Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006826.1 Hibiscus syriacus cultivar Beakdansim tig00017351_pilon, whole genome shotgun sequence
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: 90930
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:714 original size:18 final size:19
Alignment explanation
Indices: 691--726 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
681 GGCCAAGAGC
691 ATGTATTTTCA-TTAAAAT
1 ATGTATTTTCATTTAAAAT
709 ATGTATTTTCATTTAAAA
1 ATGTATTTTCATTTAAAA
727 AAAATCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (19 bp):
ATGTATTTTCATTTAAAAT
Found at i:9730 original size:21 final size:21
Alignment explanation
Indices: 9700--9747 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
9690 AATATGTAAG
*
9700 TTATCCTTATATAAATAACTA
1 TTATCTTTATATAAATAACTA
9721 TTATCTTTATATAAATAACTA
1 TTATCTTTATATAAATAACTA
9742 TTATCT
1 TTATCT
9748 AAAATCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATCTTTATATAAATAACTA
Found at i:10669 original size:10 final size:10
Alignment explanation
Indices: 10654--10746 Score: 69
Period size: 10 Copynumber: 8.1 Consensus size: 10
10644 GATAACACAA
10654 ATGAACGAAC
1 ATGAACGAAC
10664 ATGAACGAAC
1 ATGAACGAAC
10674 GGATGTAAACGAAC
1 --ATG--AACGAAC
*
10688 ATGAACGAATGG
1 ATGAACGAA--C
10700 ATGTAAACGAAC
1 ATG--AACGAAC
10712 ATGAACGAAC
1 ATGAACGAAC
10722 GGATGTAAACGAAC
1 --ATG--AACGAAC
10736 ATGAACGAAC
1 ATGAACGAAC
10746 A
1 A
10747 GATGTAAATG
Statistics
Matches: 69, Mismatches: 2, Indels: 24
0.73 0.02 0.25
Matches are distributed among these distances:
10 31 0.45
12 18 0.26
14 20 0.29
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (10 bp):
ATGAACGAAC
Found at i:10684 original size:14 final size:13
Alignment explanation
Indices: 10667--10770 Score: 70
Period size: 10 Copynumber: 8.6 Consensus size: 13
10657 AACGAACATG
10667 AACGAACGGATGTA
1 AACGAAC-GATGTA
10681 AACGAAC-ATG--
1 AACGAACGATGTA
*
10691 AACGAATGGATGTA
1 AACGAA-CGATGTA
10705 AACGAAC-ATG--
1 AACGAACGATGTA
10715 AACGAACGGATGTA
1 AACGAAC-GATGTA
10729 AACGAAC-ATG--
1 AACGAACGATGTA
10739 AACGAACAGATGTA
1 AACGAAC-GATGTA
*
10753 AATGAAC-A--TA
1 AACGAACGATGTA
10763 AACGAACG
1 AACGAACG
10771 TAAACGAACA
Statistics
Matches: 73, Mismatches: 4, Indels: 29
0.69 0.04 0.27
Matches are distributed among these distances:
10 28 0.38
12 19 0.26
14 26 0.36
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.13
Consensus pattern (13 bp):
AACGAACGATGTA
Found at i:10684 original size:24 final size:24
Alignment explanation
Indices: 10657--10770 Score: 192
Period size: 24 Copynumber: 4.8 Consensus size: 24
10647 AACACAAATG
10657 AACGAACATGAACGAACGGATGTA
1 AACGAACATGAACGAACGGATGTA
*
10681 AACGAACATGAACGAATGGATGTA
1 AACGAACATGAACGAACGGATGTA
10705 AACGAACATGAACGAACGGATGTA
1 AACGAACATGAACGAACGGATGTA
*
10729 AACGAACATGAACGAACAGATGTA
1 AACGAACATGAACGAACGGATGTA
* *
10753 AATGAACATAAACGAACG
1 AACGAACATGAACGAACG
10771 TAAACGAACA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (24 bp):
AACGAACATGAACGAACGGATGTA
Found at i:10764 original size:10 final size:10
Alignment explanation
Indices: 10751--10811 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
10741 CGAACAGATG
10751 TAAATGAACA
1 TAAATGAACA
* *
10761 TAAACGAACG
1 TAAATGAACA
*
10771 TAAACGAACACAA
1 TAAATG-A-AC-A
* *
10784 TAAATTAACG
1 TAAATGAACA
10794 TAAATGAACA
1 TAAATGAACA
10804 TAAATGAA
1 TAAATGAA
10812 AATAGATTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
10 30 0.75
11 3 0.08
12 3 0.08
13 4 0.10
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.18
Consensus pattern (10 bp):
TAAATGAACA
Found at i:12084 original size:21 final size:20
Alignment explanation
Indices: 11999--12155 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
11989 AAATGACCAA
**
11999 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
***
12018 -AAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
12037 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
12057 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
12078 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
12099 CAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGA-TTTT
* *
12120 CAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTT
*
12140 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
12156 ACACATAAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
18 15 0.14
19 1 0.01
20 42 0.40
21 45 0.43
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:12184 original size:20 final size:20
Alignment explanation
Indices: 12122--12315 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
12112 CGATTTTTCA
* ** *
12122 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
12142 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
12162 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
12182 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
12202 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
12222 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
12242 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
12262 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
12282 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
12303 AAATCGCAACGCG
1 AAATCGCAACGCG
12316 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:12206 original size:60 final size:60
Alignment explanation
Indices: 12122--12315 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
12112 CGATTTTTCA
* ** * *
12122 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
12182 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
12242 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
12303 AAATCGCAACGCG
1 AAATCGCAACGCG
12316 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:12735 original size:33 final size:33
Alignment explanation
Indices: 12696--12765 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
12686 TTCACTTAGA
*
12696 TTCATTTCGCGTTACGATTCTGTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
* *
12729 TTCATTTCGCGTTGCTATTCTCTCGTTGCGATT
1 TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
12762 TTCA
1 TTCA
12766 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTCATTTCGCGTTACGATTCTCTCGTTGCGATT
Found at i:12902 original size:41 final size:41
Alignment explanation
Indices: 12844--12921 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
12834 TTGCAGAAGA
*
12844 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
