Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008773.1 Hibiscus syriacus cultivar Beakdansim tig00111881_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: 1239499
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:760602 original size:33 final size:33
Alignment explanation
Indices: 760565--760635 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
760555 AGAATGACTG
**
760565 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
760598 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
760631 TCGCA
1 TCGCA
760636 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:760653 original size:19 final size:18
Alignment explanation
Indices: 760631--760727 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
760621 GAAACCAAAA
*
760631 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
760650 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
760664 TCTCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
760682 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
760696 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
760715 TCGCGTTGCGATT
1 TCGCGTTGCGATT
760728 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.31
15 4 0.06
16 2 0.03
17 6 0.09
18 10 0.16
19 22 0.34
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:760672 original size:14 final size:14
Alignment explanation
Indices: 760653--760741 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
760643 TTTCATTTCG
760653 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
760667 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
760685 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
760699 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
760716 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
760732 CGTTGCGATT
1 CGTTGCGATT
760742 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 4 0.06
16 5 0.08
17 8 0.12
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:760724 original size:33 final size:33
Alignment explanation
Indices: 760636--760749 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
760626 CAAAATCGCA
760636 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
760669 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
760701 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
760734 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
760750 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 32 0.42
33 44 0.58
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:762646 original size:91 final size:93
Alignment explanation
Indices: 762444--762728 Score: 540
Period size: 91 Copynumber: 3.1 Consensus size: 93
762434 TAGATTGCTT
*
762444 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
762509 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
762537 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
762600 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
762628 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
762693 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
762720 AGTAAATTT
1 AGTAAATTT
762729 ATCCATTCAA
Statistics
Matches: 189, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
91 87 0.46
92 27 0.14
93 75 0.40
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:762812 original size:19 final size:19
Alignment explanation
Indices: 762772--762900 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
762762 TAGTTTACTT
* *
762772 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
762792 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
762811 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
762830 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
762844 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
762863 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
762877 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
762896 TCGCA
1 TCGCA
762901 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:762851 original size:33 final size:32
Alignment explanation
Indices: 762808--762900 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
762798 CGCGAAACCA
**
762808 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
762840 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
762873 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
762901 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:762898 original size:52 final size:52
Alignment explanation
Indices: 762772--762900 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
762762 TAGTTTACTT
**
762772 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
762824 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
762877 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
762901 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:762918 original size:19 final size:19
Alignment explanation
Indices: 762896--763029 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
762886 GAAACCAAAA
*
762896 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
762915 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
762931 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
762948 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
762964 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
762981 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
*
762999 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
763019 TCGTGTTGCGA
1 TCGCGTTGCGA
763030 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 16 0.17
19 28 0.30
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:762937 original size:14 final size:14
Alignment explanation
Indices: 762918--762974 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
762908 TTTCATTTCG
762918 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
762932 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
762949 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
762965 CGTTGCGATT
1 CGTTGCGATT
762975 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:762943 original size:33 final size:33
Alignment explanation
Indices: 762901--763029 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
762891 CAAAATCGCA
762901 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
* *
762934 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
*
762967 TTGCGATTTTCATTTCGCGTTGCGATTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA-TT-CTTT--CG
* *
763004 TTGCGATTTTAAGTTTCGTGTTGCGA
1 TTGCGATTTTCA-TTTCGCGTTGCGA
763030 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 55 0.65
34 2 0.02
35 2 0.02
37 13 0.15
38 12 0.14
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
Found at i:764951 original size:14 final size:14
Alignment explanation
