Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
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: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 5 of 17
Found at i:746387 original size:52 final size:52
Alignment explanation
Indices: 746309--746489 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
746299 CGAAATATGA
*
746309 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCGATACATCTGGGC
**
746361 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCGATACATCTGGGC
**
746413 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCGATACATCTGGGC
746465 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
746490 AAGATCAGTG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAAATAATGTATCGATACATCTGGGC
Found at i:746516 original size:13 final size:13
Alignment explanation
Indices: 746498--746522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746488 CAAAGATCAG
746498 TGTATCGATACAA
1 TGTATCGATACAA
746511 TGTATCGATACA
1 TGTATCGATACA
746523 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:746608 original size:13 final size:13
Alignment explanation
Indices: 746590--746614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746580 AAAATATATA
746590 TGTATCGATACAT
1 TGTATCGATACAT
746603 TGTATCGATACA
1 TGTATCGATACA
746615 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747680 original size:16 final size:14
Alignment explanation
Indices: 747659--747718 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
747649 CTTTTTTTCT
747659 AAAAAAAACAAAAGCA
1 AAAAAAAAC-AAA-CA
747675 AAAAAAAAC-AAC-
1 AAAAAAAACAAACA
*
747687 AAAAAAAACGAACA
1 AAAAAAAACAAACA
*
747701 AAAAAAAACAAAGA
1 AAAAAAAACAAACA
747715 AAAA
1 AAAA
747719 GGAAAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
12 9 0.22
13 4 0.10
14 18 0.45
16 9 0.22
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAACA
Found at i:747690 original size:12 final size:13
Alignment explanation
Indices: 747675--747707 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
747665 AACAAAAGCA
747675 AAAAAAAAC-AAC
1 AAAAAAAACGAAC
747687 AAAAAAAACGAAC
1 AAAAAAAACGAAC
747700 AAAAAAAA
1 AAAAAAAA
747708 ACAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAACGAAC
Found at i:747703 original size:23 final size:23
Alignment explanation
Indices: 747674--747726 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
747664 AAACAAAAGC
747674 AAAAAAAAACAACAAA-AAAAACG
1 AAAAAAAAA-AACAAAGAAAAACG
*
747697 AACAAAAAAAAACAAAGAAAAAGG
1 AA-AAAAAAAAACAAAGAAAAACG
747721 AAAAAA
1 AAAAAA
747727 GAAGAATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.83, C:0.09, G:0.08, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAACAAAGAAAAACG
Found at i:747717 original size:10 final size:10
Alignment explanation
Indices: 747659--747718 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
747649 CTTTTTTTCT
747659 AAAAAAAACA
1 AAAAAAAACA
**
747669 AAAGCAAA-A
1 AAAAAAAACA
*
747678 AAAAACAACAA
1 AAAAAAAAC-A
747689 AAAAAACGAACA
1 AAAAAA--AACA
747701 AAAAAAAACA
1 AAAAAAAACA
*
747711 AAGAAAAA
1 AAAAAAAA
747719 GGAAAAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 6 0.15
10 17 0.44
11 6 0.15
12 7 0.18
13 3 0.08
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:747717 original size:13 final size:14
Alignment explanation
Indices: 747659--747718 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
747649 CTTTTTTTCT
747659 AAAAAAAACAAAAG
1 AAAAAAAACAAAAG
* *
747673 CAAAAAAAA-ACAAC
1 -AAAAAAAACAAAAG
*
747687 AAAAAAAACGAACA-
1 AAAAAAAAC-AAAAG
747701 AAAAAAAAC-AAAG
1 AAAAAAAACAAAAG
747714 AAAAA
1 AAAAA
747719 GGAAAAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 2 0.05
13 13 0.35
14 12 0.32
15 10 0.27
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAG
Found at i:748920 original size:55 final size:55
Alignment explanation
Indices: 748690--749744 Score: 1115
Period size: 55 Copynumber: 18.5 Consensus size: 55
748680 TTTTCCTTCT
*
748690 ACTTTTGAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGC
*
748751 ATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGC
* * *
748811 AC-CTTCAGTCCTCAAAAAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGC
748871 A-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
748926 A-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTC-AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* * * ** * *
748987 ACCTTTCAGTCCCCAAAGAGCAAGACACCTTTCGAAGCCCACACAAATTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* **
749042 ATTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACA-AAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
* *
749096 ACCTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* * **
749157 ACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
*** *
749212 A-TTTTCTAGTCCTCAAAGAGCAGGGCACCTCTT-AAAGCCCACACATGTTGGTGGC
1 ACTTTTC-AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
** * *
749267 ACCATTCAGTCCTCGAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTCGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* * * **
749328 ACCTTTCAGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
**
749383 A-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGC
1 ACTTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
*
749438 ACATTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* **
749499 ACTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* ** *
749554 A-TTTTCCAGTACTCAAAGAGCAGGACACCTCTT-AAAGCTCACACAAGTTGGTGGC
1 ACTTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
* *
749609 ACCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * *
749664 ACCTTTCAGTCCTGAAAGAGCAGGATGCCTTTCAAAGCCCATACGAGTTGGTGGC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
749719 ACTTTTTAGTCCTCAAAAAGCAGGAT
1 ACTTTTCAGTCCTCAAAGAGCAGGAT
749745 ACACTTTATT
Statistics
Matches: 868, Mismatches: 77, Indels: 104
0.83 0.07 0.10
Matches are distributed among these distances:
54 47 0.05
55 476 0.55
56 22 0.03
59 23 0.03
60 71 0.08
61 218 0.25
62 4 0.00
64 5 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
ACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:748997 original size:116 final size:112
Alignment explanation
Indices: 748690--749744 Score: 1105
Period size: 116 Copynumber: 9.2 Consensus size: 112
748680 TTTTCCTTCT
* **
748690 ACTTTTGAGTCCTCAAAGAGCAGGATG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCCTTTT-C----AAAGCCCACACAAGTTGGTGGCACC
748754 TTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGC
61 TTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGC
* * * *
748811 AC-CTTCAGTCCTCAAAAAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCC--CT--TTTCAAAGCCCACACAAGTTGGTGGCACCT
748874 TTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
62 TT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
748926 A-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 ACTTTTC-AGTCCTCAAAGAGCAGGATGC----CCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* * ** * *
748990 TTTCAGTCCCCAAAGAGCAAGACACCTTTCGAAGCCCACACAAATTGGTGGC
61 TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
749042 ATTTTTCAGTCCTCAAAGAGCAGGA--CACCTCTT-AAAGCCCACA-AAGTTGGTGGCACCTTTC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
749103 TGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
65 AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* * *
749157 ACCTTTCAGTCCCCAAAGAGCAGGA--CACC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*** *
749218 TAGTCCTCAAAGAGCAGGGCACCTCTT-AAAGCCCACACATGTTGGTGGC
65 -AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
** * * *
749267 ACCATTCAGTCCTCGAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTCGTGGCACCT
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC----CCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * **
749332 TTCAGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
62 TTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
749383 A-TTTTCCAGTCCTCAAAGAGCAGGA--CACCTCTT-AAAGCCCACACAAGTTGGTGGCACATTT
1 ACTTTT-CAGTCCTCAAAGAGCAGGATGC-CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
749444 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
64 CAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
* *
749499 ACTTTTCAGTCCCCAAAGAGCAGGA--CACC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 ACTTTTCAGTCCTCAAAGAGCAGGATGC-CCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-
* ** *
749560 CAGTACTCAAAGAGCAGGACACCTCTT-AAAGCTCACACAAGTTGGTGGC
64 CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGC
* *
749609 ACCTTTCAGTCCTCAAAGAGTAGGATG-CC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 ACTTTTCAGTCCTCAAAGAGCAGGATGCCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
* * *
749672 GTCCTGAAAGAGCAGGATGCCTTTCAAAGCCCATACGAGTTGGTGGC
66 GTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
749719 ACTTTTTAGTCCTCAAAAAGCAGGAT
1 ACTTTTCAGTCCTCAAAGAGCAGGAT
749745 ACACTTTATT
Statistics
Matches: 807, Mismatches: 80, Indels: 105
0.81 0.08 0.11
Matches are distributed among these distances:
109 36 0.04
110 232 0.29
111 17 0.02
112 1 0.00
114 5 0.01
115 101 0.13
116 314 0.39
117 16 0.02
118 2 0.00
119 8 0.01
120 66 0.08
121 3 0.00
123 2 0.00
124 1 0.00
125 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (112 bp):
ACTTTTCAGTCCTCAAAGAGCAGGATGCCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:749355 original size:171 final size:171
Alignment explanation
Indices: 748727--749743 Score: 1563
Period size: 171 Copynumber: 6.0 Consensus size: 171
748717 CCTTTTCCTT
** *
748727 TTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT-AA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* * *
748791 AGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGACGCCTTCTCCTTTCAAAGCC
66 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA------CACCTTTCAAAGCC
**
748855 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCT-
125 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
748901 TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 TT-AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
* *
748965 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAAGACACCTTTCGAAGCCCACA
64 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
