Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000070.1 Hibiscus syriacus cultivar Beakdansim tig00000122_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: 69228
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:53 original size:20 final size:20
Alignment explanation
Indices: 28--87 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
18 TCTTCTTTGA
*
28 AAAGAGAACCTATCATCTTT
1 AAAGAGAATCTATCATCTTT
48 AAAGAGAATCTATCATCTTT
1 AAAGAGAATCTATCATCTTT
68 AAGAGAGAATCTATCATCTT
1 AA-AGAGAATCTATCATCTT
88 GAAGAATGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 21 0.55
21 17 0.45
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAGAGAATCTATCATCTTT
Found at i:76 original size:21 final size:21
Alignment explanation
Indices: 12--92 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
2 AAATCCAATA
* * *
12 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTT-AAGAGAG
*
34 AACCTATCATCTTTAA-AGAG
1 AATCTATCATCTTTAAGAGAG
54 AATCTATCATCTTTAAGAGAG
1 AATCTATCATCTTTAAGAGAG
*
75 AATCTATCATCTTGAAGA
1 AATCTATCATCTTTAAGA
93 ATGTAAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 19 0.36
21 23 0.43
22 11 0.21
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
AATCTATCATCTTTAAGAGAG
Found at i:725 original size:18 final size:18
Alignment explanation
Indices: 702--757 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
692 TATATAAAAG
*
702 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTTGAA
720 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTTGAA
738 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTTGAA
756 AA
1 AA
758 GATAAACTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (18 bp):
AATAAATTGAATTTTGAA
Found at i:1132 original size:14 final size:14
Alignment explanation
Indices: 1115--1166 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 14
1105 TTATATATAT
1115 ATTTTTTCTTTTTC
1 ATTTTTTCTTTTTC
1129 ATTTTTTCTTTTTTTTC
1 ATTTTTTC---TTTTTC
*
1146 ATTTTTTTTCTTTTC
1 ATTTTTTCT-TTTTC
1161 ATTTTT
1 ATTTTT
1167 CTTCTTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 9 0.27
15 11 0.33
17 13 0.39
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTTCTTTTTC
Found at i:1134 original size:15 final size:16
Alignment explanation
Indices: 1116--1172 Score: 73
Period size: 15 Copynumber: 3.6 Consensus size: 16
1106 TATATATATA
1116 TTTT-TTCTTTTTCATT
1 TTTTCTTCTTTTTCA-T
*
1132 TTTTCTTTTTTTTCAT
1 TTTTCTTCTTTTTCAT
*
1148 TTTTTTTC-TTTTCAT
1 TTTTCTTCTTTTTCAT
1163 TTTTCTTCTT
1 TTTTCTTCTT
1173 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.40
16 12 0.34
17 9 0.26
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTCTTTTTCAT
Found at i:1145 original size:17 final size:16
Alignment explanation
Indices: 1116--1166 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1106 TATATATATA
*
1116 TTTTTTCTTTTTCATT
1 TTTTTTTTTTTTCATT
1132 TTTTCTTTTTTTTCA-T
1 TTTT-TTTTTTTTCATT
*
1148 TTTTTTTCTTTTCATT
1 TTTTTTTTTTTTCATT
1164 TTT
1 TTT
1167 CTTCTTCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 9 0.29
16 13 0.42
17 9 0.29
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTTTCATT
Found at i:1150 original size:10 final size:9
Alignment explanation
Indices: 1130--1159 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1120 TTCTTTTTCA
1130 TTTTTTCTT
1 TTTTTTCTT
1139 TTTTTTCATT
1 TTTTTTC-TT
1149 TTTTTTCTT
1 TTTTTTCTT
1158 TT
1 TT
1160 CATTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4641 original size:9 final size:9
Alignment explanation
Indices: 4627--4652 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4617 AGAAATAATG
4627 AATGTAAAA
1 AATGTAAAA
4636 AATGTAAAA
1 AATGTAAAA
4645 AATGTAAA
1 AATGTAAA
4653 GTATAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (9 bp):
AATGTAAAA
Found at i:11618 original size:11 final size:12
Alignment explanation
Indices: 11592--11629 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11582 TTTAATATCT
*
11592 AAAAATAAAATA
1 AAAAATATAATA
11604 AAAACAT-TAATA
1 AAAA-ATATAATA
11616 AAAAATATAATA
1 AAAAATATAATA
11628 AA
1 AA
11630 TATTATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATATAATA
Found at i:12646 original size:27 final size:27
Alignment explanation
Indices: 12616--12671 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
12606 AAATATAACT
12616 AAACAAT-G-ACTAAAATAAATAAAATAA
1 AAACAATAGTACTAAAAT--ATAAAATAA
*
12643 AAACTATAGTACTAAAATATAAAATAA
1 AAACAATAGTACTAAAATATAAAATAA
12670 AA
1 AA
12672 GTATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 17 0.65
28 1 0.04
29 8 0.31
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (27 bp):
AAACAATAGTACTAAAATATAAAATAA
Found at i:13929 original size:3 final size:3
Alignment explanation
Indices: 13921--14014 Score: 124
Period size: 3 Copynumber: 32.0 Consensus size: 3
13911 TTTAGGCCTG
*
13921 TAA TAA TAA TAA T-A TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13966 TAA TAAA GAA TAA TAA TAA T-A TAA T-A TAA T-A TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14009 TAA TAA
1 TAA TAA
14015 CCAAATGGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
2 8 0.10
3 68 0.84
4 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15295 original size:130 final size:130
Alignment explanation
Indices: 14978--15344 Score: 504
Period size: 131 Copynumber: 2.8 Consensus size: 130
14968 ATAATTTTAA