Indices: 764932--764967 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
764922 ATTGTTTAAT
764932 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
764946 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
764960 TGATTTGT
1 TGATTTGT
764968 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:765090 original size:19 final size:19
Alignment explanation
Indices: 765074--765175 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
765064 AAAAATGACT
765074 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
765093 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
765112 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
765126 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
765145 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
765165 ATCGCAATGCG
1 ATCGCAATGCG
765176 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:765228 original size:19 final size:19
Alignment explanation
Indices: 765204--765496 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
765194 GATTATCTCG
765204 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765223 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765242 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
765256 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765275 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765294 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765313 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765332 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
765351 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
765370 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
765384 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
765403 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
765422 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
765436 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
765456 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
765470 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
765489 TTGCGATT
1 TTGCGATT
765497 GTATTTTCCG
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 29 0.12
16 24 0.10
17 20 0.08
18 3 0.01
19 157 0.64
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:765244 original size:52 final size:52
Alignment explanation
Indices: 765182--765496 Score: 330
Period size: 52 Copynumber: 5.9 Consensus size: 52
765172 TGCGTTTATA
*
765182 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
765234 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
765286 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
765343 ATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
765395 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* *
765447 ATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTATTTC--GTTGCGATTTTCATTTCGCATTGCGATT
765497 GTATTTTCCG
Statistics
Matches: 241, Mismatches: 9, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
48 9 0.04
50 5 0.02
51 4 0.02
52 129 0.54
53 18 0.07
54 6 0.02
55 8 0.03
57 62 0.26
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:765352 original size:128 final size:122
Alignment explanation
Indices: 765204--765468 Score: 194
Period size: 128 Copynumber: 2.1 Consensus size: 122
765194 GATTATCTCG
*
765204 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
765266 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCG
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCG
765330 CA
121 CA
* * *
765332 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TT-CTGTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * *
765394 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTCATTTCCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCATTT-CG
765454 CA
121 CA
765456 TTGCGATTTTCAT
1 TTGCGATTTTCAT
765469 GTTGGGATTT
Statistics
Matches: 125, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
121 7 0.06
122 4 0.03
123 18 0.14
124 18 0.14
125 2 0.02
126 2 0.02
128 74 0.59
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (122 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
Found at i:767794 original size:12 final size:12
Alignment explanation
Indices: 767777--767801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
767767 TCTTCGGGGA
767777 CTTTTTCTTCTT
1 CTTTTTCTTCTT
767789 CTTTTTCTTCTT
1 CTTTTTCTTCTT
767801 C
1 C
767802 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:768010 original size:24 final size:24
Alignment explanation
Indices: 767976--768022 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
767966 CTGAAACATC
767976 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
768000 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
768023 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:768732 original size:20 final size:20
Alignment explanation
Indices: 768704--769072 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
768694 AAATTTAAGT
* * * *
768704 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
768724 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
768744 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
768764 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
768784 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
768804 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
768824 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
768844 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
768864 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
768884 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
768904 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
768924 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
768944 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
768964 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
768984 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
769004 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
769024 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
769044 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
769064 GTTGCGATT
1 GTTGCGATT
769073 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:769305 original size:18 final size:18
Alignment explanation
Indices: 769282--769325 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
769272 TTCTCTCATA
769282 AAATATATACAAAATTTT
1 AAATATATACAAAATTTT
* *
769300 AAATATAT-GATAATTTT
1 AAATATATACAAAATTTT
*
769317 AAATTTATA
1 AAATATATA
769326 GGAAAACGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATATACAAAATTTT
Found at i:769447 original size:10 final size:10
Alignment explanation
Indices: 769434--769461 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
769424 TAAATTAAAA