749030 CAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTC
129 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
749073 TTAAAGCCCACA-AAGTTGGTGGCACCTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
749137 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
66 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
749202 AGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGGCACCTC
131 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
749243 TTAAAGCCCACACATGTTGGTGGCACCATTCAGTCCTCGAAGAGCAGGATGCTTTTTCTTTTCAA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* *
749308 AGCCCACACAAGTTCGTGGCACCTTTCAGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACA
66 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
749373 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
131 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
749414 TTAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
*
749479 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
66 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
*
749544 AGTTGGTGGCATTTTCCAGTACTCAAAGAGCAGGACACCTC
131 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* *
749585 TTAAAGCTCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGC-----C-TTTCAA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
** ** * *
749644 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTGAAAGAGCAGGATGCCTTTCAAAGCCCATACG
66 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
749709 AGTTGGTGGCACTTTT-TAGTCCTCAAAAAGCAGGA
131 AGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
749744 TACACTTTAT
Statistics
Matches: 788, Mismatches: 47, Indels: 25
0.92 0.05 0.03
Matches are distributed among these distances:
165 91 0.12
166 5 0.01
170 157 0.20
171 430 0.55
172 2 0.00
174 7 0.01
175 53 0.07
176 25 0.03
177 18 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (171 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
Found at i:749504 original size:29 final size:29
Alignment explanation
Indices: 749471--749559 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 29
749461 GATGCTTTTT
749471 CTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCA
* **
749500 CTTTTC--AGTCCC-CA-AAG-AGCAGGACA
1 CTTTTCAAAG-CCCACACAAGTTGGTGG-CA
*
749526 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCA
749555 -TTTTC
1 CTTTTC
749560 CAGTACTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
25 3 0.07
26 10 0.22
27 7 0.16
28 11 0.24
29 11 0.24
30 3 0.07
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (29 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:749623 original size:29 final size:29
Alignment explanation
Indices: 749591--749676 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 29
749581 CCTCTTAAAG
749591 CTCACACAAGTTGGTGGCACCTTTCAGTC
1 CTCACACAAGTTGGTGGCACCTTTCAGTC
*
749620 CTCA-A-AGAGTAGGAT-G--CCTTTCAAAG-C
1 CTCACACA-AGTTGG-TGGCACCTTTC--AGTC
749647 C-CACACAAGTTGGTGGCACCTTTCAGTC
1 CTCACACAAGTTGGTGGCACCTTTCAGTC
749675 CT
1 CT
749677 GAAAGAGCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 22
0.65 0.03 0.32
Matches are distributed among these distances:
26 9 0.20
27 12 0.27
28 12 0.27
29 11 0.25
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (29 bp):
CTCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:750658 original size:13 final size:13
Alignment explanation
Indices: 750640--750665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
750630 CATTATTCCA
750640 TGTATCGATACAT
1 TGTATCGATACAT
750653 TGTATCGATACAT
1 TGTATCGATACAT
750666 GGATCTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:753141 original size:53 final size:51
Alignment explanation
Indices: 753016--753148 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
753006 TTGAGTTTCT
* * * * *
753016 CAATTCTCTGCAATCGGGGATATTCCCACTCCGATTTTATTTTCAAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * *
753067 TAATTTTCTATACTCGAGGATACTCCAACTCTGATTTTATTTCCAAAAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
753120 CAATTTT-TCACAATCGGGGATACTCCAAC
1 CAATTTTCT-ACAATCGGGGATACTCCAAC
753149 CCCGTTAATC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
51 34 0.52
52 1 0.02
53 30 0.46
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:753162 original size:27 final size:28
Alignment explanation
Indices: 753132--753206 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
753122 ATTTTTCACA
753132 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
753159 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
753187 -TGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
753207 TGCTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:753249 original size:79 final size:79
Alignment explanation
Indices: 753159--753335 Score: 268
Period size: 79 Copynumber: 2.2 Consensus size: 79
753149 CCCGTTAATC
* **
753159 ATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCTG-CTTTATTTTTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAAGGGATACTCCAACCCC-GACTTTATTTCCAAA
753222 ATATTGATTTCCCATA
64 ATATTGATTTCCCATA
*
753238 ATCGGGGATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTTCCAAAAT
*
753303 ATTGATTTCTCATA
66 ATTGATTTCCCATA
*
753317 ATCGGGGATACTTCAACCC
1 ATCGGGGATACTCCAACCC
753336 TGGTTTTATT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 84 0.94
80 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTTCCAAAAT
ATTGATTTCCCATA
Found at i:753480 original size:52 final size:51
Alignment explanation
Indices: 753270--753488 Score: 205
Period size: 51 Copynumber: 4.3 Consensus size: 51
753260 TATTTTCGAA
* * *** *
753270 GGGATACTCCAACCCCGACTTTATTTC-CAAAATATTGA-TTTCTCATAATCG
1 GGGATACTCCAA-CCCGATTTTATTTCTCAAAACACCAATTTTC-CACAATCG
* * **
753321 GGGATACTTCAACCCTGGTTTTATTTCT-AAAACATTAATTTTCCACAATCG
1 GGGATACTCCAACCC-GATTTTATTTCTCAAAACACCAATTTTCCACAATCG
* **
753372 GGGATACTCC-ACCCCAGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCGA-TTTTATTTCTCAAAACACCAATTTTCC-ACAATCG
* *
753423 GGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAAC-CCGATTTTATTTCTCAAAACACCAATTTTCCACAATCG
*
753475 AGGATACTCCAACC
1 GGGATACTCCAACC
753489 TCATTATTTC
Statistics
Matches: 140, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
49 1 0.01
50 29 0.21
51 60 0.43
52 31 0.22
53 19 0.14
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCGATTTTATTTCTCAAAACACCAATTTTCCACAATCG
Found at i:753508 original size:28 final size:28
Alignment explanation
Indices: 753477--753551 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
753467 CACAATCGAG
*
753477 GATACTCCAACCTCATTAT-TTC-ATCGGA
1 GATACTCCAACCCCATTATCTTCGA--GGA
*
753505 GATACTCCAACCCCATTATCTTCGAGGG
1 GATACTCCAACCCCATTATCTTCGAGGA
*
753533 GATACTCCAACCCCGTTAT
1 GATACTCCAACCCCATTAT
753552 TATCTCCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 38 0.90
29 3 0.07
30 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
GATACTCCAACCCCATTATCTTCGAGGA
Found at i:756332 original size:31 final size:31
Alignment explanation
Indices: 756294--756355 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
756284 ATACTAACTT
756294 AAACATTAACCATAGATTGGACATGATGGAA
1 AAACATTAACCATAGATTGGACATGATGGAA
756325 AAACATTAACCATAGATTGGACATGATGGAA
1 AAACATTAACCATAGATTGGACATGATGGAA
756356 TGCATGGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (31 bp):
AAACATTAACCATAGATTGGACATGATGGAA
Found at i:757356 original size:20 final size:21
Alignment explanation
Indices: 757331--757383 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
757321 CACATGGTCC
757331 TGTATCGATACATT-CACTTA-
1 TGTATCGATACATTAC-CTTAT
757351 TGTATCGATACATTACCTTAT
1 TGTATCGATACATTACCTTAT
757372 TGTATCGATACA
1 TGTATCGATACA
757384 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTACCTTAT
Found at i:757602 original size:16 final size:17
Alignment explanation
Indices: 757581--757618 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
757571 TCTACACAAA
757581 TAAATT-ATA-AAAGTTT
1 TAAATTCATATAAA-TTT
757597 TAAATTCATATAAATTT
1 TAAATTCATATAAATTT
757614 TAAAT
1 TAAAT
757619 GCCTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 11 0.55
18 3 0.15
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTCATATAAATTT
Found at i:758256 original size:19 final size:20
Alignment explanation
Indices: 758231--758285 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
758221 GTATCAATAT
758231 ATTGTATCGATACATGCTC-
1 ATTGTATCGATACATGCTCA
* *
758250 CTTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
758270 ATTGTATCGATACATG
1 ATTGTATCGATACATG
758286 AAATTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:758348 original size:13 final size:13
Alignment explanation
Indices: 758330--758359 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
758320 GATACATAGG
*
758330 ACATTGTATCGAT
1 ACATTGTATCAAT
758343 ACATTGTATCAAT
1 ACATTGTATCAAT
758356 ACAT
1 ACAT
758360 GATGAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:767160 original size:20 final size:20
Alignment explanation
Indices: 767135--767172 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
767125 CTACCCTAAG
767135 TGAAATGTATCGATACATGA
1 TGAAATGTATCGATACATGA
767155 TGAAATGTATCGATACAT
1 TGAAATGTATCGATACAT
767173 TGTATTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACATGA
Found at i:770593 original size:13 final size:13
Alignment explanation
Indices: 770575--770599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
770565 AGGTTGCACA
770575 GTATCGATACATT
1 GTATCGATACATT
770588 GTATCGATACAT
1 GTATCGATACAT
770600 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:770749 original size:33 final size:32
Alignment explanation
Indices: 770693--770756 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
770683 TAACTGTTTG
*
770693 TATCGATACACCCAATATGTATCGATACATTA
1 TATCGATACACCCAAAATGTATCGATACATTA
*
770725 TATCGATACATCCCAAAATTTATCGATACATT
1 TATCGATACA-CCCAAAATGTATCGATACATT
770757 GGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (32 bp):
TATCGATACACCCAAAATGTATCGATACATTA
Found at i:771965 original size:33 final size:32
Alignment explanation
Indices: 771909--771972 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
771899 TAACTGTTTG
*
771909 TATCGATACACCCAATATGTATCGATACATTA
1 TATCGATACACCCAAAATGTATCGATACATTA