* *
14978 GAGAGAAAACGATTATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
1 GAGAGAAAACGATAATATCTAA-TATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAA
* * *
15043 GTCATTTATTACTCTAATCGAAATGAAGAGATATCACTATTTCGCCTTAAAATTCAATATTTATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTGCGCCTTAAAATTCAATATTGATT
15108 C
130 C
* * * *
15109 GAGTGAAAACGATAATATCTAATGATTTCCAATCGAGAATAATTGACCTCTTATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAAT-ATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAA
* * *
15174 GTCATTTATTACTCCAATTGAAATGAAGAGATGTCACTATTGCGTCTTAAAA-TCAATATTGATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTGCGCCTTAAAATTCAATATTGATT
15238 C
130 C
* * * * *
15239 GAGAGAAAACGATAATATCTAACTATTTCTAATCGAGAATAAATGTCATATCATGCCTTAAAAAA
1 GAGAGAAAACGATAATATCTAA-TATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAA
* * *
15304 GTCATTTATTACACCAACCGAAATGAAAAGATAAT-ACTATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGAT-ATCACTATT
15345 TTCAATATTG
Statistics
Matches: 208, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
130 101 0.49
131 107 0.51
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAAG
TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTGCGCCTTAAAATTCAATATTGATTC
Found at i:16608 original size:22 final size:19
Alignment explanation
Indices: 16556--16629 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 19
16546 ATCTAAATTA
16556 GGTATCGATACCTATAG-GG
1 GGTATCGATACC-ATAGTGG
* *
16575 GGTTTCGGTACCATAGCATAGG
1 GGTATCGATACCATAG--T-GG
16597 GGTATCGATACCATAGTGAG
1 GGTATCGATACCATAGTG-G
16617 GGTATCGATACCA
1 GGTATCGATACCA
16630 GGTTACATCG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 4 0.09
19 11 0.24
20 15 0.33
22 16 0.35
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (19 bp):
GGTATCGATACCATAGTGG
Found at i:16621 original size:20 final size:20
Alignment explanation
Indices: 16556--16629 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
16546 ATCTAAATTA
16556 GGTATCGATACCTATAG-G-G
1 GGTATCGATACC-ATAGTGAG
* *
16575 GGTTTCGGTACCATAGCAT-AGG
1 GGTATCGATACCATAG--TGA-G
16597 GGTATCGATACCATAGTGAG
1 GGTATCGATACCATAGTGAG
16617 GGTATCGATACCA
1 GGTATCGATACCA
16630 GGTTACATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.09
19 10 0.22
20 15 0.33
21 1 0.02
22 15 0.33
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAGTGAG
Found at i:16701 original size:22 final size:21
Alignment explanation
Indices: 16652--16764 Score: 81
Period size: 22 Copynumber: 5.5 Consensus size: 21
16642 GTTAATTTTG
* *
16652 GTATTGATA-CATAA-AGGGG
1 GTATCGATACCATAATAGGGA
* *
16671 GTATTGATACCCTAATAGGGTA
1 GTATCGATACCATAATAGGG-A
** *
16693 GTATCGATAGTATAGTA-GGA
1 GTATCGATACCATAATAGGGA
* * *
16713 GTATTGATACCCTAATACGGTA
1 GTATCGATACCATAATA-GGGA
*
16735 GTATCGATACCATAGTAGGG-
1 GTATCGATACCATAATAGGGA
16755 GTATCGATAC
1 GTATCGATAC
16765 TAAGGGCCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
19 9 0.12
20 27 0.38
21 8 0.11
22 28 0.39
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (21 bp):
GTATCGATACCATAATAGGGA
Found at i:16735 original size:42 final size:42
Alignment explanation
Indices: 16671--16764 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
16661 CATAAAGGGG
* **
16671 GTATTGATACCCTAATAGGGTAGTATCGATAGTATAGTAGGA
1 GTATTGATACCCTAATACGGTAGTATCGATACCATAGTAGGA
*
16713 GTATTGATACCCTAATACGGTAGTATCGATACCATAGTAGGG
1 GTATTGATACCCTAATACGGTAGTATCGATACCATAGTAGGA
*
16755 GTATCGATAC
1 GTATTGATAC
16765 TAAGGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
GTATTGATACCCTAATACGGTAGTATCGATACCATAGTAGGA
Found at i:16760 original size:20 final size:20
Alignment explanation
Indices: 16651--16764 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 20
16641 AGTTAATTTT
*
16651 GGTATTGATA-CATAA-AGGG
1 GGTATCGATACCATAATA-GG
* *
16670 GGTATTGATACCCTAATAGG
1 GGTATCGATACCATAATAGG
** *
16690 GTAGTATCGATAGTATAGTAGG
1 G--GTATCGATACCATAATAGG
* * *
16712 AGTATTGATACCCTAATACGG
1 GGTATCGATACCATAATA-GG
* *
16733 TAGTATCGATACCATAGTAGG
1 -GGTATCGATACCATAATAGG
16754 GGTATCGATAC
1 GGTATCGATAC
16765 TAAGGGCCAT
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
19 10 0.14
20 29 0.40
21 5 0.07
22 29 0.40
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAATAGG
Found at i:17338 original size:20 final size:20
Alignment explanation
Indices: 17315--17433 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 20
17305 TGCATCAACA
17315 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* *
17335 GATGCCATAACTAAAAATGCATGAACG
1 GATG-CAT---T---AAGGCATGAAAG
17362 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* *
17382 GATGCCATAACTAAAAATGCATGAATG
1 GATG-CAT---T---AAGGCATGAAAG
*
17409 GGTGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
17429 GATGC
1 GATGC
17434 CATAACTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
20 32 0.43
21 6 0.08
23 2 0.03
24 2 0.03
26 6 0.08
27 27 0.36
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (20 bp):
GATGCATTAAGGCATGAAAG
Found at i:17364 original size:27 final size:27
Alignment explanation
Indices: 17326--17500 Score: 95
Period size: 27 Copynumber: 7.3 Consensus size: 27
17316 ATGCATTAAG
17326 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* *
17353 GCATGAACGGATG-CAT---T---AAG
1 GCATGAAAGGATGCCATAACTAAAAAT
17373 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* * *
