 81 Copynumber: 3.4 Consensus size: 81
43731934 AATACTGAAA
** * * * * * ***
43731944 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCC-CGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
43732008 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* ***** * * *
43732024 TACCC-CGATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
* *
43732086 CTTACAGAATTACCGTTT
64 TTTACAGAATTACTGTTT
* *** * *
43732104 TACCCTCGATTTACAGAATTAC-AGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTCGATTTATAAAATTACTATTTTACCCTCGAT
*
43732168 TTATAGAATTACTGTTT
65 TTACAGAATTACTGTTT
43732185 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACTAAAATACCCT
43732218 TAGTTTGTGA
Statistics
Matches: 153, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
78 1 0.01
79 33 0.22
80 28 0.18
81 88 0.58
82 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:43732232 original size:54 final size:54
Alignment explanation
Indices: 43732104--43732278 Score: 165
Period size: 54 Copynumber: 3.2 Consensus size: 54
43732094 ATTACCGTTT
* * * ***
43732104 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAGAATTACAGTTTTACCCTCGATTTATAAAATTACTAAAA
* *
43732158 TACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAGAATTACAGTTTTACCCTCGATTTATAAAATTACTAAAA
* * *** * * *
43732212 TACCCTT-AGTTTGT-GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAG-AATTACAGTTTTACCCTCGATTTATAAAATTACTAAAA
*
43732266 TACCCCTGATTTA
1 TACCCTTGATTTA
43732279 CAAAGTTACA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.02
54 96 0.97
55 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTATAGAATTACAGTTTTACCCTCGATTTATAAAATTACTAAAA
Found at i:43732360 original size:27 final size:27
Alignment explanation
Indices: 43732158--43732356 Score: 134
Period size: 27 Copynumber: 7.3 Consensus size: 27
43732148 ATTACTATTT
* * ***
43732158 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* *
43732185 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** *
43732212 TACCCTT-AGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
** ** **
43732239 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
43732266 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43732293 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
43732322 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43732349 TACCCTTG
1 TACCCTTG
43732357 GTTTGTAGAT
Statistics
Matches: 134, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.01
27 107 0.80
28 8 0.06
29 18 0.13
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:43732478 original size:27 final size:27
Alignment explanation
Indices: 43732401--43732478 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43732391 AAATGACTAA
* *
43732401 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
43732428 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
43732455 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
43732479 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:43733659 original size:25 final size:25
Alignment explanation
Indices: 43733630--43733677 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43733620 TTATAATATG
* * *
43733630 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43733655 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43733678 GTTTATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43733727 original size:9 final size:9
Alignment explanation
Indices: 43733715--43733790 Score: 71
Period size: 9 Copynumber: 7.9 Consensus size: 9
43733705 TTTGATAAAC
43733715 ATGATATGT
1 ATGATATGT
*
43733724 ATGATATGAC
1 ATGATATG-T
43733734 ATGATATGT
1 ATGATATGT
*
43733743 ATGATATGCAC
1 ATGATATG--T
*
43733754 ATGACATGT
1 ATGATATGT
*
43733763 ATGATATGCAC
1 ATGATATG--T
43733774 ATGATATGT
1 ATGATATGT
43733783 ATGATATG
1 ATGATATG
43733791 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
9 31 0.57
10 8 0.15
11 15 0.28
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:43733737 original size:5 final size:5
Alignment explanation
Indices: 43733715--43733790 Score: 70
Period size: 5 Copynumber: 15.6 Consensus size: 5
43733705 TTTGATAAAC
* * *
43733715 ATGAT ATG-T ATGAT ATGAC ATGAT ATG-T ATGAT ATGCAC ATGAC ATG-T
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG-AT ATGAT ATGAT
*
43733763 ATGAT ATGCAC ATGAT ATG-T ATGAT ATG
1 ATGAT ATG-AT ATGAT ATGAT ATGAT ATG
43733791 CACACGAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
4 15 0.25
5 36 0.61
6 8 0.14
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (5 bp):
ATGAT
Found at i:43733802 original size:20 final size:20
Alignment explanation
Indices: 43733713--43733794 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
43733703 ATTTTGATAA
43733713 ACATGATATGTATGATATG-
1 ACATGATATGTATGATATGC
43733732 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43733752 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43733772 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43733792 ACA
1 ACA
43733795 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
19 19 0.32
20 41 0.68
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43733917 original size:47 final size:47
Alignment explanation
Indices: 43733848--43733968 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
43733838 GAGGAAGTGA
43733848 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
43733895 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
43733943 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
43733969 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
46 3 0.04
47 35 0.50
48 32 0.46
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:43733947 original size:48 final size:47
Alignment explanation
Indices: 43733848--43733989 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
43733838 GAGGAAGTGA
*
43733848 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
*
43733895 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
43733943 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
43733990 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 44 0.50
48 44 0.50
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:43733969 original size:23 final size:24
Alignment explanation
Indices: 43733848--43733989 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
43733838 GAGGAAGTGA
43733848 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43733872 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
43733895 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
43733919 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43733943 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43733966 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43733990 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 41 0.37
24 62 0.56
25 8 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43734216 original size:30 final size:31
Alignment explanation
Indices: 43734182--43734244 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
43734172 CGTTTACAGT
43734182 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43734212 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43734243 AA
1 AA
43734245 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43737118 original size:27 final size:27
Alignment explanation
Indices: 43737042--43737131 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
43737032 TTTAGTTTAC
* *
43737042 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
43737069 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
43737096 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
43737123 TAAAATTAC
1 TAAAATTAC
43737132 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:43737141 original size:54 final size:53
Alignment explanation
Indices: 43737042--43737147 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
43737032 TTTAGTTTAC
* *
43737042 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
43737096 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