*
771941 TATCGATACATCCCAAAATTTATCGATACATT
1 TATCGATACA-CCCAAAATGTATCGATACATT
771973 GGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (32 bp):
TATCGATACACCCAAAATGTATCGATACATTA
Found at i:777890 original size:8 final size:8
Alignment explanation
Indices: 777877--777902 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
777867 TTTGATTAAA
777877 ATTTTGTG
1 ATTTTGTG
777885 ATTTTGTG
1 ATTTTGTG
777893 ATTTTGTG
1 ATTTTGTG
777901 AT
1 AT
777903 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:778122 original size:13 final size:13
Alignment explanation
Indices: 778104--778141 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
778094 CAGCATTCTC
*
778104 TGTATCGATACAT
1 TGTATCGATACAG
778117 TGTATCGATACAG
1 TGTATCGATACAG
778130 TGTATCGATACA
1 TGTATCGATACA
778142 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:778308 original size:20 final size:20
Alignment explanation
Indices: 778273--778313 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
778263 CAAATTTCTT
778273 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
778295 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
778314 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:778601 original size:20 final size:21
Alignment explanation
Indices: 778561--778602 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
778551 CCCTTAGGCA
* *
778561 GCACCCACCAGGTTGCGACCG
1 GCACCCACCAGGTCGCAACCG
778582 GCACCC-CCAGGTCGCAACCG
1 GCACCCACCAGGTCGCAACCG
778602 G
1 G
778603 GCAGCCCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.19, C:0.45, G:0.29, T:0.07
Consensus pattern (21 bp):
GCACCCACCAGGTCGCAACCG
Found at i:780013 original size:22 final size:22
Alignment explanation
Indices: 779988--780032 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
779978 CGAAATTGTT
779988 AAATTATTTT-ACTAAGGGAGAG
1 AAATT-TTTTGACTAAGGGAGAG
* *
780010 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGAGAG
780032 A
1 A
780033 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGAGAG
Found at i:780604 original size:13 final size:13
Alignment explanation
Indices: 780586--780610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
780576 AGGTTGCACA
780586 GTATCGATACATT
1 GTATCGATACATT
780599 GTATCGATACAT
1 GTATCGATACAT
780611 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:780623 original size:20 final size:20
Alignment explanation
Indices: 780598--780654 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
780588 ATCGATACAT
780598 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
* **
780618 TGTATCGATACTTGAAATAAA
1 TGTATCGATACATG-ACCAAA
780639 TGTATCGATACATGAC
1 TGTATCGATACATGAC
780655 ATTGGCAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:780729 original size:13 final size:13
Alignment explanation
Indices: 780711--780736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
780701 ACACCCAATA
780711 TGTATCGATACAT
1 TGTATCGATACAT
780724 TGTATCGATACAT
1 TGTATCGATACAT
780737 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:780731 original size:32 final size:33
Alignment explanation
Indices: 780691--780758 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
780681 CCTTAATTGT
*
780691 TTGTATCGATACA-CCCAATATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
780723 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
780756 TTG
1 TTG
780759 GCTTGTAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCCCAAAATGTATCGATACA
Found at i:781049 original size:31 final size:29
Alignment explanation
Indices: 781007--781073 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
780997 AAGATCAAAG
781007 TATTTTATATTTTCAAGAGCT-TTTGTTTT
1 TATTTTATATTTTCAA-AGCTCTTTGTTTT
781036 TATTGTTATTATTTTCAAAGCTCTTTGTATTT
1 TATT-TTA-TATTTTCAAAGCTCTTTGT-TTT
*
781068 GATTTT
1 TATTTT
781074 GAGCTTACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.12
30 7 0.21
31 16 0.48
32 6 0.18
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.61
Consensus pattern (29 bp):
TATTTTATATTTTCAAAGCTCTTTGTTTT
Found at i:782286 original size:11 final size:11
Alignment explanation
Indices: 782257--782289 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
782247 TAATTCAATT
*
782257 AATAAAATTAT
1 AATAAAATTAA
782268 AA-AAAATTAA
1 AATAAAATTAA
782278 AATAAAATTAA
1 AATAAAATTAA
782289 A
1 A
782290 TTAGAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:790804 original size:22 final size:22
Alignment explanation
Indices: 790778--790826 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
790768 GTATATTTAA
790778 CAAATCTTATATATACACTTAT
1 CAAATCTTATATATACACTTAT
* **
790800 CAAATCTTATCTATACTTTTAT
1 CAAATCTTATATATACACTTAT
790822 CAAAT
1 CAAAT
790827 ATATGCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (22 bp):
CAAATCTTATATATACACTTAT
Found at i:794461 original size:3 final size:3
Alignment explanation
Indices: 794453--794484 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
794443 TGACATTGAA
794453 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
794485 ATTTGGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:798546 original size:14 final size:15
Alignment explanation
Indices: 798527--798561 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
798517 ACAAGGGCTT
798527 ATAATTCA-CATGCC
1 ATAATTCACCATGCC
*
798541 ATAATTTACCATGCC
1 ATAATTCACCATGCC
798556 ATAATT
1 ATAATT
798562 AAAAGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (15 bp):
ATAATTCACCATGCC
Found at i:803418 original size:14 final size:14
Alignment explanation
Indices: 803401--803433 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
803391 AAATTTTATT
803401 TTAATTATTTTTAA
1 TTAATTATTTTTAA
803415 TTAA-TATTTTTAA
1 TTAATTATTTTTAA
*
803428 GTAATT
1 TTAATT
803434 TCATCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTAATTATTTTTAA
Found at i:805005 original size:17 final size:18
Alignment explanation
Indices: 804968--805008 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
804958 TAATTTTAAA
804968 TTTTATTTTAAATAATAT
1 TTTTATTTTAAATAATAT
* *
804986 TTTTATTTTATA-AATTT
1 TTTTATTTTAAATAATAT
805003 TTTTAT
1 TTTTAT
805009 AATTTGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTTTAAATAATAT
Found at i:805576 original size:17 final size:18
Alignment explanation
Indices: 805532--805578 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
805522 TTTAAAATTT
805532 TTAGGTATTTTTAAGAAA
1 TTAGGTATTTTTAAGAAA
805550 TTA-GT-TTTTTAAGAAA
1 TTAGGTATTTTTAAGAAA
*
805566 -TAGGTAATTTTAA
1 TTAGGTATTTTTAA
805579 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 8 0.31
18 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTAGGTATTTTTAAGAAA
Found at i:806795 original size:20 final size:20
Alignment explanation
Indices: 806770--806808 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
806760 AAAAAAGCTT
806770 TTAAATTATTTA-ATTTTTAA
1 TTAAATT-TTTATATTTTTAA
806790 TTAAATTTTTATATTTTTA
1 TTAAATTTTTATATTTTTA
806809 TTTTACCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAAATTTTTATATTTTTAA
Found at i:806972 original size:29 final size:29
Alignment explanation
Indices: 806907--806975 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
806897 TTTATTAATG
* *
806907 TATAAATTAAAATTTAAATATTTATTTGA
1 TATAAATTAAAATTTAAAAACTTATTTGA
*
806936 TATTAATTAAAA-TTAAAAACTTATTTGGA
1 TATAAATTAAAATTTAAAAACTTATTT-GA
*
806965 TGTAAATTAAA
1 TATAAATTAAA
806976 TATTGAGAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (29 bp):
TATAAATTAAAATTTAAAAACTTATTTGA
Found at i:807430 original size:13 final size:13
Alignment explanation
Indices: 807412--807437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
807402 TACACAAAGT
807412 ATGTATCGATACA
1 ATGTATCGATACA
807425 ATGTATCGATACA
1 ATGTATCGATACA
807438 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:807435 original size:32 final size:33
Alignment explanation
Indices: 807394--807457 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
807384 TAGCCAAACT
**
807394 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
807426 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
807458 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:813625 original size:13 final size:13
Alignment explanation
Indices: 813607--813631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
813597 CATTTTTCTT
813607 TGTATCGATACAC
1 TGTATCGATACAC
813620 TGTATCGATACA
1 TGTATCGATACA
813632 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:813786 original size:20 final size:20
Alignment explanation
Indices: 813743--813788 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
813733 AAATCTTTTG
813743 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
813764 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
813784 CAAAA
1 CAAAA
813789 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:814104 original size:21 final size:20
Alignment explanation
Indices: 814056--814096 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
814046 CCCCTAAGCA
* **
814056 GCACTACCAGGTCATGACCG
1 GCACTCCCAGGTCACAACCG
814076 GCACTCCCAGGTCACAACCG
1 GCACTCCCAGGTCACAACCG
814096 G
1 G
814097 GCAGTCCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (20 bp):
GCACTCCCAGGTCACAACCG
Found at i:816212 original size:13 final size:13
Alignment explanation
Indices: 816194--816219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
816184 TACACAAAGT
816194 ATGTATCGATACA
1 ATGTATCGATACA
816207 ATGTATCGATACA
1 ATGTATCGATACA
816220 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:816217 original size:32 final size:33
Alignment explanation
Indices: 816176--816239 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
816166 TAGCCAAACT
**
816176 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
816208 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
816240 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:820976 original size:2 final size:2
Alignment explanation
Indices: 820969--821000 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
820959 ACAGAGCAAT
820969 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
821001 CATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:824546 original size:36 final size:36
Alignment explanation