769434 TTAATTTTAT
1 TTAATTTTAT
769444 TTAATTTTAT
1 TTAATTTTAT
769454 TTAATTTT
1 TTAATTTT
769462 TCAATAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTAATTTTAT
Found at i:771811 original size:17 final size:18
Alignment explanation
Indices: 771781--771816 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
771771 TTTCTTATTT
*
771781 TTTTTATTCTTATTTTTA
1 TTTTTAATCTTATTTTTA
771799 TTTTTAATC-TATTTTTA
1 TTTTTAATCTTATTTTTA
771816 T
1 T
771817 GATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTAATCTTATTTTTA
Found at i:775282 original size:73 final size:70
Alignment explanation
Indices: 775163--775307 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 70
775153 TTCTTTGGTA
775163 ATAAAATTTGAATTATCCAAAAAAAAAATAAGATAAAAAAATACAATAATATCCATGAACATACA
1 ATAAAATTTGAATTATCCAAAAAAAAAATAAGATAAAAAAATACAATAATATCCATGAACATACA
775228 CACCC
66 CACCC
775233 ATAAAATTTGAATTATCCAAAAAAAAAAGAATAAGATAAAAAAATACAATAATATCCATGAACAT
1 ATAAAATTTGAATTATCC--AAAAAAAA-AATAAGATAAAAAAATACAATAATATCCATGAACAT
775298 ACACACCC
63 ACACACCC
775306 AT
1 AT
775308 GCTATGATAG
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 18 0.25
72 8 0.11
73 46 0.64
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (70 bp):
ATAAAATTTGAATTATCCAAAAAAAAAATAAGATAAAAAAATACAATAATATCCATGAACATACA
CACCC
Found at i:781257 original size:30 final size:32
Alignment explanation
Indices: 781218--781276 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
781208 GTACCCGTTA
*
781218 AAATCTTAACGC-GTTTT-GTACCTAAACTATC
1 AAATCTTAAC-CTATTTTAGTACCTAAACTATC
781249 AAAT-TTAACCTATTTTAGTACCTAAACT
1 AAATCTTAACCTATTTTAGTACCTAAACT
781277 TTCCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 9 0.36
31 15 0.60
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (32 bp):
AAATCTTAACCTATTTTAGTACCTAAACTATC
Found at i:782257 original size:16 final size:15
Alignment explanation
Indices: 782236--782269 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
782226 TTGAAGATAT
782236 TTTATTATACTTTTTA
1 TTTATTATA-TTTTTA
*
782252 TTTATTTTATTTTTA
1 TTTATTATATTTTTA
782267 TTT
1 TTT
782270 TATTTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTATATTTTTA
Found at i:782266 original size:11 final size:11
Alignment explanation
Indices: 782252--782278 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
782242 ATACTTTTTA
782252 TTTATTTTATT
1 TTTATTTTATT
782263 TTTATTTTATT
1 TTTATTTTATT
782274 TTTAT
1 TTTAT
782279 CAAATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:782271 original size:16 final size:17
Alignment explanation
Indices: 782233--782275 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
782223 CCATTGAAGA
*
782233 TATTTTATTATACTTTT
1 TATTTTATTTTACTTTT
782250 TA-TTTATTTTA-TTTT
1 TATTTTATTTTACTTTT
782265 TATTTTATTTT
1 TATTTTATTTT
782276 TATCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 16 0.67
17 2 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTACTTTT
Found at i:782722 original size:11 final size:11
Alignment explanation
Indices: 782706--782742 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
782696 CAAATTTCAT
782706 AAATTTAAATA
1 AAATTTAAATA
782717 AAATTTAAATA
1 AAATTTAAATA
782728 AAATTTAAATA
1 AAATTTAAATA
782739 AAAT
1 AAAT
782743 ATTATACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTAAATA
Found at i:786753 original size:39 final size:39
Alignment explanation
Indices: 786699--786777 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
786689 ACCATATATG
786699 AATGTATTAAAATCCATACAACACAAACGCGGTCGAATC
1 AATGTATTAAAATCCATACAACACAAACGCGGTCGAATC
786738 AATGTATTAAAATCCATACAACACAAACGCGGTCGAATC
1 AATGTATTAAAATCCATACAACACAAACGCGGTCGAATC
786777 A
1 A
786778 CCGATAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (39 bp):
AATGTATTAAAATCCATACAACACAAACGCGGTCGAATC
Found at i:788057 original size:95 final size:95
Alignment explanation
Indices: 787911--788202 Score: 440
Period size: 95 Copynumber: 3.1 Consensus size: 95
787901 AAACAAATAA
* * * *
787911 AAAAATAGAGTCTGATACGCAGAAGAGTGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
1 AAAAATATAGTCTGATAAGCAGAAAAGGGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
* * *
787976 TTATACTTCAAACGACAAGCAGCACGATTT
66 TTATACTTCAAGCGACATGCAGCAAGATTT
* * *
788006 AAAAATATAGTCTGATAAGCAGAAAAGGGCAGCAGCACATAAATGCAAGGAACTAAAACTTCATA
1 AAAAATATAGTCTGATAAGCAGAAAAGGGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
788071 TTATACTTCAAGCGACATGCAGCAAGATTT
66 TTATACTTCAAGCGACATGCAGCAAGATTT
* *
788101 AACAATATAGTCTGATAAGAAGAAAAGGGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
1 AAAAATATAGTCTGATAAGCAGAAAAGGGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
** *
788166 TCGTACTTCAAGCAACATGCAGCAAGATTT
66 TTATACTTCAAGCGACATGCAGCAAGATTT
*
788196 AACAATA
1 AAAAATA
788203 AAACATGCAA
Statistics
Matches: 179, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 179 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (95 bp):
AAAAATATAGTCTGATAAGCAGAAAAGGGCAGCAGCACGTAAATGCAAGGAACTAAATCTTCATT
TTATACTTCAAGCGACATGCAGCAAGATTT
Found at i:788823 original size:5 final size:5
Alignment explanation
Indices: 788813--788838 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
788803 TGTAGCCTCC
788813 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
788839 TTAAGGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:793926 original size:17 final size:16
Alignment explanation
Indices: 793894--793927 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
793884 GGTCACTTCA
793894 TATTTCTTCTTCCTTT
1 TATTTCTTCTTCCTTT
*
793910 TATTTCTTTCTTTCTTT
1 TATTTC-TTCTTCCTTT
793927 T
1 T
793928 CACAACCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTCTTCTTCCTTT
Found at i:804118 original size:7 final size:7
Alignment explanation
Indices: 804106--804157 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
804096 GTGTAAAATC
804106 GTTGACT
1 GTTGACT
804113 GTTGACT
1 GTTGACT
*
804120 -TTGACC
1 GTTGACT
804126 GTTGACT
1 GTTGACT
804133 GTTGAC-
1 GTTGACT
* *
804139 ATTGACC
1 GTTGACT
804146 GTTGACT
1 GTTGACT
804153 -TTGAC
1 GTTGAC
804158 CAAAAAAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
6 15 0.39
7 23 0.61
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (7 bp):
GTTGACT
Found at i:804130 original size:20 final size:20
Alignment explanation
Indices: 804105--804157 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
804095 TGTGTAAAAT
*
804105 CGTTGACTGTTGACTTTGAC
1 CGTTGACTGTTGACATTGAC
804125 CGTTGACTGTTGACATTGAC
1 CGTTGACTGTTGACATTGAC
804145 CGTTGACT-TTGAC
1 CGTTGACTGTTGAC
804158 CAAAAAAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGACTGTTGACATTGAC
Found at i:832878 original size:28 final size:28
Alignment explanation