43737148 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:43737207 original size:27 final size:27
Alignment explanation
Indices: 43737137--43737343 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
43737127 ATTACCAAAG
*
43737137 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43737163 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43737189 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
43737216 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
43737243 TACCCTCGATTTACAGAATTA--GTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
43737268 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43737295 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43737322 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43737344 TAAAATACCC
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
25 24 0.15
26 30 0.18
27 108 0.66
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43737209 original size:79 final size:79
Alignment explanation
Indices: 43737137--43737343 Score: 260
Period size: 79 Copynumber: 2.6 Consensus size: 79
43737127 ATTACCAAAG
*
43737137 TACCC-CGATTTACAGAATTATCGTTTTACCC-CGATTTACATAATTACCGTTTTACCC-CTGAT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTA-CGTTTTACCCTC-GAT
* * *
43737199 TTACATAATTATCGTTT
63 TTACAGAATTACCATTT
* *
43737216 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTA-GTTTTACCCTCGATTT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTACAAAATTACGTTTTACCCTCGATTT
* *
43737280 ATAGAATTACTATTT
65 ACAGAATTACCATTT
*
43737295 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATTTACAAAATTAC
43737344 TAAAATACCC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 72 0.64
80 25 0.22
81 14 0.12
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (79 bp):
TACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACGTTTTACCCTCGATTTA
CAGAATTACCATTT
Found at i:43737236 original size:106 final size:106
Alignment explanation
Indices: 43737110--43737354 Score: 289
Period size: 106 Copynumber: 2.3 Consensus size: 106
43737100 ATTACTGAAA
* ** *
43737110 TACCTTCGACTTGTAAAATTACCAAAGTACCC-CGATTTACAGAATTATCGTTTTACCC-CGATT
1 TACCCTCGACTTACAAAATTACCAAAATACCCTCGATTTACAGAATTA--GTTTTACCCTCGATT
* * *
43737173 TACATAATTACCGTTTTACCCCTGATTTACATAATTA-TCGTTT
64 TACAGAATTACCATTTTACCCCTGATTTACAGAATTACT-GTTT
* ****
43737216 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAGTTTTACCCTCGATTTA
1 TACCCTCGACTTACAAAATTACCAAAATACCCTCGATTTACAGAATTAGTTTTACCCTCGATTTA
* * *
43737281 TAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
66 CAGAATTACCATTTTACCCCTGATTTACAGAATTACTGTTT
* *
43737322 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGACTTACAAAATTACCAAAATACCCT
43737355 TAGTTTGTGA
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
105 9 0.08
106 90 0.78
107 16 0.14
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (106 bp):
TACCCTCGACTTACAAAATTACCAAAATACCCTCGATTTACAGAATTAGTTTTACCCTCGATTTA
CAGAATTACCATTTTACCCCTGATTTACAGAATTACTGTTT
Found at i:43737352 original size:27 final size:27
Alignment explanation
Indices: 43737243--43737491 Score: 107
Period size: 27 Copynumber: 9.2 Consensus size: 27
43737233 ATTACCGTTT
* * **
43737243 TACCCTCGATTTACAGAATTAGT--TT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
43737268 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
43737295 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
43737322 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *** **
43737349 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
43737376 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
43737403 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
43737430 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
43737459 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
43737486 TACCCT
1 TACCCT
43737492 TGGTTTGTAG
Statistics
Matches: 181, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
25 21 0.12
26 3 0.02
27 130 0.72
28 8 0.04
29 19 0.10
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:43737497 original size:27 final size:27
Alignment explanation
Indices: 43737295--43737493 Score: 143
Period size: 27 Copynumber: 7.3 Consensus size: 27
43737285 ATTACTATTT
* ***
43737295 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* *
43737322 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** *
43737349 TACCCTT-AGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
** ** **
43737376 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
43737403 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43737430 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
43737459 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43737486 TACCCTTG
1 TACCCTTG
43737494 GTTTGTAGAT
Statistics
Matches: 135, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 108 0.80
28 8 0.06
29 18 0.13
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:43737615 original size:27 final size:27
Alignment explanation
Indices: 43737538--43737615 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43737528 AAATGACTAA
* *
43737538 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
43737565 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
43737592 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
43737616 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:43738862 original size:9 final size:9
Alignment explanation
Indices: 43738850--43738926 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
43738840 TTTGATAAAC
43738850 ATGATATGT
1 ATGATATGT
*
43738859 ATGATATGCAC
1 ATGATATG--T
43738870 ATGATATGT
1 ATGATATGT
*
43738879 ATGATATGCAC
1 ATGATATG--T
*
43738890 ATGACATGT
1 ATGATATGT
*
43738899 ATGATATGCAC
1 ATGATATG--T
43738910 ATGATATGT
1 ATGATATGT
43738919 ATGATATG
1 ATGATATG
43738927 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:43738875 original size:11 final size:11
Alignment explanation
Indices: 43738859--43738930 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
43738849 CATGATATGT
43738859 ATGATATGCAC
1 ATGATATGCAC
*
43738870 ATGATATG--T
1 ATGATATGCAC
43738879 ATGATATGCAC
1 ATGATATGCAC
* *
43738890 ATGACATG--T
1 ATGATATGCAC
43738899 ATGATATGCAC
1 ATGATATGCAC
*
43738910 ATGATATG--T
1 ATGATATGCAC
43738919 ATGATATGCAC
1 ATGATATGCAC
43738930 A
1 A
43738931 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43738938 original size:20 final size:20
Alignment explanation
Indices: 43738848--43738930 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
43738838 ATTTTGATAA
43738848 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43738868 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43738888 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43738908 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43738928 ACA
1 ACA
43738931 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43739039 original size:24 final size:23
Alignment explanation
Indices: 43738983--43739149 Score: 237
Period size: 24 Copynumber: 7.0 Consensus size: 23
43738973 GAGGAAGTGA
43738983 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43739006 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
43739029 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
43739053 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43739077 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
43739101 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
43739125 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43739149 A
1 A
43739150 TGATAAAGCA
Statistics
Matches: 133, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 43 0.32
24 80 0.60
25 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:43739052 original size:47 final size:46
Alignment explanation
Indices: 43738983--43739148 Score: 235
Period size: 47 Copynumber: 3.5 Consensus size: 46
43738973 GAGGAAGTGA
43738983 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
43739029 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