12885 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
12922 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:12918 original size:21 final size:21
Alignment explanation
Indices: 12845--12920 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
12835 TGCAGAAGAG
*
12845 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
12866 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
12886 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
12907 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
12921 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:12924 original size:14 final size:14
Alignment explanation
Indices: 12905--12992 Score: 86
Period size: 14 Copynumber: 5.7 Consensus size: 14
12895 GAGAAATGAA
12905 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
12919 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
12936 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
12950 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
12969 AATCGCAACGAGAG
1 AATCGCAACGAGAG
12983 AATCGCAACG
1 AATCGCAACG
12993 CGAAACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
14 29 0.47
15 5 0.08
16 6 0.10
17 11 0.18
18 1 0.02
19 10 0.16
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:12937 original size:33 final size:33
Alignment explanation
Indices: 12897--13008 Score: 192
Period size: 33 Copynumber: 3.5 Consensus size: 33
12887 CGCAACGAGA
12897 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
12930 GAAATG--AATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
12961 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
12994 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
13009 TTGCGATTTC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
31 31 0.41
33 44 0.59
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:13044 original size:14 final size:14
Alignment explanation
Indices: 13025--13114 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
13015 TTTCATTTCG
13025 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
13039 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
13058 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
13072 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
13091 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
13105 CGTTGCGATT
1 CGTTGCGATT
13115 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:13056 original size:33 final size:33
Alignment explanation
Indices: 13009--13122 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
12999 CAAAATCGCA
13009 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
13041 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
13074 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
13107 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
13123 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 6 0.08
33 73 0.92
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:13063 original size:19 final size:18
Alignment explanation
Indices: 13004--13100 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
12994 GAAACCAAAA
*
13004 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
13022 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
13036 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
13055 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
13069 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATT-TCATT
13088 TCGCGTTGCGATT
1 TCGCGTTGCGATT
13101 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 1 0.02
16 5 0.08
17 6 0.09
18 10 0.16
19 22 0.34
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.43
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:14960 original size:93 final size:93
Alignment explanation
Indices: 14801--15269 Score: 922
Period size: 93 Copynumber: 5.1 Consensus size: 93
14791 TAGATTGCTT
*
14801 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14866 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14894 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14959 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14987 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
15052 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
15080 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
15145 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
15173 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
15238 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
15265 AGTAA
1 AGTAA
15270 TGCAATCCAT
Statistics
Matches: 375, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 369 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:15356 original size:19 final size:19
Alignment explanation
Indices: 15316--15444 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
15306 TAGTTTACTT
* *
15316 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
15336 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
15355 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
15374 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
15388 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
15407 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
15421 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
15440 TCGCA
1 TCGCA
15445 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:15395 original size:33 final size:32
Alignment explanation
Indices: 15352--15444 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
15342 CGCGAAACCA
**
15352 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
15384 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
15417 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
15445 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:15442 original size:52 final size:52
Alignment explanation
Indices: 15316--15444 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
15306 TAGTTTACTT
**
15316 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
15368 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
15421 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
15445 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:15462 original size:19 final size:19
Alignment explanation
Indices: 15440--15574 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
15430 GAAACCAAAA
*
15440 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
15459 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
15475 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