17400 GCATGAATGGGTG-CAT---T---AAG
1 GCATGAAAGGATGCCATAACTAAAAAT
*
17420 GCATGAAAGGATGCCATAACTAAAACT
1 GCATGAAAGGATGCCATAACTAAAAAT
* * * *
17447 CCATGAACGGGTG-CAT---T---AAG
1 GCATGAAAGGATGCCATAACTAAAAAT
* *
17467 GCGTGAAAGTATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
17494 GCATGAA
1 GCATGAA
17501 CGGGTGCATT
Statistics
Matches: 104, Mismatches: 23, Indels: 42
0.62 0.14 0.25
Matches are distributed among these distances:
20 36 0.35
21 9 0.09
23 3 0.03
24 3 0.03
26 9 0.09
27 44 0.42
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAACTAAAAAT
Found at i:17733 original size:27 final size:26
Alignment explanation
Indices: 17655--17931 Score: 73
Period size: 27 Copynumber: 11.6 Consensus size: 26
17645 ATGCATTAAG
* *
17655 GCATAAAAGGATGCAATAACTAAAAAT
1 GCATGAAATGATGC-ATAACTAAAAAT
*
17682 GCATG-AATGGATGCAT---T---AAG
1 GCATGAAAT-GATGCATAACTAAAAAT
17702 GCATGAAATGATGACATAACTAAAAAT
1 GCATGAAATGATG-CATAACTAAAAAT
* *
17729 GCATG-AACGTATGCAT---T---AAG
1 GCATGAAATG-ATGCATAACTAAAAAT
17749 GCATGAAATGATGCCATAACTAAAAAT
1 GCATGAAATGATG-CATAACTAAAAAT
** * *
17776 GCATGAACGGGTGCAT---T---AAG
1 GCATGAAATGATGCATAACTAAAAAT
*
17796 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAATGATG-CATAACTAAAAAT
** * *
17823 GCATGAACGGGTGCAT---T---AAG
1 GCATGAAATGATGCATAACTAAAAAT
*
17843 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAATGATG-CATAACTAAAAAT
* *
17870 GCATG-AACGAATGCAT---T---AAG
1 GCATGAAATG-ATGCATAACTAAAAAT
17890 GCATGAAATGATGCCATAACTAAAAAT
1 GCATGAAATGATG-CATAACTAAAAAT
17917 GCATG-AATGGATGCA
1 GCATGAAAT-GATGCA
17932 CTAAGGCATA
Statistics
Matches: 183, Mismatches: 25, Indels: 85
0.62 0.09 0.29
Matches are distributed among these distances:
20 57 0.31
21 24 0.13
23 5 0.03
24 5 0.03
26 27 0.15
27 65 0.36
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (26 bp):
GCATGAAATGATGCATAACTAAAAAT
Found at i:17801 original size:20 final size:20
Alignment explanation
Indices: 17776--17849 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
17766 AACTAAAAAT
17776 GCATGAACGGGTGCATTAAG
1 GCATGAACGGGTGCATTAAG
* * *
17796 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAACGGGTG-CAT---T---AAG
17823 GCATGAACGGGTGCATTAAG
1 GCATGAACGGGTGCATTAAG
17843 GCATGAA
1 GCATGAA
17850 AGGATGCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 20 0.49
21 3 0.07
23 1 0.02
24 1 0.02
26 3 0.07
27 13 0.32
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (20 bp):
GCATGAACGGGTGCATTAAG
Found at i:18044 original size:20 final size:20
Alignment explanation
Indices: 18019--18111 Score: 96
Period size: 20 Copynumber: 4.3 Consensus size: 20
18009 ATACATTAAT
18019 GGATGCATTAAGGCATGAAA
1 GGATGCATTAAGGCATGAAA
* *
18039 GGATGCAATAACTATAAATGCATGAAT
1 GGATGC----A-T-T-AAGGCATGAAA
*
18066 GGATGCATTAAGGTATGAAA
1 GGATGCATTAAGGCATGAAA
18086 GGATGCATTAAGGCATGAAA
1 GGATGCATTAAGGCATGAAA
18106 GGATGC
1 GGATGC
18112 CATAACTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
20 39 0.65
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 15 0.25
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.23
Consensus pattern (20 bp):
GGATGCATTAAGGCATGAAA
Found at i:18092 original size:47 final size:47
Alignment explanation
Indices: 17152--18091 Score: 1475
Period size: 47 Copynumber: 20.0 Consensus size: 47
17142 AAACCGAATT
*
17152 CATAACTAAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17199 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATAAAAGGATAC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
17246 CATAACTAAAAATGCACGAACGGATGCATTAAGGCATGAAATGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17293 CATAACTAAAAATGCATCAACAGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
17340 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17387 CATAACTAAAAATGCATGAATGGGTGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * * *
17434 CATAACTAAAACTCCATGAACGGGTGCATTAAGGCGTGAAAGTATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17481 CATAACTAAAAATGCATGAACGGGTGCATTAAGGCATAAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17528 CATAACTAAAATTGCATGAACGGATGCATTAAGGCATGAAATGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17575 CATAACTAAAAATGAATGAACGGATGCATTAAGGCATGAAAGAATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17622 CATAACTAAAAATGCATGAACAGATGCATTAAGGCATAAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
17669 AATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAATGATGA
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17716 CATAACTAAAAATGCATGAACGTATGCATTAAGGCATGAAATGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
17763 CATAACTAAAAATGCATGAACGGGTGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
17810 CATAACTAAAAATGCATGAACGGGTGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17857 CATAACTAAAAATGCATGAACGAATGCATTAAGGCATGAAATGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
17904 CATAACTAAAAATGCATGAATGGATGCACTAAGGCATAAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
17951 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGA
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
17998 CATAACTAAAAATACATTAATGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
18045 AATAACTATAAATGCATGAATGGATGCATTAAGGTATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