43739077 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
*
43739125 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43739149 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 65 0.60
48 32 0.30
49 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:43739099 original size:71 final size:71
Alignment explanation
Indices: 43738983--43739148 Score: 271
Period size: 71 Copynumber: 2.3 Consensus size: 71
43738973 GAGGAAGTGA
43738983 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
43739048 GTTATC
66 GTTATC
* *
43739054 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
43739119 GTTATT
66 GTTATC
*
43739125 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43739149 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:43739376 original size:31 final size:31
Alignment explanation
Indices: 43739341--43739404 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43739331 CGTTTACAGT
*
43739341 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43739372 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43739403 AA
1 AA
43739405 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43742242 original size:27 final size:27
Alignment explanation
Indices: 43742212--43742309 Score: 96
Period size: 26 Copynumber: 3.7 Consensus size: 27
43742202 TTTAGTTTAC
43742212 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACC-AAATACCCTTAGATTTG
* *
43742239 TAAAA-TACTAAAATACCC-TCGATTTG
1 TAAAATTAC-CAAATACCCTTAGATTTG
* * *
43742265 TAAAATTACTAAATA-CCTTCGACTTG
1 TAAAATTACCAAATACCCTTAGATTTG
43742291 TAAAATTACCAAAGTACCC
1 TAAAATTACCAAA-TACCC
43742310 CGATTTACAG
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
25 4 0.07
26 44 0.73
27 10 0.17
28 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAATACCCTTAGATTTG
Found at i:43742270 original size:53 final size:52
Alignment explanation
Indices: 43742212--43742315 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
43742202 TTTAGTTTAC
* *
43742212 TAAAATTACCGAAATACCCTTAG-TTTGTAAAA-TACTAAAATACCCTCGATTTG
1 TAAAATTA-CGAAATA-CCTTAGACTTGTAAAATTACCAAAATACCC-CGATTTG
* * *
43742265 TAAAATTACTAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCGATTT
1 TAAAATTACGAAATACCTTAGACTTGTAAAATTACCAAAATACCCCGATTT
43742316 ACAGAATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 5 0.11
52 20 0.45
53 19 0.43
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (52 bp):
TAAAATTACGAAATACCTTAGACTTGTAAAATTACCAAAATACCCCGATTTG
Found at i:43742515 original size:27 final size:27
Alignment explanation
Indices: 43742305--43742515 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
43742295 ATTACCAAAG
43742305 TACCC-CGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
43742331 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
43742358 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
43742385 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
43742412 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
43742439 TACCTTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
43742466 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
43742493 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
43742516 AAAATACCCT
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.04
27 154 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:43742668 original size:27 final size:27
Alignment explanation
Indices: 43742493--43742664 Score: 116
Period size: 27 Copynumber: 6.3 Consensus size: 27
43742483 ATTACTGTTT
* *
43742493 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
*** * *
43742520 TACCCTT-AGTTTGTGAAGTTACCGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
** ** **
43742547 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
43742574 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43742601 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
43742630 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
43742657 TACCCTTG
1 TACCCTTG
43742665 GTTTGTAGAT
Statistics
Matches: 112, Mismatches: 25, Indels: 16
0.73 0.16 0.10
Matches are distributed among these distances:
26 1 0.01
27 85 0.76
28 8 0.07
29 18 0.16
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:43742785 original size:26 final size:26
Alignment explanation
Indices: 43742709--43742785 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
43742699 AAATGACTAA
*
43742709 AATACCCCTATTAGGTAAAAAGACCGT
1 AATACCCCTATT-GGTAAAATGACCGT
* * *
43742736 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTAT-TGGTAAAATGACCGT
43742763 AATACCCCTATTGGTAAAATGAC
1 AATACCCCTATTGGTAAAATGAC
43742786 GAATATGCCC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 11 0.28
27 28 0.70
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (26 bp):
AATACCCCTATTGGTAAAATGACCGT
Found at i:43744035 original size:9 final size:9
Alignment explanation
Indices: 43744023--43744099 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
43744013 TTTGATAAAC
43744023 ATGATATGT
1 ATGATATGT
*
43744032 ATGATATGCAC
1 ATGATATG--T
43744043 ATGATATGT
1 ATGATATGT
*
43744052 ATGATATGCAC
1 ATGATATG--T
*
43744063 ATGACATGT
1 ATGATATGT
*
43744072 ATGATATGCAC
1 ATGATATG--T
43744083 ATGATATGT
1 ATGATATGT
43744092 ATGATATG
1 ATGATATG
43744100 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:43744048 original size:11 final size:11
Alignment explanation
Indices: 43744032--43744103 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
43744022 CATGATATGT
43744032 ATGATATGCAC
1 ATGATATGCAC
*
43744043 ATGATATG--T
1 ATGATATGCAC
43744052 ATGATATGCAC
1 ATGATATGCAC
* *
43744063 ATGACATG--T
1 ATGATATGCAC
43744072 ATGATATGCAC
1 ATGATATGCAC
*
43744083 ATGATATG--T
1 ATGATATGCAC
43744092 ATGATATGCAC
1 ATGATATGCAC
43744103 A
1 A
43744104 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43744111 original size:20 final size:20
Alignment explanation
Indices: 43744021--43744103 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
43744011 ATTTTGATAA
43744021 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43744041 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43744061 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43744081 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43744101 ACA
1 ACA
43744104 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43744213 original size:24 final size:23
Alignment explanation
Indices: 43744157--43744322 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
43744147 GAGGAAGTGA
43744157 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43744180 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43744203 CAAAAGGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
43744227 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43744251 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
43744275 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTT-AT
*
43744298 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43744322 A
1 A
43744323 TGATAACGCA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
23 60 0.47
24 62 0.48
25 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:43744273 original size:71 final size:70
Alignment explanation
Indices: 43744157--43744321 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 70
43744147 GAGGAAGTGA
*
43744157 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCA
43744222 GTTATC
65 GTTATC
*
43744228 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
* *
43744293 TTGTT
66 TTATC
*
43744298 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43744322 ATGATAACGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 20 0.23
71 67 0.77
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
TTATC
Found at i:43744301 original size:23 final size:24
Alignment explanation
Indices: 43744157--43744321 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
43744147 GAGGAAGTGA
43744157 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43744181 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