Indices: 832846--832901 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
832836 TGGAACCCAT
832846 ATTATTCCGCCAACTGGTATACGTCTGA
1 ATTATTCCGCCAACTGGTATACGTCTGA
832874 ATTATTCCGCCAACTGGTATACGTCTGA
1 ATTATTCCGCCAACTGGTATACGTCTGA
832902 TTCAATAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
ATTATTCCGCCAACTGGTATACGTCTGA
Found at i:849192 original size:24 final size:25
Alignment explanation
Indices: 849146--849194 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 25
849136 GGTTTCGGTT
849146 TTTTCGGTTATCGATTTTTTGGATCAG
1 TTTTCGGTTAT--ATTTTTTGGATCAG
849173 TTTTCGGTTAT-TTTTTTGGATC
1 TTTTCGGTTATATTTTTTGGATC
849195 GGATTAGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.50
27 11 0.50
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.57
Consensus pattern (25 bp):
TTTTCGGTTATATTTTTTGGATCAG
Found at i:854887 original size:13 final size:14
Alignment explanation
Indices: 854851--854889 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
854841 GCAAGGCAAG
*
854851 AAAAATGGAAAAAT
1 AAAAATGAAAAAAT
854865 AAAAAT-AAAAAAT
1 AAAAATGAAAAAAT
854878 -AAAATGAAAAAA
1 AAAAATGAAAAAA
854890 AACATCATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:863086 original size:2 final size:2
Alignment explanation
Indices: 863079--863105 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
863069 TTTGCAAGTA
863079 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
863106 ACACACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:876340 original size:2 final size:2
Alignment explanation
Indices: 876333--876377 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
876323 TATGGCCTTG
876333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
876375 AT A
1 AT A
876378 CACACACTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:882935 original size:53 final size:53
Alignment explanation
Indices: 882835--883148 Score: 407
Period size: 53 Copynumber: 5.9 Consensus size: 53
882825 TTCAAATGAT
* * ** * *
882835 GGGTCCGCTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCATAC
* * * *
882889 GGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* * * *
882942 GGGTTCACTCCCTCTTGCTTCAGGGGGTAGAACTTGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* *
882995 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAAC-CTGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC-GAACAATCTTCTGCATAC
* *
883048 GGGTTCTCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCATAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
* *
883101 GGGTTCGATCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTG
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
883149 GTGTGATTCT
Statistics
Matches: 230, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
53 204 0.89
54 17 0.07
55 9 0.04
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCATAC
Found at i:883703 original size:42 final size:42
Alignment explanation
Indices: 883657--883737 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
883647 AAATTACCCA
* *
883657 AAGGATTTAATCATCATGCTTGAAAAACTTACTGATGGCCCG
1 AAGGACTTAATCATCATGCTCGAAAAACTTACTGATGGCCCG
* *
883699 AAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGC
1 AAGGACTTAATCATCATGCTCGAAAAACTTACTGATGGC
883738 ACTTACTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAGGACTTAATCATCATGCTCGAAAAACTTACTGATGGCCCG
Found at i:883710 original size:122 final size:123
Alignment explanation
Indices: 883554--883871 Score: 386
Period size: 135 Copynumber: 2.5 Consensus size: 123
883544 ATCACCTTGA
* ** *
883554 TCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTATTGATGGA-TT
1 TCGAAAAACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTATTGATGGAGTT
**
883618 TGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGC
66 TGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGC
* *
883676 TTGAAAAACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACT
1 TCGAAAAACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTA-T--T-G----
* *
883741 TACTGATGAGTTTGCTTCACTACTCTTCCATGAAGGCTTATAAATTACCCTAAGGATTTAATCAT
58 -A-TG--GAGTTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAATCAT
883806 CATGC
119 CATGC
* * * * *
883811 TCGAAAGACTTACTGATTGCCCTAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGG
1 TCGAAAAACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTATTGATGG
883872 CCCGAAGGAC
Statistics
Matches: 166, Mismatches: 17, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
122 48 0.29
123 2 0.01
125 3 0.02
126 2 0.01
131 2 0.01
132 3 0.02
134 3 0.02
135 103 0.62
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (123 bp):
TCGAAAAACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTATTGATGGAGTT
TGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGC
Found at i:883849 original size:42 final size:42
Alignment explanation
Indices: 883788--883880 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
883778 TTATAAATTA
* *
883788 CCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGATTG
1 CCCTAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGG
*
883830 CCCTAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGG
*
883872 CCCGAAGGA
1 CCCTAAGGA
883881 CTTACTAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
CCCTAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGG
Found at i:883849 original size:135 final size:135
Alignment explanation
Indices: 883603--883872 Score: 407
Period size: 135 Copynumber: 2.0 Consensus size: 135
883593 TGCTCGAAAG
* **
883603 ACTTATTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCAAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAAT
* * *
883668 CATCATGCTTGAAAAACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAAACTTACTGATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACTG
883733 ATGGC
131 ATGGC
* *
883738 ACTTACTGAT-GAGTTTGCTTCACTACTCTTCCATGAAGGCTTATAAATTACCCTAAGGATTTAA
1 ACTTACTGATGGA-TTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAA
* * * * *
883802 TCATCATGCTCGAAAGACTTACTGATTGCCCTAAGGATTTAAACATCATGCTCGAAAGACTTATT
65 TCATCATGCTCGAAAAACTTACTGATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACT
883867 GATGGC
130 GATGGC
883873 CCGAAGGACT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 2 0.02
135 119 0.98
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (135 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCCATGAAGGCTTACAAATTACCCAAAGGATTTAAT
CATCATGCTCGAAAAACTTACTGATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACTG
ATGGC
Found at i:884097 original size:44 final size:41
Alignment explanation
Indices: 884003--884097 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 41
883993 AGGTCTTAAG
* * *
884003 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTATA
* *
884044 GATGACCCGAAGGATTTTTAATCATCATGCTCGAAAGACTTACT-
1 GATGGCCCGAAGGA--CTT-ATCATCATGCTCGAAAGACTTA-TA
884088 GATGGCCCGA
1 GATGGCCCGA
884098 TTGACTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 13 0.30
43 2 0.05
44 28 0.64
45 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTATA
Found at i:895256 original size:31 final size:31
Alignment explanation
Indices: 895218--895276 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
895208 GAAGAAAAAT
895218 TTGTTGAAAGTCATGCCTTCACATGGCATAA
1 TTGTTGAAAGTCATGCCTTCACATGGCATAA
*
895249 TTGTTGAAAGTCATGCCTTTACATGGCA
1 TTGTTGAAAGTCATGCCTTCACATGGCA
895277 ATTGTCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (31 bp):
TTGTTGAAAGTCATGCCTTCACATGGCATAA
Found at i:895321 original size:31 final size:31
Alignment explanation
Indices: 895269--895355 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
895259 TCATGCCTTT
* * *
895269 ACATGGCAATTGTCAAACAAGGAGGCACCAC
1 ACATTGCATTTGTTAAACAAGGAGGCACCAC
*
895300 ACATTGCATTTGTTAAACAAGGAGGCACCGC
1 ACATTGCATTTGTTAAACAAGGAGGCACCAC
*
895331 ACATTGCATTTGTTAAACAATGAGG
1 ACATTGCATTTGTTAAACAAGGAGG
895356 TAACGAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (31 bp):
ACATTGCATTTGTTAAACAAGGAGGCACCAC
Found at i:896594 original size:15 final size:15
Alignment explanation
Indices: 896570--896601 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
896560 TGACATATCC
*
896570 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
896585 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
896600 AA
1 AA
896602 GAAAGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:911414 original size:31 final size:31
Alignment explanation
Indices: 911379--911501 Score: 210
Period size: 31 Copynumber: 4.0 Consensus size: 31
911369 CAAGTGGGAG
*
911379 ATTGTTGAAAGTCATGCCTTCACATGACATA
1 ATTGTTGAAAGTCATGCCTTCACATGGCATA
*
911410 ATTGTTGAAAGTCATGTCTTCACATGGCATA
1 ATTGTTGAAAGTCATGCCTTCACATGGCATA
911441 ATTGTTGAAAGTCATGCCTTCACATGGCATA
1 ATTGTTGAAAGTCATGCCTTCACATGGCATA
* *
911472 ATTGTTGAAAGCCATCCCTTCACATGGCAT
1 ATTGTTGAAAGTCATGCCTTCACATGGCAT
911502 TTGTCAAACA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 87 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (31 bp):
ATTGTTGAAAGTCATGCCTTCACATGGCATA
Found at i:911527 original size:31 final size:31
Alignment explanation
Indices: 911492--911552 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
911482 GCCATCCCTT
911492 CACATGGCATTTGTCAAACAAGGAGGCACCA
1 CACATGGCATTTGTCAAACAAGGAGGCACCA
* *
911523 CACATTGCATTTGTCAAACAATGAGGCACC
1 CACATGGCATTTGTCAAACAAGGAGGCACC
911553 GAAATGGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (31 bp):
CACATGGCATTTGTCAAACAAGGAGGCACCA
Found at i:916532 original size:2 final size:2
Alignment explanation
Indices: 916527--916594 Score: 95
Period size: 2 Copynumber: 34.5 Consensus size: 2
916517 GGAAAAATCT
916527 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
* *
916569 TA TA CT- TA TA AA TA TA CA T- TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA T
916595 GAATGTCACG
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
1 2 0.03
2 56 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:919280 original size:60 final size:63
Alignment explanation
Indices: 919199--919323 Score: 211
Period size: 62 Copynumber: 2.0 Consensus size: 63
919189 CCCATACCAT
919199 CGTTGTGGCCCCTGTAAAGCAATAATGG-A-ATTTTTTTATAATAATAGAAATCCATGCAAAA
1 CGTTGTGGCCCCTGTAAAGCAATAATGGAAGATTTTTTTATAATAATAGAAATCCATGCAAAA
* *
919260 CGTTGTGG-CCCTGTATAGCAATAATGGAAGATTTTTTTATAATAATAGAAATTCATGCAAAA
1 CGTTGTGGCCCCTGTAAAGCAATAATGGAAGATTTTTTTATAATAATAGAAATCCATGCAAAA
919322 CG
1 CG
919324 CATGAAGATG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
60 18 0.30
61 9 0.15
62 33 0.55
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (63 bp):
CGTTGTGGCCCCTGTAAAGCAATAATGGAAGATTTTTTTATAATAATAGAAATCCATGCAAAA
Found at i:922921 original size:14 final size:14
Alignment explanation
Indices: 922884--922910 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
922874 ATTTGATTTT
922884 ATAATAATTTATGC
1 ATAATAATTTATGC
922898 ATAATAATTTATG
1 ATAATAATTTATG
922911 TATATATATT
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:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
ATAATAATTTATGC
Found at i:924184 original size:18 final size:18
Alignment explanation
Indices: 924138--924184 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
924128 TACAAAAAAT
*
924138 TATAAATAAAGAAATAAA
1 TATAAATAAATAAATAAA
*
924156 TATAAATAAATAAATGAAG
1 TATAAATAAATAAAT-AAA
924175 T-TAAATAAAT
1 TATAAATAAAT
924185 TAATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TATAAATAAATAAATAAA
Found at i:925240 original size:21 final size:21
Alignment explanation
Indices: 925195--925240 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
925185 TAAACATTTT
*
925195 ATAATATTTAATAAAAAAATT
1 ATAATATTTAATAAAAAAATA
* * *
925216 ATAATATTTTATTAAATAATA
1 ATAATATTTAATAAAAAAATA
925237 ATAA
1 ATAA
925241 CACCATCGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATTTAATAAAAAAATA
Found at i:927626 original size:32 final size:32
Alignment explanation
Indices: 927590--927657 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
927580 ACCCGACCCA
* *
927590 ACCCAACCCTCACCTTTAAAAAACCTGACATG
1 ACCCAAACATCACCTTTAAAAAACCTGACATG
927622 ACCCAAACATCACCTTTAAAAAACCTGACATG
1 ACCCAAACATCACCTTTAAAAAACCTGACATG
927654 ACCC
1 ACCC
927658 GACCGGATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.18
Consensus pattern (32 bp):
ACCCAAACATCACCTTTAAAAAACCTGACATG
Found at i:928183 original size:15 final size:16
Alignment explanation
Indices: 928156--928190 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
928146 ACTTTCAAAA
928156 TTGAAAAATGAAAATT
1 TTGAAAAATGAAAATT
928172 TTGAAAAA-GAAAATT
1 TTGAAAAATGAAAATT
928187 TTGA
1 TTGA
928191 CTTGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (16 bp):
TTGAAAAATGAAAATT
Found at i:932560 original size:19 final size:19
Alignment explanation
Indices: 932525--932577 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
932515 TATATATATT
* *
932525 ATTTAAATTTAAT-TTTAAG
1 ATTT-AATTTATTATTTAAA
932544 ATTTAATTTATTATTTAAA
1 ATTTAATTTATTATTTAAA
*
932563 AGTTTAATTAATTAT
1 A-TTTAATTTATTAT
932578 ATGTATTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.24
19 10 0.34
20 12 0.41
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATTTAATTTATTATTTAAA
Found at i:933809 original size:31 final size:32
Alignment explanation
Indices: 933768--933838 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
933758 GTTAACCCTC
* *
933768 AGTGACCACATCTTAATT-AAATAAAAATGAA
1 AGTGATCACATCTTAATTAAAATAAAAATAAA
*