18092 ATTAAGGCAT
Statistics
Matches: 818, Mismatches: 75, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 818 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
Found at i:18094 original size:67 final size:67
Alignment explanation
Indices: 18019--18152 Score: 223
Period size: 67 Copynumber: 2.0 Consensus size: 67
18009 ATACATTAAT
* * * *
18019 GGATGCATTAAGGCATGAAAGGATGCAATAACTATAAATGCATGAATGGATGCATTAAGGTATGA
1 GGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGAATGAACGGATGCATTAAGGCATGA
18084 AA
66 AA
*
18086 GGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTAAGGCATGA
1 GGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGAATGAACGGATGCATTAAGGCATGA
18151 AA
66 AA
18153 TGATACCAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (67 bp):
GGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGAATGAACGGATGCATTAAGGCATGA
AA
Found at i:18121 original size:208 final size:208
Alignment explanation
Indices: 17880--18299 Score: 660
Period size: 208 Copynumber: 2.0 Consensus size: 208
17870 GCATGAACGA
* * *
17880 ATGCATTAAGGCATGAAATGATGCCATAACTAAAAATGCATGAATGGATGCACTAAGGCATAAAA
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCACTAAGGCATAAAA
* *
17945 GGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAA
66 GGATACCAAAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAA
* * * *
18010 TACATTAATGGATGCATTAAGGCATGAAAGGATGCAATAACTATAAATGCATGAATGGATGCATT
131 TACATGAACGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGCATGAACGGATGCATT
*
18075 AAGGTATGAAAGG
196 AAGGTATGAAAAG
* *
18088 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTAAGGCATGAAA
1 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCACTAAGGCATAAAA
* * * *
18153 TGATACCAAAACTAAAAATGCATGAACGGGTGCATTAAGGCATGAAAGGATGCCATAACTAAAAA
66 GGATACCAAAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAA
* * * *
18218 TGCATGAACGGATGCATTAAGGCATGAGAGGATGCCATAACTAAAAATGCATGAACGGATGGATT
131 TACATGAACGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGCATGAACGGATGCATT
18283 AAGGTATGAAAAG
196 AAGGTATGAAAAG
18296 ATGC
1 ATGC
18300 CATAAGTGAA
Statistics
Matches: 192, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
208 192 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (208 bp):
ATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCACTAAGGCATAAAA
GGATACCAAAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAA
TACATGAACGGATGCATTAAGGCATGAAAGGATGCAATAACTAAAAATGCATGAACGGATGCATT
AAGGTATGAAAAG
Found at i:18131 original size:47 final size:47
Alignment explanation
Indices: 18080--18304 Score: 360
Period size: 47 Copynumber: 4.8 Consensus size: 47
18070 GCATTAAGGT
* *
18080 ATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGA
1 ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
* * *
18127 ATGAACGGATGCATTAAGGCATGAAATGATACCAAAACTAAAAATGC
1 ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
*
18174 ATGAACGGGTGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
1 ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
*
18221 ATGAACGGATGCATTAAGGCATGAGAGGATGCCATAACTAAAAATGC
1 ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
* * *
18268 ATGAACGGATGGATTAAGGTATGAAAAGATGCCATAA
1 ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAA
18305 GTGAAATTAA
Statistics
Matches: 163, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.20
Consensus pattern (47 bp):
ATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
Found at i:18199 original size:114 final size:114
Alignment explanation
Indices: 17964--18205 Score: 353
Period size: 114 Copynumber: 2.1 Consensus size: 114
17954 AACTAAAAAT
* * *
17964 GCATGAACGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAATACATTAATGGATGCATTA
1 GCATGAAAGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAATACATGAACGGATGCATTA
* * *
18029 AGGCATGAAAGGATGCAATAACTATAAATGCATGAATGGATGCATTAAG
66 AGGCATGAAAGGATCCAATAACTAAAAATGCATGAACGGATGCATTAAG
* * *
18078 GTATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGA-ATGAACGGATGCATT
1 GCATGAAAGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAAT-ACATGAACGGATGCATT
* *
18142 AAGGCATGAAATGATACCAA-AACTAAAAATGCATGAACGGGTGCATTAAG
65 AAGGCATGAAAGGAT-CCAATAACTAAAAATGCATGAACGGATGCATTAAG
18192 GCATGAAAGGATGC
1 GCATGAAAGGATGC
18206 CATAACTAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
114 110 0.96
115 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (114 bp):
GCATGAAAGGATGCATTAAGGAATGAAAGGATGACATAACTAAAAATACATGAACGGATGCATTA
AGGCATGAAAGGATCCAATAACTAAAAATGCATGAACGGATGCATTAAG
Found at i:18230 original size:27 final size:27
Alignment explanation
Indices: 18192--18278 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
18182 GTGCATTAAG
*
18192 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAACGGATGCCATAACTAAAAAT
*
18219 GCATGAACGGATG-CAT---T---AAG
1 GCATGAACGGATGCCATAACTAAAAAT
18239 GCATGAGA-GGATGCCATAACTAAAAAT
1 GCATGA-ACGGATGCCATAACTAAAAAT
18266 GCATGAACGGATG
1 GCATGAACGGATG
18279 GATTAAGGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
20 13 0.27
21 4 0.08
23 1 0.02
24 1 0.02
26 4 0.08
27 25 0.52
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.18
Consensus pattern (27 bp):
GCATGAACGGATGCCATAACTAAAAAT
Found at i:18244 original size:20 final size:20
Alignment explanation
Indices: 18172--18244 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
