Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold439
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: 1094049
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 7
Found at i:807654 original size:13 final size:13
Alignment explanation
Indices: 807636--807660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807626 AATAAAAACT
807636 GTTTTTGATGAAG
1 GTTTTTGATGAAG
807649 GTTTTTGATGAA
1 GTTTTTGATGAA
807661 AAAAAGATAG
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:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (13 bp):
GTTTTTGATGAAG
Found at i:807824 original size:14 final size:14
Alignment explanation
Indices: 807805--807832 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
807795 AATAGTACCC
807805 ATGTATCGATACTA
1 ATGTATCGATACTA
807819 ATGTATCGATACTA
1 ATGTATCGATACTA
807833 TGAACATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ATGTATCGATACTA
Found at i:816011 original size:13 final size:13
Alignment explanation
Indices: 815993--816020 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
815983 ATACAAAGAT
815993 CAATGTATCGATA
1 CAATGTATCGATA
816006 CAATGTATCGATA
1 CAATGTATCGATA
816019 CA
1 CA
816021 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:816100 original size:33 final size:33
Alignment explanation
Indices: 816063--816127 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
816053 TAGCTTAAAA
816063 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
816096 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
816128 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:816101 original size:13 final size:13
Alignment explanation
Indices: 816083--816107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
816073 CAAAAAAATA
816083 TGTATCGATACAT
1 TGTATCGATACAT
816096 TGTATCGATACA
1 TGTATCGATACA
816108 ACATTTTATG
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:818166 original size:20 final size:20
Alignment explanation
Indices: 818138--818186 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
818128 CGATACAGTG
818138 TATCGATACTAAGCAATATA
1 TATCGATACTAAGCAATATA
*
818158 TATCAATACTAAGCAATATA
1 TATCGATACTAAGCAATATA
818178 TATCGATAC
1 TATCGATAC
818187 ATCTAGGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (20 bp):
TATCGATACTAAGCAATATA
Found at i:820004 original size:28 final size:28
Alignment explanation
Indices: 819964--820035 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
819954 GGAATAAAGC
* **
819964 CGGGGTTGGAGTATCCCC-TCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAC-GAAATAA
819992 CGGGGTTGGAGTATCCCCGACGAAATAA
1 CGGGGTTGGAGTATCCCCGACGAAATAA
*
820020 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
820036 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGACGAAATAA
Found at i:820141 original size:52 final size:53
Alignment explanation
Indices: 820023--820199 Score: 207
Period size: 52 Copynumber: 3.4 Consensus size: 53
820013 GAAATAACGA
* ** * *
820023 GGTTGGAGTATCCTCGATT-GTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTG-TTTTAGAAATAAAATCGG
* * *
820076 AGCTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTAGAAATAAAATCGG
** * *
820128 GGTTGGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTAGAAATAAAATCGG
*
820180 GCTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
820200 TGAGAAATCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 76 0.72
53 26 0.25
54 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTAGAAATAAAATCGG
Found at i:820238 original size:51 final size:52
Alignment explanation
Indices: 820065--820245 Score: 179
Period size: 52 Copynumber: 3.5 Consensus size: 52
820055 TGTTTTTGGA
* * * *** * *
820065 AATAAAATCGGAGCTGGAGTATCCCCGATTAAAGG-AAAATTGGTGTTTTAAA
1 AATAAAATCGGGGTTGGAGTATCCCCGATT-ATGGAAAAATCAATATTTTAAG
* * * *
820117 AATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AG
1 AATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAAG
* *
820168 CAATAAAATCGGGCTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG
1 -AATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAAG
* *
820220 AATAAAGTAGGGGTTGGAGTATCCCC
1 AATAAAATCGGGGTTGGAGTATCCCC
820246 TCGGAAATAA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
51 38 0.34
52 73 0.66
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (52 bp):
AATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAAG
Found at i:820291 original size:27 final size:28
Alignment explanation
Indices: 820229--820303 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
820219 GAATAAAGTA
***
820229 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
820257 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
820284 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
820304 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:822805 original size:13 final size:13
Alignment explanation
Indices: 822787--822812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
822777 ACAAAGATCC
822787 ATGTATCGATACA
1 ATGTATCGATACA
822800 ATGTATCGATACA
1 ATGTATCGATACA
822813 CAGAAAAATG
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:822808 original size:33 final size:33
Alignment explanation
Indices: 822766--822832 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
822756 AAAATTTCCA
***
822766 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
822799 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
822832 A
1 A
822833 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:822876 original size:19 final size:18
Alignment explanation
Indices: 822852--822919 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
822842 CAGTAGCTAA
822852 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
822871 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
822886 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
822903 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
822920 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:822892 original size:13 final size:13
Alignment explanation
Indices: 822874--822898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
822864 ACAATACTTA
822874 TGTATCGATACAT
1 TGTATCGATACAT
822887 TGTATCGATACA
1 TGTATCGATACA
822899 AAACTTATGT
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:822896 original size:32 final size:32
Alignment explanation
Indices: 822855--822917 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
822845 TAGCTAATTA
*
822855 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
822887 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
822918 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:823701 original size:55 final size:55
Alignment explanation
Indices: 823475--824361 Score: 1242
Period size: 55 Copynumber: 15.9 Consensus size: 55
823465 TGGGAAGGTT
*
823475 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG-AAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
823529 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACT-GAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
** *
823583 GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
1 --TGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTGTCCTGCTCTTTGAGGACTGGAAAA
* *
823646 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
823701 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
823756 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAGA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* ** *
823811 CGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTGTCCTGCTCTTTGAGGACTGGAAAA
* * *
823872 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGACGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
823927 TGCCACCGACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
823982 TGCCACCAATTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* * * *
824037 TGCCACCAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
* * *
824092 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
*
824147 TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
824202 TGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* * * **
824257 TGCCACTAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* * *
824312 CGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
824362 AAAGGTGGAA
Statistics
Matches: 751, Mismatches: 64, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.00
54 53 0.07
55 564 0.75
56 31 0.04
57 4 0.01
60 10 0.01
61 66 0.09
62 18 0.02
63 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:824088 original size:26 final size:26
Alignment explanation
Indices: 824059--824148 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
824049 ATGTGGGCTT
824059 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
824085 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
824112 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
824140 TGAAAGGTG
1 TGAAAGGTG
824149 CCACCAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 9 0.18
29 8 0.16
30 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:824122 original size:29 final size:29
Alignment explanation
Indices: 824089--824177 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
824079 GGGGACTGAA
824089 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
824118 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
824144 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
824173 AGGTG
1 AGGTG
824178 TCCTGCTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:824255 original size:27 final size:27
Alignment explanation
Indices: 824225--824309 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
824215 GGTGGGCTTT
824225 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* * * * *
824252 GAAA-ATG-CC-ACTAACTTATGTGGGCTTT
1 GAAAGGTGTCCTGCT--CTT-TGAGGAC-TG
824280 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
824307 GAA
1 GAA
824310 GGCGCCACCA
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 5 0.12
27 13 0.32
28 10 0.24
29 5 0.12
30 2 0.05
31 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:825367 original size:13 final size:12
Alignment explanation
Indices: 825343--825400 Score: 71
Period size: 13 Copynumber: 4.7 Consensus size: 12
825333 CTTTTCTCTC
*
825343 TTTTTCTTTGTT
1 TTTTTTTTTGTT
825355 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
**
825368 TTTTTTTTCCTT