933799 AGTGATCACATCTTAGTTAAAATAAAAATAAA
1 AGTGATCACATCTTAATTAAAATAAAAATAAA
*
933831 AATGATCA
1 AGTGATCA
933839 AATATTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 16 0.46
32 19 0.54
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (32 bp):
AGTGATCACATCTTAATTAAAATAAAAATAAA
Found at i:934697 original size:65 final size:64
Alignment explanation
Indices: 934584--934728 Score: 222
Period size: 65 Copynumber: 2.2 Consensus size: 64
934574 TCGATGCACT
*
934584 ATAAAATGCATTCGATGTTTTAAACAAGCCTGAGTGCATCGCTGCATGGTCTGTGCATCGATGC
1 ATAAAATGCATTCGATGTTTTAAACAAGCCTGAGTGCATCGATGCATGGTCTGTGCATCGATGC
* *
934648 ATAAAATGCGTTCGATGTTTTTCATAA-AA-CCTGAGTGCATCGATGCATGGTTTGTGCATCGAT
1 ATAAAATGCATTCGATG-TTTT-A-AACAAGCCTGAGTGCATCGATGCATGGTCTGTGCATCGAT
934711 GC
63 GC
934713 ATAAAATGCATTCGAT
1 ATAAAATGCATTCGAT
934729 ATGGTGAGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
64 16 0.22
65 53 0.72
66 3 0.04
67 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (64 bp):
ATAAAATGCATTCGATGTTTTAAACAAGCCTGAGTGCATCGATGCATGGTCTGTGCATCGATGC
Found at i:934758 original size:20 final size:20
Alignment explanation
Indices: 934733--934770 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
934723 TTCGATATGG
934733 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
934753 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
934771 CCTTCTCAAT
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:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:937433 original size:23 final size:23
Alignment explanation
Indices: 937405--937491 Score: 63
Period size: 23 Copynumber: 3.8 Consensus size: 23
937395 GCATGGCCTT
937405 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* * *
937428 GTGCATCGGTGCTTC-TTC-ATGA
1 GTGCATCGATGC-ACATTCAAGGA
* * *
937450 -TGTATCGATGCACATTGAAGGG
1 GTGCATCGATGCACATTCAAGGA
*
937472 GATGTATCGATGCACTATTC
1 G-TGCATCGATGCAC-ATTC
937492 GGTCTATCGA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.02
21 11 0.23
22 5 0.10
23 14 0.29
24 14 0.29
25 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:943334 original size:19 final size:19
Alignment explanation
Indices: 943310--943361 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
943300 ACAAGCCTGA
943310 GTGCATTGATGCATGGTAT
1 GTGCATTGATGCATGGTAT
943329 GTGCATTGATGCATGGTAT
1 GTGCATTGATGCATGGTAT
*
943348 GTGCATCGATGCAT
1 GTGCATTGATGCAT
943362 AAAATGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (19 bp):
GTGCATTGATGCATGGTAT
Found at i:943416 original size:84 final size:82
Alignment explanation
Indices: 943266--943426 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 82
943256 TAGACCCTTA
*
943266 GTGCATCATGCATAAAATGCATTCGATGCTTTAAACAAGCCTGAGTGCATTGATGCATGGTATGT
1 GTGCATCATGCATAAAATGCATTCGATGCTTTAAACAAGCCTGAGTGCATCGATGCATGGTATGT
943331 GCATTGATGCATGGTAT
66 GCATTGATGCATGGTAT
* * * ** *
943348 GTGCATCGATGCATAAAATGCATTCGATGTTTTTCATA-AATCCTGAGTTTATCGATGCATGGTT
1 GTGCATC-ATGCATAAAATGCATTCGATG-CTTT-AAACAAGCCTGAGTGCATCGATGCATGGTA
943412 TGTGCATTGATGCAT
63 TGTGCATTGATGCAT
943427 AAAATGCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 7 0.10
83 21 0.30
84 39 0.57
85 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (82 bp):
GTGCATCATGCATAAAATGCATTCGATGCTTTAAACAAGCCTGAGTGCATCGATGCATGGTATGT
GCATTGATGCATGGTAT
Found at i:944835 original size:21 final size:21
Alignment explanation
Indices: 944777--944844 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 21
944767 AAATGACCAA
**
944777 CAAATTCGCAACGAGA-ACTC
1 CAAATTCGCAACGAGATTTTC
* *
944797 CAATTTCGCAAC-ACATTTTC
1 CAAATTCGCAACGAGATTTTC
*
944817 CAAATTCGCAACGTGATTTTCC
1 CAAATTCGCAACGAGATTTT-C
944839 CAAATT
1 CAAATT
944845 TACAACTCAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 24 0.63
21 5 0.13
22 7 0.18
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
CAAATTCGCAACGAGATTTTC
Found at i:944880 original size:20 final size:20
Alignment explanation
Indices: 944855--944908 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
944845 TACAACTCAG
*
944855 TTTCTTTCTCGCAATACAAA
1 TTTCTTTCTCGCAACACAAA
* * *
944875 TTTCTTTCTCGTAACGCGAA
1 TTTCTTTCTCGCAACACAAA
944895 -TTCTTTCTCGCAAC
1 TTTCTTTCTCGCAAC
944909 GCGATTTCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.22, C:0.28, G:0.09, T:0.41
Consensus pattern (20 bp):
TTTCTTTCTCGCAACACAAA
Found at i:944900 original size:19 final size:19
Alignment explanation
Indices: 944856--944912 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
944846 ACAACTCAGT
** *
944856 TTCTTTCTCGCAATACAAA
1 TTCTTTCTCGCAACGCGAA
*
944875 TTTCTTTCTCGTAACGCGAA
1 -TTCTTTCTCGCAACGCGAA
944895 TTCTTTCTCGCAACGCGA
1 TTCTTTCTCGCAACGCGA
944913 TTTCCAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (19 bp):
TTCTTTCTCGCAACGCGAA
Found at i:944943 original size:21 final size:19
Alignment explanation
Indices: 944902--945070 Score: 88
Period size: 20 Copynumber: 8.4 Consensus size: 19
944892 GAATTCTTTC
*
944902 TCGCAACGCGATTTCCAAAT
1 TCGCAACACGATTT-CAAAT
944922 TCGCAACACGGAATTTCAAAT
1 TCGCAACAC-G-ATTTCAAAT
*
944943 TCGCAACTCGATTTCTAAAT
1 TCGCAACACGATTTC-AAAT
* * ***
944963 TCGTAACACAAGTTTCCTTT
1 TCGCAACACGA-TTTCAAAT
*
944983 TCGCAACAAGATTTTCTAAA-
1 TCGCAACACGA-TTTC-AAAT
****
945003 TCGCAACACGAATTTTGTTT
1 TCGCAACACG-ATTTCAAAT
* **
945023 TCGCAACTCGATTTTTGAAT
1 TCGCAACACGA-TTTCAAAT
* *
945043 TCGCAACACGAATTTTAATT
1 TCGCAACACG-ATTTCAAAT
945063 TCGCAACA
1 TCGCAACA
945071 ACTTTTATTT
Statistics
Matches: 114, Mismatches: 26, Indels: 18
0.72 0.16 0.11
Matches are distributed among these distances:
19 6 0.05
20 84 0.74
21 20 0.18
22 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (19 bp):
TCGCAACACGATTTCAAAT
Found at i:945011 original size:40 final size:40
Alignment explanation
Indices: 944913--945071 Score: 117
Period size: 40 Copynumber: 3.9 Consensus size: 40
944903 CGCAACGCGA
* *** **
944913 TTTCCAAATTCGCAACACGGAATTTCAAATTCGCAACTCGA-
1 TTTCTAAA-TCGCAACAC-GAATTTCCTTTTCGCAACAAGAT
*
944954 TTTCTAAATTCGTAACAC-AAGTTTCCTTTTCGCAACAAGAT
1 TTTCTAAA-TCGCAACACGAA-TTTCCTTTTCGCAACAAGAT
** **
944995 TTTCTAAATCGCAACACGAATTTTGTTTTCGCAACTCGAT
1 TTTCTAAATCGCAACACGAATTTCCTTTTCGCAACAAGAT
* ***
945035 TTT-TGAATTCGCAACACGAATTTTAATTTCGCAACAA
1 TTTCT-AAATCGCAACACGAATTTCCTTTTCGCAACAA
945072 CTTTTATTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 68 0.70
41 26 0.27
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (40 bp):
TTTCTAAATCGCAACACGAATTTCCTTTTCGCAACAAGAT
Found at i:945026 original size:20 final size:20
Alignment explanation
Indices: 945003--945070 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
944993 ATTTTCTAAA
*
945003 TCGCAACACGAATTTTGTTT
1 TCGCAACACGAATTTTGATT
* * *
945023 TCGCAACTCGATTTTTGAAT