15492 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
15508 T--CGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
15525 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
15544 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
15564 TCGTGTTGCGA
1 TCGCGTTGCGA
15575 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 11 0.12
17 11 0.12
19 45 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:15481 original size:14 final size:14
Alignment explanation
Indices: 15462--15514 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
15452 TTTCATTTCG
15462 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
15476 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
15493 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
15509 CGTTGC
1 CGTTGC
15515 AATTTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 12 0.36
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:15487 original size:33 final size:33
Alignment explanation
Indices: 15445--15537 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
15435 CAAAATCGCA
*
15445 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
15478 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
15511 TTGCAATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
15538 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:17513 original size:14 final size:14
Alignment explanation
Indices: 17494--17529 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
17484 ATTGTTTAAT
17494 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
17508 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
17522 TGATTTGT
1 TGATTTGT
17530 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:17652 original size:19 final size:20
Alignment explanation
Indices: 17636--17681 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
17626 AAAAATGACT
17636 ATCGCAATGC-GAAATGAAA
1 ATCGCAATGCGGAAATGAAA
17655 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGGAAATGAAA
17675 ATCGCAA
1 ATCGCAA
17682 CGAGAGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAATGCGGAAATGAAA
Found at i:17752 original size:19 final size:19
Alignment explanation
Indices: 17728--17892 Score: 180
Period size: 19 Copynumber: 9.4 Consensus size: 19
17718 GATTCTCTCG
17728 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17747 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17766 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
17780 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17799 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17818 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
17832 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
17852 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
17866 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17885 TTGTGATT
1 TTGCGATT
17893 CTCTCGTTGC
Statistics
Matches: 124, Mismatches: 6, Indels: 32
0.77 0.04 0.20
Matches are distributed among these distances:
14 23 0.19
16 16 0.13
17 13 0.10
18 3 0.02
19 57 0.46
20 12 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:17763 original size:52 final size:52
Alignment explanation
Indices: 17706--17864 Score: 309
Period size: 52 Copynumber: 3.0 Consensus size: 52
17696 TGCGTTTATA
17706 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
17758 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
17810 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
17863 AT
1 AT
17865 GTTGGGATTT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 89 0.84
53 17 0.16
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:17914 original size:33 final size:33
Alignment explanation
Indices: 17706--17906 Score: 203
Period size: 33 Copynumber: 5.9 Consensus size: 33
17696 TGCGTTTATA
17706 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
17739 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
17779 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
17810 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
17843 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
17877 ATTTCGCATTGTGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
17907 GTAATTTCCC
Statistics
Matches: 137, Mismatches: 17, Indels: 28
0.75 0.09 0.15
Matches are distributed among these distances:
31 9 0.07
32 6 0.04
33 61 0.45
34 29 0.21
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:20207 original size:12 final size:12
Alignment explanation
Indices: 20190--20214 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20180 TCTTCGGGGA
20190 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20202 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20214 C
1 C
20215 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:20423 original size:24 final size:24
Alignment explanation
Indices: 20389--20435 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20379 CTGAAACATC
20389 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
20413 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
20436 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:21146 original size:20 final size:20
Alignment explanation
Indices: 21118--21347 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
21108 AAATTTCAGT
* * *
21118 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
21138 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
21158 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
21178 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
21198 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
21218 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
21238 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
21258 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
21278 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
21298 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
21318 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
21338 GTTGCGATTT
1 GTTGCGATTT
21348 TGGAAACTGA
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:26778 original size:39 final size:40
Alignment explanation
Indices: 26735--26838 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 40
26725 TGTTCAACGT
*
26735 GTCTTCAAGCTAAATATA-AAGACTCCACGACTACATGAC
1 GTCTTCAAGCTAAATATAGAAGACTCCACAACTACATGAC
* * *
26774 GTCTTCAGGC-AAATGA-AGAAGAC-CCACAATTGCATGAC
1 GTCTTCAAGCTAAAT-ATAGAAGACTCCACAACTACATGAC
*
26812 GCCTTCAAG-TAAAT-TGAGAAGACTCCA