Indices: 824488--824560 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
824478 AGCATGCATT
824488 GTTGCTATTTGGGCTTTCCTATG-AAGGGTATCCTA
1 GTTGCTATTTGGGCTTTCCTATGAAAGGGTATCCTA
*
824523 GTTGCTATGTTGGGGTGTT-CTATGAAAGGGTATCCTA
1 GTTGCTAT-TTGGGCT-TTCCTATGAAAGGGTATCCTA
824560 G
1 G
824561 GAAATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 8 0.24
36 11 0.32
37 15 0.44
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (36 bp):
GTTGCTATTTGGGCTTTCCTATGAAAGGGTATCCTA
Found at i:829364 original size:14 final size:14
Alignment explanation
Indices: 829339--829373 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
829329 TTGAGTTGTC
829339 ACTCAGTAGTAATTT
1 ACTCA-TAGTAATTT
829354 ACTCATAGTAATTT
1 ACTCATAGTAATTT
829368 ACTCAT
1 ACTCAT
829374 GGACTAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (14 bp):
ACTCATAGTAATTT
Found at i:830261 original size:36 final size:36
Alignment explanation
Indices: 830214--830285 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
830204 GTGTATTGAC
*
830214 AATCTCTCTTTGGGTGAGAGGGTTCACAAATTTTCT
1 AATCTCTCTTTGGCTGAGAGGGTTCACAAATTTTCT
830250 AATCTCTCTTTGGCTGAGAGGGTTCACAAATTTTCT
1 AATCTCTCTTTGGCTGAGAGGGTTCACAAATTTTCT
830286 TTCTTTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (36 bp):
AATCTCTCTTTGGCTGAGAGGGTTCACAAATTTTCT
Found at i:830308 original size:2 final size:2
Alignment explanation
Indices: 830301--830356 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
830291 TTCATTTTAT
* ** **
830301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA GG TA TA GG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
830343 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
830357 ATACTTGTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:837195 original size:97 final size:97
Alignment explanation
Indices: 837061--837299 Score: 327
Period size: 97 Copynumber: 2.5 Consensus size: 97
837051 TGAAAAACAG
* * *
837061 GGTTGGAGTATTCCGTTGGAGGAATGGGGTT-AGAGTGTCCCCGATGATGACAATAGAAGTGAGA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGA-AGTGTCCCCGATGATGACAATAGAAGTGAGA
837125 ATAAGATTTAAACTTTGATGCATTTAAAAGCGA
65 ATAAGATTTAAACTTTGATGCATTTAAAAGCGA
* * * **
837158 GGTTGGAGTATCCCCTCAGAGGAATGGGGTTGAAGTGTCCCTGATGGTGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATAGAAGTGAGAA
* **
837223 TAATATTTAAACTTTGATGTGTTTAAAAGCGA
66 TAAGATTTAAACTTTGATGCATTTAAAAGCGA
* * * *
837255 GGTTGGAGTATCCCCTCGGAAGAATCGGGTTGAAGTATCCTCGAT
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGAT
837300 AAATAAAATT
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
97 123 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (97 bp):
GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATAGAAGTGAGAA
TAAGATTTAAACTTTGATGCATTTAAAAGCGA
Found at i:837685 original size:13 final size:13
Alignment explanation
Indices: 837667--837691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
837657 CATTATGCTT
837667 TGTATCGATACAG
1 TGTATCGATACAG
837680 TGTATCGATACA
1 TGTATCGATACA
837692 TGGCACAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:837741 original size:33 final size:34
Alignment explanation
Indices: 837666--837744 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
837656 ACATTATGCT
* ** *
837666 TTGTATCGATACAGTGTATCGATACATGGCACAA
1 TTGTATCGATACAATGTAGAGATACATGGAACAA
* *
837700 -TGTTTCGATACAATGTAGAGATACAT-GAAGAA
1 TTGTATCGATACAATGTAGAGATACATGGAACAA
837732 TTGTATCGATACA
1 TTGTATCGATACA
837745 TTGCCTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (34 bp):
TTGTATCGATACAATGTAGAGATACATGGAACAA
Found at i:847137 original size:13 final size:13
Alignment explanation
Indices: 847119--847158 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
847109 ACAATGTTTT
847119 TTGTATCGATACA
1 TTGTATCGATACA
847132 TTGTATCGATACA
1 TTGTATCGATACA
*
847145 CTGTATCGATACA
1 TTGTATCGATACA
847158 T
1 T
847159 AGGTTACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:848651 original size:33 final size:33
Alignment explanation
Indices: 848614--848680 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
848604 CGAGAGTTGA
*
848614 TCACTTCACTTTCGCAGCGCATGGATGAGTACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGAACT
848647 TCACTTCACTTTCGCAGCGCATGGATGAGAACT
1 TCACTTCACTTTCGCAGCGCATGGATGAGAACT
848680 T
1 T
848681 TAGTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (33 bp):
TCACTTCACTTTCGCAGCGCATGGATGAGAACT
Found at i:854256 original size:96 final size:97
Alignment explanation
Indices: 854074--854291 Score: 294
Period size: 96 Copynumber: 2.3 Consensus size: 97
854064 TGAAAAATAA
* * * **
854074 AGTTGGAGTATTCCCTTGGAGGAATGGGGTTGGTGTGTCCCCGATGATGACAATAGAAGTGAGAA
1 AGTTGGAGTATTCCCTCGAAGGAATGGAGTTGAAGTGTCCCCGATGATGACAATAGAAGTGAGAA
*
854139 TAAGATTTAAACTTTGATGTGTTGAAAAGTGG
66 TAAGATTTAAACTTTGATGTGTTGAAAAGCGG
* * **
854171 AGTTGGAGTATTCCCTCGAAGGAATGGAGTTGAAGTGT-CCTGATGGTGACAATTTAAGTGAGAA
1 AGTTGGAGTATTCCCTCGAAGGAATGGAGTTGAAGTGTCCCCGATGATGACAATAGAAGTGAGAA
* *
854235 TAATATTTAAACTTTGATGTGTTTAAAAGCGG
66 TAAGATTTAAACTTTGATGTGTTGAAAAGCGG
* * *
854267 GGTTGGAGTATCCCCTCGAAAGAAT
1 AGTTGGAGTATTCCCTCGAAGGAAT
854292 AGGGTTGGAG
Statistics
Matches: 106, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 73 0.69
97 33 0.31
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (97 bp):
AGTTGGAGTATTCCCTCGAAGGAATGGAGTTGAAGTGTCCCCGATGATGACAATAGAAGTGAGAA
TAAGATTTAAACTTTGATGTGTTGAAAAGCGG
Found at i:854694 original size:13 final size:13
Alignment explanation
Indices: 854676--854700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
854666 CATTATGCTT
854676 TGTATCGATACAA
1 TGTATCGATACAA
854689 TGTATCGATACA
1 TGTATCGATACA
854701 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:854697 original size:33 final size:32
Alignment explanation
Indices: 854655--854719 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
854645 ACACTTTCAG
*
854655 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
854688 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
854720 TGAACAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:854713 original size:19 final size:20
Alignment explanation
Indices: 854687--854743 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
854677 GTATCGATAC
**
854687 AATGTATCGATACATGTTC-
1 AATGTATCGATACATGAACA
*
854706 ATTGTATCGATACATGAACA
1 AATGTATCGATACATGAACA
854726 AATGTATCGATACATGAA
1 AATGTATCGATACATGAA
854744 ACTAGCAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATGAACA
Found at i:854733 original size:20 final size:19
Alignment explanation
Indices: 854685--854743 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
854675 TTGTATCGAT
*
854685 ACAATGTATCGATACATGT
1 ACAATGTATCGATACATGA
* *
854704 TCATTGTATCGATACATGA
1 ACAATGTATCGATACATGA
854723 ACAAATGTATCGATACATGA
1 AC-AATGTATCGATACATGA
854743 A
1 A
854744 ACTAGCAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
ACAATGTATCGATACATGA
Found at i:854869 original size:20 final size:20
Alignment explanation
Indices: 854844--854894 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
854834 TTCAAATGCA
854844 TGTATCGATACATTACGAAT
1 TGTATCGATACATTACGAAT
* *
854864 TGTATCGATACATTATGAGT
1 TGTATCGATACATTACGAAT
854884 TGTATCGATAC
1 TGTATCGATAC
854895 GTAGCAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTACGAAT
Found at i:859945 original size:29 final size:29
Alignment explanation
Indices: 859883--860269 Score: 425
Period size: 28 Copynumber: 13.7 Consensus size: 29
859873 AAAAGGGTTA
**
859883 CCACTGACTTGTGGGCTTTCAAAAGG-TG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* * * *
859911 TCATTGACTTGTTGGCTTTTGAAAATG-TG
1 CCACTGACTTGTGGGCTTTTG-AAAGGATG
* **
859940 CCATTGACTTGTTAGCTTTTGAAAGG-TG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* * *
859968 CCACTGATTTGTTGGCTTTTGAAAAG-TG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
859996 CCACTGACTTGTGGGC-TTTGAAAGG-TG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
860023 CCACTGACTTGTGGGC-TTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* * *
860051 CCACTGACTTGTGGGGTTTTAAAAGGATA
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* *
860080 CCATTGACTTGTGGGGTTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* * *
860109 CCATTGACTTATGGGC-TTTGAAATGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
860137 CCACTGACTTGTGGGC-TTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* * *
860165 CCACTGACTTGTAGAC-TATGAAAGGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
*
860193 CCAATGACTTGTGGGCTTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* ** *
860222 CCATTGACTTGTGGGCTTTAAAAAGAATG
1 CCACTGACTTGTGGGCTTTTGAAAGGATG
* *
860251 CCATTGAGTTGTGGGCTTT
1 CCACTGACTTGTGGGCTTT
860270 AAAAAGGGTC
Statistics
Matches: 315, Mismatches: 40, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
27 35 0.11
28 151 0.48
29 129 0.41
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (29 bp):
CCACTGACTTGTGGGCTTTTGAAAGGATG
Found at i:859958 original size:57 final size:56
Alignment explanation
Indices: 859883--860269 Score: 404
Period size: 57 Copynumber: 6.8 Consensus size: 56
859873 AAAAGGGTTA
* * * *
859883 CCACTGACTTGTGGGCTTTCAAAAGGTGTCATTGACTTGTTGGCTTTTGAAAATG-TG
1 CCACTGACTTGTGGGCTTT-AAAAGGTGCCACTGACTTGTGGGCTTTTG-AAAGGATG
* ** * * * *
859940 CCATTGACTTGTTAGCTTTTGAAAGGTGCCACTGATTTGTTGGCTTTTGAAAAG-TG
1 CCACTGACTTGTGGGC-TTTAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGGATG
*
859996 CCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGC-TTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGGATG
* * * *
860051 CCACTGACTTGTGGGGTTTTAAAAGGATACCATTGACTTGTGGGGTTTTGAAAGGATG
1 CCACTGACTTGT-GGGCTTTAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAAGGATG
* * * *
860109 CCATTGACTTATGGGCTTTGAAATGATGCCACTGACTTGTGGGC-TTTGAAAGGATG
1 CCACTGACTTGTGGGCTTT-AAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGGATG
* * * * *
860165 CCACTGACTTGTAGACTATGAAAGGATGCCAATGACTTGTGGGCTTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTAAAAGG-TGCCACTGACTTGTGGGCTTTTGAAAGGATG
* * * *
860222 CCATTGACTTGTGGGCTTTAAAAAGAATGCCATTGAGTTGTGGGCTTT
1 CCACTGACTTGTGGGCTTT-AAAAG-GTGCCACTGACTTGTGGGCTTT
860270 AAAAAGGGTC
Statistics
Matches: 276, Mismatches: 44, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