1 TTTTTTTTTGTT
825380 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
825393 TTTTTTTT
1 TTTTTTTT
825401 AAGAGAAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 18 0.46
13 21 0.54
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:825370 original size:24 final size:25
Alignment explanation
Indices: 825343--825396 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
825333 CTTTTCTCTC
*
825343 TTTTTCTTT-GTTTTGTTTTTTTG-T
1 TTTTTCTTTCCTTTT-TTTTTTTGCT
*
825367 TTTTTTTTTCCTTTTTTTTTTTGCT
1 TTTTTCTTTCCTTTTTTTTTTTGCT
825392 TTTTT
1 TTTTT
825397 TTTTAAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (25 bp):
TTTTTCTTTCCTTTTTTTTTTTGCT
Found at i:828970 original size:24 final size:25
Alignment explanation
Indices: 828938--828987 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
828928 ACACTTTATT
828938 TTATTTTTCTTT-TAACAAAATAAA
1 TTATTTTTCTTTATAACAAAATAAA
828962 TTATTTTTCTTTAATAACAAAATAAA
1 TTATTTTTCTTT-ATAACAAAATAAA
828988 CTTTTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.50
26 12 0.50
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATTTTTCTTTATAACAAAATAAA
Found at i:828994 original size:24 final size:23
Alignment explanation
Indices: 828939--828987 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
828929 CACTTTATTT
828939 TATTTTTCTTTTAACAAAATAAA
1 TATTTTTCTTTTAACAAAATAAA
828962 TTATTTTTCTTTAATAACAAAATAAA
1 -TATTTTTCTTT--TAACAAAATAAA
828988 CTTTTTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTTTTCTTTTAACAAAATAAA
Found at i:840638 original size:13 final size:13
Alignment explanation
Indices: 840620--840679 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
840610 CCCAGATTTT
840620 TTGTATCGATACA
1 TTGTATCGATACA
840633 TTGTATCGATACA
1 TTGTATCGATACA
* *
840646 ----AT--ATTCC
1 TTGTATCGATACA
840653 TTGTATCGATACA
1 TTGTATCGATACA
840666 TTGTATCGATACA
1 TTGTATCGATACA
840679 T
1 T
840680 GGGTTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 3 0.08
9 2 0.05
11 2 0.05
13 30 0.81
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:842010 original size:24 final size:24
Alignment explanation
Indices: 841978--842028 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
841968 AAAATAAATT
*
841978 TTTTATCTAGAGGGAGAAAATCTC
1 TTTTATCTAGAGGGAAAAAATCTC
*
842002 TTTTATCTAGGGGGAAAAAATCTC
1 TTTTATCTAGAGGGAAAAAATCTC
842026 TTT
1 TTT
842029 AACCGATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (24 bp):
TTTTATCTAGAGGGAAAAAATCTC
Found at i:842905 original size:42 final size:42
Alignment explanation
Indices: 842846--842944 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
842836 CCCTTTTTTC
* *
842846 GAGGACAAAGGAAAAAGGGAAATTAAA-TACGTCATGCTCTTT
1 GAGGACAAAAGAAAAA-GGAAAATAAAGTACGTCATGCTCTTT
* *
842888 GAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAAGAAAAAGGAAAATAAAGTACGTCATGCTCTTT
842930 GAGGACAAAAGAAAA
1 GAGGACAAAAGAAAA
842945 CAGAAGGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 9 0.17
42 43 0.83
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.17
Consensus pattern (42 bp):
GAGGACAAAAGAAAAAGGAAAATAAAGTACGTCATGCTCTTT
Found at i:842922 original size:119 final size:116
Alignment explanation
Indices: 842724--842938 Score: 274
Period size: 119 Copynumber: 1.8 Consensus size: 116
842714 GGTGTCCCAC
* * *
842724 TTTTTGAGGACAAAGGAAAAAAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGAAGAGAAGA
1 TTTTTGAGGACAAAGGAAAAAAGAATGAAATACGTCATGCTCCTTGAGGACAAAAGAAGAGAAGA
*
842789 AAAAGAAAGTGTCCTGCT-TCTTGAGGGCAAAGTGAAAAAGAGTACATCCCT
66 AAAAGAAAGTGTCCTGCTCT-TTGAGGACAAAGTGAAAAAGAGTACATCCCT
* * *
842840 TTTTTCGAGGACAAAGGAAAAAGGGAAATTAAATACGTCATGCTCTTTGAGGACAAAAGAA-A-A
1 TTTTT-GAGGACAAAGGAAAAA-AG-AATGAAATACGTCATGCTCCTTGAGGACAAAAGAAGAGA
* *
842903 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA
63 AGAAAAAGAAAGT--GTCCTGCTCTTTGAGGACAAA
842939 AGAAAACAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
116 5 0.06
117 28 0.33
118 2 0.02
119 48 0.57
120 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (116 bp):
TTTTTGAGGACAAAGGAAAAAAGAATGAAATACGTCATGCTCCTTGAGGACAAAAGAAGAGAAGA
AAAAGAAAGTGTCCTGCTCTTTGAGGACAAAGTGAAAAAGAGTACATCCCT
Found at i:843053 original size:61 final size:62
Alignment explanation
Indices: 842988--843134 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 62
842978 GATTGAAAAA
** * * **
842988 TGCCACCAACTCCTGTGGGCTTTAACAAGAA-AAGGTGTCATGCCCTTCGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAACAAAAAGAAAGCATCATGCCCTTCGAGGACTAAAAGG
* * * * *
843049 TGCCACCAACTTGTGCGGGCTTT-ACAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAACAAAAAGAAAGCATCATGCCCTTCGAGGACTAAAAGG
*
843110 TGCCACCAACTTGTGTGGGCATTAA
1 TGCCACCAACTTGTGTGGGCTTTAA
843135 AGGAGAAGGC
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
60 6 0.08
61 64 0.90
62 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (62 bp):
TGCCACCAACTTGTGTGGGCTTTAACAAAAAGAAAGCATCATGCCCTTCGAGGACTAAAAGG
Found at i:844181 original size:25 final size:25
Alignment explanation
Indices: 844153--844200 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
844143 TGACAAGTTT
844153 AAAA-ATAGGGTTGGAGTATTTCCTC
1 AAAAGATAGGGTTGGAGT-TTTCCTC
844178 AAAAGATAGGGTTGGAGTTTTCC
1 AAAAGATAGGGTTGGAGTTTTCC
844201 AGATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (25 bp):
AAAAGATAGGGTTGGAGTTTTCCTC
Found at i:845549 original size:2 final size:2
Alignment explanation
Indices: 845510--845535 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
845500 ATATAAATGC
845510 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
845536 TTTAGATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:848951 original size:15 final size:15
Alignment explanation
Indices: 848931--848964 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
848921 AATATAAAAT
* *
848931 ATTTTTTAATTTTTA
1 ATTTTTTAAATTATA
848946 ATTTTTTAAATTATA
1 ATTTTTTAAATTATA
848961 ATTT
1 ATTT
848965 GTTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTAAATTATA
Found at i:848962 original size:51 final size:52
Alignment explanation
Indices: 848865--848992 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 52
848855 TTAATATGAA
*
848865 ATTTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAATAATTTAAG
1 ATTTAATATAAAATATTTTTTAATTTTTAATATTTTTAAATAATAATTTAAG
* ***
848917 ATTTAATATAAAATATTTTTTAATTTTTAAT-TTTTTAAATTATAATTTGTT
1 ATTTAATATAAAATATTTTTTAATTTTTAATATTTTTAAATAATAATTTAAG
*
848968 ATTTGATATAAAATATTTTTTAATT
1 ATTTAATATAAAATATTTTTTAATT
848993 ATTTGCATCT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 40 0.57
52 30 0.43
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (52 bp):
ATTTAATATAAAATATTTTTTAATTTTTAATATTTTTAAATAATAATTTAAG
Found at i:850750 original size:2 final size:2
Alignment explanation
Indices: 850743--850778 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
850733 CCAAATACAA
850743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
850779 TCATAATCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855441 original size:39 final size:40
Alignment explanation
Indices: 855398--855474 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
855388 AAAACCCAAA
* * * *
855398 ATGTATTGATA-AATGAGAAATGTATCGATATAATTTCTT
1 ATGTATCGATACAATGAAAAATGTATCAATACAATTTCTT
*
855437 ATGTATCGATACATTGAAAAATGTATCAATACAATTTC
1 ATGTATCGATACAATGAAAAATGTATCAATACAATTTC
855475 CTTCCAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 10 0.31
40 22 0.69
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (40 bp):
ATGTATCGATACAATGAAAAATGTATCAATACAATTTCTT
Found at i:856440 original size:50 final size:50
Alignment explanation
Indices: 856137--856750 Score: 212
Period size: 52 Copynumber: 11.8 Consensus size: 50
856127 AATTGATAAG
* * * * *
856137 GATGAGAAGAGTGCTAATATGCTGATTCAAGGCTAGGGACATTAGACTTAAAAA
1 GATGA-AA-AGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTT--AAA
* * * * *
856191 CAAT-AAAAGTGCCAATATGCTGATTCGAGGTCAGCGACATTGGGCTTAAA
1 -GATGAAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
* * * * * * * * *
856241 AATGATAAAGGTGCAAATATGTTGACTCACAGTC-GATGATATCGGACTTAAA
1 GATGA-AAA-GTGCCAATATGCTGATTCAAAGCCAG-CGACATTGGACTTAAA
* * * *
856293 GATGAGAAAAATACCAATGTGCTGATTCAAAGCCAGTGACATT-GAGCTTAAA
1 GAT--GAAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGA-CTTAAA
* *
856345 GATGATAAAAAGTGCCAATATGCTGATTCAAAGCCAACGATATTGGACTTAAA
1 GATG---AAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
* * * * * **
856398 GATGAAATGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGGTTTAAA
1 GATGAAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
** * * * * **
856448 GAAAATAAAGGTGCCAATATGCTAATTCAAGGCTAGCGATATCAGACTTAAA
1 GATGA-AAA-GTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
* * * ** ** * ** * **
856500 AATGATAAAGGTACTAATATTTTGACTT-AGGGCTAATGATATTAAACTTAAA
1 GATGA-AAA-GTGCCAATATGCTGA-TTCAAAGCCAGCGACATTGGACTTAAA
* * ** * * *
856552 GATAAGAAAAATGCTAATATATTGATTCAAGGCCAACGACATTGGGCTTAAA
1 GAT--GAAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
* * * * * * * *
856604 CATGATAAGAATGCTAATGTGCTAATTCAAGGCCAGTGACATTAGACTTAAA
1 GATGA-AA-AGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
* * * * * * * *
856656 AATGAGAAGAATGCCAATGTGCTGATTTAAAGCTAGTGACAATT-GATTTACA
1 GATGA-AA-AGTGCCAATATGCTGATTCAAAGCCAGCGAC-ATTGGACTTAAA
* * * * *
856708 GATGACAAGGGTTCCAATGTGCTGATTCAAGGTCAGCGACATT
1 GATGA-AA-AGTGCCAATATGCTGATTCAAAGCCAGCGACATT
856751 AGTTTCAAAA
Statistics
Matches: 431, Mismatches: 107, Indels: 46
0.74 0.18 0.08
Matches are distributed among these distances:
49 3 0.01
50 47 0.11
51 15 0.03
52 302 0.70
53 55 0.13
54 7 0.02
55 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (50 bp):
GATGAAAAGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTAAA
Found at i:856911 original size:31 final size:31
Alignment explanation
Indices: 856861--857131 Score: 210
Period size: 31 Copynumber: 8.5 Consensus size: 31
856851 CCAATGACAT
856861 TGGGC-TTAGAAGAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAAG-GGTTGCCACTGACTTGTG
* *
856892 TGGACTTTAGAAGGGTTGCCA-TCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACT-GACTTGTG
* *
856923 TGGGCTTTAAAGAAGAGTTGCCACTGACTTCTG
1 TGGGCTTT--AGAAGGGTTGCCACTGACTTGTG
* *
856956 TGGGCTTTATAAGGGTTGCCA-TCGACTTGTA
1 TGGGCTTTAGAAGGGTTGCCACT-GACTTGTG
* * * **
856987 TAGGCTTTAAAAGAGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACTGACTTGTG
* ** *
857018 TGGGCTTTAGAAAAGGTTTTCACCGACTTGTG
1 TGGGCTTTAG-AAGGGTTGCCACTGACTTGTG
* * *
857050 TGGGCTTTAAAAAGGGATTGCC-TTCGACTTATG
1 TGGGCTTT-AGAAGGG-TTGCCACT-GACTTGTG
* * *
857083 TGGGTTTTAAAAAGGGGTTGCCATTGACTTGTG
1 TGGGCTTT-AGAA-GGGTTGCCACTGACTTGTG
857116 TGGGCTTT-GAAAGGGT
1 TGGGCTTTAG-AAGGGT
857132 GCAATGGAGT
Statistics
Matches: 192, Mismatches: 34, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.01
31 79 0.41
32 37 0.19
33 68 0.35
34 6 0.03
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACTGACTTGTG
Found at i:856943 original size:33 final size:33
Alignment explanation
Indices: 856868--857128 Score: 206
Period size: 33 Copynumber: 8.1 Consensus size: 33
856858 CATTGGGCTT
*
856868 AGAAGAGGTTGCCA-CTGACTTGTGTGGACTTT--
1 AGAAGA-GTTGCCATC-GACTTGTGTGGGCTTTAA
* *
856900 AGAAGGGTTGCCATCAACTTGTGTGGGCTTTAA
1 AGAAGAGTTGCCATCGACTTGTGTGGGCTTTAA
*
856933 AGAAGAGTTGCCA-CTGACTTCTGTGGGCTTTATA
1 AGAAGAGTTGCCATC-GACTTGTGTGGGCTTTA-A
* *
856967 AG--G-GTTGCCATCGACTTGTATAGGCTTT-A
1 AGAAGAGTTGCCATCGACTTGTGTGGGCTTTAA
* *
856996 A-AAGAGTTGCCACCAACTTGTGTGGGCTTTAGA
1 AGAAGAGTTGCCATCGACTTGTGTGGGCTTTA-A
** *
857029 A-AAG-GTTTTCACCGACTTGTGTGGGCTTTAA
1 AGAAGAGTTGCCATCGACTTGTGTGGGCTTTAA
* * * *
857060 A-AAGGGATTGCCTTCGACTTATGTGGGTTTTAA
1 AGAAGAG-TTGCCATCGACTTGTGTGGGCTTTAA
* *
857093 A-AAGGGGTTGCCATTGACTTGTGTGGGCTTTGAA
1 AGAA-GAGTTGCCATCGACTTGTGTGGGCTTT-AA
857127 AG
1 AG
857129 GGTGCAATGG
Statistics
Matches: 187, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
29 2 0.01
30 1 0.01
31 67 0.36
32 33 0.18
33 75 0.40
34 9 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (33 bp):
AGAAGAGTTGCCATCGACTTGTGTGGGCTTTAA
Found at i:856964 original size:64 final size:64
Alignment explanation
Indices: 856868--857128 Score: 269
Period size: 64 Copynumber: 4.0 Consensus size: 64
856858 CATTGGGCTT
* *
856868 AGAAGAGGTTGCCACTGACTTGTGTGGACTTTAGAAGGGTTGCCATCAACTTGTGTGGGCTTTAA
1 AGAAGA-GTTGCCACTGACTTGTGTGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAA
* * * *
856933 AGAAGAGTTGCCACTGACTTCTGTGGGCTTTATAAGGGTTGCCATCGACTTGTATAGGCTTT-A
1 AGAAGAGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAA
** * ** *
856996 A-AAGAGTTGCCACCAACTTGTGTGGGCTTTAGAAAAGGTTTTCACCGACTTGTGTGGGCTTTAA
1 AGAAGAGTTGCCACTGACTTGTGTGGGCTTTAG-AAGGGTTGCCATCGACTTGTGTGGGCTTTAA
* * * * * *
857060 A-AAGGGATTGCC-TTCGACTTATGTGGGTTTTAAAAAGGGGTTGCCATTGACTTGTGTGGGCTT
1 AGAAGAG-TTGCCACT-GACTTGTGTGGGCTTT-AGAA-GGGTTGCCATCGACTTGTGTGGGCTT
857123 TGAA
62 T-AA
857127 AG
1 AG
857129 GGTGCAATGG
Statistics
Matches: 160, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
62 27 0.17
63 25 0.16
64 56 0.35
65 26 0.16
66 23 0.14
67 3 0.02
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (64 bp):
AGAAGAGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAA
Found at i:857024 original size:95 final size:94
Alignment explanation
Indices: 856861--857079 Score: 248
Period size: 95 Copynumber: 2.3 Consensus size: 94
856851 CCAATGACAT
* * * * *
856861 TGGGC-TTAGAAGAGGTTGCCA-CTGACTTGTGTGGACTTTAGAAGGGTTGCCATCAACTTGTGT
1 TGGGCTTTAAAAG-GGTTGCCATC-GACTTGTATGGACTTTAAAAGAGTTGCCACCAACTTGTGT
*
856924 GGGCTTTA-AAGAAGAGTTGCCACTGACTTCTG
64 GGGCTTTAGAA-AAG-GTTGCCACCGACTTCTG
*
856956 TGGGCTTTATAAGGGTTGCCATCGACTTGTATAGG-CTTTAAAAGAGTTGCCACCAACTTGTGTG
1 TGGGCTTTAAAAGGGTTGCCATCGACTTGTAT-GGACTTTAAAAGAGTTGCCACCAACTTGTGTG
** *
857020 GGCTTTAGAAAAGGTTTTCACCGACTTGTG
65 GGCTTTAGAAAAGGTTGCCACCGACTTCTG
*
857050 TGGGCTTTAAAAAGGGATTGCCTTCGACTT
1 TGGGCTTT-AAAAGGG-TTGCCATCGACTT
857080 ATGTGGGTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
94 21 0.20
95 63 0.59
96 23 0.21
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (94 bp):
TGGGCTTTAAAAGGGTTGCCATCGACTTGTATGGACTTTAAAAGAGTTGCCACCAACTTGTGTGG
GCTTTAGAAAAGGTTGCCACCGACTTCTG
Found at i:857175 original size:32 final size:32
Alignment explanation
Indices: 857139--857660 Score: 185
Period size: 32 Copynumber: 16.8 Consensus size: 32
857129 GGTGCAATGG
* *
857139 AGTTGTGGACTTTAAAAAAAAATGTGCCATGA
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857171 AGTTGTTGAC--T---CAAAAGGGTGCCACGG
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857198 AGTTGTGAACTTT---GAAAGA-GTGCCACGG
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* *
857226 AGTTGTGGACTTTAAAAGAAAAAGGCGCCATTG-
1 AGTTGTGGACTTTAAAA-AAAAAGGTGCCA-CGA
*
857259 AGTTGTGGACTTAAAAGGAAAAAAAGGGTGCCACGA
1 AGTTGTGGACTT-TAA--AAAAAAA-GGTGCCACGA
*
857295 AGTTGTGGAC-TT----AAAAGGGTGCCAC-A
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857321 GTGTTGTGGACTTTAAAGAAAAATGTACCAC-A
1 -AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857353 GAGTTGAGGACTTTGAAGAAAAATGTGCCACGA
1 -AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857386 AGTTGTGAACTTAAAAGAAAAAAAGGGTGCTACAA
1 AGTTGTGGACTT-TAA-AAAAAAA-GGTGCCACGA
* * * *
857421 AGTTATGGA-GTT----AAAAGGGTGCCA-TA
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * *
857447 GAGTTGTAGACTTT-GAAAAAAATGTGCCAC-A
1 -AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* *
857478 GAGTTGTGGACTTAAAATAAAAAAATGATGCCACGA
1 -AGTTGTGGACTT-TAA-AAAAAAA-GGTGCCACGA
* * *
857514 AGTTGTGGAC-TT----AAAAGGGTGTCACGG
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * * *
857541 AGTTGTGGACTTTGAAGAAAAAGGTACCATGG
1 AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
* * * *
857573 AGTTATGGACTTTGAAGAAAAAA-GCGCCACGG
1 AGTTGTGGACTTT-AAAAAAAAAGGTGCCACGA
*
857605 AGTTGTGGACTTTGAAGAAGAAAA--TGCCAC-A
1 AGTTGTGGACTTT-AA-AAAAAAAGGTGCCACGA
*
857636 GAGTTGTGGACTTTAAAGAAAAAGG
1 -AGTTGTGGACTTTAAAAAAAAAGG
857661 GGTGCCACTG
Statistics
Matches: 369, Mismatches: 77, Indels: 88
0.69 0.14 0.16
Matches are distributed among these distances:
26 2 0.01
27 66 0.18
28 39 0.11
29 4 0.01
30 6 0.02
31 25 0.07
32 123 0.33
33 30 0.08
34 18 0.05
35 37 0.10
36 19 0.05
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (32 bp):
AGTTGTGGACTTTAAAAAAAAAGGTGCCACGA
Found at i:857221 original size:28 final size:28
Alignment explanation
Indices: 857183--857244 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
857173 TTGTTGACTC
*
857183 AAAAGGGTGCCACGGAGTTGTGAACTTT
1 AAAAGAGTGCCACGGAGTTGTGAACTTT
* *
857211 GAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAGAGTGCCACGGAGTTGTGAACTTT
857239 AAAAGA
1 AAAAGA
857245 AAAAGGCGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (28 bp):
AAAAGAGTGCCACGGAGTTGTGAACTTT
Found at i:857337 original size:28 final size:27
Alignment explanation
Indices: 857280--857338 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
857270 TAAAAGGAAA
857280 AAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTGTGGACTT
*
857307 AAAAGGGTGCCAC-AGTGTTGTGGACTT
1 AAAAGGGTGCCACGA-AGTTGTGGACTT
*
857334 TAAAG
1 AAAAG
857339 AAAAATGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTGTGGACTT
Found at i:857399 original size:91 final size:95
Alignment explanation
Indices: 857183--857403 Score: 261
Period size: 95 Copynumber: 2.3 Consensus size: 95
857173 TTGTTGACTC
* * *
857183 AAAAGGGTGCCACGGAGTTGTGAACTTTGAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAAAA
1 AAAAGGGTGCCACGAAGTTGTGAAC-TTAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGAAAA
* ** *
857248 AGGCGCCATTGAGTTGTGGACTTAAAAGGAAA
65 AGGCACCACAGAGTTGAGGACTTAAAAGG-AA
* * *
857280 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGTGTTGTGGACTTT-AAAGAAAAA
1 AAAAGGGTGCCACGAAGTTGTGAACTTAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGAAAAA
* * **
857344 TGTACCACAGAGTTGAGGACTTTGAA-G-A
66 GGCACCACAGAGTTGAGGACTTAAAAGGAA
*
857372 AAAA-TGTGCCACGAAGTTGTGAACTTAAAAGA
1 AAAAGGGTGCCACGAAGTTGTGAACTTAAAAGA
857404 AAAAAAGGGT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 25 0.23
92 5 0.05
94 1 0.01
95 27 0.25
96 26 0.24
97 23 0.21
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (95 bp):
AAAAGGGTGCCACGAAGTTGTGAACTTAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGAAAAA
GGCACCACAGAGTTGAGGACTTAAAAGGAA
Found at i:857441 original size:126 final size:125
Alignment explanation
Indices: 857139--857530 Score: 413
Period size: 126 Copynumber: 3.1 Consensus size: 125
857129 GGTGCAATGG
* * ** * * * *
857139 AGTTGTGGACTT-TAA-AAAAAAA-TGTGCCATGAAGTTGTTGACTCAAAAGGGTGCCACGGAGT
1 AGTTGTGGACTTAAAAGAAAAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGT
* * * * * *
857201 TGTGAACTTT--GAAAGA-GTGCCACGGAGTTGTGGACTTTAAAAGAAAAAGGCGCCATTG-
66 TGTGGACTTTAAGAAAAATGTGCCACAGAGTTGTGGACTTT-AAAGAAAAATGTGCCA-CGA
* * *
857259 AGTTGTGGACTTAAAAGGAAAAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGTG
1 AGTTGTGGACTTAAAA-GAAAAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAG
* * *
857324 TTGTGGACTTTAAAGAAAAATGTACCACAGAGTTGAGGACTTTGAAGAAAAATGTGCCACGA
65 TTGTGGACTTT-AAGAAAAATGTGCCACAGAGTTGTGGACTTTAAAGAAAAATGTGCCACGA
* * * *
857386 AGTTGTGAACTTAAAAGAAAAAAAGGGTGCTACAAAGTTATGGAGTTAAAAGGGTGCCATAGAGT
1 AGTTGTGGACTTAAAAGAAAAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGT
* * *
857451 TGTAGACTTTGAA-AAAAATGTGCCACAGAGTTGTGGACTTAAAATAAAAAAATGATGCCACGA
66 TGTGGACTTT-AAGAAAAATGTGCCACAGAGTTGTGGACTT-TAA-AGAAAAATG-TGCCACGA
857514 AGTTGTGGACTTAAAAG
1 AGTTGTGGACTTAAAAG
857531 GGTGTCACGG
Statistics
Matches: 229, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
120 12 0.05
121 2 0.01
123 7 0.03
124 43 0.19
125 25 0.11
126 56 0.24
127 41 0.18
128 43 0.19
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.24
Consensus pattern (125 bp):
AGTTGTGGACTTAAAAGAAAAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGT
TGTGGACTTTAAGAAAAATGTGCCACAGAGTTGTGGACTTTAAAGAAAAATGTGCCACGA
Found at i:857510 original size:35 final size:34
Alignment explanation
Indices: 857462--857529 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
857452 GTAGACTTTG
857462 AAAAAAATGTGCCAC-AGAGTTGTGGACTTAAAAT
1 AAAAAAATGTGCCACGA-AGTTGTGGACTTAAAAT
857496 AAAAAAATGATGCCACGAAGTTGTGGACTTAAAA
1 AAAAAAATG-TGCCACGAAGTTGTGGACTTAAAA
857530 GGGTGTCACG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 9 0.28
35 22 0.69
36 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (34 bp):
AAAAAAATGTGCCACGAAGTTGTGGACTTAAAAT
Found at i:857594 original size:93 final size:91
Alignment explanation
Indices: 857348--857658 Score: 300
Period size: 93 Copynumber: 3.3 Consensus size: 91
857338 GAAAAATGTA