18162 AACTAAAAAT
*
18172 GCATGAACGGGTGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
18192 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAACGGATG-CAT---T---AAG
18219 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
18239 GCATGA
1 GCATGA
18245 GAGGATGCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
20 19 0.46
21 3 0.07
23 1 0.02
24 1 0.02
26 3 0.07
27 14 0.34
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.19
Consensus pattern (20 bp):
GCATGAACGGATGCATTAAG
Found at i:18252 original size:161 final size:160
Alignment explanation
Indices: 17917--18252 Score: 503
Period size: 161 Copynumber: 2.1 Consensus size: 160
17907 AACTAAAAAT
*
17917 GCATGAATGGATGCACTAAGGCATAAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTA
1 GCATGAA-GGATGCACTAAGGCATAAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTA
* * *
17982 AGGAATGAAAGGATGACATAACTAAAAATACATTAATGGATGCATTAAGGCATGAAAGGATGCAA
65 AGGAATGAAAGGATGACAAAACTAAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCAA
* *
18047 TAACTATAAATGCATGAATGGATGCATTAAG
130 TAACTAAAAATGCATGAACGGATGCATTAAG
* * *
18078 GTATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTA
1 GCATG-AAGGATGCACTAAGGCATAAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTA
* * * * *
18143 AGGCATGAAATGAT-ACCAAAACTAAAAATGCATGAACGGGTGCATTAAGGCATGAAAGGATGCC
65 AGGAATGAAAGGATGA-CAAAACTAAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCA
18207 ATAACTAAAAATGCATGAACGGATGCATTAAG
129 ATAACTAAAAATGCATGAACGGATGCATTAAG
18239 GCATGAGAGGATGC
1 GCATGA-AGGATGC
18253 CATAACTAAA
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
160 2 0.01
161 153 0.97
162 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (160 bp):
GCATGAAGGATGCACTAAGGCATAAAAGGATGCCATAACTAAAAATGAATGAACGGATGCATTAA
GGAATGAAAGGATGACAAAACTAAAAATACATGAACGGATGCATTAAGGCATGAAAGGATGCAAT
AACTAAAAATGCATGAACGGATGCATTAAG
Found at i:18731 original size:29 final size:29
Alignment explanation
Indices: 18698--18842 Score: 229
Period size: 29 Copynumber: 5.0 Consensus size: 29
18688 TATGTCAGTT
18698 AGATGAACA-GTTAAACACTGTTGAGTAAA
1 AGATGAA-AGGTTAAACACTGTTGAGTAAA
*
18727 AGATGAAAGGTTAAACACTATTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
18756 AGATGAAAGGTTAAACACTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
* *
18785 AGATGAAAGGTTTAACACTGTTGAGTATA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
* *
18814 AGATGAACGGTTAAACACTGTTCAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
18843 CGAATAAAGG
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 1 0.01
29 106 0.99
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (29 bp):
AGATGAAAGGTTAAACACTGTTGAGTAAA
Found at i:22672 original size:20 final size:20
Alignment explanation
Indices: 22621--22675 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
22611 ATACATGAAG
* *
22621 GGGGTGTCGATACCCTAATA
1 GGGGTATCGATACCATAATA
*
22641 GGGTAATATCGATACCATAATA
1 GGG--GTATCGATACCATAATA
22663 GGGGTATCGATAC
1 GGGGTATCGATAC
22676 TAAAGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
GGGGTATCGATACCATAATA
Found at i:23144 original size:27 final size:26
Alignment explanation
Indices: 23113--23200 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
23103 GCATTAAGGA
*
23113 ATGAAATGATGTCATAACTAAAAATGC
1 ATGAAAGGATG-CATAACTAAAAATGC
* *
23140 ATGAACGGATGC---ACT---AAGGC
1 ATGAAAGGATGCATAACTAAAAATGC
23160 ATGAAAGGATGCCATAACTAAAAATGC
1 ATGAAAGGATG-CATAACTAAAAATGC
*
23187 ATGAACGGATGCAT
1 ATGAAAGGATGCAT
23201 TAAGGCATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
20 14 0.29
21 1 0.02
23 3 0.06
24 3 0.06
26 4 0.08
27 23 0.48
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (26 bp):
ATGAAAGGATGCATAACTAAAAATGC
Found at i:23146 original size:47 final size:47
Alignment explanation
Indices: 23078--23614 Score: 639
Period size: 47 Copynumber: 11.0 Consensus size: 47
23068 AAACCGAATT
* * *
23078 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAATGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
23125 CATAACTAAAAATGCATGAACGGATGCACTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
23172 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAACGAATG-
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
23218 CATTAAGGCATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACATTATGGCATGAAAAGA
1 CA-TAA--C-TAAAA--ATG------C-----ATG-AA---CGGATGCATTAAGGCATGAAAGGA
23283 TGC
45 TGC
* *
23286 CATAACTAAAAATGCATGAACGGATACATTAAGGCATGAAATGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
23333 CATAACTAAAAATGCATGAACTGG-TGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAC-GGATGCATTAAGGCATGAAAGGATGC
23380 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
** *
23427 CATAACTAAAAATGCATGAACAGG-TTTATTAAGGCATAAAAGGATGC
1 CATAACTAAAAATGCATGAAC-GGATGCATTAAGGCATGAAAGGATGC
* *
23474 CATAACTAAAAATACATGAACGGGTGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
** *
23521 CATAACTAAAAATGCATGAACAAATGCATTAAGGAATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
23568 CATAACTAAAAATGCTTGAACGGGTGCATTAAGGCATGAACGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
23615 ATTAAGGCAT
Statistics
Matches: 428, Mismatches: 36, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
46 6 0.01
47 364 0.85
48 4 0.01
49 1 0.00
50 6 0.01
51 3 0.01