43744204 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
43744228 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43744252 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43744275 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43744298 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43744322 ATGATAACGC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 63 0.49
24 59 0.46
25 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43744568 original size:31 final size:31
Alignment explanation
Indices: 43744514--43744577 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43744504 CGTTTACAGT
*
43744514 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
43744545 AAAGGCTTCGGCCCAGTGTTATGATATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43744576 AA
1 AA
43744578 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43749372 original size:28 final size:28
Alignment explanation
Indices: 43749332--43749402 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
43749322 TATTTGATTG
* *
43749332 GCACTGAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
* *
43749360 GCACTAAGTGTGCAAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
43749388 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
43749403 ACTTACTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:43753084 original size:40 final size:40
Alignment explanation
Indices: 43752946--43753086 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
43752936 ACCCAAGTTT
* * * *
43752946 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
43752985 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
43753025 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
43753065 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
43753087 CATTCAAATG
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 79 0.88
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:43759369 original size:18 final size:18
Alignment explanation
Indices: 43759346--43759382 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43759336 ATTTAAAGAT
43759346 AGTTTACATTCGAGTTAC
1 AGTTTACATTCGAGTTAC
43759364 AGTTTACATTCGAGTTAC
1 AGTTTACATTCGAGTTAC
43759382 A
1 A
43759383 CCAACTTACC
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:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (18 bp):
AGTTTACATTCGAGTTAC
Found at i:43760272 original size:24 final size:24
Alignment explanation
Indices: 43760211--43760260 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
43760201 CTCCCTTGGG
*
43760211 CCGATTCCTCTTTTGGTGTAAGTA
1 CCGATTGCTCTTTTGGTGTAAGTA
43760235 CCGATTGCTCTTTTGGTGTAAGTA
1 CCGATTGCTCTTTTGGTGTAAGTA
43760259 CC
1 CC
43760261 TTATCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (24 bp):
CCGATTGCTCTTTTGGTGTAAGTA
Found at i:43762575 original size:16 final size:16
Alignment explanation
Indices: 43762554--43762588 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
43762544 ACCTCGATAC
43762554 AAGTTACGTGCTCCCT
1 AAGTTACGTGCTCCCT
43762570 AAGTTACGTGCTCCCT
1 AAGTTACGTGCTCCCT
43762586 AAG
1 AAG
43762589 CACAACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (16 bp):
AAGTTACGTGCTCCCT
Found at i:43764754 original size:78 final size:78
Alignment explanation
Indices: 43764597--43764818 Score: 320
Period size: 78 Copynumber: 2.8 Consensus size: 78
43764587 TCGTTCAAAC
* * ** * ** *
43764597 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
43764662 ACAATTTGCACAATT
64 ACAATTTGCACAATT
*
43764677 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
43764742 AATTTGCACAATT
66 AATTTGCACAATT
* *
43764755 GCCTTCGGGCTTAGCCCGGATATCACAA-TTGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
43764819 TCGAACATTC
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
77 34 0.26
78 55 0.42
79 32 0.25
80 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AATTTGCACAATT
Found at i:43764796 original size:38 final size:39
Alignment explanation
Indices: 43764637--43764818 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
43764627 CCGCACAAAG
*
43764637 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
43764677 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
43764716 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
43764755 GCCTTCGGGCTTAGCCCGGATATCACAA-TTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
43764793 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
43764819 TCGAACATTC
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
38 36 0.27
39 88 0.66
40 9 0.07
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:43772786 original size:38 final size:39
Alignment explanation
Indices: 43772684--43772863 Score: 285
Period size: 38 Copynumber: 4.7 Consensus size: 39
43772674 CCGCACAAAG
*
43772684 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
43772724 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
43772763 GCCTTC-GGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
43772801 G-CTTCGGGCTTAGCCCGGATAT-ACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
43772838 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
43772864 TCGAACATTC
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
37 20 0.16
38 65 0.51
39 34 0.27
40 9 0.07
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:43784279 original size:39 final size:39
Alignment explanation
Indices: 43784171--43784354 Score: 201
Period size: 39 Copynumber: 4.6 Consensus size: 39
43784161 TCGAATGATG
* * * *
43784171 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
43784211 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTTCTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
43784251 TCCGGGCTAAGCCTGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
43784290 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43784330 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
43784355 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 65 0.54
40 49 0.40
41 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43785808 original size:29 final size:29
Alignment explanation
Indices: 43785739--43785849 Score: 134
Period size: 29 Copynumber: 3.9 Consensus size: 29
43785729 TGTTACAGAT
* * *
43785739 TTGGGCCGGATGGGCCATATAAATGAG-A
1 TTGGGCCGAATGGGCCATATGAATGTGAA
* *
43785767 TTGGGCCTAATGGGCCATTTGAATGTGAA
1 TTGGGCCGAATGGGCCATATGAATGTGAA
* *
43785796 TTGGGCCGGATGGGCCATATGAACGTGAA
1 TTGGGCCGAATGGGCCATATGAATGTGAA
* *
43785825 TTGGACCGAATGGGCCATATAAATG
1 TTGGGCCGAATGGGCCATATGAATG
43785850 AGATTGGTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 22 0.32
29 47 0.68
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (29 bp):
TTGGGCCGAATGGGCCATATGAATGTGAA
Found at i:43785856 original size:57 final size:57
Alignment explanation
Indices: 43785739--43785856 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 57
43785729 TGTTACAGAT
* * * * *
43785739 TTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATTTGAATGTGAA
1 TTGGGCCGGATGGGCCATATAAATGAGATTGGACCGAATGGGCCATATAAATGAGAA
*
43785796 TTGGGCCGGATGGGCCATATGAACGTGA-ATTGGACCGAATGGGCCATATAAATGAG-A
1 TTGGGCCGGATGGGCCATAT-AA-ATGAGATTGGACCGAATGGGCCATATAAATGAGAA
43785853 TTGG
1 TTGG
43785857 TCCTAGTGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 25 0.47
58 25 0.47
59 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (57 bp):
TTGGGCCGGATGGGCCATATAAATGAGATTGGACCGAATGGGCCATATAAATGAGAA
Found at i:43788883 original size:17 final size:18
Alignment explanation
Indices: 43788849--43788883 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43788839 TTCTCTTAAA
*
43788849 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTGAATT
43788867 TTTCAATTTT-TTGAATT
1 TTTCAATTTTATTGAATT
43788884 GTTAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTCAATTTTATTGAATT
Found at i:43793245 original size:41 final size:41
Alignment explanation
Indices: 43793193--43793275 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
43793183 AAAATAGAGT
43793193 AAGCATGAAATGCATAGTAAGTTCCTATAACATGGTAAATA