* * *
857348 CCACAGAGTTGAGGACTTTGAAGAAAAATGTGCCACGAAGTTGTGAACTTAAAAGAAAAAAAGGG
1 CCACAGAGTTGTGGACTTTGAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAG-AAAAAA--G
* * * *
857413 TGCTACAAAGTTATGGAGTTAAAAGGGTG
63 TGCCACGAAGTTGTGGACTTAAAAGGGTG
* * * *
857442 CCATAGAGTTGTAGACTTTGAA-AAAAATGTGCCACAGAGTTGTGGACTTAAAATAAAAAAATGA
1 CCACAGAGTTGTGGACTTTGAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAA-GAAAAAA-G-
857506 TGCCACGAAGTTGTGGACTTAAAAGGGTG
63 TGCCACGAAGTTGTGGACTTAAAAGGGTG
* * * * * * ** *
857535 TCACGGAGTTGTGGACTTTGAAGAAAAAGGTACCATGGAGTTATGGACTTTGAAGAAAAAAGCGC
1 CCACAGAGTTGTGGACTTTGAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGTGC
* **
857600 CACGGAGTTGTGGACTTTGAAGAAGAAAATG
66 CACGAAGTTGTGGAC-TT-AA-AAG--GGTG
*
857631 CCACAGAGTTGTGGACTTTAAAGAAAAA
1 CCACAGAGTTGTGGACTTTGAAGAAAAA
857659 GGGGTGCCAC
Statistics
Matches: 178, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
91 16 0.09
92 4 0.02
93 85 0.48
94 46 0.26
96 27 0.15
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (91 bp):
CCACAGAGTTGTGGACTTTGAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGTGC
CACGAAGTTGTGGACTTAAAAGGGTG
Found at i:857680 original size:64 final size:62
Alignment explanation
Indices: 857536--857717 Score: 188
Period size: 64 Copynumber: 2.9 Consensus size: 62
857526 AAAAGGGTGT
* * ** *
857536 CACGGAGTTGTGGACTTTGAAGAAAAAGGTACCATGGAGTTATGGACTTTGAAGAAAAAAGCGC
1 CACGGAGTTGTGGACTTTG-AGAAAAA-ATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGCGC
* * *
857600 CACGGAGTTGTGGACTTTGAAGAAGAAAATGCCACAGAGTTGTGGACTTTAAAGAAAAAGGGGTG
1 CACGGAGTTGTGGACTTTG-AGAA-AAAATGCCACAGAGTTGTGGACTTTGAAGAAAAA--AGCG
857665 C
62 C
* * * *
857666 CACTGAG-TGT-GACTTTGAGAAAAGATGCCACAGAATGGTGGACTTTGAAGAA
1 CACGGAGTTGTGGACTTTGAGAAAAAATGCCACAGAGTTGTGGACTTTGAAGAA
857718 GGAAAAAGAT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
62 27 0.26
63 4 0.04
64 56 0.55
65 6 0.06
66 9 0.09
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (62 bp):
CACGGAGTTGTGGACTTTGAGAAAAAATGCCACAGAGTTGTGGACTTTGAAGAAAAAAGCGC
Found at i:857680 original size:96 final size:95
Alignment explanation
Indices: 857540--857723 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 95
857530 GGGTGTCACG
* *
857540 GAGTTGTGGACTTTGAAGAAAAAGGTACCATGGAGTTATGGACTTTGAAGAAAAAAGCGCCACGG
1 GAGTTGTGGACTTTAAAGAAAAAGGTACCATGGAGTTATGGACTTTG-AGAAAAAA-CGCCACAG
* *
857605 AGTTGTGGACTTTGAAGAA-GAAAATGCCACA
64 AATGGTGGACTTTGAAGAAGGAAAATGCCACA
* * * *
857636 GAGTTGTGGACTTTAAAGAAAAAGGGGTGCCACT-GAG-TGT-GACTTTGAGAAAAGATGCCACA
1 GAGTTGTGGACTTTAAAGAAAAA--GGTACCA-TGGAGTTATGGACTTTGAGAAAAAACGCCACA
857698 GAATGGTGGACTTTGAAGAAGGAAAA
63 GAATGGTGGACTTTGAAGAAGGAAAA
857724 AGATTTGGAG
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
94 23 0.30
95 12 0.16
96 29 0.38
97 2 0.03
98 9 0.12
99 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.22
Consensus pattern (95 bp):
GAGTTGTGGACTTTAAAGAAAAAGGTACCATGGAGTTATGGACTTTGAGAAAAAACGCCACAGAA
TGGTGGACTTTGAAGAAGGAAAATGCCACA
Found at i:857710 original size:30 final size:29
Alignment explanation
Indices: 857578--857713 Score: 94
Period size: 32 Copynumber: 4.3 Consensus size: 29
857568 CATGGAGTTA
* * *
857578 TGGACTTTGAAGAAAAAAGCGCCACGGAGTTG
1 TGGACTTTG-AGAAAAGA-TGCCACAGAG-TG
*
857610 TGGACTTTGAAGAAGAAAATGCCACAGAGTTG
1 TGGACTTTG-AGAA-AAGATGCCACAGAG-TG
* * *
857642 TGGACTTTAAAGAAAAAGGGGTGCCACTGAGTG
1 TGGACTTT-GAG-AAAA--GATGCCACAGAGTG
*
857675 T-GACTTTGAGAAAAGATGCCACAGAATGG
1 TGGACTTTGAGAAAAGATGCCACAGAGT-G
857704 TGGACTTTGA
1 TGGACTTTGA
857714 AGAAGGAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
28 10 0.11
29 2 0.02
30 12 0.14
31 2 0.02
32 43 0.49
33 9 0.10
34 9 0.10
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (29 bp):
TGGACTTTGAGAAAAGATGCCACAGAGTG
Found at i:868732 original size:50 final size:50
Alignment explanation
Indices: 868676--868810 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
868666 AAAAATGCTT
* * * *
868676 GAATGTATCGATACATTGAAAAATGGATTGATACATCTAGGTAAAACCTA
1 GAATGTATCGATACAATGAAAAATGTATAGATACATCTAGGTAAAACCCA
* *
868726 GAATGTATTGATACAATGAAAAATGTATAGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATAGATACATCTAGGTAAAACCCA
* * * *
868776 AAATGCATCGATACAATGAATAATGTATCGATACA
1 GAATGTATCGATACAATGAAAAATGTATAGATACA
868811 AATTTTAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATAGATACATCTAGGTAAAACCCA
Found at i:869544 original size:75 final size:76
Alignment explanation
Indices: 869442--869767 Score: 392
Period size: 75 Copynumber: 4.3 Consensus size: 76
869432 AAGGGTGCCT
* * * *
869442 TGCTTTTTGAGGACAAAGG-AAAAGGAGTACGTCCTACTCTTCGACGATAAAGGAAAAGAG-AAT
1 TGCTCTTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAGAGAAAT
* ** *
869505 GAAATGGGTCA
66 AAAATGCATCC
* *
869516 TGTTGC-TTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAATAGAA
1 TGCT-CTTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGG-AAAAGAGAA
869580 ATAAAATGCATCC
64 ATAAAATGCATCC
* *
869593 TGCTCTTTGAGGACAAAGGAAAAA-GAGTACGTCCTGCTCTTCAAGGATAAAGGAAAAGAG-AAT
1 TGCTCTTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAGAGAAAT
**
869656 AAAATGGGTCC
66 AAAATGCATCC
* * * * * ** *
869667 TGCTCCTTGAGGACGAAGGAAAAATGAGTACATCCTGCTATTTGAGGATAAAGGAAATGAGGAAA
1 TGCTCTTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAGA-GAAA
869732 TAAAATGCATCC
65 TAAAATGCATCC
869744 TGCTCTTTGAGGACAAAGGAAAAA
1 TGCTCTTTGAGGACAAAGGAAAAA
869768 AGGAAATAAA
Statistics
Matches: 217, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
74 50 0.23
75 67 0.31
76 35 0.16
77 65 0.30
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (76 bp):
TGCTCTTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAGAGAAAT
AAAATGCATCC
Found at i:869611 original size:42 final size:42
Alignment explanation
Indices: 869546--869819 Score: 183
Period size: 42 Copynumber: 6.9 Consensus size: 42
869536 AAAAGGAGTA
* ** *
869546 CATCCTACTCTTCAAGGATAAAGGAAAAATAGAAATAAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATAGAAATAAAATG
*
869588 CATCCTGCTCTTTGAGGACAAAGG-AAAA-AG-AGT---A--
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATAGAAATAAAATG
* ** * *
869622 CGTCCTGCTCTTCAAGGATAAAGG-AAAAGAG-AATAAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATAGAAATAAAATG
** * * *
869662 GGTCCTGCTCCTTGAGGACGAAGGAAAAAT-G-AGT---A--
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATAGAAATAAAATG
* *
869697 CATCCTGCTATTTGAGGATAAAGG--AAATGAGGAAATAAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAT-A-GAAATAAAATG
869739 CATCCTGCTCTTTGAGGACAAAGGAAAAA-AGGAAATAAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATA-GAAATAAAATG
* * * *
869781 CGTCCTGCTTTTTGATGACAAAGGAAAAAAAGCAAATAA
1 CATCCTGCTCTTTGAGGACAAAGGAAAAATAG-AAATAA
869820 GGAAAGTGTC
Statistics
Matches: 182, Mismatches: 30, Indels: 39
0.73 0.12 0.16
Matches are distributed among these distances:
33 4 0.02
34 24 0.13
35 22 0.12
36 2 0.01
37 3 0.02
38 1 0.01
39 2 0.01
40 24 0.13
41 8 0.04
42 82 0.45
43 7 0.04
44 3 0.02
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (42 bp):
CATCCTGCTCTTTGAGGACAAAGGAAAAATAGAAATAAAATG
Found at i:869721 original size:151 final size:151
Alignment explanation
Indices: 869442--869767 Score: 485
Period size: 151 Copynumber: 2.2 Consensus size: 151
869432 AAGGGTGCCT
* * * *
869442 TGCTTTTTGAGGACAAAGGAAAAGGAGTACGTCCTACTCTTCGACGATAAAGGAAAAGAGAATGA
1 TGCTCTTTGAGGACAAAGGAAAAAGAGTACGTCCTACTCTTCAACGATAAAGGAAAAGAGAATAA
* * *
869507 AATGGGTCATGTTGCTTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAA
66 AATGGGTCATGCTCCTTGAGGACAAAGGAAAAAGGAGTACATCCTACTATTCAAGGATAAAGG--
869572 AAAT-A-GAAATAAAATGCATCC
129 AAATGAGGAAATAAAATGCATCC
* *
869593 TGCTCTTTGAGGACAAAGGAAAAAGAGTACGTCCTGCTCTTCAAGGATAAAGGAAAAGAGAATAA
1 TGCTCTTTGAGGACAAAGGAAAAAGAGTACGTCCTACTCTTCAACGATAAAGGAAAAGAGAATAA
* * * * **
869658 AATGGGTCCTGCTCCTTGAGGACGAAGGAAAAATGAGTACATCCTGCTATTTGAGGATAAAGGAA
66 AATGGGTCATGCTCCTTGAGGACAAAGGAAAAAGGAGTACATCCTACTATTCAAGGATAAAGGAA
869723 ATGAGGAAATAAAATGCATCC
131 ATGAGGAAATAAAATGCATCC
869744 TGCTCTTTGAGGACAAAGGAAAAA
1 TGCTCTTTGAGGACAAAGGAAAAA
869768 AGGAAATAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
149 4 0.03
150 1 0.01
151 153 0.97
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (151 bp):
TGCTCTTTGAGGACAAAGGAAAAAGAGTACGTCCTACTCTTCAACGATAAAGGAAAAGAGAATAA
AATGGGTCATGCTCCTTGAGGACAAAGGAAAAAGGAGTACATCCTACTATTCAAGGATAAAGGAA
ATGAGGAAATAAAATGCATCC
Found at i:869748 original size:77 final size:75
Alignment explanation
Indices: 869448--869767 Score: 367
Period size: 77 Copynumber: 4.2 Consensus size: 75
869438 GCCTTGCTTT
* * * * * * * *
869448 TTGAGGACAAAGGAAAAGGAGTACGTCCTACTCTTCGACGATAAAGGAAAAGAG-AATGAAATGG
1 TTGAGGACAAAGGAAAAAGAGTACATCCTGCTCTTCAAGGATAAAGGAAATGAGAAATAAAATGC
* * * *
869512 GTCATGTTGC
66 ATCCTGCTCC
*
869522 TTGAGGACAAAGGAAAAAGGAGTACATCCTACTCTTCAAGGATAAAGGAAAAAT-AGAAATAAAA
1 TTGAGGACAAAGGAAAAA-GAGTACATCCTGCTCTTCAAGGATAAAGG--AAATGAGAAATAAAA
*
869586 TGCATCCTGCTCT
63 TGCATCCTGCTCC
* * *
869599 TTGAGGACAAAGGAAAAAGAGTACGTCCTGCTCTTCAAGGATAAAGGAAAAGAG-AATAAAATGG
1 TTGAGGACAAAGGAAAAAGAGTACATCCTGCTCTTCAAGGATAAAGGAAATGAGAAATAAAATGC
*
869663 GTCCTGCTCC
66 ATCCTGCTCC
* * **
869673 TTGAGGACGAAGGAAAAATGAGTACATCCTGCTATTTGAGGATAAAGGAAATGAGGAAATAAAAT
1 TTGAGGACAAAGGAAAAA-GAGTACATCCTGCTCTTCAAGGATAAAGGAAATGA-GAAATAAAAT
*
869738 GCATCCTGCTCT
64 GCATCCTGCTCC
869750 TTGAGGACAAAGGAAAAA
1 TTGAGGACAAAGGAAAAA
869768 AGGAAATAAA
Statistics
Matches: 210, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
74 54 0.26
75 58 0.28
76 30 0.14
77 68 0.32
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (75 bp):
TTGAGGACAAAGGAAAAAGAGTACATCCTGCTCTTCAAGGATAAAGGAAATGAGAAATAAAATGC
ATCCTGCTCC
Found at i:870189 original size:183 final size:182
Alignment explanation
Indices: 869831--870584 Score: 727
Period size: 183 Copynumber: 4.1 Consensus size: 182
869821 GAAAGTGTCA
* * * * * **
869831 TGCTCCTTGAGGACTAAAAAGTGCTACCAACTCGTGTAGGCTTTAAGAAAAAAAATATGTCCTGC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT--GAAAAAAAAGACATCCTGC
* * * * *
869896 TTTTTGAGGACTAAAGGGTGCCACCAACTCGTAT-GCGCTTTGAAAAGAAAAAGGCATCTTACGT
64 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAG-GCTTT-AAAAGAAAAAGGCGTCCTAC-T
* * * *
869960 -TTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGACATCC
126 CTTTGAGAACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAAAAGGCATCC
* * * * * *** *
870017 TGCTCTTTAAGGACTAAAGGGTGCTACCAATTCATGTGGGCTTTGAAAAGAAGAAGGTGTCCTAC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-AA-AAGACATCCTGC
* * * * * * * *
870082 TCTTTGAGGACT-AAAGGTGCCATCAGCTTGTGTGGGATTTGAAAGAAAAAGGCGTCATGCTCTT
64 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCGTCCTACTCTT
* *
870146 TGAGAACT-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
129 TGAGAACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAAAAGGCATCC
* *
870200 TGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTGAATAAAAAAGGCATCCTGCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA-AAAAAAGACATCCTGCT
* * * * * * * *
870265 CTTTGAGGACTGAAAGATGCCATCAACTCGTGTAGGTTTTAAAAGGAAAAGGTGTCCTGCTCCTT
65 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCGTCCTACTCTTT
* * ** * *
870330 GAGAA-TGGAAAGGTGCTAATAACTTGTGTGGGCTTT-AAAAAAAAAGGCATCT
130 GAGAACT-GAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCATCC
* * *
870382 TGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCTTGC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA--AAAAGACATCCTGC
* * * *
870446 TCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAATGCGCCCTACTCT
64 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTT-AAAAGAAAAAGGCGTCCTACTCT
* * * *
870511 TTGAGGACT-AAGAGGTGCCACCAACTCGTGTAGGCTTTGAAAAAAAAA--CAACT
128 TTGAGAACTGAAG-GGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCATCC
* *
870564 TGCTATTTGAGGACGAAAAGG
1 TGCTCTTTGAGGACTAAAAGG
870585 CTAAAAGAGG
Statistics
Matches: 476, Mismatches: 78, Indels: 32
0.81 0.13 0.05
Matches are distributed among these distances:
180 2 0.00
181 2 0.00
182 145 0.30
183 181 0.38
184 66 0.14
185 22 0.05
186 58 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (182 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAGACATCCTGCTC
TTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCGTCCTACTCTTTG
AGAACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCATCC
Found at i:870216 original size:61 final size:62
Alignment explanation
Indices: 869831--870558 Score: 724
Period size: 62 Copynumber: 11.9 Consensus size: 62
869821 GAAAGTGTCA
* * * * * ***
869831 TGCTCCTTGAGGACTAAAAAGTGCTACCAACTCGTGTAGGCTTT-AAGAAAAAAAATATGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA-AAGAAAAAGGCGTCC
* * * * * *
869893 TGCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTATGCGCTTTGAAAAGAAAAAGGCATCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * *
869955 TACGT-TTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGACATCC
1 TGC-TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * * *
870017 TGCTCTTTAAGGACTAAAGGGTGCTACCAATTCATGTGGGCTTTGAAAAGAAGAAGGTGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * *
870079 TACTCTTTGAGGACT-AAAGGTGCCATCAGCTTGTGTGGGATTTG-AAAGAAAAAGGCGTCA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * *
870139 TGCTCTTTGAGAACT-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * *
870200 TGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTGAATA-AAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * * *
870261 TGCTCTTTGAGGACTGAAAGATGCCATCAACTCGTGTAGG-TTTTAAAAGGAAAAGGTGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * ** * * *
870322 TGCTCCTTGA-GAATGGAAAGGTGCTAATAACTTGTGTGGGCTTT-AAAA-AAAAAGGCATCT
1 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * *
870382 TGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * *
870443 TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAATGCGCCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * *
870505 TACTCTTTGAGGACTAAGAGGTGCCACCAACTCGTGTAGGCTTTGAAAA-AAAAA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
870559 CAACTTGCTA
Statistics
Matches: 558, Mismatches: 97, Indels: 23
0.82 0.14 0.03
Matches are distributed among these distances:
60 107 0.19
61 197 0.35
62 251 0.45
63 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (62 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
Found at i:870566 original size:121 final size:120
Alignment explanation
Indices: 869831--870584 Score: 660
Period size: 121 Copynumber: 6.2 Consensus size: 120
869821 GAAAGTGTCA
* * * * **
869831 TGCTCCTTGAGGACTAAAAAGTGCTACCAACTCGTGTAGGCTTTAAGAAAAAAA-ATATGTCCTG
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAA-AAAAAAAGGCA--TCCTG
* * * * *
869895 CTTTTTGAGGACTAAAGGGTGCCACCAACTCGTATGCGCTTTGAAAAGAAAAAGGCATCT
63 CTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGACATCC
* * * *
869955 TACGT-TTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGACATCCTG
1 TGC-TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAA-AAAAAGGCATCCTG
* * * * ***
870019 CTCTTTAAGGACTAAAGGGTGCTACCAATTCATGTGGGCTTTGAAAAGAAGAAGGTGTCC
63 CTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA-AAGACATCC
* * * * * * * *
870079 TACTCTTTGAGGACT-AAAGGTGCCATCAGCTTGTGTGGGATTTGAAAGAAAAAGGCGTCATGCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAAAAAGGCATCCTGCT
* * * * *
870143 CTTTGAGAACTAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
65 CTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGACATCC
* *
870200 TGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTGAATAAAAAAGGCATCCTGCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAAAAAAGGCATCCTGCT
* * * * ***
870265 CTTTGAGGACTGAAAGATGCCATCAACTCGTGTAGG-TTTTAAAAGGAAAAGGTGTCC
65 CTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGACATCC
* * * * ** * *
870322 TGCTCCTTGA-GAATGGAAAGGTGCTAATAACTTGTGTGGGCTTTAAAAAAAAAGGCATCTTGCT
1 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGGCATCCTGCT
* * *
870386 CTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCT
65 CTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGACATCC
* * * * ** *
870443 TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAATGCGCCCTAC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAA-AAAAAGGCATCCTGC
* * *
870508 TCTTTGAGGACTAAGAGGTGCCACCAACTCGTGTAGGCTTTGAAAA-AAAA-ACAACT
64 TCTTTGAGGACTAA-AGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACATCC
* *
870564 TGCTATTTGAGGACGAAAAGG
1 TGCTCTTTGAGGACTAAAAGG
870585 CTAAAAGAGG
Statistics
Matches: 519, Mismatches: 94, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
121 168 0.32
122 141 0.27
123 94 0.18
124 106 0.20
125 8 0.02
126 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (120 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGGCATCCTGCTC
TTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACATCC
Found at i:873367 original size:17 final size:17
Alignment explanation
Indices: 873342--873386 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
873332 AAAAAATAAT
873342 AATATAAAAAGAATAAAA
1 AATA-AAAAAGAATAAAA
**
873360 AATAAAAATTAATAAAA
1 AATAAAAAAGAATAAAA
873377 AATCAAAAAA
1 AAT-AAAAAA
873387 ATTTATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (17 bp):
AATAAAAAAGAATAAAA
Found at i:873388 original size:20 final size:20
Alignment explanation
Indices: 873363--873425 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
873353 AATAAAAAAT
873363 AAAAATTAATAAAAAATCAA
1 AAAAATTAATAAAAAATCAA
* *
873383 AAAAATTTATCAAAAAT-AA
1 AAAAATTAATAAAAAATCAA
* *
873402 AAAAATAAAATAAAACA-CAA
1 AAAAAT-TAATAAAAAATCAA
873422 AAAA
1 AAAA
873426 GAAATGGTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAATTAATAAAAAATCAA
Found at i:873388 original size:26 final size:24
Alignment explanation
Indices: 873330--873386 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
873320 GATTTTCAAC
* *
873330 ATAAAAAATAATAATATAAAAAGA
1 ATAAAAAATAAAAATATAAAAAAA
873354 ATAAAAAATAAAAAT-TAATAAAAA
1 ATAAAAAATAAAAATATAA-AAAAA
873378 ATCAAAAAA
1 AT-AAAAAA
873387 ATTTATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 20 0.69
25 6 0.21
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (24 bp):
ATAAAAAATAAAAATATAAAAAAA
Found at i:881356 original size:1 final size:1
Alignment explanation
Indices: 881350--881438 Score: 79
Period size: 1 Copynumber: 89.0 Consensus size: 1
881340 TGGCAATTGG
* * * ** ** **
881350 AAAAAAAAAAAAAACAAAACAAAACAAAAAACCAAAAAAAAAAAACCAAAAAAAAACCAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
881415 AAACAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
881439 GTGAAGATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:881373 original size:11 final size:10
Alignment explanation
Indices: 881350--881438 Score: 101
Period size: 11 Copynumber: 8.5 Consensus size: 10
881340 TGGCAATTGG
881350 AAAAA-AAAA
1 AAAAACAAAA
881359 AAAAACAAAA
1 AAAAACAAAA
*
881369 CAAAACAAAA
1 AAAAACAAAA
881379 AACCAAA-AAAA
1 AA--AAACAAAA
881390 AAAAACCAAAA
1 AAAAA-CAAAA
881401 AAAAACCAAAAA
1 AAAAA-C-AAAA
881413 AAAAACAAAAA
1 AAAAAC-AAAA
881424 AAAAACAAAA
1 AAAAACAAAA
881434 AAAAA
1 AAAAA
881439 GTGAAGATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
9 8 0.11
10 23 0.32
11 29 0.40
12 12 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:881386 original size:23 final size:22
Alignment explanation
Indices: 881350--881438 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 22
881340 TGGCAATTGG
*
881350 AAAAAAAAAA--AAAACAAAAC
1 AAAAAAAAAACCAAAAAAAAAC
881370 AAAACAAAAAACCAAAAAAAAAAAAC
1 AAAA-AAAAAACC---AAAAAAAAAC
*
881396 CAAAAAAAAACCAAAAAAAAAAC
1 AAAAAAAAAACC-AAAAAAAAAC
881419 AAAAAAAAAA-CAAAAAAAAA
1 AAAAAAAAAACCAAAAAAAAA
881439 GTGAAGATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
20 4 0.07
21 15 0.25
22 1 0.02
23 20 0.33
25 8 0.13
26 12 0.20
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAACCAAAAAAAAAC
Found at i:881392 original size:33 final size:32
Alignment explanation
Indices: 881351--881438 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 32
881341 GGCAATTGGA
* *
881351 AAAAAAAAAAAAACAAAACAAAA-CAAAAAACC
1 AAAAAAAAAAAAACAAAAAAAAACCAAAAAA-A
*
881383 AAAAAAAAAAAACCAAAAAAAAACCAAAAAAA
1 AAAAAAAAAAAAACAAAAAAAAACCAAAAAAA
881415 AAACAAAAAAAAAACAAAAAAAAA
1 AAA-AAAAAAAAAACAAAAAAAAA
881439 GTGAAGATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 24 0.48
33 26 0.52
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAAAACAAAAAAAAACCAAAAAAA
Found at i:891160 original size:13 final size:13
Alignment explanation
Indices: 891119--891167 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
891109 CCGTTATAAG
*
891119 CAATGTATCAATA