54 8 0.03
55 42 0.15
56 73 0.26
57 101 0.37
58 52 0.19
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (56 bp):
CCACTGACTTGTGGGCTTTAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAGGATG
Found at i:860207 original size:142 final size:140
Alignment explanation
Indices: 859915--860275 Score: 465
Period size: 142 Copynumber: 2.6 Consensus size: 140
859905 AAGGTGTCAT
* * * ** * *
859915 TGACTTGTTGGCTTTTGAAAATG-TGCCATTGACTTGTTAGCTTTTGAAAGG-TGCCACTGATTT
1 TGACTTGTGGGCTTTT-AAAAGGATACCATTGACTTGTGGGCTTTTGAAAGGATGCCATTGACTT
* * * *
859978 GTTGGCTTTTGAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTG
65 GTGGGC-TTTGAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTAGACTATG
*
860043 AAAGGATGCCAC
129 AAAGGATGCCAA
* * *
860055 TGACTTGTGGGGTTTTAAAAGGATACCATTGACTTGTGGGGTTTTGAAAGGATGCCATTGACTTA
1 TGACTTGTGGGCTTTTAAAAGGATACCATTGACTTGTGGGCTTTTGAAAGGATGCCATTGACTTG
*
860120 TGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGACTATG
66 TGGGCTTTGAAAAG-TGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTTGTAGACTATG
860185 AAAGGATGCCAA
129 AAAGGATGCCAA
* * ** * *
860197 TGACTTGTGGGCTTTTGAAAGGATGCCATTGACTTGTGGGCTTTAAAAAGAATGCCATTGAGTTG
1 TGACTTGTGGGCTTTTAAAAGGATACCATTGACTTGTGGGCTTTTGAAAGGATGCCATTGACTTG
*
860262 TGGGCTTTAAAAAG
66 TGGGCTTTGAAAAG
860276 GGTCATATTG
Statistics
Matches: 190, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
139 5 0.03
140 46 0.24
141 41 0.22
142 98 0.52
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (140 bp):
TGACTTGTGGGCTTTTAAAAGGATACCATTGACTTGTGGGCTTTTGAAAGGATGCCATTGACTTG
TGGGCTTTGAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTAGACTATGAA
AGGATGCCAA
Found at i:860286 original size:29 final size:29
Alignment explanation
Indices: 859862--860275 Score: 258
Period size: 29 Copynumber: 14.6 Consensus size: 29
859852 CACCAACTTG
** * *
859862 TGTGGGCTTTAAAAAGGGTTACCACTGACT
1 TGTGGGCTTTAAAAA-GAATGCCATTGACT
* * *
859892 TGTGGGCTTTCAAAAG-GTGTCATTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* *
859920 TGTTGGCTTTTGAAAATG--TGCCATTGACT
1 TGTGGGC-TTT-AAAAAGAATGCCATTGACT
** ** * * *
859949 TGTTAGCTTTTGAAAG-GTGCCACTGATT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * *
859977 TGTTGGCTTTTGAAAAG--TGCCACTGACT
1 TGTGGGC-TTTAAAAAGAATGCCATTGACT
* * *
860005 TGTGGGCTTT-GAAAG-GTGCCACTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * *
860032 TGTGGGCTTT-GAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * * *
860060 TGTGGGGTTTTAAAAGGATACCATTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* ** *
860089 TGTGGGGTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * * *
860118 TATGGGCTTTGAAATG-ATGCCACTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * *
860146 TGTGGGCTTT-GAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
* * * * * *
860174 TGTAGACTAT-GAAAGGATGCCAATGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
** *
860202 TGTGGGCTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
*
860231 TGTGGGCTTTAAAAAGAATGCCATTGAGT
1 TGTGGGCTTTAAAAAGAATGCCATTGACT
860260 TGTGGGCTTTAAAAAG
1 TGTGGGCTTTAAAAAG
860276 GGTCATATTG
Statistics
Matches: 326, Mismatches: 49, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.01
27 35 0.11
28 131 0.40
29 138 0.42
30 18 0.06
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTAAAAAGAATGCCATTGACT
Found at i:861572 original size:10 final size:10
Alignment explanation
Indices: 861557--861589 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
861547 GGACCCCTCC
861557 TTTTTGTGTT
1 TTTTTGTGTT
861567 TTTTTGTGTT
1 TTTTTGTGTT
861577 TTTTT-TGTT
1 TTTTTGTGTT
861586 TTTT
1 TTTT
861590 AAGAAGGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTGTGTT
Found at i:873109 original size:97 final size:96
Alignment explanation
Indices: 873008--873199 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 96
872998 TATCCTCTTG
* *
873008 GAGGAATGGGGTTGGAA-TGTCCCCGATGATGACAATTTAAGTGAGAATAAGATTTAAACTTTGA
1 GAGGAATGGAGTT-GAAGTATCCCCGATGATGACAATTTAAGTGAGAATAAGATTTAAACTTTGA
873072 TGTGTTTAAAAGC-AGGGTTGGAATATCCCCTCA
65 TGTG-TTAAAAGCGA-GGTTGGAATATCCCCTCA
* * *
873105 GAGGAATGGAGTTGAAGTATCCCCGATGGTGATAATTTAAGTGAGAATATGATTTAAACTTTGAT
1 GAGGAATGGAGTTGAAGTATCCCCGATGATGACAATTTAAGTGAGAATAAGATTTAAACTTTGAT
*
873170 GTGTTAAAAGCGAGGTTGGAGTATCCCCTC
66 GTGTTAAAAGCGAGGTTGGAATATCCCCTC
873200 GGAAGAATAA
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
96 27 0.31
97 60 0.69
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (96 bp):
GAGGAATGGAGTTGAAGTATCCCCGATGATGACAATTTAAGTGAGAATAAGATTTAAACTTTGAT
GTGTTAAAAGCGAGGTTGGAATATCCCCTCA
Found at i:874949 original size:11 final size:11
Alignment explanation
Indices: 874914--874962 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
874904 TTTCTATTTC
874914 TTCTCTTTTTTCT
1 TTCTC-TTTTT-T
874927 TTCTCCCTTTTTT
1 TTCT--CTTTTTT
874940 TTCTCTTTTTT
1 TTCTCTTTTTT
*
874951 TTTTCTTTTTT
1 TTCTCTTTTTT
874962 T
1 T
874963 AGTTGAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 18 0.55
13 9 0.27
14 5 0.15
15 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTCTTTTTT
Found at i:874950 original size:13 final size:13
Alignment explanation
Indices: 874914--874962 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
874904 TTTCTATTTC
*
874914 TTCTCTTTTTTCT
1 TTCTCTTTTTTTT
**
874927 TTCTCCCTTTTTT
1 TTCTCTTTTTTTT
874940 TTCTCTTTTTTTT
1 TTCTCTTTTTTTT
874953 TTCT-TTTTTT
1 TTCTCTTTTTT
874963 AGTTGAACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
12 6 0.19
13 25 0.81
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTCTTTTTTTT
Found at i:884034 original size:20 final size:20
Alignment explanation
Indices: 884006--884060 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
883996 CCTTGAAATA
884006 TATCAATACAACTAGAATTG
1 TATCAATACAACTAGAATTG
* * **
884026 TATCGATACACAATAGTGTTG
1 TATCAATACA-ACTAGAATTG
*
884047 TATCCATACAACTA
1 TATCAATACAACTA
884061 TTCCATATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (20 bp):
TATCAATACAACTAGAATTG
Found at i:885303 original size:24 final size:24
Alignment explanation
Indices: 885276--885343 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 24
885266 ATTGTATCAA
885276 CATATTGTTTAAACATCAATGCAT
1 CATATTGTTTAAACATCAATGCAT
* * *
885300 CATATTGTAACTATCAACATCATTGTAT
1 CATATTGT---T-TAAACATCAATGCAT
*
885328 CATATTATTTAAACAT
1 CATATTGTTTAAACAT
885344 GGATCTTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 14 0.40
25 1 0.03
27 1 0.03
28 19 0.54
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (24 bp):
CATATTGTTTAAACATCAATGCAT
Found at i:896466 original size:24 final size:23
Alignment explanation
Indices: 896436--896480 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
896426 TAAAGTCAAA
896436 TCAAATCAAATTTAAATAAATTGC
1 TCAAATCAAA-TTAAATAAATTGC
* *
896460 TCAAATCATATTAAATTAATT
1 TCAAATCAAATTAAATAAATT
896481 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (23 bp):
TCAAATCAAATTAAATAAATTGC
Found at i:897577 original size:17 final size:16
Alignment explanation
Indices: 897530--897577 Score: 87
Period size: 16 Copynumber: 2.9 Consensus size: 16
897520 TGAATTTGAG
897530 TCATTTTCGGTTCGAA
1 TCATTTTCGGTTCGAA
897546 TCATTTTCGGTTCGAA
1 TCATTTTCGGTTCGAA
897562 TCATTTTCGAGTTCGA
1 TCATTTTCG-GTTCGA
897578 GTTAGTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 25 0.81
17 6 0.19
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
TCATTTTCGGTTCGAA
Found at i:898721 original size:20 final size:20
Alignment explanation
Indices: 898696--898749 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
898686 ATTACAAGCA
*
898696 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
898716 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
898736 ATGTATCGATACAA
1 ATGTATCGATACAA
898750 ACAGTAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:898817 original size:13 final size:13
Alignment explanation
Indices: 898799--898825 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
898789 ACAATTGTCC
898799 ATGTATCGATACA
1 ATGTATCGATACA
898812 ATGTATCGATACA
1 ATGTATCGATACA
898825 A
1 A
898826 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:900416 original size:3 final size:3
Alignment explanation
Indices: 900408--900436 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
900398 TTTAATTAAA
900408 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
900437 ATATAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:900442 original size:9 final size:10
Alignment explanation
Indices: 900407--900468 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 10
900397 TTTTAATTAA
900407 AAATAATAAT
1 AAATAATAAT
900417 -AATAATAAT
1 AAATAATAAT
900426 -AATAATAAT
1 AAATAATAAT
900435 AAAT-ATAATT
1 AAATAATAA-T
900445 AAATAATTAA-
1 AAATAA-TAAT
900455 AAA-AATAATT
1 AAATAATAA-T
900465 AAAT
1 AAAT
900469 TTACATCTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.07
9 24 0.53
10 14 0.31
11 1 0.02
12 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATAATAAT
Found at i:905769 original size:207 final size:206
Alignment explanation
Indices: 905415--905813 Score: 708
Period size: 207 Copynumber: 1.9 Consensus size: 206
905405 AAAAGCAATC
*
905415 CGAAAAACTTAAGATGGGAAGAATAAAAAAGAAAAGAAATAAGATTTTCTAGTAGTTTTTTTTCT
1 CGAAAAACTTAAGATGGGAAGAATAAAAAAGAAAAGAAATAAGATTTTCTAATAGTTTTTTTTCT
*
905480 AAACCAAGGAAGTATATTTATAGGCTATTTCATATCTGTTTAAACAAGCATATCTTAGTCCAAAA
66 AAACCAAAGAAGTATATTTATAGGCTATTTCATATCTGTTTAAACAAGCATATCTTAGTCCAAAA
*
905545 GAGATATCTATCTGTATAAACATAATTTAATAAAATAATATGTCTGTTTAAGATAGTTCCAAAAG
131 GAGATATCTATCTGTATAAACATAATTTAATAAAATAATATGTCTGTTTAAGACAGTTCCAAAAG
905610 AGATATCTATT
196 AGATATCTATT
*
905621 CGAAAAACTTAAGATGGGGAAGAATAAAAAAGAAAAGAAATAAGATTTTTTAATAGTTTTTTTTC
1 CGAAAAACTTAAGAT-GGGAAGAATAAAAAAGAAAAGAAATAAGATTTTCTAATAGTTTTTTTTC
* * * *
905686 TAAACCAAAGAAGTATATTTATAGGCTATTTTATATTTGTTTAAATAAGTATATCTTAGTCCAAA
65 TAAACCAAAGAAGTATATTTATAGGCTATTTCATATCTGTTTAAACAAGCATATCTTAGTCCAAA
*
905751 AGAGATATCTATCTGTATAGACATAATTTAATAAAATAATATGTCTGTTTAAGACAGTTCCAA
130 AGAGATATCTATCTGTATAAACATAATTTAATAAAATAATATGTCTGTTTAAGACAGTTCCAA
905814 TACCCTATAG
Statistics
Matches: 183, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
206 15 0.08
207 168 0.92