1 GTCTTCAAGCTAAATAT-AGAAGACTCCA
26839 GGAATGCACG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
38 35 0.66
39 18 0.34
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (40 bp):
GTCTTCAAGCTAAATATAGAAGACTCCACAACTACATGAC
Found at i:27522 original size:16 final size:16
Alignment explanation
Indices: 27501--27535 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27491 TTACCCTAAT
* *
27501 TTTTTAAAATTTTAAA
1 TTTTTAAAAATATAAA
27517 TTTTTAAAAATATAAA
1 TTTTTAAAAATATAAA
27533 TTT
1 TTT
27536 GCTAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAAAATATAAA
Found at i:29415 original size:29 final size:30
Alignment explanation
Indices: 29374--29435 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
29364 AAAATCATCT
*
29374 TTTTATACTTTATATACAGGTCAAACACTC
1 TTTTATACTTTATATACAGATCAAACACTC
* * *
29404 TTTTAT-CTTTATTTACCGATCTAACACTC
1 TTTTATACTTTATATACAGATCAAACACTC
29433 TTT
1 TTT
29436 ACAGGAAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (30 bp):
TTTTATACTTTATATACAGATCAAACACTC
Found at i:29817 original size:19 final size:19
Alignment explanation
Indices: 29774--29817 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
29764 TTTAAAAATC
29774 AATA-AAAATGCAATAAAA
1 AATATAAAATGCAATAAAA
*
29792 AAT-TAAAATTCAATAAAA
1 AATATAAAATGCAATAAAA
29810 AATATAAA
1 AATATAAA
29818 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AATATAAAATGCAATAAAA
Found at i:31730 original size:22 final size:22
Alignment explanation
Indices: 31691--31732 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31681 ACTTCATATA
*
31691 AAATATTTATAAAGTATCAACT
1 AAATATTTACAAAGTATCAACT
31713 AAATATTTACATAA-TATCAA
1 AAATATTTACA-AAGTATCAA
31733 AATACAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATATTTACAAAGTATCAACT
Found at i:32968 original size:21 final size:21
Alignment explanation
Indices: 32935--32987 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
32925 ATTCTGACTA
*
32935 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
32956 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
32977 TCGCAATGCGA
1 TCGCATTGCGA
32988 ATACATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:33002 original size:20 final size:20
Alignment explanation
Indices: 32977--33089 Score: 181
Period size: 20 Copynumber: 5.7 Consensus size: 20
32967 TTTTCCTAAT
*
32977 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
32997 TCGCAATGCGAATTCGTAAA
1 TCGCAATGCGAATACGTAAA
*
33017 TAGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
33037 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
33057 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
33077 TCGCAACGCGAAT
1 TCGCAATGCGAAT
33090 CTGACTATCG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:33100 original size:40 final size:40
Alignment explanation
Indices: 32977--33107 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
32967 TTTTCCTAAT
*
32977 TCGCAATGCGAATACATAAATCGCAATGCGAAT-TCGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCT-GTAAA
*
33017 TAGCAATGCGAATACGTAAATCGCAATGCGAATAC-GTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTGTAAA
* * *
33057 TCGCAATGCGAATATGTAAATCGCAACGCGAATCTG-ACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTA-AA
33097 TCGCAATGCGA
1 TCGCAATGCGA
33108 TTTACATAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
39 2 0.02
40 79 0.98
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTAAA
Found at i:33312 original size:22 final size:22
Alignment explanation
Indices: 33287--33352 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
33277 GGCGACATCC
33287 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
33309 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
33331 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
33353 TTCACGGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:33770 original size:20 final size:20
Alignment explanation
Indices: 33722--33790 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
33712 CGATTCTTGC
* ** *
33722 GTTGCGATAGTCAAATTCGC
1 GTTGCGATTGTCATTTTCGT
33742 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
*
33762 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
33782 GTTGCGATT
1 GTTGCGATT
33791 TTAAGTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (20 bp):
GTTGCGATTGTCATTTTCGT
Found at i:33799 original size:20 final size:20
Alignment explanation
Indices: 33737--33792 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
33727 GATAGTCAAA
* *
33737 TTCGCGTTGCGATTGTCATT
1 TTCGTGTTGCGATTTTCATT
33757 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
33777 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
33793 AAGTTTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.09, C:0.16, G:0.23, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:35591 original size:20 final size:20
Alignment explanation
Indices: 35566--35688 Score: 134
Period size: 20 Copynumber: 6.5 Consensus size: 20
35556 AGAATAGTTT
35566 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
35586 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
35606 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
35622 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
35639 AAAATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
35659 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
35679 ACTATCGCAA
1 ACTATCGCAA
35689 CGAAAGAACC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.09
16 5 0.06
17 4 0.05
18 1 0.01
19 10 0.11
20 59 0.68
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:35646 original size:19 final size:19
Alignment explanation
Indices: 35622--35726 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 19
35612 GCAATGAGAG
35622 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
35641 AATCGCAACGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* * *
35661 TATCGCAATGCGAATTTGAC
1 AATCGCAATGCGAA-ATGAA
*
35681 TATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
* *
35695 AACCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
35714 AATCGCATTGCGA
1 AATCGCAATGCGA
35727 TTCTCTCGTT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.07
16 6 0.09
17 1 0.01
18 4 0.06
19 23 0.34
20 28 0.42
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:35650 original size:53 final size:54
Alignment explanation
Indices: 35569--35670 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 54
35559 ATAGTTTACT