1 TCGCAACACGAATTTTGATT
*
945043 TCGCAACACGAATTTTAATT
1 TCGCAACACGAATTTTGATT
945063 TCGCAACA
1 TCGCAACA
945071 ACTTTTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (20 bp):
TCGCAACACGAATTTTGATT
Found at i:950217 original size:20 final size:21
Alignment explanation
Indices: 950130--950226 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
950120 GTGAATCGGG
* *
950130 CTCTTGAACGGTG-GTAGGGGT
1 CTCTTGAACGATGAG-AGGGGC
*
950151 CTTTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
950172 CTCTTGAACAATGAGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
950193 CTCTTGAACGAT-AG-GTGGGC
1 CTCTTGAACGATGAGAG-GGGC
950213 CTCTTGAACGATGA
1 CTCTTGAACGATGA
950227 CAGGTGAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 17 0.26
21 46 0.71
22 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:950588 original size:42 final size:43
Alignment explanation
Indices: 950542--950645 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 43
950532 GTAAAGTAAA
*
950542 TACCTCACCACGTAAAGCACCATTGTCACCACATAAAG-ACCG
1 TACCTCATCACGTAAAGCACCATTGTCACCACATAAAGTACCG
* * ** * *
950584 TACCTCATCACGTCATGCACCATTGTCGTCGCGTAAAGTACCG
1 TACCTCATCACGTAAAGCACCATTGTCACCACATAAAGTACCG
*
950627 -ACCTCATCACGCAAAGCAC
1 TACCTCATCACGTAAAGCAC
950646 TAACCTCATC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 47 0.92
43 4 0.08
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.19
Consensus pattern (43 bp):
TACCTCATCACGTAAAGCACCATTGTCACCACATAAAGTACCG
Found at i:952399 original size:20 final size:20
Alignment explanation
Indices: 952374--952470 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
952364 AAACTTAAAT
* *
952374 TCGCAACACTACAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
952394 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
* *
952414 TCGC-A-ATG--CA--AAAA
1 TCGCAACACGAAAATGAAAA
952428 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
* * *
952448 TCACAACGCGAAACT-AAAA
1 TCGCAACACGAAAATGAAAA
952467 TCGC
1 TCGC
952471 GTTGCGATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 3 0.05
18 2 0.03
19 8 0.14
20 37 0.63
ACGTcount: A:0.49, C:0.24, G:0.14, T:0.12
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:953003 original size:19 final size:20
Alignment explanation
Indices: 952981--953018 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
952971 AATATTGTGT
952981 TTCGAATT-CGAAAATAAAA
1 TTCGAATTACGAAAATAAAA
**
953000 TTCGCGTTACGAAAATAAA
1 TTCGAATTACGAAAATAAA
953019 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTACGAAAATAAAA
Found at i:959110 original size:29 final size:28
Alignment explanation
Indices: 959067--959124 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 28
959057 TTGGGTAAAC
959067 TAAATGTTTACTACCTCAACTATTACTT
1 TAAATGTTTACTACCTCAACTATTACTT
959095 TAAATGTTTTACTACCTCAACTATTACTT
1 TAAATG-TTTACTACCTCAACTATTACTT
959124 T
1 T
959125 CGTTCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (28 bp):
TAAATGTTTACTACCTCAACTATTACTT
Found at i:959548 original size:23 final size:23
Alignment explanation
Indices: 959518--959561 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
959508 TCGATAAATT
959518 TTAAAAAATATAAT-TATTTTATA
1 TTAAAAAA-ATAATATATTTTATA
959541 TTAAAAAAATAATATATTTTA
1 TTAAAAAAATAATATATTTTA
959562 AAGAAATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAAAAAATAATATATTTTATA
Found at i:959962 original size:18 final size:18
Alignment explanation
Indices: 959939--959974 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
959929 TGTATACATT
959939 CTATCAGTTTAGTTATAA
1 CTATCAGTTTAGTTATAA
959957 CTATCAGTTTAGTTATAA
1 CTATCAGTTTAGTTATAA
959975 TTCAAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
CTATCAGTTTAGTTATAA
Found at i:961393 original size:25 final size:22
Alignment explanation
Indices: 961365--961418 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
961355 GATTATATAA
*
961365 AATTAATTTAAATATTTTTAAGTT
1 AATTAATTTAAAT-GTTTTAA-TT
*
961389 GAATTTATTTAAATGTTTTAATT
1 -AATTAATTTAAATGTTTTAATT
961412 AATTAAT
1 AATTAAT
961419 AATTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 6 0.23
23 2 0.08
24 6 0.23
25 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
AATTAATTTAAATGTTTTAATT
Found at i:961523 original size:2 final size:2
Alignment explanation
Indices: 961516--961590 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
961506 AATAAACTTT
961516 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
*
961558 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
961591 TAACATGAGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:962095 original size:18 final size:16
Alignment explanation
Indices: 962061--962105 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
962051 ATGTTTAATG
*
962061 ATATATATATACATAT
1 ATATATTTATACATAT
*
962077 ATTATACTTTATACTTAT
1 A-TATA-TTTATACATAT
962095 ATATATTTATA
1 ATATATTTATA
962106 TACATACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 10 0.40
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTATACATAT
Found at i:969460 original size:57 final size:57
Alignment explanation
Indices: 969369--969480 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
969359 ATCAATGTGA
* *
969369 TATATTTCTCATATGGTTGGTCGATTTTTTAATGTTGCTTATTTTGTTGTTTTCTGC
1 TATATTTCTCATATAGTTGGTCGATTTTTGAATGTTGCTTATTTTGTTGTTTTCTGC
969426 TATATTTCTCATATAGTTGGTCGATTTTTGAATGTTGCTTATTTTGTTGTTTTCT
1 TATATTTCTCATATAGTTGGTCGATTTTTGAATGTTGCTTATTTTGTTGTTTTCT
969481 TCTTTACCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.58
Consensus pattern (57 bp):
TATATTTCTCATATAGTTGGTCGATTTTTGAATGTTGCTTATTTTGTTGTTTTCTGC
Found at i:987381 original size:18 final size:18
Alignment explanation
Indices: 987358--987398 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 18
987348 CAAATAAACT
987358 TTTTCTTCTTCAATTTTG
1 TTTTCTTCTTCAATTTTG
987376 --TT-TTCTTCAATTTTG
1 TTTTCTTCTTCAATTTTG
987391 TTTTCTTC
1 TTTTCTTC
987399 AATTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
17 2 0.10
18 3 0.15
ACGTcount: A:0.10, C:0.17, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTCTTCTTCAATTTTG
Found at i:987383 original size:15 final size:15
Alignment explanation
Indices: 987363--987408 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
987353 AAACTTTTTC
987363 TTCTTCAATTTTGTT
1 TTCTTCAATTTTGTT
987378 TTCTTCAATTTTGTT
1 TTCTTCAATTTTGTT
987393 TTCTTCAATTTTGTT
1 TTCTTCAATTTTGTT
987408 T
1 T
987409 AGTCGGCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (15 bp):
TTCTTCAATTTTGTT
Found at i:995466 original size:22 final size:22
Alignment explanation
Indices: 995424--995466 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
995414 CTAGATGAAA
* *
995424 TTGTAATTACTTTTCCTTTAAC