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (206 bp):
CGAAAAACTTAAGATGGGAAGAATAAAAAAGAAAAGAAATAAGATTTTCTAATAGTTTTTTTTCT
AAACCAAAGAAGTATATTTATAGGCTATTTCATATCTGTTTAAACAAGCATATCTTAGTCCAAAA
GAGATATCTATCTGTATAAACATAATTTAATAAAATAATATGTCTGTTTAAGACAGTTCCAAAAG
AGATATCTATT
Found at i:905890 original size:3 final size:3
Alignment explanation
Indices: 905882--905932 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
905872 TATTTTTAAT
*
905882 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
905930 TAA
1 TAA
905933 ATATAATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:907602 original size:2 final size:2
Alignment explanation
Indices: 907595--907634 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
907585 ATGACATTGC
907595 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
907635 GAAATAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:908218 original size:16 final size:16
Alignment explanation
Indices: 908197--908230 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
908187 AACTTTAGAC
908197 ATAATACAATTACATG
1 ATAATACAATTACATG
908213 ATAATACAATTACATG
1 ATAATACAATTACATG
908229 AT
1 AT
908231 TCGTACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAATACAATTACATG
Found at i:908441 original size:5 final size:5
Alignment explanation
Indices: 908431--908468 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
908421 ACAAGAAAAA
908431 AAGGG AAGGG AAGGG AAGGG AAGGG AAGGG AA-GG AAGG
1 AAGGG AAGGG AAGGG AAGGG AAGGG AAGGG AAGGG AAGG
908469 AGCCAATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AAGGG
Found at i:912247 original size:215 final size:218
Alignment explanation
Indices: 911958--912386 Score: 657
Period size: 215 Copynumber: 2.0 Consensus size: 218
911948 ATGAACTCCC
*
911958 TCAGACACCACCAACAAAATGTGACAAATTGATGCTAAAAGAACACCAAGCTAAAATGATTTCTT
1 TCAGACACCACCAACAAAATGTGACAAATTGATGCTAAAAGAACACCAAGCTAAAAAGATTTCTT
* * *
912023 GCACCATCCCAAAAAAAAAGATATATCTTATCAGACATTTTACTTTCAATTATTGTCAGAATCAT
66 ACACCATCCCAAAAAAAAAGATATATATTATCAGACATTTTACTTTCAATTATTGTCAGAATAAT
* * *
912088 AGCAACATGGAAAATATTATGTAAAAGAAATTTAAAGCATTAATAT-ATA-AAACAAAAGGCCCA
131 AGCAACATGGAAAATATCATGTAAAAGAAATGTAAAGCATTAATATAAAATAAACAAAAGGCCCA
*
912151 ATGCTTGCAATTCAGTTACTTCT
196 ATGCTTGCAATGCAGTTACTTCT
* * * *
912174 TCAGACAGCACCAGCAAAATGTGACAAATTGATGCT-AGAGAACACCACGCTAAAAAGATTTCTT
1 TCAGACACCACCAACAAAATGTGACAAATTGATGCTAAAAGAACACCAAGCTAAAAAGATTTCTT
* * *
912238 ACGCCATCCCAACAAAAAAGATATATATTATCAGACATTTTAGTTTCAATTATTGTCAGAATAAT
66 ACACCATCCCAAAAAAAAAGATATATATTATCAGACATTTTACTTTCAATTATTGTCAGAATAAT
* * *
912303 AGCAAGATGGAAAATATCATGTAGAAGAAATGTACAGCATTAATATAAAATAAACAAAAGGCCCA
131 AGCAACATGGAAAATATCATGTAAAAGAAATGTAAAGCATTAATATAAAATAAACAAAAGGCCCA
* *
912368 GTGTTTGCAATGCAGTTAC
196 ATGCTTGCAATGCAGTTAC
912387 CTGGATATTC
Statistics
Matches: 191, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
215 125 0.65
216 36 0.19
217 30 0.16
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (218 bp):
TCAGACACCACCAACAAAATGTGACAAATTGATGCTAAAAGAACACCAAGCTAAAAAGATTTCTT
ACACCATCCCAAAAAAAAAGATATATATTATCAGACATTTTACTTTCAATTATTGTCAGAATAAT
AGCAACATGGAAAATATCATGTAAAAGAAATGTAAAGCATTAATATAAAATAAACAAAAGGCCCA
ATGCTTGCAATGCAGTTACTTCT
Found at i:912565 original size:39 final size:39
Alignment explanation
Indices: 912511--912590 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
912501 AACAGACTGC
**
912511 AAGTCATGAAGAATGTACGGTAATGACCATGATGCCACA
1 AAGTCATGAAGAATGTACACTAATGACCATGATGCCACA
* *
912550 AAGTCATGAGGAATGTACACTGATGACCATGATGCCACA
1 AAGTCATGAAGAATGTACACTAATGACCATGATGCCACA
912589 AA
1 AA
912591 CCAGTATTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.20
Consensus pattern (39 bp):
AAGTCATGAAGAATGTACACTAATGACCATGATGCCACA
Found at i:914164 original size:32 final size:32
Alignment explanation
Indices: 914126--914194 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
914116 ATTTTAATAC
914126 AATAAATAAATTTTATTATTATATAATAAACT
1 AATAAATAAATTTTATTATTATATAATAAACT
* *
914158 AATAAATAAATTTTATTATTATATACTTAACT
1 AATAAATAAATTTTATTATTATATAATAAACT
914190 AATAA
1 AATAA
914195 TAATATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (32 bp):
AATAAATAAATTTTATTATTATATAATAAACT
Found at i:921641 original size:31 final size:29
Alignment explanation
Indices: 921560--921642 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
921550 TAATTCATTC
* *
921560 ATATTT-TTATATAATAATAAATTTGTAT
1 ATATTTATTATATAATATTAAATTTGTAA
* *
921588 ATATTCATTATATAAATAATTAAATTTTTAA
1 ATATTTATTATAT-AAT-ATTAAATTTGTAA
921619 ATATTTATTATATTATATATTAAA
1 ATATTTATTATA-TA-ATATTAAA
921643 AAAAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.11
29 6 0.13
30 3 0.07
31 28 0.62
32 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
ATATTTATTATATAATATTAAATTTGTAA
Found at i:930688 original size:13 final size:13
Alignment explanation
Indices: 930670--930695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
930660 ACACCAAGGT
930670 ATGTATCGATACA
1 ATGTATCGATACA
930683 ATGTATCGATACA
1 ATGTATCGATACA
930696 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:936890 original size:13 final size:13
Alignment explanation
Indices: 936872--936910 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
936862 ACATTTTTCT
936872 TTGTATCGATACA
1 TTGTATCGATACA
936885 TTGTATCGATACA
1 TTGTATCGATACA
*
936898 CTGTATCGATACA
1 TTGTATCGATACA
936911 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:939513 original size:13 final size:13
Alignment explanation
Indices: 939495--939520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
939485 ACACCAAGGT
939495 ATGTATCGATACA
1 ATGTATCGATACA
939508 ATGTATCGATACA
1 ATGTATCGATACA
939521 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:940330 original size:20 final size:20
Alignment explanation
Indices: 940301--940375 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
940291 AAAAAGACAT
*
940301 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
*
940321 AATATATCGATACATT-AATA
1 AATGTATCGATACATTGAA-A
* *
940341 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
940361 AATGTATCGATACAT
1 AATGTATCGATACAT
940376 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:941026 original size:29 final size:29
Alignment explanation
Indices: 940932--941875 Score: 1140
Period size: 28 Copynumber: 32.3 Consensus size: 29
940922 TTTTTTAAAA
* *
940932 AAAATGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* **
940963 AAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
940995 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
941024 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941052 -GAAGGGTGCCACTGATTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTGA-CT-TGTGGGCTTTG
* * *
941082 AAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
*
941114 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941143 AAAAGAGTGCCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941172 AAAA-GGTGCCATTGACTTGTGAGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941200 AAAGGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
** *
941229 AACTGGGTGCCACTGTCTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941258 AAAAGAGTGCCACTAACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941286 AAAAGGGTACCACTAACTTGCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTG
* *
941317 AAAGGGGTACCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941346 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941375 -AAAGGGTGCTACTGACTTGTGAGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
941403 AAAAAAGTTGCCACCGACTTGTGGGCTTTG
1 -AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941433 -AAAGGGTGTCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941461 AAAAGGGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACT--TGTGGGCTTTG
* *
941493 AAAAGAGTGCCACTGACTTGTGGGCTTTA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941522 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
941551 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941579 -AAAGGGTGCCACCGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941607 AAAAGGGGTGCCACTGTCTTATGGGCTTTG
1 AAAA-GGGTGCCACTGACTTGTGGGCTTTG
* *
941637 AAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941666 -AAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941694 -AAATGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941722 AAAAAGAGTTGCCACCGACTCGTGTGGGCTTTG
1 -AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
941755 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
941784 -AAAGGGTGCCACTAACTTATGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
941812 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
941841 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
941869 -AAAGGGT
1 AAAAGGGT
941876 TTGAACGTTC
Statistics
Matches: 799, Mismatches: 89, Indels: 53
0.85 0.09 0.06
Matches are distributed among these distances:
28 293 0.37
29 266 0.33
30 81 0.10
31 73 0.09
32 75 0.09
33 11 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:941809 original size:379 final size:378
Alignment explanation
Indices: 940933--941871 Score: 1347
Period size: 379 Copynumber: 2.5 Consensus size: 378
940923 TTTTTAAAAA
* *
940933 AAATGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAATGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAA
*
940998 AGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGCCA
64 AGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
** * *
941063 CTGATTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACT
129 CT-AACT-TGTGGGCTTTGAAAAGGGTTGCCACCGAC-TGTGTGGGCTTTGAAAAGAGTGCCACT
* * *
941128 GACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGTTTTGAAAAGGTGCCATTGACTTGTG
191 GACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTG
* ** *
941193 AGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTGAACTGGGTGCCACTGTCTTGTGGGCTTTG
256 AGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTATGGGCTTTG
941258 AAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTACCACTAACTTGCGTGGGCTTTG
321 AAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTACCACTAACTT-CGTGGGCTTTG
* * * * *
941317 AAAGGGGTACCACTGACTTGTGGGCTTTG-AAAGGGGTGCCACTGACT--TGTGGGCTTTG-AAA