1 CAATGTATCGATA
891132 CAAT-T-TC-AT-
1 CAATGTATCGATA
891141 C-ATGTATCGATA
1 CAATGTATCGATA
891153 CAATGTATCGATA
1 CAATGTATCGATA
891166 CA
1 CA
891168 TTGTCCTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:891184 original size:33 final size:34
Alignment explanation
Indices: 891119--891188 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
891109 CCGTTATAAG
891119 CAATGTATCAATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCATCATGTATCGATA
* *
891153 CAATGTATCGATAC-ATTGTCCT-ATGTATCGATA
1 CAATGTATCAATACAATT-TCATCATGTATCGATA
891186 CAA
1 CAA
891189 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCATCATGTATCGATA
Found at i:893764 original size:13 final size:13
Alignment explanation
Indices: 893746--893771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
893736 AAATAGTACC
893746 CAATGTATCGATA
1 CAATGTATCGATA
893759 CAATGTATCGATA
1 CAATGTATCGATA
893772 TAAAGAATGT
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):
CAATGTATCGATA
Found at i:898334 original size:3 final size:3
Alignment explanation
Indices: 898321--898350 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
898311 CTTCATCCGA
*
898321 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
898351 TTCCTCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:899961 original size:13 final size:13
Alignment explanation
Indices: 899920--899968 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
899910 CCGTTATAAG
899920 CAATGTATCGATA
1 CAATGTATCGATA
899933 CAAT-T-TC-AT-
1 CAATGTATCGATA
899942 C-ATGTATCGATA
1 CAATGTATCGATA
899954 CAATGTATCGATA
1 CAATGTATCGATA
899967 CA
1 CA
899969 TTGTCCTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:899963 original size:34 final size:33
Alignment explanation
Indices: 899920--899989 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
899910 CCGTTATAAG
899920 CAATGTATCGATACAATT-TCATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTCAT-ATGTATCGATA
*
899954 CAATGTATCGATACATTGTCCTATGTATCGATA
1 CAATGTATCGATACATTGTCATATGTATCGATA
899987 CAA
1 CAA
899990 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCATATGTATCGATA
Found at i:900043 original size:20 final size:19
Alignment explanation
Indices: 900018--900072 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
900008 CTGCCAATCT
*
900018 CATGTATCGATACAAT-TG
1 CATGTATCGATACAATAAG
*
900036 TCCATGTATCGATACAGTAAG
1 --CATGTATCGATACAATAAG
900057 CATGTATCGATACAAT
1 CATGTATCGATACAAT
900073 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.48
20 15 0.48
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATAAG
Found at i:900076 original size:13 final size:13
Alignment explanation
Indices: 900058--900083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
900048 TACAGTAAGC
900058 ATGTATCGATACA
1 ATGTATCGATACA
900071 ATGTATCGATACA
1 ATGTATCGATACA
900084 TCTGGGAGTG
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:901232 original size:17 final size:15
Alignment explanation
Indices: 901210--901252 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
901200 CAACGAGAAT
901210 AAATTTTTTAATAAATA
1 AAATTTTTTAA-AAA-A
901227 AAATTTTTTAAAAAA
1 AAATTTTTTAAAAAA
901242 ATAATTTTTTA
1 A-AATTTTTTA
901253 TATCTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTTTTTAAAAAA
Found at i:901243 original size:18 final size:17
Alignment explanation
Indices: 901210--901252 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
901200 CAACGAGAAT
*
901210 AAATTTTTTAATAAATA
1 AAATTTTTTAAAAAATA
901227 AAATTTTTTAAAAAA-A
1 AAATTTTTTAAAAAATA
*
901243 TAATTTTTTA
1 AAATTTTTTA
901253 TATCTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTTTTAAAAAATA
Found at i:901638 original size:140 final size:140
Alignment explanation
Indices: 901376--901653 Score: 324
Period size: 140 Copynumber: 2.0 Consensus size: 140
901366 TTGAATAAAT
* * *
901376 TTTAACATACAAAGTAGCCCAAACACAATGATATGTGACACAAAATTGAAAGTTATTTGGTTATT
1 TTTAACATACAAAGTAGCCCAAACACAATGACATATGACACAAAATTAAAAGTTATTTGGTTATT
* ** * * * * * ** * ** *
901441 GTTAATTAAATTTTATAATTTTAATCATAATATGATGGAACGATGCAACATGGAAAATAATATGA
66 GTTAATAAAACCTGACAATTTGAATCATAACATGATGGAACAACACAAAATAAAAAATAATATAA
901506 ATATGACATA
131 ATATGACATA
* * * * * *
901516 TTTAATATAGAAAGTAGCCCGAATACAATGACATATGATAGAAAATTAAAAGTTATTTGGTTATT
1 TTTAACATACAAAGTAGCCCAAACACAATGACATATGACACAAAATTAAAAGTTATTTGGTTATT
*
901581 GTTAATAAAACCTGACAACTTTGAAT-GTAACATGATGGAACAACACAAAATAAAAAATAATATA
66 GTTAATAAAACCTGACAA-TTTGAATCATAACATGATGGAACAACACAAAATAAAAAATAATATA
901645 AATATGACA
130 AATATGACA
901654 GAATAGATAA
Statistics
Matches: 113, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
140 107 0.95
141 6 0.05
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (140 bp):
TTTAACATACAAAGTAGCCCAAACACAATGACATATGACACAAAATTAAAAGTTATTTGGTTATT
GTTAATAAAACCTGACAATTTGAATCATAACATGATGGAACAACACAAAATAAAAAATAATATAA
ATATGACATA
Found at i:901886 original size:13 final size:13
Alignment explanation
Indices: 901840--901914 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
901830 AACATGATTA
*
901840 TACAATACTTAAAG
1 TACAATA-TAAAAG
* *
901854 TATAATATAAAAC
1 TACAATATAAAAG
* *
901867 TAAAATATGAAAG
1 TACAATATAAAAG
901880 TACAATATAAAA-
1 TACAATATAAAAG
* *
901892 AATAAT-T-AAAG
1 TACAATATAAAAG
901903 TACAATATAAAA
1 TACAATATAAAA
901915 CTAAAATATG
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
10 3 0.07
11 5 0.11
12 5 0.11
13 27 0.59
14 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (13 bp):
TACAATATAAAAG
Found at i:901906 original size:23 final size:24
Alignment explanation
Indices: 901841--901915 Score: 91
Period size: 23 Copynumber: 3.1 Consensus size: 24
901831 ACATGATTAT
* *
901841 ACAATACTTAAAGTATAATATAAA
1 ACAATAATTAAAGTACAATATAAA
901865 ACTAA-AATATGAAAGTACAATATAAA
1 AC-AATAAT-T-AAAGTACAATATAAA
901891 A-AATAATTAAAGTACAATATAAA
1 ACAATAATTAAAGTACAATATAAA
901914 AC
1 AC
901916 TAAAATATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
23 16 0.36
24 7 0.16
25 6 0.14
26 15 0.34
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.25
Consensus pattern (24 bp):
ACAATAATTAAAGTACAATATAAA
Found at i:902064 original size:10 final size:10
Alignment explanation
Indices: 902049--902091 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
902039 AAATTTTTTG
*
902049 TATAAATTGA
1 TATAAATTTA
902059 TATAAATTTTA
1 TATAAA-TTTA
*
902070 TTTAAATTTA
1 TATAAATTTA
902080 TATAAATTTA
1 TATAAATTTA
902090 TA
1 TA
902092 ATATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TATAAATTTA
Found at i:902068 original size:21 final size:21
Alignment explanation
Indices: 902044--902088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
902034 ATCTTAAATT
*
902044 TTTTGTATAAATTGATATAAA
1 TTTTATATAAATTGATATAAA
* *
902065 TTTTATTTAAATTTATATAAA
1 TTTTATATAAATTGATATAAA
902086 TTT
1 TTT
902089 ATAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTATATAAATTGATATAAA
Found at i:902077 original size:11 final size:11
Alignment explanation
Indices: 902044--902100 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
902034 ATCTTAAATT
*
902044 TTTTGTATAAA
1 TTTTATATAAA
*
902055 -TTGATATAAA
1 TTTTATATAAA
*
902065 TTTTATTTAAA
1 TTTTATATAAA
902076 -TTTATATAAA
1 TTTTATATAAA
*
902086 -TTTATA-ATA
1 TTTTATATAAA
902095 TTTTAT
1 TTTTAT
902101 TATTATAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.05
10 28 0.74
11 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
TTTTATATAAA
Found at i:904240 original size:2 final size:2
Alignment explanation
Indices: 904233--904264 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
904223 CCACTAATCC
904233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
904265 AATGCTTATT
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:905072 original size:19 final size:20
Alignment explanation
Indices: 905025--905073 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
905015 ATTTAAAAAT
905025 TAATTTTATATTAATATTTA
1 TAATTTTATATTAATATTTA
905045 TATATTTTATAATTAA-ATTTA
1 TA-ATTTTAT-ATTAATATTTA
905066 -AATTTTAT
1 TAATTTTAT
905074 TCATGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.26
20 3 0.11
21 12 0.44
22 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTTTATATTAATATTTA
Found at i:906791 original size:2 final size:2
Alignment explanation
Indices: 906784--906808 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
906774 GTTGATGACT
906784 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
906809 TAAAGGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:910719 original size:373 final size:373
Alignment explanation
Indices: 910034--910780 Score: 1440
Period size: 373 Copynumber: 2.0 Consensus size: 373
910024 CAAGTAATTC
910034 ATTGTTATCCGTATTAAAAGTAATAGCCCAATTCTCTTGCCTTGGTTTTTTAGGACGAGTGTCGA
1 ATTGTTATCCGTATTAAAAGTAATAGCCCAATTCTCTTGCCTTGGTTTTTTAGGACGAGTGTCGA
*
910099 TTGCCACTACGGATCTGAGGTGGAATTTTCATTTTGACTTGCTAAGCATCCACTCTTCGTCCTAT
66 TTGCCACTACGGATCTGAGGTGGAATTTTCATTTTGACTTGCTAACCATCCACTCTTCGTCCTAT
* *
910164 CCTATAATGACATTAATTGTCCCTAAGATTGGCATTTACTTGTGCCTCTATTGTAACTTTTTTTG
131 CCTATAATGACATTAATTATCCCTAAGATTGGCATTTACTTGTGCCTCTATCGTAACTTTTTTTG
910229 GTCACCTGTACTGCTTCCTCGTGAAAGTTGTTGCTTTTTACAAACTACTTGATCTTGCTCTTTTG
196 GTCACCTGTACTGCTTCCTCGTGAAAGTTGTTGCTTTTTACAAACTACTTGATCTTGCTCTTTTG
910294 TACCAAGGCTTCGATGGCGTTCTTTAGACTTATACATTCTTCTCTTACATGGCCAATGTCGTCAT
261 TACCAAGGCTTCGATGGCGTTCTTTAGACTTATACATTCTTCTCTTACATGGCCAATGTCGTCAT
*
910359 GGAATTCATAATGCTTTTTGAGATTCCTTTTACTTATTTCACCTTTAA
326 GGAATTCATAATGCTTTTTGAGATTCCTTCTACTTATTTCACCTTTAA
*
910407 ATTGTTATCCTTATTAAAAGTAATAGCCCAATTCTCTTGCCTTGGTTTTTTAGGACGAGTGTCGA
1 ATTGTTATCCGTATTAAAAGTAATAGCCCAATTCTCTTGCCTTGGTTTTTTAGGACGAGTGTCGA
910472 TTGCCACTACGGATCTGAGGTGGAATTTTCATTTTGACTTGCTAACCATCCACTCTTCGTCCTAT
66 TTGCCACTACGGATCTGAGGTGGAATTTTCATTTTGACTTGCTAACCATCCACTCTTCGTCCTAT
910537 CCTATAATGACATTAATTATCCCTAAGATTGGCATTTACTTGTGCCTCTATCGTAACTTTTTTTG
131 CCTATAATGACATTAATTATCCCTAAGATTGGCATTTACTTGTGCCTCTATCGTAACTTTTTTTG
*
910602 GTCACCTGTACTGCTTCCTGGTGAAAGTTGTTGCTTTTTACAAACTACTTGATCTTGCTCTTTTG
196 GTCACCTGTACTGCTTCCTCGTGAAAGTTGTTGCTTTTTACAAACTACTTGATCTTGCTCTTTTG
910667 TACCAAGGCTTCGATGGCGTTCTTTAGACTTATACATTCTTCTCTTACATGGCCAATGTCGTCAT
261 TACCAAGGCTTCGATGGCGTTCTTTAGACTTATACATTCTTCTCTTACATGGCCAATGTCGTCAT
910732 GGAATTCATAATGCTTTTTGAGATTCCTTCTACTTATTTCACCTTTAA