1 AAGCATGAAATGCATAGTAAGTTCCTATAACATGGTAAATA
43793234 AAGCATGAAATGCATAGTAAGTTCCTATAACATGGTAAATA
1 AAGCATGAAATGCATAGTAAGTTCCTATAACATGGTAAATA
43793275 A
1 A
43793276 CTTACCATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.27
Consensus pattern (41 bp):
AAGCATGAAATGCATAGTAAGTTCCTATAACATGGTAAATA
Found at i:43794080 original size:23 final size:26
Alignment explanation
Indices: 43794026--43794080 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
43794016 AGCCATATAA
*
43794026 CAGGAAACTCACAAAGAGTCATTAAT
1 CAGGAAACTCACAAAGAGTCACTAAT
43794052 CAGGAAACTCACAAAGAG-C-CT-AT
1 CAGGAAACTCACAAAGAGTCACTAAT
43794075 CAGGAA
1 CAGGAA
43794081 GCTTATTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 8 0.29
24 1 0.04
25 1 0.04
26 18 0.64
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.15
Consensus pattern (26 bp):
CAGGAAACTCACAAAGAGTCACTAAT
Found at i:43795048 original size:46 final size:46
Alignment explanation
Indices: 43794998--43795091 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
43794988 TTATCTATCA
43794998 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
1 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
* *
43795044 ATAACCTTTCATTTTCTGCCATAAATTTCAAAATTTCAGCATACTC
1 ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
43795090 AT
1 AT
43795092 CCATGGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (46 bp):
ATAACCTTTCATTTTCTACCATAAATTTCAAAATTTCAACATACTC
Found at i:43795360 original size:31 final size:30
Alignment explanation
Indices: 43795316--43795373 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
43795306 TCATTTAATT
*
43795316 AATTATCATCTTTTATTTTTTTTCATTTTCC
1 AATTATCATCTTTTATTTATTTT-ATTTTCC
*
43795347 AATT-TCATCCTTTTCTTTATTTTATTT
1 AATTATCAT-CTTTTATTTATTTTATTT
43795374 CCCATGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (30 bp):
AATTATCATCTTTTATTTATTTTATTTTCC
Found at i:43799095 original size:37 final size:37
Alignment explanation
Indices: 43799045--43799190 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
43799035 AGCTCAGACG
*
43799045 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
43799082 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* * * *
43799119 TACTCTCCACAAGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* * *
43799156 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
43799191 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:43799474 original size:47 final size:47
Alignment explanation
Indices: 43799396--43799682 Score: 412
Period size: 47 Copynumber: 6.1 Consensus size: 47
43799386 ATATATATTT
* * * *
43799396 CACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
* * *
43799443 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
*
43799490 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
* *
43799537 CACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
* * *
43799584 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAA
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
* * ** *
43799631 CACATTGGCCATTCGGTCTTATCACATATATACACATTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
43799678 CACAT
1 CACAT
43799683 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAC
Found at i:43799563 original size:141 final size:141
Alignment explanation
Indices: 43799395--43799683 Score: 497
Period size: 141 Copynumber: 2.0 Consensus size: 141
43799385 TATATATATT
* *
43799395 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* * *
43799460 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
*
43799525 GTTCACATTCA
131 ATTCACATTCA
* *
43799536 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
*
43799601 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGTCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
43799666 ATTCACATTCA
131 ATTCACATTCA
43799677 TCACATA
1 TCACATA
43799684 AAATCCTAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 139 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:43811334 original size:21 final size:21
Alignment explanation
Indices: 43811297--43811336 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43811287 AATTGGTATG
*
43811297 AAAAGATTAAGAGATGCATAT
1 AAAAGATTAAGAAATGCATAT
43811318 AAAA-ATTAAGATAATGCAT
1 AAAAGATTAAGA-AATGCAT
43811337 GGAGGCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAAGATTAAGAAATGCATAT
Found at i:43821550 original size:34 final size:34
Alignment explanation
Indices: 43821512--43821590 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
43821502 ATTGAAGTAA
* * *
43821512 GCTAAGGCCCACATTGATATTGCTACTG-TATTGG
1 GCTAAGGCCCACACTAATATCGCTACTGATA-TGG
*
43821546 GCTAAGGCCCGCACTAATATCGCTACTGATATGG
1 GCTAAGGCCCACACTAATATCGCTACTGATATGG
*
43821580 GCTTAGGCCCA
1 GCTAAGGCCCA
43821591 GACTGTTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (34 bp):
GCTAAGGCCCACACTAATATCGCTACTGATATGG
Found at i:43827980 original size:28 final size:29
Alignment explanation
Indices: 43827882--43827980 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
43827872 TCACAAATTG
* *
43827882 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
43827911 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
43827939 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
43827967 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43827981 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:43837965 original size:21 final size:20
Alignment explanation
Indices: 43837916--43837954 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43837906 AGGGACTAAA
* *
43837916 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
43837936 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
43837955 TATGGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:43840192 original size:40 final size:40
Alignment explanation
Indices: 43840147--43840314 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
43840137 CGGAATATAA
43840147 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
43840187 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43840227 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
43840267 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43840307 CCGGATAT
1 CCGGATAT
43840315 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43840297 original size:80 final size:80
Alignment explanation
Indices: 43840163--43840312 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
43840153 ATAACCACGT
* *
43840163 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
43840228 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
43840243 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
43840306 CCCGGAT
64 CCCGGAT
43840313 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:43848202 original size:40 final size:40
Alignment explanation
Indices: 43848157--43848324 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
43848147 CGGAATATAA
43848157 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
43848197 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43848237 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
43848277 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43848317 CCGGATAT
1 CCGGATAT
43848325 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43848307 original size:80 final size:80
Alignment explanation
Indices: 43848173--43848322 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
43848163 ATAACCACGT
* *
43848173 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
43848238 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
43848253 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
43848316 CCCGGAT
64 CCCGGAT
43848323 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:43854928 original size:27 final size:30
Alignment explanation
Indices: 43854870--43854936 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
43854860 ACATGAAAAG
* *
43854870 GATGATACATGATACATAGAAGTATGAGTT
1 GATGATATATGATACATAGAAATATGAGTT
*
43854900 GATGATATATGA-ACATAGAAAT-TG-TTT