1 AAA-TGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAA
* * * * * * *
941378 GGGTGCTACTGACTTGTGAGCTTTGAAAAAAGTTGCCACCGACTTGTGGGCTTTGAAAGGGTGTC
65 GAGTGCCACTGACTTGTGGGCTTTG--AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
941443 ACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTG
128 ACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACT-GTGTGGGCTTTGAAAAGAGTGCCACTG
* *
941508 ACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGG
192 ACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGA
*
941573 GCTTTGAAA-GGGTGCCACCGACTTGTGGGCTTTGAAAAGGGGTGCCACTGTCTTATGGGCTTTG
257 GCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTG-AAAGGGGTGCCACTGTCTTATGGGCTTTG
* * * * * *
941637 AAAAGAGTGCCATTGACTTGTGGGCTTTGAAGGGGTGCCACTGACTT-GTGGGCTTTG
321 AAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTACCACTAACTTCGTGGGCTTTG
941694 AAATGGTGCCACTGACTTGTGGGCTTTGAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAA
1 AAATGGTGCCACTGACTTGTGGGCTTTG-AAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAA
* *
941759 GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGGGTGCCA
65 GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCA
* *
941824 CTGACTTGTGGGCTTTG-AAAGGG-TGCCACTGACT-TGTGGGCTTTGAAA
129 CTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTGTGTGGGCTTTGAAA
941872 GGGTTTGAAC
Statistics
Matches: 493, Mismatches: 51, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
376 37 0.08
377 13 0.03
378 49 0.10
379 247 0.50
380 47 0.10
381 61 0.12
382 14 0.03
383 11 0.02
384 4 0.01
385 10 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (378 bp):
AAATGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
AACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTGTGTGGGCTTTGAAAAGAGTGCCACTGACTT
GTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGAGCTT
TGAAAGGGGTGCCACCAACTTGTGGGCTTTGAAAGGGGTGCCACTGTCTTATGGGCTTTGAAAAG
AGTGCCACTAACTTGTGGGCTTTAAAAGGGTACCACTAACTTCGTGGGCTTTG
Found at i:952886 original size:19 final size:19
Alignment explanation
Indices: 952862--952901 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
952852 AAATAATGGG
*
952862 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
952881 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
952900 AA
1 AA
952902 ATGACCCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:955649 original size:20 final size:19
Alignment explanation
Indices: 955618--955694 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
955608 GTAAAAAGAC
955618 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
* *
955637 AAGAATATATCGATACATTC
1 AA-AATGTATCGATACATTG
*
955657 ATACATGTATCGAT-CTATTG
1 A-AAATGTATCGATAC-ATTG
955677 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
955695 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
19 3 0.06
20 41 0.87
21 3 0.06
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:958174 original size:13 final size:13
Alignment explanation
Indices: 958156--958181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
958146 CAGGGTGGTT
958156 TTGTATCGATACA
1 TTGTATCGATACA
958169 TTGTATCGATACA
1 TTGTATCGATACA
958182 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:959057 original size:52 final size:53
Alignment explanation
Indices: 958977--959680 Score: 455
Period size: 52 Copynumber: 13.5 Consensus size: 53
958967 ATAAAGATGT
* * *
958977 CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAAGATGAGAAGAA-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* * * * *
959029 CAATGTGTTAATTCAAGGCCAGCGACATTTAG-CTTAGGAATG-TTA-AAG-A-TGG
1 CAATATGCTGATTCAAGGCCAGCGACA-TTAGACTTA--AA-GATGAGAAGAAGTGC
* * * * *
959081 CAATATGCTGATTCAAGGCCAGCGATATCAGACTCAAAGTTGACAA-AAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* * * *
959133 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGA-AAGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAA-GTGC
* * * * * * * *
959185 TAATGTGCTGATTTAAAGCCAGCGACATTGGACTTAAAGATGACAA-AGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* ** * * * *
959237 CAATATGTTGATTCAAGGCCAATGATATTGGACTTAAA-A-AAGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAA-GTGC
* * * ** ** * *
959289 TAATATGCTGATTCAAGGCTAGTGATGTCGGACTTAAAGATAACAA-AAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* * * * *
959341 CAATATGCTGATTCAAGGCCAGTGATATTAGACTT-AAGA-AAGAAAAAAGTAC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAG-AAGAAGTGC
* * * * * * * * *
959393 TAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAAATGACAA-AGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* * * * *
959445 CAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGATAA-AAATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* * * * * * *
959497 CAATATGCTGATTTAAGGCCAACGATACTAGACTT-AAGA-AAGAAAGAGGTGT
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAG-AAGAAGTGC
* * * * *
959549 CAATATGCTGATTCAAGGCTAGCGACATTGGACTTAACGATG-GTAA-AGGTGT
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAG-AAGAAGTGC
* * * * *
959601 CAATACGCTGATTCAAGGCCAGCGATATTGGACTT-AAGA-AAGAAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
* *
959652 CAATGTGTTGATTCAAGGCCAGCGACATT
1 CAATATGCTGATTCAAGGCCAGCGACATT
959681 GGGCTTAGAA
Statistics
Matches: 512, Mismatches: 113, Indels: 55
0.75 0.17 0.08
Matches are distributed among these distances:
49 1 0.00
50 15 0.03
51 57 0.11
52 400 0.78
53 26 0.05
54 12 0.02
55 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (53 bp):
CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAGTGC
Found at i:959147 original size:104 final size:104
Alignment explanation
Indices: 958960--959676 Score: 612
Period size: 104 Copynumber: 6.9 Consensus size: 104
958950 TAAATATGAG
* * * * * * *
958960 AAGAATGATAAAGATGTCAATATGCTGATTCAAGGCCAACAACATTAGACTTGAAGATGAGAAGA
1 AAGAATGATAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAA-A
* * *
959025 A-TGCCAATGTGTTAATTCAAGGCCAGCGACATTTAG-CTT
65 AGTGCCAATATGTTGATTCAAGGCCAGCGATA-TTAGACTT
* * ** * *
959064 AGGAATGTTAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATCAGACTCAAAGTTGACAAAA
1 AAGAATGATAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAA
* *
959129 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
66 GTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
* * * * * * *
959168 AAGAAAGAAAAAGGT-GCTAATGTGCTGATTTAAAGCCAGCGACATTGGACTTAAAGATGACAAA
1 AAGAATGATAAAGATGGC-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAA
* * ** *
959232 GGCGCCAATATGTTGATTCAAGGCCAATGATATTGGACTT
65 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
* * * * * * * * *
959272 AAAAAAGAAAAAGGT-GCTAATATGCTGATTCAAGGCTAGTGATGTCGGACTTAAAGATAACAAA
1 AAGAATGATAAAGATGGC-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAA
* *
959336 AGTGCCAATATGCTGATTCAAGGCCAGTGATATTAGACTT
65 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
* * * * * * * *
959376 AAGAAAGA-AAA-AAGTACTAATGTGCTGATTTAAGGCCAACGACATTGGACTTAAAAATGACAA
1 AAGAATGATAAAGATG-GC-AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAA
* *
959439 AGGCGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
64 AAGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
* * * * * * * *
959480 AA-AGGTGATAAAAATGCCAATATGCTGATTTAAGGCCAACGATACTAGACTT-AAGAAAGA-AA
1 AAGA-ATGATAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-ATGACAA
* * * * * *
959542 GAGGTGTCAATATGCTGATTCAAGGCTAGCGACATTGGACTT
64 -AAGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
* * * * *
959584 AACG-ATGGTAAAGGTGTCAATACGCTGATTCAAGGCCAGCGATATTGGACTT-AAGAAAGA-AA
1 AA-GAATGATAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-ATGACAA
*
959646 AAGTGCCAATGTGTTGATTCAAGGCCAGCGA
64 AAGTGCCAATATGTTGATTCAAGGCCAGCGA
959677 CATTGGGCTT
Statistics
Matches: 503, Mismatches: 98, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
103 41 0.08
104 456 0.91
105 4 0.01
106 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (104 bp):
AAGAATGATAAAGATGGCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAA
GTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTT
Found at i:959264 original size:156 final size:155
Alignment explanation
Indices: 958977--959680 Score: 627
Period size: 156 Copynumber: 4.5 Consensus size: 155
958967 ATAAAGATGT
* * * * * * * *
958977 CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAAGATG-AGAAGAA-TGCCAATGTGTTAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGA-GAAGAAAAAGTGCCAATATGCTGA
* * * * * *
959040 TTCAAGGCCAGCGACATTTAG-CTTAGGAATGTTAAAGATGGCAATATGCTGATTCAAGGCCAGC
64 TTCAAGGCCAGCGACA-TTAGACTTAAGAAAG-AAAAGGTGCCAATATGCTGATTCAAGGCCAAC
* ** * **
959104 GATATCAGACTCAAAGTTGACAAAAGTGC
127 GACATTGGACTTAAAAATGACAAAAGTGC
* *
959133 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGA-AAGAAAAAGGTGCTAATGTGCTGAT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGAAGAAAAA-GTGCCAATATGCTGAT
* * * * * * *
959197 TTAAAGCCAGCGACATTGGACTTAA-AGATGACAAAGGCGCCAATATGTTGATTCAAGGCCAATG
65 TCAAGGCCAGCGACATTAGACTTAAGA-AAGA-AAAGGTGCCAATATGCTGATTCAAGGCCAACG
* *
959261 ATATTGGACTTAAAAAAGA-AAAAGGTGC
128 ACATTGGACTTAAAAATGACAAAA-GTGC
* * * * *
959289 TAATATGCTGATTCAAGGCTAGTGATGTCGGACTTAA-AGATA-ACAAAAGTGCCAATATGCTGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGA-AGA-AAAAGTGCCAATATGCTGA
* * * * * * *
959352 TTCAAGGCCAGTGATATTAGACTTAAGAAAGAAAAAAGTACTAATGTGCTGATTTAAGGCCAACG
64 TTCAAGGCCAGCGACATTAGACTTAAGAAAG-AAAAGGTGCCAATATGCTGATTCAAGGCCAACG
* *
959417 ACATTGGACTTAAAAATGACAAAGGCGC
128 ACATTGGACTTAAAAATGACAAAAGTGC
* * ** *
959445 CAATATGTTGATTCAAGGCCAGCGATATTAGACTTAA-AGGTGATAAAAATGCCAATATGCTGAT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGAAGA-AAAAGTGCCAATATGCTGAT
* * * * * * *
959509 TTAAGGCCAACGATACTAGACTTAAGAAAGAAAGAGGTGTCAATATGCTGATTCAAGGCTAGCGA
65 TCAAGGCCAGCGACATTAGACTTAAGAAAGAAA-AGGTGCCAATATGCTGATTCAAGGCCAACGA
** ** * *
959574 CATTGGACTTAACGATGGTAAAGGTGT
129 CATTGGACTTAAAAATGACAAAAGTGC
* * *
959601 CAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAGA-AAGAAAAAGTGCCAATGTGTTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGAAGAAAAAGTGCCAATATGCTGATT
959665 CAAGGCCAGCGACATT
66 CAAGGCCAGCGACATT
959681 GGGCTTAGAA
Statistics
Matches: 441, Mismatches: 91, Indels: 33
0.78 0.16 0.06