326 GGAATTCATAATGCTTTTTGAGATTCCTTCTACTTATTTCACCTTTAA
910780 A
1 A
910781 AAGTGGTGGT
Statistics
Matches: 368, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
373 368 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (373 bp):
ATTGTTATCCGTATTAAAAGTAATAGCCCAATTCTCTTGCCTTGGTTTTTTAGGACGAGTGTCGA
TTGCCACTACGGATCTGAGGTGGAATTTTCATTTTGACTTGCTAACCATCCACTCTTCGTCCTAT
CCTATAATGACATTAATTATCCCTAAGATTGGCATTTACTTGTGCCTCTATCGTAACTTTTTTTG
GTCACCTGTACTGCTTCCTCGTGAAAGTTGTTGCTTTTTACAAACTACTTGATCTTGCTCTTTTG
TACCAAGGCTTCGATGGCGTTCTTTAGACTTATACATTCTTCTCTTACATGGCCAATGTCGTCAT
GGAATTCATAATGCTTTTTGAGATTCCTTCTACTTATTTCACCTTTAA
Found at i:911227 original size:13 final size:13
Alignment explanation
Indices: 911209--911233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
911199 ATTTTGCTAA
911209 GTATCGATACATT
1 GTATCGATACATT
911222 GTATCGATACAT
1 GTATCGATACAT
911234 AGCATTGGCA
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:911316 original size:10 final size:10
Alignment explanation
Indices: 911262--911323 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
911252 ATCTCATTTT
911262 TCACTGTTCA
1 TCACTGTTCA
*
911272 TCACT-ATCA
1 TCACTGTTCA
*
911281 TCACTATTCA
1 TCACTGTTCA
* * *
911291 TGTATCGGTACA
1 T-CA-CTGTTCA
911303 TCACTGTTCA
1 TCACTGTTCA
911313 TCACTGTTCA
1 TCACTGTTCA
911323 T
1 T
911324 GTATCGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 8 0.20
10 25 0.62
11 2 0.05
12 5 0.12
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:911316 original size:32 final size:32
Alignment explanation
Indices: 911270--911347 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
911260 TTTCACTGTT
* *
911270 CATCACT-ATCATCACTATTCATGTATCGGTA
1 CATCACTGTTCATCACTATTCATGTATCGATA
*
911301 CATCACTGTTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
911333 CATCACTGTTCATCA
1 CATCACTGTTCATCA
911348 TTGTACATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
31 7 0.16
32 36 0.84
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (32 bp):
CATCACTGTTCATCACTATTCATGTATCGATA
Found at i:911430 original size:22 final size:22
Alignment explanation
Indices: 911402--911444 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
911392 ATTCATCACA
911402 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
911424 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
911445 CACTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:911529 original size:20 final size:19
Alignment explanation
Indices: 911483--911529 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
911473 AATTTCAAAT
*
911483 GCATGTATCGATACATTAT
1 GCATGTATCGATACATTAA
*
911502 GAATTGTATCGATACATTGAA
1 GCA-TGTATCGATACATT-AA
911523 GCATGTA
1 GCATGTA
911530 AGTGCGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (19 bp):
GCATGTATCGATACATTAA
Found at i:911948 original size:34 final size:35
Alignment explanation
Indices: 911885--911951 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
911875 CTAAGTGATT
911885 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
911921 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
911952 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:914699 original size:3 final size:3
Alignment explanation
Indices: 914691--914720 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
914681 CTATACTTCT
914691 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
914721 GGGAGGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:915319 original size:20 final size:22
Alignment explanation
Indices: 915290--915334 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
915280 TATATTATTT
*
915290 TTTATTTAAAAT-ATTTT-ATA
1 TTTATATAAAATAATTTTAATA
*
915310 TTTATATAAATTAATTTTAATA
1 TTTATATAAAATAATTTTAATA
915332 TTT
1 TTT
915335 TGTATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 5 0.24
22 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATATAAAATAATTTTAATA
Found at i:916186 original size:13 final size:13
Alignment explanation
Indices: 916168--916192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
916158 ATAATATAAA
916168 AAAATTTAAATTT
1 AAAATTTAAATTT
916181 AAAATTTAAATT
1 AAAATTTAAATT
916193 AAATTATTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:917169 original size:5 final size:5
Alignment explanation
Indices: 917161--917211 Score: 79
Period size: 5 Copynumber: 10.6 Consensus size: 5
917151 TTTTATATCT
*
917161 TAATA TAATA TAATA TAATA TAATA TAATA TAAT- T-ATA TAATA AAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
917209 TAA
1 TAA
917212 ATAGACATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 38 0.90
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:918784 original size:79 final size:78
Alignment explanation
Indices: 918585--918889 Score: 281
Period size: 79 Copynumber: 3.9 Consensus size: 78
918575 TGGGGATAAC
* * * ** *
918585 AACGAGGCTGGAGTATCACCGATTAT-AGAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAG
1 AACGAGGTTGGAGTATCCCCGATTGTGA-AAAAT-GAAGTTTTAGAAATAAAATCGGGGTTGGAG
918649 TATCCCCTCGAAAAT
64 TATCCCCTCGAAAAT
* * *** * * * **
918664 AACAAGGTTGGAGCATCCTTAATTATAGGAAATTGGTGTTTT-GAAAATAAAATCGGGGTTGGAG
1 AACGAGGTTGGAGTATCCCCGATTGT-GAAAAATGAAGTTTTAG-AAATAAAATCGGGGTTGGAG
918728 TATCCCCTCGAAAAT
64 TATCCCCTCGAAAAT
* *** * *
918743 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAAGTTTTAGAAATAAGGCCGAGGTCGGAGT
1 AACGAGGTTGGAGTATCCCCGATTGTGAAAAAT-GAAGTTTTAGAAATAAAATCGGGGTTGGAGT
* *
918808 ATCCCCGCAAAAAT
65 ATCCCCTCGAAAAT
* * * * *
918822 AACGAGGTTGAAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATAGGGGTTGGAGT
1 AACGAGGTTGGAGTATCCCCGATTGTGAAAAATGA-AGTTTTAGAAATAAAATCGGGGTTGGAGT
918887 ATC
65 ATC
918890 TCTGATTGTG
Statistics
Matches: 181, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
78 7 0.04
79 169 0.93
80 5 0.03
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (78 bp):
AACGAGGTTGGAGTATCCCCGATTGTGAAAAATGAAGTTTTAGAAATAAAATCGGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:918933 original size:51 final size:51
Alignment explanation
Indices: 918824--918940 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
918814 GCAAAAATAA
* * * * *
918824 CGAGGTTGAAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
1 CGAGGTTGGAGTATCTCCGATTGTGAAAAATAAATATTTTAGAAATAAAAC
* * * * *
918875 AGGGGTTGGAGTATCTCTGATTGTGAGAAATAAATATTTTAGAAATAAAGC
1 CGAGGTTGGAGTATCTCCGATTGTGAAAAATAAATATTTTAGAAATAAAAC
918926 CGAGGTTGGAGTATC
1 CGAGGTTGGAGTATC
918941 CCCTCGGAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.32
Consensus pattern (51 bp):
CGAGGTTGGAGTATCTCCGATTGTGAAAAATAAATATTTTAGAAATAAAAC
Found at i:918981 original size:130 final size:131
Alignment explanation
Indices: 918746--919071 Score: 384
Period size: 130 Copynumber: 2.5 Consensus size: 131
918736 CGAAAATAAC
* * * *
918746 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGAA-GTTTTAGAAATAAGGCCGAGGTCGGAGTAT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAAT-AAATATTTTAGAAATAAAGCCGAGGTTGGAGTAT
*
918810 CCCCGCAAAAATAACGAGGTTGAAGTATCTCCGATTGTGAAAAATT-AGTGTTTTAGAAATAAAA
65 CCCCGCAAAAATAACGAGGTTGAAGTATCTCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAA
918874 -TA
129 CTA
* * *
918876 GGGGTTGGAGTATCTCTGATTGTGAGAAATAAATATTTTAGAAATAAAGCCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATAAATATTTTAGAAATAAAGCCGAGGTTGGAGTATC
* ** *
918941 CCCTCGGAAATAACG-GGATTGGAA-TATCTCCGATTATGAAAAATTGATGTTTTGGAAATAAAA
66 CCCGCAAAAATAACGAGG-TT-GAAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
919004 CTA
129 CTA
** * * *
919007 --GGTTAAAGTATCCCCGA--GATAAAAAATTAATATTTTAGAAAT-AAGCCGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTG-TGAAAAATAAATATTTTAGAAATAAAGCCGAGGTTGGAGTAT
919067 CCCCG
65 CCCCG
919072 AGATGAAAAA
Statistics
Matches: 169, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
127 22 0.13
128 20 0.12
129 17 0.10
130 104 0.62
131 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (131 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATAAATATTTTAGAAATAAAGCCGAGGTTGGAGTATC
CCCGCAAAAATAACGAGGTTGAAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT
A
Found at i:919050 original size:49 final size:49
Alignment explanation
Indices: 918979--919082 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 49
918969 TCCGATTATG
* * * *
918979 AAAAATTGATGTTTTGGAAATAAAACTAGGTTAAAGTATCCCCGAGATA
1 AAAAATTAATATTTTAGAAATAAAACGAGGTTAAAGTATCCCCGAGATA
** * ** *
919028 AAAAATTAATATTTTAGAAATAAGCCGGGGTTGGAGTATCCCCGAGATG
1 AAAAATTAATATTTTAGAAATAAAACGAGGTTAAAGTATCCCCGAGATA
919077 AAAAAT
1 AAAAAT
919083 CTAGAAATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (49 bp):
AAAAATTAATATTTTAGAAATAAAACGAGGTTAAAGTATCCCCGAGATA
Found at i:921333 original size:20 final size:19
Alignment explanation
Indices: 921308--921345 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
921298 GAGAAGGGTG
*
921308 TATTTTTTACGAAAATTTTT
1 TATTTTTAAC-AAAATTTTT
921328 TATTTTTAACAAAATTTT
1 TATTTTTAACAAAATTTT
921346 ATTAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TATTTTTAACAAAATTTTT
Found at i:922202 original size:26 final size:26
Alignment explanation
Indices: 922117--922259 Score: 103
Period size: 26 Copynumber: 5.4 Consensus size: 26
922107 TAATTAATTA
* *
922117 ATATAATTTTTTATGAGTGT--ATAT
1 ATATAATTGTTTATTAGTGTACATAT
* * *
922141 ATATAACTGTTTGTTAGCGTACATGTACAT
1 ATATAATTGTTTATTAGTGTACA--T--AT
* *
922171 AAATAATTGTTTGTTAGTGTACATAT
1 ATATAATTGTTTATTAGTGTACATAT
*
922197 ATATAATTGTTTATCAGTGTACATGTAT
1 ATATAATTGTTTATTAGTGTACA--TAT
* * **
922225 ATATAATTGCTTATTTGTGTATGTAT
1 ATATAATTGTTTATTAGTGTACATAT
922251 -TATAATTGT
1 ATATAATTGT
922260 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
24 15 0.16
25 8 0.09
26 26 0.28
28 23 0.24
30 22 0.23
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (26 bp):
ATATAATTGTTTATTAGTGTACATAT
Found at i:922229 original size:30 final size:30
Alignment explanation
Indices: 922134--922229 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
922124 TTTTTATGAG
* *
922134 TGTATATATATAACTGTTTGTTAGCGTACA
1 TGTATATATATAATTGTTTGTTAGTGTACA
* *
922164 TGTACATAAATAATTGTTTGTTAGTGTAC-
1 TGTATATATATAATTGTTTGTTAGTGTACA
* *
922193 ---ATATATATAATTGTTTATCAGTGTACA
1 TGTATATATATAATTGTTTGTTAGTGTACA
922220 TGTATATATA
1 TGTATATATA
922230 ATTGCTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
26 22 0.41
30 32 0.59