1 GATGATATATGATACATAGAAATATGAGTT
43854927 GATGA-ATATG
1 GATGATATATG
43854937 TTTATCTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.15
27 7 0.21
28 2 0.06
29 9 0.26
30 11 0.32
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (30 bp):
GATGATATATGATACATAGAAATATGAGTT
Found at i:43859074 original size:38 final size:38
Alignment explanation
Indices: 43859032--43859179 Score: 158
Period size: 38 Copynumber: 3.9 Consensus size: 38
43859022 TAAAGACCCA
43859032 CAGGCTAT-ATGCTGGAATTATATCCAGGTTAAATCCCG
1 CAGGCT-TCATGCTGGAATTATATCCAGGTTAAATCCCG
* *
43859070 CAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAATCCCG
1 CAGGCTTCATGCTGG-AATTATATCCAGGTTAAATCCCG
* * * **
43859108 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTA
1 CAGGCTTCATGCTGGAATTATATCCAGGTTAAATCCCG
* *
43859146 CAGGCTT-AGTGCTGGTATTATATCCGAGCTTAAA
1 CAGGCTTCA-TGCTGGAATTATATCC-AGGTTAAA
43859180 GTCCGACAAG
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 87 0.90
39 8 0.08
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (38 bp):
CAGGCTTCATGCTGGAATTATATCCAGGTTAAATCCCG
Found at i:43867099 original size:75 final size:75
Alignment explanation
Indices: 43867001--43867210 Score: 269
Period size: 75 Copynumber: 2.7 Consensus size: 75
43866991 ATTTGATGTG
* * * *
43867001 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAATCCCGCAAGCTT
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TATGCTGGTATTATATCCGAGTTAAATCCCGCAAGCTT
43867066 CGTGCTGGTA-AA
63 CGTGCTGGTATAA
* *
43867078 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGCAGGCTTCG
1 TATCCGGGTTAAATCCCGCAGGCTT-ATGCTGGTATTATATCCGAGTTAAATCCCGCAAGCTTCG
*
43867143 TGCTGGTATTA
65 TGCTGGTATAA
* *
43867154 TATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCTGAGCTTAAAGTCCC
1 TATCCGGGTTAAATCCCGCAGGCTTA-TGCTGGTATTATATCCGAG-TTAAA-TCCC
43867211 ACAGGTTTTG
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
74 1 0.01
75 52 0.44
76 48 0.41
77 13 0.11
78 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (75 bp):
TATCCGGGTTAAATCCCGCAGGCTTATGCTGGTATTATATCCGAGTTAAATCCCGCAAGCTTCGT
GCTGGTATAA
Found at i:43867128 original size:38 final size:38
Alignment explanation
Indices: 43867037--43867227 Score: 276
Period size: 38 Copynumber: 5.0 Consensus size: 38
43867027 ATATGCTAGA
* *
43867037 ATTATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
43867075 A-AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
43867112 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
*
43867150 ATTATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * * *
43867188 ATTATATCTGAGCTTAAAGTCCCACAGGTTTTGTGCTGGT
1 ATTATATCCGAG-TTAAA-TCCCGCAGGCTTCGTGCTGGT
43867228 GACTGGATTC
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
37 35 0.25
38 83 0.59
39 5 0.04
40 18 0.13
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:43870086 original size:6 final size:6
Alignment explanation
Indices: 43870068--43870124 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
43870058 AAGAAATATT
* *
43870068 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
43870117 ATCAGA AT
1 ATCAGA AT
43870125 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 34 0.81
7 4 0.10
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:43870319 original size:31 final size:32
Alignment explanation
Indices: 43870264--43870325 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
43870254 ACGAAGTCAC
*
43870264 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAGGCCACCAGAA
*
43870296 CAGATATATATA-TGTGGCGAGGCCACCAGA
1 CAGATATAGATATTGTGGCGAGGCCACCAGA
43870326 TTGCAACGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAGGCCACCAGAA
Found at i:43870347 original size:71 final size:67
Alignment explanation
Indices: 43870271--43870411 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
43870261 CACCAGATAT
* * * *
43870271 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAGGCCACCAGATTGCAACGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAGGCCACCAGATTACAACGAG
43870336 GCTACC
62 GCTACC
* * *
43870342 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTACAATGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAGGCCACCAGATTACAACGAGGCTA
43870407 CC
66 CC
43870409 AGA
1 AGA
43870412 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.62
71 24 0.38
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAGGCCACCAGATTACAACGAGGCTA
CC
Found at i:43870389 original size:27 final size:26
Alignment explanation
Indices: 43870341--43870392 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43870331 ACGAGGCTAC
*
43870341 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
43870367 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
43870393 TTACAATGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43870769 original size:27 final size:26
Alignment explanation
Indices: 43870676--43870761 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
43870666 AATTCTACAC
* * *
43870676 TATTTCAGTAATTCTACCCTATAGGGG
1 TATTTCAGTATTTCTACCCTACA-AGG
*
43870703 TATTTCGGTATTTCTACCCTACAAGGG
1 TATTTCAGTATTTCTACCCTACAA-GG
43870730 TATTTCAGTATTTCTACCCTACAAGG
1 TATTTCAGTATTTCTACCCTACAAGG
43870756 TATTTC
1 TATTTC
43870762 GGTAATTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.15
27 45 0.85
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (26 bp):
TATTTCAGTATTTCTACCCTACAAGG
Found at i:43872727 original size:18 final size:17
Alignment explanation
Indices: 43872699--43872732 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43872689 GGCTTTAACC
43872699 CATTACAGAACAAGAAA
1 CATTACAGAACAAGAAA
*
43872716 CATTATCAGAACTAGAA
1 CATTA-CAGAACAAGAA
43872733 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CATTACAGAACAAGAAA
Found at i:43872738 original size:6 final size:6
Alignment explanation
Indices: 43872720--43872807 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
43872710 AAGAAACATT
* *
43872720 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA GTCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
43872769 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43872808 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 5 0.07
6 53 0.78
7 6 0.09
8 4 0.06
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:43872741 original size:18 final size:18
Alignment explanation
Indices: 43872720--43872807 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
43872710 AAGAAACATT
43872720 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
43872738 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
43872755 GTGACAGAGTCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
43872775 ATCAGTATCAGGTAAT-AGA
1 ATCAGAATCA-G-AATCAGA
*
43872794 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
43872808 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.07
18 22 0.39
19 27 0.47
20 4 0.07
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:43872768 original size:31 final size:31
Alignment explanation
Indices: 43872729--43872807 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
43872719 TATCAGAACT
*
43872729 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
43872760 AGAGTCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
43872791 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
43872808 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:43873002 original size:31 final size:32
Alignment explanation
Indices: 43872947--43873008 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
43872937 ACGAAGTCAC
*
43872947 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAGGCCACCAGAA
*
43872979 CAGATATATATA-TGTGGCGAGGCCACCAGA
1 CAGATATAGATATTGTGGCGAGGCCACCAGA
43873009 TTGCAGCGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAGGCCACCAGAA
Found at i:43873031 original size:71 final size:67
Alignment explanation
Indices: 43872954--43873094 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
43872944 CACCAGATAT
* * * *