52 3 0.01
56 1 0.00
58 1 0.00
62 3 0.01
63 3 0.01
64 6 0.01
65 1 0.00
67 24 0.06
68 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
Found at i:23163 original size:20 final size:20
Alignment explanation
Indices: 23138--23238 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 20
23128 AACTAAAAAT
23138 GCATGAACGGATGCACTAAG
1 GCATGAACGGATGCACTAAG
* *
23158 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAACGGATG-C---ACT---AAG
*
23185 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCACTAAG
* *
23205 GCATGAACGAATGCATTAAG
1 GCATGAACGGATGCACTAAG
* *
23225 GCATAAAAGGATGC
1 GCATGAACGGATGC
23239 CATAACTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
20 44 0.68
21 1 0.02
23 2 0.03
24 3 0.05
26 1 0.02
27 14 0.22
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.18
Consensus pattern (20 bp):
GCATGAACGGATGCACTAAG
Found at i:23209 original size:67 final size:67
Alignment explanation
Indices: 23138--23426 Score: 252
Period size: 67 Copynumber: 4.2 Consensus size: 67
23128 AACTAAAAAT
23138 GCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTA
1 GCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTA
23203 AG
66 AG
* * * *
23205 GCATGAACGAATGCATTAAGGCATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACATTA
1 GCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTA
*
23270 TG
66 AG
** * * * **
23272 GCATGAAAAGATGC-CATAA--C-T-AAA-AATG-CATGAACGGATACATTAAGGCATGAAATGA
1 GCATGAACGGATGCAC-TAAGGCATGAAAGGATGCCAT-AAC---TA-A-AAATGCATGAACGGA
*
23330 TGCCATAACTAAAAAT
59 TG-CAT---T---AAG
*
23346 GCATGAACTGG-TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATT
1 GCATGAAC-GGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATT
23410 AAG
65 AAG
*
23413 GCATGAAAGGATGC
1 GCATGAACGGATGC
23427 CATAACTAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
61 3 0.02
62 6 0.03
63 3 0.02
64 1 0.01
65 3 0.02
66 3 0.02
67 100 0.58
68 3 0.02
70 1 0.01
71 1 0.01
73 3 0.02
74 27 0.16
75 2 0.01
76 3 0.02
77 1 0.01
78 3 0.02
79 6 0.03
80 3 0.02
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (67 bp):
GCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTA
AG
Found at i:23291 original size:114 final size:114
Alignment explanation
Indices: 23091--23325 Score: 380
Period size: 114 Copynumber: 2.1 Consensus size: 114
23081 AACTAAAAAT
* * * * *
23091 GCATGAACGGATGCATTAAGGAATGAAATGATGTCATAACTAAAAATGCATGAACGGATGCACTA
1 GCATGAACGAATGCATTAAGGAATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACACTA
* *
23156 AGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
66 AGGCATGAAAAGATGCCATAACTAAAAATGCATGAACGGATACATTAAG
* *
23205 GCATGAACGAATGCATTAAGGCATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACATTA
1 GCATGAACGAATGCATTAAGGAATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACACTA
*
23270 TGGCATGAAAAGATGCCATAACTAAAAATGCATGAACGGATACATTAAG
66 AGGCATGAAAAGATGCCATAACTAAAAATGCATGAACGGATACATTAAG
23319 GCATGAA
1 GCATGAA
23326 ATGATGCCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (114 bp):
GCATGAACGAATGCATTAAGGAATAAAAGGATGCCATAACTAAAAATGCATGAACGGATACACTA
AGGCATGAAAAGATGCCATAACTAAAAATGCATGAACGGATACATTAAG
Found at i:23343 original size:161 final size:161
Alignment explanation
Indices: 23078--23372 Score: 502
Period size: 161 Copynumber: 1.8 Consensus size: 161
23068 AAACCGAATT
* * *
23078 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAATGATGTCATAACTAAAAATGCATG
1 CATAACTAAAAATGCATGAACGGATACATTAAGGAATGAAAAGATGCCATAACTAAAAATGCATG
*
23143 AACGGATGCACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAAC-GGATGCATTAAGGC
66 AACGGATACACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACTGG-TGCATTAAGGC
23207 ATGAACGAATGCATTAAGGCATAAAAGGATGC
130 ATGAACGAATGCATTAAGGCATAAAAGGATGC
* *
23239 CATAACTAAAAATGCATGAACGGATACATTATGGCATGAAAAGATGCCATAACTAAAAATGCATG
1 CATAACTAAAAATGCATGAACGGATACATTAAGGAATGAAAAGATGCCATAACTAAAAATGCATG
* *
23304 AACGGATACATTAAGGCATGAAATGATGCCATAACTAAAAATGCATGAACTGGTGCATTAAGGCA
66 AACGGATACACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACTGGTGCATTAAGGCA
23369 TGAA
131 TGAA
23373 AGGATGCCAT
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
161 123 0.98
162 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (161 bp):
CATAACTAAAAATGCATGAACGGATACATTAAGGAATGAAAAGATGCCATAACTAAAAATGCATG
AACGGATACACTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACTGGTGCATTAAGGCA
TGAACGAATGCATTAAGGCATAAAAGGATGC
Found at i:23350 original size:27 final size:27
Alignment explanation
Indices: 23319--23446 Score: 97
Period size: 27 Copynumber: 5.3 Consensus size: 27
23309 ATACATTAAG
*
23319 GCATGAAATGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* *
23346 GCATGAACTGG-TG-CAT---T---AAG
1 GCATGAA-AGGATGCCATAACTAAAAAT
23366 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* *
23393 GCATGAACGGATG-CAT---T---AAG
1 GCATGAAAGGATGCCATAACTAAAAAT
23413 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
23440 GCATGAA
1 GCATGAA
23447 CAGGTTTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
19 2 0.03
20 25 0.33
21 6 0.08
23 2 0.03
24 2 0.03
26 6 0.08
27 32 0.42
28 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAACTAAAAAT
Found at i:23609 original size:20 final size:20
Alignment explanation
Indices: 23584--23627 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
23574 TAAAAATGCT