**
35569 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGAGAGA
35623 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAATGACTATCGCAATG
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAATGACTATCGCAATG
35671 CGAATTTGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 35 0.76
54 11 0.24
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.17
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGAGAGA
Found at i:35688 original size:73 final size:73
Alignment explanation
Indices: 35569--35720 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 73
35559 ATAGTTTACT
* * * *
35569 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAACCGCAATGCG
35634 AAATGAAA
66 AAATGAAA
* ** *
35642 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAACCGTAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAACCGCAATGCG
35707 AAATGAAA
66 AAATGAAA
35715 ATCGCA
1 ATCGCA
35721 TTGCGATTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (73 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAACCGCAATGCG
AAATGAAA
Found at i:35760 original size:20 final size:20
Alignment explanation
Indices: 35735--35801 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
35725 GATTCTCTCG
*
35735 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCAAATTCGCA
35755 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
35775 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
35795 TTGCGAT
1 TTGCGAT
35802 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:37789 original size:14 final size:14
Alignment explanation
Indices: 37770--37822 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
37760 TTGATTGTTT
37770 AATTGATTTGTAAA
1 AATTGATTTGTAAA
37784 AATTGATTTGTAAA
1 AATTGATTTGTAAA
37798 AATTGATTTGTAAA
1 AATTGATTTGTAAA
**
37812 TGTTGATTTGT
1 AATTGATTTGT
37823 TTAATTGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:38021 original size:34 final size:33
Alignment explanation
Indices: 37928--38023 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
37918 AAAACAGACT
* ** *
37928 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGACAGA
*
37962 ATCGCAATGCGAAATAAAAATCGCAACGACAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAGA
37995 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
38024 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAGA
Found at i:38063 original size:20 final size:19
Alignment explanation
Indices: 38034--38120 Score: 103
Period size: 20 Copynumber: 4.7 Consensus size: 19
38024 CGAAACTAAA
*
38034 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
38054 TTCGCATTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
38074 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
38090 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
38107 TTCGCATTGCGATT
1 TTCGCATTGCGATT
38121 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.12
17 4 0.07
18 3 0.05
19 8 0.14
20 31 0.53
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:38103 original size:34 final size:34
Alignment explanation
Indices: 38060--38153 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 34
38050 CATTTTCGCA
38060 TTGCGATTTTCATTTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCTCTCG
38094 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCTCTCG
** * *
38127 TTGCGATAGTCATTTCCGCGTTGCGAT
1 TTGCGATTTTCATTTTCGCATTGCGAT
38154 AGTCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 31 0.56
34 24 0.44
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCTCTCG
Found at i:38132 original size:14 final size:14
Alignment explanation
Indices: 38080--38133 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
38070 CATTTTCGCA
38080 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
38094 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
38111 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
38127 TTGCGAT
1 TTGCGAT
38134 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:38150 original size:20 final size:20
Alignment explanation
Indices: 38125--38238 Score: 194
Period size: 20 Copynumber: 5.7 Consensus size: 20
38115 GCGATTCTCT
38125 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
38145 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
38165 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
38185 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
38205 TGTTGCAATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
38225 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
38239 AATGAATGTC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
20 87 0.98
21 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:40360 original size:14 final size:14
Alignment explanation
Indices: 40341--40367 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40331 TCCCGTGGCA
40341 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
40355 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
40368 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:40601 original size:24 final size:24
Alignment explanation
Indices: 40567--40620 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
40557 CTGAAAAATC
40567 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
40591 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
40615 ATCAAA
1 ATCAAA
40621 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:40634 original size:24 final size:24
Alignment explanation
Indices: 40567--40634 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
40557 CTGAAAAATC
* * *
40567 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
40591 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
40615 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
40635 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:41488 original size:20 final size:20
Alignment explanation
Indices: 41462--41588 Score: 191
Period size: 20 Copynumber: 6.3 Consensus size: 20
41452 AAATTCAGTA
41462 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
41482 ATGCGATAGTCAGAATCACG
1 TTGCGATAGTCAGAATCGCG
*
41502 ATGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
41522 TTACGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
41542 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
* *
41562 TTGCGATAGTCAGATTCGTG
1 TTGCGATAGTCAGAATCGCG
41582 TTGCGAT
1 TTGCGAT
41589 TTACGTATTC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 97 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:41598 original size:20 final size:20