43872954 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAGGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAGGCCACCAGATTGCAACGAG
43873019 GCTGCC
62 GCTGCC
* * *
43873025 AGATATTGTGACGAAGTCACTAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGTTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGCTG
43873090 CC
66 CC
43873092 AGA
1 AGA
43873095 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 40 0.63
71 23 0.37
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGCTG
CC
Found at i:43873349 original size:27 final size:26
Alignment explanation
Indices: 43873323--43873678 Score: 343
Period size: 27 Copynumber: 13.2 Consensus size: 26
43873313 TAAAATGGTA
* *
43873323 ATTTTTCCCTACAAGGGTATCTCGGT
1 ATTTTACCCTACAAGGGTATTTCGGT
* * *
43873349 AATTCTACCCTACATGGGTATTTCAGT
1 -ATTTTACCCTACAAGGGTATTTCGGT
* *
43873376 AATTCTACCCTACAGGGGTATTTCGGT
1 -ATTTTACCCTACAAGGGTATTTCGGT
*
43873403 ATTTCTACCCTACAAGGGTATTTTGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
* **
43873430 ATTTCTACCCTACAGGGGTATTTTAGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
* * *
43873457 AATTCTACCCTACAGGGGTATTTCAGT
1 -ATTTTACCCTACAAGGGTATTTCGGT
* *
43873484 ATTTTTACCTTACAAGGGTATTTCGAT
1 A-TTTTACCCTACAAGGGTATTTCGGT
* * **
43873511 AATTCTACCCTACAGGGGTATTTTAGT
1 -ATTTTACCCTACAAGGGTATTTCGGT
* * * *
43873538 AATTCTACCCTATAGGGGTATTTCGAT
1 -ATTTTACCCTACAAGGGTATTTCGGT
* *
43873565 ATTTCTACCCTATAGGGGTATTTCGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
*
43873592 ATTTCTACCCTACAAGGGTCTTTCGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
43873619 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
*
43873646 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
43873673 AATTTT
1 -ATTTT
43873679 GTAAACTAAA
Statistics
Matches: 287, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.02
27 272 0.95
28 8 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (26 bp):
ATTTTACCCTACAAGGGTATTTCGGT
Found at i:43873443 original size:81 final size:81
Alignment explanation
Indices: 43873329--43873676 Score: 507
Period size: 81 Copynumber: 4.3 Consensus size: 81
43873319 GGTAATTTTT
* *
43873329 CCCTACAAGGGTATCTCGGTAATTCTACCCTACATGGGTATTTCAGTAATTCTACCCTACAGGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGG
43873394 TATTTCGGTATTTCTA
66 TATTTCGGTATTTCTA
* * *
43873410 CCCTACAAGGGTATTTTGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGG
* *
43873475 TATTTCAGTATTTTTA
66 TATTTCGGTATTTCTA
* * * *
43873491 CCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGG
*
43873556 TATTTCGATATTTCTA
66 TATTTCGGTATTTCTA
* * * * * * * *
43873572 CCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTCTTTCGGTATTTCTACCCTACAAGGG
1 CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGG
43873637 TATTTCGGTATTTCTA
66 TATTTCGGTATTTCTA
*
43873653 CCCTACAAGGGTATTTCAGTAATT
1 CCCTACAAGGGTATTTCGGTAATT
43873677 TTGTAAACTA
Statistics
Matches: 235, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 235 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (81 bp):
CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGG
TATTTCGGTATTTCTA
Found at i:43878746 original size:14 final size:15
Alignment explanation
Indices: 43878727--43878756 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
43878717 CTTCAACTGT
43878727 TGCCTTCCA-ATAGG
1 TGCCTTCCAGATAGG
43878741 TGCCTTCCAGATAGG
1 TGCCTTCCAGATAGG
43878756 T
1 T
43878757 TACAAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (15 bp):
TGCCTTCCAGATAGG
Found at i:43879531 original size:33 final size:32
Alignment explanation
Indices: 43879474--43879537 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
43879464 CCATATTATT
*
43879474 TTTAATTTTTCAATAATATTTATATTATTTTAA
1 TTTAATATTTCAATAATATTTATATT-TTTTAA
*
43879507 TTTAATATTT-AATAATTTTATATATTTTTTA
1 TTTAATATTTCAATAATATT-TATATTTTTTA
43879538 GTTATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTAATATTTCAATAATATTTATATTTTTTAA
Found at i:43881846 original size:47 final size:47
Alignment explanation
Indices: 43881772--43881977 Score: 150
Period size: 49 Copynumber: 4.3 Consensus size: 47
43881762 GTCATGTCTT
* * * *
43881772 AGACATGGTCTTACACTGGCTAGCATATCAAAATCGATGCCATGTCCT
1 AGACA-GGTCTTACACTGACTATCATATCAAAGTCGATGCCATGTCCC
* * * *
43881820 AGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGCCGTGTCCC
1 AGACAGGTCTTACACTGACTATC--ATATCAAAGTCGATGCCATGTCCC
* * * * ** * *
43881869 AGATAGGTTTTACACTGGCTCTCATCTATCAGTGTCGATGTCATATCCC
1 AGACAGGTCTTACACTGACTATCA--TATCAAAGTCGATGCCATGTCCC
* **
43881918 AGACAGGTCTTACACTGAC-A-CACATC-AAG-CTGACACCATGTCCC
1 AGACAGGTCTTACACTGACTATCATATCAAAGTC-GATGCCATGTCCC
*
43881962 AAACAGGTCTTACACT
1 AGACAGGTCTTACACT
43881978 ATCTTGTATA
Statistics
Matches: 123, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
43 1 0.01
44 25 0.20
45 3 0.02
47 18 0.15
48 5 0.04
49 71 0.58
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
AGACAGGTCTTACACTGACTATCATATCAAAGTCGATGCCATGTCCC
Found at i:43881867 original size:49 final size:49
Alignment explanation
Indices: 43881806--43882119 Score: 160
Period size: 49 Copynumber: 6.6 Consensus size: 49
43881796 ATATCAAAAT
* *
43881806 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCAAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGC
* * * * * *
43881855 CGATGCCGTGTCCCAGATAGGTTTTACACTGGCTCTCATCTATCAGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGC
* * * * * *
43881904 CGATGTCATATCCCAGACAGGTCTTACACTGACACACAT-CA--AGCTGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAG-TGC
* * *
43881951 C-A--CCATGTCCCAAACAGGTCTTACACT-A-TCTTGTATATCTCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTC-T-CATATATC-AGTGC
* * * * * * *
43881997 TGATG-CATGTCCCAAACATGTCTTACACT-AGCTCTC--GTCTCAATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCAGTGC
* * * *
43882043 CAATGCCATGTCCCATACATGGTTTTACACTGGCTCTCATA-A--AGTGGC
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCAGT-GC
* *
43882091 CGATG-CATGTCCTAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
43882120 AGCACACATA
Statistics
Matches: 197, Mismatches: 48, Indels: 43
0.68 0.17 0.15
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 24 0.12
45 1 0.01
46 21 0.11
47 29 0.15
48 48 0.24
49 70 0.36
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGC
Found at i:43887424 original size:37 final size:37
Alignment explanation
Indices: 43887336--43887453 Score: 177
Period size: 37 Copynumber: 3.2 Consensus size: 37
43887326 AACCTTTAGT
*
43887336 TCGGG-CTTACCCGGACAAAATCTCCACCTGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACCCGTGGTCA
*
43887372 TC-GGTCTTACCCGGACAAAATCTCCACCCATGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACCCGTGGTCA
* * *
43887408 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACCCGTGGTCA
43887445 TCGGGTCTT
1 TCGGGTCTT
43887454 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 2 0.03
36 33 0.45
37 39 0.53
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACCCGTGGTCA
Found at i:43887640 original size:47 final size:47
Alignment explanation
Indices: 43887571--43888298 Score: 1145
Period size: 47 Copynumber: 15.3 Consensus size: 47
43887561 CCCTTTGGGA
* * * * *
43887571 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43887618 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43887665 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43887712 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43887759 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43887806 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43887853 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43887900 CTTATCACATATATACACAGTTGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAC--TTTCACATTCATCACATCGGCCATTAGGC
43887949 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
43887998 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43888045 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43888092 CTTATCA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-G----G-C
*