*
23584 TGAACGGGTGCATTAAGGCA
1 TGAACGGATGCATTAAGGCA
23604 TGAACGGATGCATTAAGGCA
1 TGAACGGATGCATTAAGGCA
23624 TGAA
1 TGAA
23628 ATGATGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (20 bp):
TGAACGGATGCATTAAGGCA
Found at i:23620 original size:67 final size:67
Alignment explanation
Indices: 23534--23681 Score: 224
Period size: 67 Copynumber: 2.2 Consensus size: 67
23524 AACTAAAAAT
** * *
23534 GCATGAACAAATGCATTAAGGAATGAAAGGATGCCATAACTAAAAATGCTTGAACGGGTGCATTA
1 GCATGAACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAAATACATGAACGGGTGCATTA
23599 AG
66 AG
* *
23601 GCATGAACGGATGCATTAAGGCATGAAATGATGCCATAACTAAAAATACATGAACGGGTGCATTA
1 GCATGAACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAAATACATGAACGGGTGCATTA
23666 AG
66 AG
* *
23668 ACATGAAAGGATGC
1 GCATGAACGGATGC
23682 CATAACTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (67 bp):
GCATGAACGGATGCATTAAGGAATGAAAGGATGCCATAACTAAAAATACATGAACGGGTGCATTA
AG
Found at i:23633 original size:20 final size:20
Alignment explanation
Indices: 23592--23634 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
23582 CTTGAACGGG
*
23592 TGCATTAAGGCATGAACGGA
1 TGCATTAAGGCATGAAAGGA
*
23612 TGCATTAAGGCATGAAATGA
1 TGCATTAAGGCATGAAAGGA
23632 TGC
1 TGC
23635 CATAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (20 bp):
TGCATTAAGGCATGAAAGGA
Found at i:23653 original size:47 final size:47
Alignment explanation
Indices: 23602--23826 Score: 326
Period size: 47 Copynumber: 4.8 Consensus size: 47
23592 TGCATTAAGG
*
23602 CATGAACGGATGCATTAAGGCATGAAATGATGCCATAACTAAAAATA
1 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATA
* * * *
23649 CATGAACGGGTGCATTAAGACATGAAAGGATGCCATAACTAAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATA
* * *
23696 CATGAGCGGTTGCATTAAGGCATGAAAGGATGCCATAACTAAAAATA
1 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATA
** * * *
23743 CATGAATAGATCCATTAAGGCATGAAAAGATG-CTTAACTAAAAATG
1 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATA
23789 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAA
1 CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAA
23827 GTGAAATTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 41 0.26
47 116 0.74
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (47 bp):
CATGAACGGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATA
Found at i:23727 original size:114 final size:114
Alignment explanation
Indices: 23488--23728 Score: 376
Period size: 114 Copynumber: 2.1 Consensus size: 114
23478 ACTAAAAATA
* *
23488 CATGAACGGGTGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACAAATGCATTAA
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAACAAATGCATTAA
*
23553 GGAATGAAAGGATGCCATAACTAAAAATGCTTGAACGGGTGCATTAAGG
66 GGAATGAAAGGATGCCATAACTAAAAATGCATGAACGGGTGCATTAAGG
* ***
23602 CATGAACGGATGCATTAAGGCATGAAATGATGCCATAACTAAAAATACATGAACGGGTGCATTAA
1 CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAACAAATGCATTAA
* *
23667 -GACATGAAAGGATGCCATAACTAAAAATGCATGAGCGGTTGCATTAAGG
66 GGA-ATGAAAGGATGCCATAACTAAAAATGCATGAACGGGTGCATTAAGG
*
23716 CATGAAAGGATGC
1 CATGAACGGATGC
23729 CATAACTAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
113 2 0.02
114 114 0.98
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (114 bp):
CATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAACAAATGCATTAA
GGAATGAAAGGATGCCATAACTAAAAATGCATGAACGGGTGCATTAAGG
Found at i:24256 original size:29 final size:29
Alignment explanation
Indices: 24214--24329 Score: 178
Period size: 29 Copynumber: 4.0 Consensus size: 29
24204 TATTCCAGTT
* * *
24214 AGATGAACGATTAAACATTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
24243 AGATGAAAGGTTAAACATTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
24272 AGATGAAAGGTTAAACACTGTTGAGTATA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
24301 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
24330 CGAATAAAGG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (29 bp):
AGATGAAAGGTTAAACACTGTTGAGTAAA
Found at i:26811 original size:3 final size:3
Alignment explanation
Indices: 26803--26835 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
26793 TGGCTAGCAA
26803 AAT AAT AAT AA- AAGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
26836 GTTGGGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:28223 original size:134 final size:134
Alignment explanation
Indices: 27983--28258 Score: 543
Period size: 134 Copynumber: 2.1 Consensus size: 134
27973 TTTGTTCATC
27983 TATTTTCCTAAAATATGGTTTTATATTTTCCATAGTTGTTTCTCTCTTCTTCATGCTTCTCTGAC
1 TATTTTCCTAAAATATGGTTTTATATTTTCCATAGTTGTTTCTCTCTTCTTCATGCTTCTCTGAC
28048 CTCTTTCCTTCAAGCTCTTCTCTCTTATTATTCCTGTGATTACTCTGAATCGTGGCATGGTATCA
66 CTCTTTCCTTCAAGCTCTTCTCTCTTATTATTCCTGTGATTACTCTGAATCGTGGCATGGTATCA
28113 TTGG
131 TTGG
*
28117 TATTTTCCTAAAATATGGTTTTATATTTTCCTTAGTTGTTTCTCTCTTCTTCATGCTTCTCTGAC
1 TATTTTCCTAAAATATGGTTTTATATTTTCCATAGTTGTTTCTCTCTTCTTCATGCTTCTCTGAC
28182 CTCTTTCCTTCAAGCTCTTCTCTCTTATTATTCCTGTGATTACTCTGAATCGTGGCATGGTATCA
66 CTCTTTCCTTCAAGCTCTTCTCTCTTATTATTCCTGTGATTACTCTGAATCGTGGCATGGTATCA
28247 TTGG
131 TTGG
28251 TATTTTCC
1 TATTTTCC
28259 GGTGATTCTC
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 141 1.00
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (134 bp):
TATTTTCCTAAAATATGGTTTTATATTTTCCATAGTTGTTTCTCTCTTCTTCATGCTTCTCTGAC