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (30 bp):
TGTATATATATAATTGTTTGTTAGTGTACA
Found at i:922238 original size:28 final size:28
Alignment explanation
Indices: 922138--922259 Score: 119
Period size: 26 Copynumber: 4.5 Consensus size: 28
922128 TATGAGTGTA
* * *
922138 TATATATAACTGTTTGTTAGCGTACATG
1 TATATATAATTGTTTATTAGTGTACATG
* *
922166 TACATAAATAATTGTTTGTTAGTGTACA--
1 T--ATATATAATTGTTTATTAGTGTACATG
*
922194 TATATATAATTGTTTATCAGTGTACATG
1 TATATATAATTGTTTATTAGTGTACATG
* *
922222 TATATATAATTGCTTATTTGTGT--ATG
1 TATATATAATTGTTTATTAGTGTACATG
922248 TAT-TATAATTGT
1 TATATATAATTGT
922260 ATTTTAATTA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
25 8 0.10
26 28 0.35
28 22 0.28
30 22 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.48
Consensus pattern (28 bp):
TATATATAATTGTTTATTAGTGTACATG
Found at i:922360 original size:24 final size:23
Alignment explanation
Indices: 922281--922365 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 23
922271 TCAATATTTA
*
922281 ATTA-ATAAATTTTCATAAATGTT
1 ATTATATAATTTTTCATAAATG-T
922304 ATTGATA-ATATTGTTT-AGTACAATGT
1 ATT-ATATA-ATT-TTTCA-TA-AATGT
922330 ATATATATAATTTTTCATAAATGT
1 AT-TATATAATTTTTCATAAATGT
*
922354 CATTATAAAATT
1 -ATTATATAATT
922366 ATTAAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 19
0.70 0.03 0.27
Matches are distributed among these distances:
23 3 0.06
24 15 0.30
25 11 0.22
26 15 0.30
27 6 0.12
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (23 bp):
ATTATATAATTTTTCATAAATGT
Found at i:926390 original size:142 final size:143
Alignment explanation
Indices: 926113--926411 Score: 304
Period size: 142 Copynumber: 2.1 Consensus size: 143
926103 CTAAAAATAT
* * * *
926113 AAAAATTACATTTTAAAATCCATAGGTTTCAACCAACCTAAGAACATCCTTAAATGAGCTGAAAA
1 AAAAATTATATTTTAAAACCCATAAGTTTCAACCAACCTAAGAACATCCATAAATGAGCTGAAAA
* ** ** * * * **
926178 AACTAGAAAGATTATGAAGTAGTCCTTATAAGTGCTATCATGAACCACAACAGCCCTAAATGGCC
66 AACTAGAAAAATTATGAAACAACCCTTACAAGTGCTATCATGAACCAAAACAACCCTAAATAACC
926243 TAAAAATTA-AAA
131 TAAAAATTAGAAA
* * *
926255 AAAAATTATATTTTAAACCCCATAAGTTTCAACCAACTTAAGAACA-CCATAAATGAGTTTGAAA
1 AAAAATTATATTTTAAAACCCATAAGTTTCAACCAACCTAAGAACATCCATAAATGAG-CTGAAA
* * *
926319 AAAGT-GAAAAAATTATGAAACAACCCTT-CAAGTG-TTTCCATGAACCAAAACAACCCTTACAC
65 AAACTAG-AAAAATTATGAAACAACCCTTACAAGTGCTAT-CATGAACCAAAACAACCC-TA-AA
*
926381 TAACC-AAAAATTAGAGA
126 TAACCTAAAAATTAGAAA
* *
926398 CAAAATTATGTTTT
1 AAAAATTATATTTT
926412 TTGCCATATC
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
140 2 0.02
141 32 0.25
142 76 0.59
143 18 0.14
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.25
Consensus pattern (143 bp):
AAAAATTATATTTTAAAACCCATAAGTTTCAACCAACCTAAGAACATCCATAAATGAGCTGAAAA
AACTAGAAAAATTATGAAACAACCCTTACAAGTGCTATCATGAACCAAAACAACCCTAAATAACC
TAAAAATTAGAAA
Found at i:928069 original size:20 final size:20
Alignment explanation
Indices: 928042--928116 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
928032 CTGAAAAGAA
* *
928042 AATGTATCGATACATTTTTT
1 AATGTATCAATACATTCTTT
*
928062 ATTGTATCAATACATTCTTT
1 AATGTATCAATACATTCTTT
*
928082 AATGTATCAATACATTCTTC
1 AATGTATCAATACATTCTTT
*
928102 AATGTATCGATACAT
1 AATGTATCAATACAT
928117 CCAATTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
AATGTATCAATACATTCTTT
Found at i:930611 original size:27 final size:27
Alignment explanation
Indices: 930577--930644 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
930567 TCACTATCGA
*
930577 GGATACTCCAATCCC-ACTTTTCT-GAGG
1 GGATACTCCAA-CCCAACTTTT-TAGAAG
*
930604 GGATACTCTAACCCAACTTTTTAGAAG
1 GGATACTCCAACCCAACTTTTTAGAAG
930631 GGATACTCCAACCC
1 GGATACTCCAACCC
930645 TGTTTTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
GGATACTCCAACCCAACTTTTTAGAAG
Found at i:938982 original size:16 final size:16
Alignment explanation
Indices: 938963--939009 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
938953 AACCCAAGAT
938963 AGCCCGAACCTGAAAA
1 AGCCCGAACCTGAAAA
*
938979 AGCCC-AAACTCGAAAA
1 AGCCCGAACCT-GAAAA
* *
938995 AGCTCGAACCCGAAA
1 AGCCCGAACCTGAAA
939010 GAACTCGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.45, C:0.32, G:0.17, T:0.06
Consensus pattern (16 bp):
AGCCCGAACCTGAAAA
Found at i:939016 original size:16 final size:16
Alignment explanation
Indices: 938997--939029 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
938987 CTCGAAAAAG
*
938997 CTCGAACCCGAAAGAA
1 CTCGAACCCAAAAGAA
939013 CTCGAACCCAAAAGAA
1 CTCGAACCCAAAAGAA
939029 C
1 C
939030 CCAACTCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.33, G:0.15, T:0.06
Consensus pattern (16 bp):
CTCGAACCCAAAAGAA
Found at i:939613 original size:20 final size:19
Alignment explanation
Indices: 939590--939633 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
939580 GATGTATTGG
*
939590 TACATATTGCTTTGTATCGA
1 TACATATT-CTTGGTATCGA
*
939610 TACATGTTCTTGGTATCGA
1 TACATATTCTTGGTATCGA
939629 TACAT
1 TACAT
939634 CATAAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (19 bp):
TACATATTCTTGGTATCGA
Found at i:939755 original size:13 final size:13
Alignment explanation
Indices: 939737--939761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
939727 TCATTGTTCA
939737 TGTATCGATACAG
1 TGTATCGATACAG
939750 TGTATCGATACA
1 TGTATCGATACA
939762 TGTGAATAGT
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:939863 original size:20 final size:20
Alignment explanation
Indices: 939820--939871 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
939810 TTTCAAATAC
939820 ATGTATCGATAC-ATTATGA
1 ATGTATCGATACAATTATGA
939839 ATGTATCGATACAATTCAT-A
1 ATGTATCGATACAATT-ATGA
939859 ATGTATCGATACA
1 ATGTATCGATACA
939872 TAAGAGCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.39
20 17 0.55
21 2 0.06
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTATGA
Found at i:940460 original size:13 final size:13
Alignment explanation
Indices: 940439--940472 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
940429 TCGATACATT
940439 ATACATTGTATCG
1 ATACATTGTATCG
*
940452 ATCCATTGTATCG
1 ATACATTGTATCG
940465 ATACATTG
1 ATACATTG
940473 ATCTTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:942254 original size:34 final size:35
Alignment explanation
Indices: 942216--942282 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
942206 CCTTACAACA
942216 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
942250 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
942283 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:942838 original size:47 final size:46
Alignment explanation
Indices: 942772--942867 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
942762 ACACTGTATC
* * * *
942772 GATACATGAATAGTGATGAACAGTAATTTTATCTATACATGAATAGT
1 GATACATGAACAGTGATGAACAATAA-TGTATCGATACATGAATAGT
* * *
942819 GATACGTGAACAGTTATGAACAATGATGTATCGATACATGAATAGT
1 GATACATGAACAGTGATGAACAATAATGTATCGATACATGAATAGT
942865 GAT
1 GAT
942868 GAACAGTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 21 0.50
47 21 0.50
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
GATACATGAACAGTGATGAACAATAATGTATCGATACATGAATAGT
Found at i:945215 original size:23 final size:24
Alignment explanation
Indices: 945170--945216 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
945160 CAAAGAATTG
*
945170 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
945194 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
945217 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:947838 original size:34 final size:35
Alignment explanation
Indices: 947800--947866 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
947790 CCTTACAATA
947800 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
*
947834 CTATCTTTTTCAAAGGTTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
947867 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:948424 original size:47 final size:46
Alignment explanation
Indices: 948355--948450 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
948345 ACACTGTATC
* * * *
948355 GATACATGAATAGTGATGAACAGTAATTTTATCGATACATGAATAGT
1 GATACATGAACAGTGATAAACAGTAA-TGTATCGATACATGAACAGT
* * *
948402 GATACGTGAACAGTTATAAACAGTGATGTATCGATACATGAACAGT
1 GATACATGAACAGTGATAAACAGTAATGTATCGATACATGAACAGT
948448 GAT
1 GAT
948451 TTATCGATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 21 0.50
47 21 0.50
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (46 bp):
GATACATGAACAGTGATAAACAGTAATGTATCGATACATGAACAGT
Found at i:948447 original size:22 final size:22
Alignment explanation
Indices: 948420--948541 Score: 131
Period size: 22 Copynumber: 5.5 Consensus size: 22
948410 AACAGTTATA
948420 AACAGTGATGTATCGATACATG
1 AACAGTGATGTATCGATACATG
*
948442 AACAGTGATTTATCGATACATG
1 AACAGTGATGTATCGATACATG
* * * *
948464 AATAGTGATACGTGAAC-AGT-TATA
1 AACAGTGAT--GT-ATCGA-TACATG
948488 AACAGTGATGTATCGATACATG
1 AACAGTGATGTATCGATACATG
*
948510 AACAGTGATTTATCGATACATG
1 AACAGTGATGTATCGATACATG
*
948532 AATAGTGATG
1 AACAGTGATG
948542 AACAGTGAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
21 3 0.04
22 63 0.78
24 12 0.15
25 3 0.04
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (22 bp):
AACAGTGATGTATCGATACATG
Found at i:948480 original size:68 final size:68
Alignment explanation
Indices: 948370--948540 Score: 324
Period size: 68 Copynumber: 2.5 Consensus size: 68
948360 ATGAATAGTG
*
948370 ATGAACAGTAATTTTATCGATACATGAATAGTGATACGTGAACAGTTATAAACAGTGATGTATCG
1 ATGAACAGTGA-TTTATCGATACATGAATAGTGATACGTGAACAGTTATAAACAGTGATGTATCG
948435 ATAC
65 ATAC
948439 ATGAACAGTGATTTATCGATACATGAATAGTGATACGTGAACAGTTATAAACAGTGATGTATCGA
1 ATGAACAGTGATTTATCGATACATGAATAGTGATACGTGAACAGTTATAAACAGTGATGTATCGA
948504 TAC
66 TAC
948507 ATGAACAGTGATTTATCGATACATGAATAGTGAT
1 ATGAACAGTGATTTATCGATACATGAATAGTGAT
948541 GAACAGTGAA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
68 91 0.90
69 10 0.10
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (68 bp):
ATGAACAGTGATTTATCGATACATGAATAGTGATACGTGAACAGTTATAAACAGTGATGTATCGA
TAC
Found at i:948723 original size:21 final size:21
Alignment explanation
Indices: 948683--948723 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
948673 GTCAACCTTG
*
948683 TGTATTGATACTAATAGTATA
1 TGTATTGATACTAACAGTATA
948704 TGTATTGATAC-AACACGTAT
1 TGTATTGATACTAACA-GTAT
948724 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
TGTATTGATACTAACAGTATA
Done.