43888144 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43888190 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43888237 CTTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43888284 CTTATCACATATATA
1 CTTATCACATATATA
43888299 TATCTCATAC
Statistics
Matches: 643, Mismatches: 26, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
46 81 0.13
47 431 0.67
49 83 0.13
51 5 0.01
52 7 0.01
53 36 0.06
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43887649 original size:25 final size:25
Alignment explanation
Indices: 43887621--43887699 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
43887611 ACTCGGCCTT
*
43887621 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
43887646 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
43887668 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
43887693 ATCACAT
1 ATCACAT
43887700 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:43888036 original size:192 final size:190
Alignment explanation
Indices: 43887571--43888298 Score: 1153
Period size: 192 Copynumber: 3.8 Consensus size: 190
43887561 CCCTTTGGGA
* * * *
43887571 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * * *
43887634 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
* * *
43887699 TGGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43887759 CTTATCTC--ATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43887822 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
*
43887887 TCGGCCATTAGGCCTTATCACATATATACACAGTTGCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACAC--TTTCACATTCATCACATCGGCCATTAGGC
* *
43887949 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43888014 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
43888079 TCGGCCATTAGGCCTTATCA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
43888138 CTTGTCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTGTCACATAT
1 CTTAT-C---ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
43888202 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACATTTTCACATTCAT
62 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCAT
43888267 CACATCGGCCATTAGGCCTTATCACATATATA
127 CACATCGGCCATTAGGCCTTATCACATATATA
43888299 TATCTCATAC
Statistics
Matches: 505, Mismatches: 24, Indels: 17
0.92 0.04 0.03
Matches are distributed among these distances:
187 1 0.00
188 146 0.29
189 32 0.06
190 35 0.07
191 10 0.02
192 237 0.47
193 44 0.09
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43891637 original size:2 final size:2
Alignment explanation
Indices: 43891630--43891662 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
43891620 TCATGACATG
43891630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43891663 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43897726 original size:71 final size:71
Alignment explanation
Indices: 43897640--43897803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43897630 CGATTTGTCT
43897640 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43897705 CTTTCA
66 CTTTCA
43897711 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43897776 CTTTCA
66 CTTTCA
43897782 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43897804 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:43897841 original size:71 final size:70
Alignment explanation
Indices: 43897640--43897837 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
43897630 CGATTTGTCT
* * * *
43897640 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43897705 CTTTCA
65 CTTTCA
* * * *
43897711 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43897776 CTTTCA
65 CTTTCA
* *
43897782 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
43897838 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:43904834 original size:71 final size:71
Alignment explanation
Indices: 43904748--43904911 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43904738 CGATTTGTCT
43904748 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43904813 CTTTCA
66 CTTTCA
43904819 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43904884 CTTTCA
66 CTTTCA
43904890 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43904912 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:43904949 original size:71 final size:70
Alignment explanation
Indices: 43904748--43904945 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
43904738 CGATTTGTCT
* * * *
43904748 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43904813 CTTTCA
65 CTTTCA
* * * *
43904819 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43904884 CTTTCA
65 CTTTCA
* *
43904890 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
43904946 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:43909329 original size:24 final size:24
Alignment explanation
Indices: 43909302--43909355 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
43909292 TCATTATTTA
* *
43909302 TTGCTCACAATATTTCACATTTTG
1 TTGCCCACAATATCTCACATTTTG
* *
43909326 TTGCCCACGATATCTCTCATTTTG
1 TTGCCCACAATATCTCACATTTTG
43909350 TGTGCC
1 T-TGCC
43909356 TCTTCTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.43
Consensus pattern (24 bp):
TTGCCCACAATATCTCACATTTTG
Found at i:43911889 original size:68 final size:70
Alignment explanation
Indices: 43911817--43912014 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
43911807 ACACCCTGTA
* * * *
43911817 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
43911879 ATAAAT
65 ATAAAT
*
43911885 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
43911950 ATAAAT
65 ATAAAT
*
43911956 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
43912015 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:43911928 original size:41 final size:41
Alignment explanation
Indices: 43911883--43912000 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
43911873 TGAAAGATAA
43911883 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
43911924 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43911954 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43911995 ATGTAG
1 ATGTAG
43912001 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:43911940 original size:71 final size:71
Alignment explanation
Indices: 43911851--43912014 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43911841 GAGATGTATC
43911851 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43911916 AGGACA
66 AGGACA
43911922 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43911987 AGGACA
66 AGGACA
43911993 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43912015 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:43919455 original size:68 final size:70
Alignment explanation
Indices: 43919383--43919580 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
43919373 ACACCCTGTA
* * * *
43919383 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
43919445 ATAAAT
65 ATAAAT
*
43919451 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
43919516 ATAAAT
65 ATAAAT
*
43919522 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
43919581 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:43919494 original size:41 final size:41
Alignment explanation
Indices: 43919449--43919566 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
43919439 TGAAAGATAA
43919449 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
43919490 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43919520 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43919561 ATGTAG
1 ATGTAG
43919567 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:43919506 original size:71 final size:71
Alignment explanation
Indices: 43919417--43919580 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43919407 GAGATGTATC
43919417 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43919482 AGGACA
66 AGGACA
43919488 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43919553 AGGACA
66 AGGACA
43919559 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43919581 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.