CTCTTTCCTTCAAGCTCTTCTCTCTTATTATTCCTGTGATTACTCTGAATCGTGGCATGGTATCA
TTGG
Found at i:30278 original size:33 final size:33
Alignment explanation
Indices: 30241--30341 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 33
30231 GTGGCATAAG
30241 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCA
1 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCA
*** * * * **
30274 AGGCTT-TAAAAAATTGT-A--ATGT-TTGTTTT
1 AGGCTTGT-AACCCTTCTCATGAGGTGTTGATCA
30303 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCA
1 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCA
30336 AGGCTT
1 AGGCTT
30342 TAAAAAATTG
Statistics
Matches: 46, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
29 15 0.33
30 5 0.11
32 5 0.11
33 21 0.46
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.38
Consensus pattern (33 bp):
AGGCTTGTAACCCTTCTCATGAGGTGTTGATCA
Found at i:30338 original size:62 final size:62
Alignment explanation
Indices: 30241--30364 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
30231 GTGGCATAAG
30241 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCAAGGCTTTAAAAAATTGTAATGTTTGTTTT
1 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCAAGGCTTTAAAAAATTGTAATGTTTGTTTT
30303 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCAAGGCTTTAAAAAATTGTAATGTTTGTTTT
1 AGGCTTGTAACCCTTCTCATGAGGTGTTGATCAAGGCTTTAAAAAATTGTAATGTTTGTTTT
30365 TATAAAAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (62 bp):
AGGCTTGTAACCCTTCTCATGAGGTGTTGATCAAGGCTTTAAAAAATTGTAATGTTTGTTTT
Found at i:51829 original size:18 final size:20
Alignment explanation
Indices: 51784--51836 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
51774 ATAAATTGTG
51784 CTAATATCGATACTATCACC
1 CTAATATCGATACTATCACC
51804 CTAATATCGATACTA-C-CC
1 CTAATATCGATACTATCACC
* *
51822 CTAGTATCGGTACTA
1 CTAATATCGATACTA
51837 AAATTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.48
19 1 0.03
20 15 0.48
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.30
Consensus pattern (20 bp):
CTAATATCGATACTATCACC
Found at i:58399 original size:21 final size:21
Alignment explanation
Indices: 58370--58425 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
58360 ATACTCTTTA
58370 AACAT-TATCGATACCCCAAG
1 AACATGTATCGATACCCCAAG
*
58390 AACGTGTATCGATACCCCAAG
1 AACATGTATCGATACCCCAAG
58411 AACATGTATCGATAC
1 AACATGTATCGATAC
58426 TCCCTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (21 bp):
AACATGTATCGATACCCCAAG
Found at i:60604 original size:13 final size:13
Alignment explanation
Indices: 60586--60619 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
60576 TAGTATAGGT
60586 AAGATAATCGATA
1 AAGATAATCGATA
*
60599 AAGATAATTGATA
1 AAGATAATCGATA
60612 AACGATAA
1 AA-GATAA
60620 AGATAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (13 bp):
AAGATAATCGATA
Found at i:60617 original size:20 final size:20
Alignment explanation
Indices: 60588--60625 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60578 GTATAGGTAA
*
60588 GATAATCGATAAAGATAATT
1 GATAAACGATAAAGATAATT
60608 GATAAACGATAAAGATAA
1 GATAAACGATAAAGATAA
60626 ACATGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (20 bp):
GATAAACGATAAAGATAATT
Found at i:65104 original size:60 final size:60
Alignment explanation
Indices: 65012--65209 Score: 254
Period size: 60 Copynumber: 3.3 Consensus size: 60
65002 AAGTCTTTAC
* * *
65012 CATTTGAAT-TTCCAATTTCATTTCCAAACTATGATTCTCATTTTAAATTGGTCCTTAAA
1 CATTTGAATATTCCAATTTCATCTCCAAACTATGATCCTCATTCTAAATTGGTCCTTAAA
*
65071 CATTTGAATATTCCAATTTCATCTCCAAACTATGATCCTCATTCTAAATTAGTCCTTAAA
1 CATTTGAATATTCCAATTTCATCTCCAAACTATGATCCTCATTCTAAATTGGTCCTTAAA
* * * ** * * ** *
65131 CTTTTGAACATTCTAATTTCATCTCTTAACTATGACCCTCATTCTAAATTGCTCCACAAT
1 CATTTGAATATTCCAATTTCATCTCCAAACTATGATCCTCATTCTAAATTGGTCCTTAAA
*
65191 CATTTGAATCTTCCAATTT
1 CATTTGAATATTCCAATTT
65210 TATTCCCAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
59 9 0.08
60 110 0.92
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (60 bp):
CATTTGAATATTCCAATTTCATCTCCAAACTATGATCCTCATTCTAAATTGGTCCTTAAA
Found at i:65405 original size:29 final size:29
Alignment explanation
Indices: 65353--65421 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 29
65343 ATGTATTGTT
*
65353 GGGATGAAAGTGAATGTTCAAAAAGTTTG
1 GGGATGAAATTGAATGTTCAAAAAGTTTG
*
65382 GGGATGAAATTGGAATGTTCAAAAATTTTG
1 GGGATGAAATT-GAATGTTCAAAAAGTTTG
65412 GGGATGAAAT
1 GGGATGAAAT
65422 CGAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.29
Consensus pattern (29 bp):
GGGATGAAATTGAATGTTCAAAAAGTTTG
Found at i:67893 original size:20 final size:20
Alignment explanation
Indices: 67865--67905 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
67855 TTAGAAAAAG
67865 ATAAATGAAATAA-ATGCCAA
1 ATAAATGAAA-AACATGCCAA
*
67885 ATAACTGAAAAACATGCCAA
1 ATAAATGAAAAACATGCCAA
67905 A
1 A
67906 AGTATAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (20 bp):
ATAAATGAAAAACATGCCAA
Found at i:68163 original size:25 final size:25
Alignment explanation
Indices: 68129--68178 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
68119 AATATATCTT
68129 CGGAAGAAATAACCCATACACAAGC
1 CGGAAGAAATAACCCATACACAAGC
*
68154 CGGAAGAAATAACCCTTACACAAGC
1 CGGAAGAAATAACCCATACACAAGC
68179 ATCAAGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.10
Consensus pattern (25 bp):
CGGAAGAAATAACCCATACACAAGC
Done.