Alignment explanation
Indices: 41582--41687 Score: 185
Period size: 20 Copynumber: 5.3 Consensus size: 20
41572 CAGATTCGTG
41582 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
41602 TTACGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
41622 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
41642 TTACGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
41662 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
41682 TTGCGA
1 TTGCGA
41688 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:41708 original size:21 final size:21
Alignment explanation
Indices: 41684--41729 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
41674 TATTCGCATT
41684 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
41705 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
41726 GCGA
1 GCGA
41730 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:43831 original size:47 final size:47
Alignment explanation
Indices: 43778--43867 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
43768 AAATTGTCTT
* * *
43778 TATTATTAGAAATTTA-AATTTTCAAAAATATATTTAATTTATAATCC
1 TATTATTAGAAAATTATAATTATCAAAAAAATA-TTAATTTATAATCC
** *
43825 TATTATTTTAAAATTATAATTATGAAAAAAATATTAATTTATA
1 TATTATTAGAAAATTATAATTATCAAAAAAATATTAATTTATA
43868 TATATTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
47 23 0.64
48 13 0.36
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (47 bp):
TATTATTAGAAAATTATAATTATCAAAAAAATATTAATTTATAATCC
Found at i:43871 original size:29 final size:29
Alignment explanation
Indices: 43839--43895 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
43829 ATTTTAAAAT
43839 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
43868 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
43896 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:43990 original size:20 final size:19
Alignment explanation
Indices: 43951--43992 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
43941 TTTCTTCGAT
43951 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
43970 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
43990 ATT
1 ATT
43993 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:44103 original size:120 final size:119
Alignment explanation
Indices: 43860--44096 Score: 329
Period size: 120 Copynumber: 2.0 Consensus size: 119
43850 AAAAAATATT
* * * *
43860 AATTTATATAT-ATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGG
1 AATTAATATATAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGG
*
43924 TGTCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 TGTCTTAAGACAGCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
**
43978 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATATAATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCA
* * * *
44043 GTTGTTTTAAGACTGCTC-TTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAAC
64 GGTGTCTTAAGACAGCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
44096 A
1 A
44097 GGATTAAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
118 19 0.18
119 25 0.24
120 40 0.38
121 21 0.20
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
AATTAATATATAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGG
TGTCTTAAGACAGCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:44292 original size:27 final size:27
Alignment explanation
Indices: 44254--44317 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
44244 AAACAAGGAC
*
44254 AAAAATCAATAAAATTAAAA-TGATAGGT
1 AAAAAT-AATAAAATAAAAACTGATA-GT
* *
44282 ACAAATAATAAAATAAAAACTTATAGT
1 AAAAATAATAAAATAAAAACTGATAGT
44309 AAAAATAAT
1 AAAAATAAT
44318 TAGTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAATAATAAAATAAAAACTGATAGT
Found at i:45520 original size:3 final size:3
Alignment explanation
Indices: 45500--45555 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
45490 ATTGGGCATG
45500 TAA T-A TAA TAA -AA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45544 TAA TAA TAA TAA
1 TAA TAA TAA TAA
45556 ATGTAAAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46074 original size:113 final size:113
Alignment explanation
Indices: 45859--46598 Score: 1186
Period size: 113 Copynumber: 6.6 Consensus size: 113
45849 AGAATCTTGC
45859 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** * * **
45923 TATGAACT-TTCTCTGGAAATGCTGATCCATC-AAGTGATGGATTTGAGC-
65 TATGAACTCGAC-CTGGTAATGCTGATCCATCGAA-TGATGAATTCAAGCG
* * *
45971 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCATTCTTCATATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
46036 TATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
65 TATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
46085 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
46150 ATGAACTCGACCTGGTAACGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
46198 AAAAGTTGAACAAGTTCTTCTC-------A----TTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
46252 ACGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
46300 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
46365 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
46413 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
46478 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
46526 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
46591 ATGAACTC
66 ATGAACTC
46599 TTCCAGAAAT
Statistics
Matches: 588, Mismatches: 25, Indels: 29
0.92 0.04 0.05
Matches are distributed among these distances:
102 98 0.17
106 1 0.00
109 1 0.00
112 40 0.07
113 441 0.75
114 7 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:46310 original size:328 final size:327
Alignment explanation
Indices: 45894--46550 Score: 1113
Period size: 328 Copynumber: 2.0 Consensus size: 327
45884 TATGAACTTC
* **
45894 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTG
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTACGAACTGACTCTGGAAATGCTGATCCATCAAGTG
* ** * *
45959 ATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCATTCTTCATATG
66 ATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATG
*
46024 AGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAA
131 AGTTATTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAA
46089 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
196 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
46154 ACTCGACCTGGTAACGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
261 ACTCGACCTGGCAACGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
46219 CA
326 CA
* *
46221 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTCGAC-CTGGTAATGTTGATCCATCGAA
1 TTCTTCC-TCTTCAGATGAGTTCTTCTCATTACGAACT-GACTCTGGAAATGCTGATCCATC-AA
*
46285 -TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
63 GTGATGAATTCAAGC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCA
*
46348 GATGAGTTATTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
127 GATGAGTTATTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
46413 AAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
192 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
46478 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
257 ATGAACTCGACCTGGCAACGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
46543 TTCTCA
322 TTCTCA
46549 TT
1 TT
46551 ATGAACTTCT
Statistics
Matches: 310, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
327 7 0.02
328 296 0.95
329 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (327 bp):
TTCTTCCTCTTCAGATGAGTTCTTCTCATTACGAACTGACTCTGGAAATGCTGATCCATCAAGTG
ATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATG
AGTTATTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAA
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCGACCTGGCAACGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCT
CA
Found at i:47059 original size:22 final size:22
Alignment explanation
Indices: 47034--47088 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
47024 GATAAAGCTT
*
47034 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
47056 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
47078 TCATCTTTGAA
1 TCATCTTTGAA
47089 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:47580 original size:54 final size:54
Alignment explanation
Indices: 47451--47608 Score: 200
Period size: 54 Copynumber: 3.0 Consensus size: 54
47441 ATAATCACTG
* *
47451 GTTCGTAAAACATTTGACAATACATTCAT-CTTTTCTTGTGGTTTCTG-TC-GA-
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGAT
* * * *
47502 GAT-ATAAAATACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
* *
47555 GTTCGTAAAGCATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
47609 TTCTCAATTA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
50 31 0.34
51 10 0.11
52 2 0.02
53 2 0.02
54 45 0.50
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
Found at i:52305 original size:10 final size:9
Alignment explanation
Indices: 52287--52356 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
52277 ATTTCTCCCC
52287 TTTTC-TTT
1 TTTTCTTTT
*
52295 TTTCCTTTT
1 TTTTCTTTT
52304 TTTTCTTTT
1 TTTTCTTTT
* *
52313 TTCTC-ATT
1 TTTTCTTTT
*
52321 TTTCCTTTT
1 TTTTCTTTT
**
52330 TCATCTTTT
1 TTTTCTTTT
52339 TCTTTCTTTT
1 T-TTTCTTTT
*
52349 CTTTCTTT
1 TTTTCTTT
52357 GCTGGATTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
8 9 0.20
9 31 0.67
10 6 0.13
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:52307 original size:17 final size:17
Alignment explanation
Indices: 52287--52348 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 17
52277 ATTTCTCCCC
52287 TTTTCTTTTTTCCTTTT
1 TTTTCTTTTTTCCTTTT
**
52304 TTTTCTTTTTT-CTCAT
1 TTTTCTTTTTTCCTTTT
*
52320 TTTTCCTTTTTCATCTTTT
1 TTTTCTTTTTTC--CTTTT
52339 TCTTTCTTTT
1 T-TTTCTTTT
52349 CTTTCTTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 13 0.37
17 11 0.31
19 4 0.11
20 7 0.20
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTCTTTTTTCCTTTT
Found at i:52348 original size:26 final size:26
Alignment explanation
Indices: 52287--52348 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
52277 ATTTCTCCCC
* **
52287 TTTTCTTTTTTCCTTTTTTTTCTTTT
1 TTTTCATTTTTCCTTTTTCATCTTTT
*
52313 TTCTCATTTTTCCTTTTTCATCTTTT
1 TTTTCATTTTTCCTTTTTCATCTTTT
52339 TCTTTC-TTTT
1 T-TTTCATTTT
52349 CTTTCTTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTCATTTTTCCTTTTTCATCTTTT
Found at i:52368 original size:15 final size:15
Alignment explanation
Indices: 52350--52397 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
52340 CTTTCTTTTC
52350 TTTCTTTGCTGGATT
1 TTTCTTTGCTGGATT
52365 TTTCTTT--T---TT
1 TTTCTTTGCTGGATT
52375 CTTTCTTTGCTGGATT
1 -TTTCTTTGCTGGATT
52391 TTTCTTT
1 TTTCTTT
52398 TTTCTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
13 2 0.07
15 14 0.52
16 2 0.07
ACGTcount: A:0.04, C:0.15, G:0.12, T:0.69
Consensus pattern (15 bp):
TTTCTTTGCTGGATT
Found at i:52382 original size:30 final size:27
Alignment explanation
Indices: 52335--52415 Score: 139
Period size: 26 Copynumber: 3.0 Consensus size: 27
52325 CTTTTTCATC
52335 TTTTTCTTTCTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTC-TTTCTTTCTTTGCTGGA
52363 TTTTTCTTT-TTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTTCTTTCTTTGCTGGA
52389 TTTTTCTTT-TTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTTCTTTCTTTGCTGGA
52415 T
1 T
52416 GAGTATAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 44 0.83
28 9 0.17
ACGTcount: A:0.04, C:0.16, G:0.11, T:0.69
Consensus pattern (27 bp):
TTTTTCTTTCTTTCTTTCTTTGCTGGA
Found at i:57614 original size:18 final size:18
Alignment explanation
Indices: 57586--57632 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
57576 TTAATACCTG
*
57586 AATAA-ATAAAAAATATT
1 AATAATATAAAAAATAAT
57603 AATAATAT-AAAAATAAT
1 AATAATATAAAAAATAAT
57620 AAGTAATA-AAAAA
1 AA-TAATATAAAAA
57633 TTTGAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATATAAAAAATAAT
Found at i:58267 original size:20 final size:19
Alignment explanation
Indices: 58228--58269 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
58218 TTTCTTCGAT
58228 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
58247 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
58267 ATT
1 ATT
58270 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:58381 original size:121 final size:119
Alignment explanation
Indices: 58137--58374 Score: 313
Period size: 121 Copynumber: 2.0 Consensus size: 119
58127 AAAAAATATT
* * * *
58137 AATTTATATAT-ATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGG
1 AATTAATATATAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
* *
58201 TGTCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 TGTCTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
**
58255 AATTAATATATAATTTATAAAATAGGATATTTTATTTATTTAAAAATATCAGAAAATGGACATCC
1 AATTAATATATAATTTAT-AAATAAAATA-TTTATTTATTTAAAAATATCAGAAAA-GGACATCC
* * * *