Matches are distributed among these distances:
154 6 0.01
155 46 0.10
156 378 0.86
157 11 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (155 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGAAGAAAAAGTGCCAATATGCTGATT
CAAGGCCAGCGACATTAGACTTAAGAAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAACGACA
TTGGACTTAAAAATGACAAAAGTGC
Found at i:959910 original size:96 final size:94
Alignment explanation
Indices: 959809--960227 Score: 297
Period size: 96 Copynumber: 4.4 Consensus size: 94
959799 CACCTTGTAT
*
959809 TGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATAGG-
1 TGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAGTTAT-GGA
*
959873 CTTTGAAAAGAAAAAGGGTGCCACGAAGTTG
65 CTTTG-AAAGAAAAAGGGTGCCACGAAGTTA
* *** *
959904 TAGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGT-GAGCTTTGAAAAAAAAAGTGCCACGGAGT
1 T-GGCTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGA-C-TT----AAAAAGGTGCCACGGAGT
** * *
959968 CGTGGACTTTGAAA-AAAAA--GTGCTACGGAGTTA
59 TATGGACTTTGAAAGAAAAAGGGTGCCACGAAGTTA
* **
960001 TGGAC-TT-AAAAGGAAAAAGGAT-CCACAGAGTTGTGGACTT-AAAAGTGTGCCACAAAGTTAT
1 TGG-CTTTGAAAA-GAAAAAGG-TGCCACAAAGTTGTGGACTTAAAAAG-GTGCCACGGAGTTAT
* * * *
960062 GGAC-TTAAAAGGAAAAAAGGTGCCATGGAGTTA
62 GGACTTTGAAA-GAAAAAGGGTGCCACGAAGTTA
* * ** * * *
960095 TAGGCTTTGAAAAGAAACATGTGCCATGAAGTTGTGGGCTTAAAAAGGTGTCATGGAGTTATGGA
1 T-GGCTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAGTTATGGA
* * *
960160 CTTTTGGAGGAAAAAGGGTGCCACAGAA-TTG
65 C-TTTGAAAGAAAAAGGGTGCCAC-GAAGTTA
* *
960191 TGGAC-TTAAAAAGAAAATAGGTGTCACAGAA-TTGTGG
1 TGG-CTTTGAAAAGAAAA-AGGTGCCACA-AAGTTGTGG
960228 GCTTTGAAAA
Statistics
Matches: 251, Mismatches: 45, Indels: 55
0.72 0.13 0.16
Matches are distributed among these distances:
90 9 0.04
91 15 0.06
92 5 0.02
94 15 0.06
95 60 0.24
96 90 0.36
97 25 0.10
99 5 0.02
100 5 0.02
101 22 0.09
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (94 bp):
TGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAGTTATGGAC
TTTGAAAGAAAAAGGGTGCCACGAAGTTA
Found at i:959959 original size:32 final size:32
Alignment explanation
Indices: 959855--959999 Score: 161
Period size: 32 Copynumber: 4.4 Consensus size: 32
959845 ACTTAAAAGG
*
959855 GTGCCACGGAGTTATAGGCTTTGAAAAGAAAAA
1 GTGCCACGGAGTTGTAGGCTTTGAAAA-AAAAA
*
959888 GGGTGCCACGAAGTTGTAGGCTTTGAAAAGAAAAAA
1 --GTGCCACGGAGTTGTAGGCTTTG-AAA-AAAAAA
*
959924 GTGCCATGGAGTTGT-GAGCTTTGAAAAAAAAA
1 GTGCCACGGAGTTGTAG-GCTTTGAAAAAAAAA
*
959956 GTGCCACGGAGTCGT-GGACTTTG-AAAAAAAA
1 GTGCCACGGAGTTGTAGG-CTTTGAAAAAAAAA
*
959987 GTGCTACGGAGTT
1 GTGCCACGGAGTT
960000 ATGGACTTAA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
31 20 0.20
32 25 0.26
33 4 0.04
34 19 0.19
35 21 0.21
36 8 0.08
37 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (32 bp):
GTGCCACGGAGTTGTAGGCTTTGAAAAAAAAA
Found at i:959983 original size:31 final size:32
Alignment explanation
Indices: 959855--960040 Score: 152
Period size: 32 Copynumber: 5.7 Consensus size: 32
959845 ACTTAAAAGG
*
959855 GTGCCACGGAGTTATAGG-CTTTGAAAAGAAAAA
1 GTGCCACGGAGTTGT-GGACTTTGAAAA-AAAAA
*
959888 GGGTGCCACGAAGTTGTAGG-CTTTGAAAAGAAAAAA
1 --GTGCCACGGAGTTGT-GGACTTTG-AAA-AAAAAA
*
959924 GTGCCATGGAGTTGT-GAGCTTTGAAAAAAAAA
1 GTGCCACGGAGTTGTGGA-CTTTGAAAAAAAAA
*
959956 GTGCCACGGAGTCGTGGACTTTG-AAAAAAAA
1 GTGCCACGGAGTTGTGGACTTTGAAAAAAAAA
* *
959987 GTGCTACGGAGTTATGGAC-TT-AAAAGGAAAAA
1 GTGCCACGGAGTTGTGGACTTTGAAAA--AAAAA
*
960019 G-GATCCACAGAGTTGTGGACTT
1 GTG--CCACGGAGTTGTGGACTT
960041 AAAAGTGTGC
Statistics
Matches: 128, Mismatches: 12, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
30 5 0.04
31 25 0.20
32 31 0.24
33 18 0.14
34 19 0.15
35 21 0.16
36 8 0.06
37 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (32 bp):
GTGCCACGGAGTTGTGGACTTTGAAAAAAAAA
Found at i:960018 original size:33 final size:32
Alignment explanation
Indices: 959855--960306 Score: 164
Period size: 35 Copynumber: 13.8 Consensus size: 32
959845 ACTTAAAAGG
* *
959855 GTGCCACGGAGTTATAGG-CTTTGAAAAGAAAAAGG
1 GTGCCACGGAGTTGT-GGAC-TT-AAAAGAAAAA-A
*
959890 GTGCCACGAAGTTGTAGG-CTTTGAAAAGAAAAAA
1 GTGCCACGGAGTTGT-GGAC-TT-AAAAGAAAAAA
* *
959924 GTGCCATGGAGTTGT-GAGCTTTGAAA-AAAAAA
1 GTGCCACGGAGTTGTGGA-C-TTAAAAGAAAAAA
* **
959956 GTGCCACGGAGTCGTGGACTTTGAA-AAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAA
* * *
959987 GTGCTACGGAGTTATGGACTTAAAAGGAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAA
* *
960019 G-GATCCACAGAGTTGTGGACTTAAAAG-----T
1 GTG--CCACGGAGTTGTGGACTTAAAAGAAAAAA
** *
960047 GTGCCACAAAGTTATGGACTTAAAAGGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAA-GAAAAAA
* * * *
960080 GGTGCCATGGAGTTATAGG-CTTTGAAAAGAAACAT
1 -GTGCCACGGAGTTGT-GGAC-TT-AAAAGAAAAAA
* * * *
960115 GTGCCATGAAGTTGTGGGCTT-----AAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAA
* * * ** * *
960142 GTGTCATGGAGTTATGGACTTTTGGAGGAAAAAGG
1 GTGCCACGGAGTTGTGGAC--TTAAAAGAAAAA-A
* * *
960177 GTGCCACAGAATTGTGGACTTAAAAAGAAAATAG
1 GTGCCACGGAGTTGTGGACTT-AAAAGAAAA-AA
* * * * *
960211 GTGTCACAGAATTGTGGGCTTTGAAAAGAAAATA
1 GTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAA
*
960245 GATGCCACGGAGTTATGGACTTAAAAGGGAAAAAA
1 G-TGCCACGGAGTTGTGGACTTAAAA--GAAAAAA
* *
960280 TGTGCAATGGAGTTGTGGACTTAAAAG
1 -GTGCCACGGAGTTGTGGACTTAAAAG
960307 GGTACCACGG
Statistics
Matches: 326, Mismatches: 58, Indels: 68
0.72 0.13 0.15
Matches are distributed among these distances:
27 39 0.12
28 2 0.01
29 3 0.01
31 31 0.10
32 27 0.08
33 36 0.11
34 76 0.23
35 107 0.33
36 5 0.02
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (32 bp):
GTGCCACGGAGTTGTGGACTTAAAAGAAAAAA
Found at i:960107 original size:157 final size:155
Alignment explanation
Indices: 959913--960201 Score: 347
Period size: 157 Copynumber: 1.9 Consensus size: 155
959903 GTAGGCTTTG
* *
959913 AAAAGAAAAAAGTGCCATGGAGTTGTGAGCTTTGAAAA-AAA-AAGTGCCACGGAGTCGTGGACT
1 AAAAGAAAAAAGTGCCATGGAGTTATGAGCTTTGAAAAGAAACAAGTGCCACGAAGTCGTGGAC-
*
959976 TTGAAAAAAAAGTG-CTACGGAGTTATGGAC-TTAAAAGGAAAAAGGAT-CCACAGAGTTGTGGA
65 TT---AAAAAAGTGTC-ACGGAGTTATGGACTTTAAAAGGAAAAAGGATGCCACAGAATTGTGGA
960038 CTTAAAAGTGTGCCACAAAGTTATGGACTT
126 CTTAAAAGTGTGCCACAAAGTTATGGACTT
* * *
960068 AAAAGGAAAAAAGGTGCCATGGAGTTAT-AGGCTTTGAAAAGAAACATGTGCCATGAAGTTGTGG
1 AAAA-GAAAAAA-GTGCCATGGAGTTATGA-GCTTTGAAAAGAAACAAGTGCCACGAAGTCGTGG
* * * *** *
960132 GCTTAAAAAGGTGTCATGGAGTTATGGACTTTTGGAGGAAAAAGGGTGCCACAGAATTGTGGACT
63 ACTTAAAAAAGTGTCACGGAGTTATGGACTTTAAAAGGAAAAAGGATGCCACAGAATTGTGGACT
960197 TAAAA
128 TAAAA
960202 AGAAAATAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
155 25 0.22
156 22 0.19
157 45 0.40
158 5 0.04
159 16 0.14
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (155 bp):
AAAAGAAAAAAGTGCCATGGAGTTATGAGCTTTGAAAAGAAACAAGTGCCACGAAGTCGTGGACT
TAAAAAAGTGTCACGGAGTTATGGACTTTAAAAGGAAAAAGGATGCCACAGAATTGTGGACTTAA
AAGTGTGCCACAAAGTTATGGACTT
Found at i:960318 original size:27 final size:26
Alignment explanation
Indices: 960288--960361 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 26
960278 AATGTGCAAT
960288 GGAGTTGTGGACTTAAAAGGGTACCAC
1 GGAGTTGTGG-CTTAAAAGGGTACCAC
**
960315 GGAGTTGTAGGCTTAAAAGGGTGTCAC
1 GGAGTTGT-GGCTTAAAAGGGTACCAC
*
960342 GGAGTTATGGGCTTAAAAGG
1 GGAGTTGT-GGCTTAAAAGG
960362 AAAAAAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.24
Consensus pattern (26 bp):
GGAGTTGTGGCTTAAAAGGGTACCAC
Found at i:961140 original size:13 final size:13
Alignment explanation
Indices: 961122--961147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
961112 ACAATTTTTG
961122 TGTATCGATACAT
1 TGTATCGATACAT
961135 TGTATCGATACAT
1 TGTATCGATACAT
961148 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:961144 original size:32 final size:32
Alignment explanation
Indices: 961103--961165 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
961093 TACAATCTAA
**
961103 TGTATCGATACAATTTTTG-TGTATCGATACAT
1 TGTATCGATAC-ATACTTGCTGTATCGATACAT
961135 TGTATCGATACATACTTGCTGTATCGATACA
1 TGTATCGATACATACTTGCTGTATCGATACA
961166 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGCTGTATCGATACAT
Found at i:961231 original size:20 final size:20
Alignment explanation
Indices: 961206--961258 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
961196 ACATCTTTTT
961206 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
961226 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
961246 CATGTATCGATAC
1 CATGTATCGATAC
961259 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:961656 original size:60 final size:62
Alignment explanation
Indices: 961563--961680 Score: 161
Period size: 60 Copynumber: 1.9 Consensus size: 62
961553 TGTCACAGAG
* * * *
961563 TTGTGGACTTAAAAGGCTGCCATAGAGTTGTGGG-TTTAAAAAGAAAAA-GGTGCCACGGAT
1 TTGTGGACTTAAAAAGATGCCAGAGAGTTGTGGGCTTTAAAAAGAAAAATGATGCCACGGAT
*
961623 TTGTGGACTTAAAAAGATGCCACGA-AGTTGTGGGCTTTGAAAAGAAAAATGATGCCAC
1 TTGTGGACTTAAAAAGATGCCA-GAGAGTTGTGGGCTTTAAAAAGAAAAATGATGCCAC
961681 TAAGTCGTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 29 0.58
61 14 0.28
62 7 0.14
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (62 bp):
TTGTGGACTTAAAAAGATGCCAGAGAGTTGTGGGCTTTAAAAAGAAAAATGATGCCACGGAT
Found at i:970379 original size:19 final size:20
Alignment explanation
Indices: 970355--970408 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
970345 ATCCATACAT
970355 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTATA
** *
970374 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACTATA
970395 TGTATCGATACAAA
1 TGTATCGATACAAA
970409 TTGTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTATA
Found at i:972430 original size:20 final size:21
Alignment explanation
Indices: 972405--972443 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
972395 TTGTTGGTGA
*
972405 TTTTGATG-AAAAATGAAGTG
1 TTTTGAAGTAAAAATGAAGTG
972425 TTTTGAAGTAAAAATGAAG
1 TTTTGAAGTAAAAATGAAG
972444 AAATTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (21 bp):
TTTTGAAGTAAAAATGAAGTG
Found at i:972555 original size:13 final size:13
Alignment explanation
Indices: 972537--972563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
972527 ATAGTAACCC
972537 ATGTATCGATACA
1 ATGTATCGATACA
972550 ATGTATCGATACA
1 ATGTATCGATACA
972563 A
1 A
972564 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Done.