58320 AGTTGTTTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAAC
63 AGGTGTCTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
58374 A
1 A
58375 GGATTAAAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
118 10 0.10
119 15 0.14
120 27 0.26
121 32 0.31
122 20 0.19
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
AATTAATATATAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
TGTCTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:58592 original size:27 final size:27
Alignment explanation
Indices: 58532--58594 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
58522 AAACAAGGAC
*
58532 AAAAATCAATAAAATTAAAATGATAGGT
1 AAAAAT-AATAAAATAAAAATGATAGGT
* *
58560 ACAAATAATAAAATAAAAACTTATA-GT
1 AAAAATAATAAAATAAAAA-TGATAGGT
58587 AAAAATAA
1 AAAAATAA
58595 ATAGTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAAATAATAAAATAAAAATGATAGGT
Found at i:59798 original size:3 final size:3
Alignment explanation
Indices: 59786--59826 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
59776 ATTGGGCCTG
59786 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59827 ATGTAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:63294 original size:60 final size:62
Alignment explanation
Indices: 63208--63341 Score: 170
Period size: 62 Copynumber: 2.2 Consensus size: 62
63198 AAGATAATAT
* * *
63208 AAAG-TAT-AAATAATCCTCCAACTATA-GG-GTAATATTTTGTTAAGTCACCT-GACTATTA
1 AAAGTTATAAAATGATCATCCAACTATAGGGTGTAATATTTTGTTAAGTC-CCTCAACTATTA
** *
63266 AAAGTTATAAAATGATCATCCAACTATAGGGTGTTTTATTTTGTTGAGTCCCTCAACTATTA
1 AAAGTTATAAAATGATCATCCAACTATAGGGTGTAATATTTTGTTAAGTCCCTCAACTATTA
63328 AAAGTTATAAAATG
1 AAAGTTATAAAATG
63342 GTTACCCGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 4 0.06
59 3 0.05
60 17 0.26
61 5 0.08
62 36 0.55
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (62 bp):
AAAGTTATAAAATGATCATCCAACTATAGGGTGTAATATTTTGTTAAGTCCCTCAACTATTA
Found at i:64997 original size:2 final size:2
Alignment explanation
Indices: 64990--65060 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
64980 ACACGAGAAC
64990 TA TA TA TA TA 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 TA TA TA TA TA
65032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65061 GGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65285 original size:27 final size:27
Alignment explanation
Indices: 65247--65337 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
65237 GATAATGGCT
65247 CTGAATCATTCAGAATGTATTTCTGTG
1 CTGAATCATTCAGAATGTATTTCTGTG
* *
65274 CTGAATCATTCAGAATGTACTTCTGTA
1 CTGAATCATTCAGAATGTATTTCTGTG
*
65301 CTGAATCATTCAGAATGTACTTT-TATG
1 CTGAATCATTCAGAATGTA-TTTCTGTG
65328 CTGAATCATT
1 CTGAATCATT
65338 AAGCACTGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTATTTCTGTG
Found at i:65430 original size:22 final size:22
Alignment explanation
Indices: 65405--65458 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
65395 CGCTGAATGT
65405 TGAACGATTCAACATTCAACGC
1 TGAACGATTCAACATTCAACGC
65427 TGAACGATTCAACATTCAACGC
1 TGAACGATTCAACATTCAACGC
*
65449 TGAATGATTC
1 TGAACGATTC
65459 CATTAAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (22 bp):
TGAACGATTCAACATTCAACGC
Found at i:67499 original size:59 final size:61
Alignment explanation
Indices: 67391--67575 Score: 223
Period size: 61 Copynumber: 3.1 Consensus size: 61
67381 ATTTTATTGC
* * * * *
67391 CATTATTTCATCACTATTCCTTGATTTTTTTTATCAGCTTCATGTTTAGTATCTTAATTAT
1 CATTAATTCATCACTATTTCTTGACTTTTTTTATCAGCTACACGTTTAGTATCTTAATTAT
* * * *
67452 TATTAATTCATCACTATTTCTT-A-TTTTTTTATCAACTAAACGTTTAGTATTTTAATTAT
1 CATTAATTCATCACTATTTCTTGACTTTTTTTATCAGCTACACGTTTAGTATCTTAATTAT
*** *
67511 CATTAATTCATTTTTA-TTCTTTGACTTTTTTTATCAGCTACACGTTTAGTATCTTATTTAT
1 CATTAATTCATCACTATTTC-TTGACTTTTTTTATCAGCTACACGTTTAGTATCTTAATTAT
67572 CATT
1 CATT
67576 TTTATTCCAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
58 3 0.03
59 45 0.43
60 2 0.02
61 55 0.52
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (61 bp):
CATTAATTCATCACTATTTCTTGACTTTTTTTATCAGCTACACGTTTAGTATCTTAATTAT
Found at i:73500 original size:23 final size:23
Alignment explanation
Indices: 73474--73537 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
73464 CAGCTCATAT
73474 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* **
73497 AATTGCACCGGAGTGCCGTGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
73520 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
73538 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:75315 original size:21 final size:21
Alignment explanation
Indices: 75291--75335 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
75281 TGTTGTTCGT
* *
75291 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
75312 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
75333 TTG
1 TTG
75336 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:78493 original size:23 final size:23
Alignment explanation
Indices: 78467--78530 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
78457 CAGCTCATAT
78467 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * *
78490 AATTGTACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
78513 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
78531 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:80306 original size:21 final size:21
Alignment explanation
Indices: 80282--80322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
80272 TGTTGTTCGT
* *
80282 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
80303 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
80323 TTTGCCCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:87597 original size:22 final size:22
Alignment explanation
Indices: 87544--87597 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
87534 CTTCGAGACA
*
87544 ATTCTATGTGGTCATTTGGGAC
1 ATTCTATGTGGTCATTTAGGAC
*
87566 A-TATATGTGGTCATTTAGGAC
1 ATTCTATGTGGTCATTTAGGAC
87587 ATTCTATGTGG
1 ATTCTATGTGG
87598 CACTTCGGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (22 bp):
ATTCTATGTGGTCATTTAGGAC
Found at i:87625 original size:24 final size:24
Alignment explanation
Indices: 87588--87637 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
87578 ATTTAGGACA
* *
87588 TTCTATGTGGCACTTCGGTGCATT
1 TTCTATGCGACACTTCGGTGCATT
*
87612 TTCTATGCGACACTTCGGTGTATT
1 TTCTATGCGACACTTCGGTGCATT
87636 TT
1 TT
87638 ATACGAGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.44
Consensus pattern (24 bp):
TTCTATGCGACACTTCGGTGCATT
Done.