1 TTGTAATTACTTTTACATTAAC
995446 TTGTAATTACTTTTACATTAA
1 TTGTAATTACTTTTACATTAA
995467 TCATCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
TTGTAATTACTTTTACATTAAC
Found at i:1004124 original size:30 final size:31
Alignment explanation
Indices: 1004064--1004130 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
1004054 GAGTTGATTT
1004064 TTAATTTGAATTTTGAAATTTAGATAAAATA
1 TTAATTTGAATTTTGAAATTTAGATAAAATA
* *
1004095 TTAATTT-AATTTT-AAGTTTGAGATGAAATA
1 TTAATTTGAATTTTGAAATTT-AGATAAAATA
*
1004125 TCAATT
1 TTAATT
1004131 CGACACATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 20 0.62
31 7 0.22
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.46
Consensus pattern (31 bp):
TTAATTTGAATTTTGAAATTTAGATAAAATA
Found at i:1006877 original size:14 final size:14
Alignment explanation
Indices: 1006858--1006887 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1006848 TCAGTTGATT
*
1006858 GTGAGAAATAACAA
1 GTGAGAAAAAACAA
1006872 GTGAGAAAAAACAA
1 GTGAGAAAAAACAA
1006886 GT
1 GT
1006888 CAACAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.13
Consensus pattern (14 bp):
GTGAGAAAAAACAA
Found at i:1006985 original size:28 final size:28
Alignment explanation
Indices: 1006929--1006987 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1006919 TGTATATTTC
**
1006929 CTTGCTAATATATATGTTTTATTGTTTA
1 CTTGCTAATATATATGTTTTATTAATTA
* *
1006957 CTTGCTACTATATTTGTTTTATTAATTA
1 CTTGCTAATATATATGTTTTATTAATTA
1006985 CTT
1 CTT
1006988 TTAAATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (28 bp):
CTTGCTAATATATATGTTTTATTAATTA
Found at i:1007177 original size:42 final size:42
Alignment explanation
Indices: 1007112--1007236 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
1007102 CCGGTTAAAC
* *
1007112 CTTCTAATAATCCGATTGTAAATTCCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
* * *
1007154 CTTCTAATAATTCTATTGGAAATTTCAATGATTCACTTAATA
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
1007196 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAAT
1 CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAAT
1007237 GACTCAGTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.38
Consensus pattern (42 bp):
CTTCTAATAATCCTATTGGAAATTCCAATGATTCACCTAATA
Found at i:1013716 original size:21 final size:22
Alignment explanation
Indices: 1013678--1013724 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
1013668 ATTTTCATCA
1013678 AAGTGCCACATAGGTTTG-CACCG
1 AAGTGCCACATA-GTTTGTC-CCG
*
1013701 AAGTGCCATATA-TTTGTCCCG
1 AAGTGCCACATAGTTTGTCCCG
1013722 AAG
1 AAG
1013725 GATCACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (22 bp):
AAGTGCCACATAGTTTGTCCCG
Found at i:1013738 original size:21 final size:21
Alignment explanation
Indices: 1013714--1013754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1013704 TGCCATATAT
*
1013714 TTGTCCCGAAGGATCACATAA
1 TTGTCCCGAAGGACCACATAA
* *
1013735 TTGTCTCGAATGACCACATA
1 TTGTCCCGAAGGACCACATA
1013755 GACCCTCGAC
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:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACATAA
Found at i:1014531 original size:55 final size:55
Alignment explanation
Indices: 1014471--1014615 Score: 220
Period size: 55 Copynumber: 2.6 Consensus size: 55
1014461 TCATGCTTGG
*
1014471 GGGTATCGATACACTCCTCAATGTACCGATACACAAAT-AGCACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGA-CACTCGATGTTTTGA
* * *
1014526 GGGTATCGATACACTCCTCAGTGTACTGATACATAAATGACATTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACACTCGATGTTTTGA
* *
1014581 CGATATCGATACACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
1014616 CTCAAACAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 80 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACACTCGATGTTTTGA
Found at i:1016978 original size:44 final size:44
Alignment explanation
Indices: 1016925--1017011 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
1016915 CAGCTCGTAA
*
1016925 TTTGCACCGAAGTGCCATATAATTATCCCGAAGGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAGG
* * * *
1016969 TTTGCACCGAAGTGCCACATATTTGTCCCGAATGATCACATAG
1 TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAG
1017012 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAGG
Found at i:1016999 original size:21 final size:21
Alignment explanation
Indices: 1016931--1017000 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
1016921 GTAATTTGCA
* * *
1016931 CCGAAGTGCCATATAATTATC
1 CCGAAGTGCCACATATTTGTC
1016952 CCGAAG-GACCACATAGGTTTG-C
1 CCGAAGTG-CCACATA--TTTGTC
1016974 ACCGAAGTGCCACATATTTGTC
1 -CCGAAGTGCCACATATTTGTC
1016996 CCGAA
1 CCGAA
1017001 TGATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.03
21 21 0.52
22 2 0.05
23 15 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (21 bp):
CCGAAGTGCCACATATTTGTC
Found at i:1017817 original size:55 final size:55
Alignment explanation
Indices: 1017733--1017877 Score: 200
Period size: 55 Copynumber: 2.6 Consensus size: 55
1017723 TCATACTTGG
* * *
1017733 GGGTATCGATACACTCCTCAATGTACCGATACACAAATAACACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCAATGTTTAGA
* * ** *
1017788 GGGTACCGATACACTCATCAGTGTACCGATACACAAATGGCATTCAATGTTTAGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCAATGTTTAGA
* *
1017843 GGATATCGATACACTCCTCGGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
1017878 CTCAAATAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 78 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAACACTCAATGTTTAGA
Found at i:1022140 original size:27 final size:27
Alignment explanation
Indices: 1022082--1022163 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 27
1022072 TTTAAGCCTA
1022082 AATCCAAACCCGAA-ACTCAACTTTAAGTCTG
1 AATCCAAACCC-AATACTCAAC-TT---TCTG
*
1022113 AATCCGAACCCAATACTCAACTTTCTG
1 AATCCAAACCCAATACTCAACTTTCTG
1022140 AATCCAAACCCAATACTCAACTTT
1 AATCCAAACCCAATACTCAACTTT
1022164 AAGTCCGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
27 27 0.56
30 4 0.08
31 17 0.35
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24
Consensus pattern (27 bp):
AATCCAAACCCAATACTCAACTTTCTG
Found at i:1022189 original size:58 final size:58
Alignment explanation
Indices: 1022082--1022194 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
1022072 TTTAAGCCTA
* *
1022082 AATCCAAACCCGAAACTCAACTTTAAGTCTGAATCCGAACCCAATACTCAACTTTCTG
1 AATCCAAACCCGAAACTCAACTTTAAGTCCGAATCCGAACCCAACACTCAACTTTCTG
**
1022140 AATCCAAACCC-AATACTCAACTTTAAGTCCGAATCCGAACCCGGCACTCAACTTT
1 AATCCAAACCCGAA-ACTCAACTTTAAGTCCGAATCCGAACCCAACACTCAACTTT
1022195 AAGTCCGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 2 0.04
58 48 0.96
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (58 bp):
AATCCAAACCCGAAACTCAACTTTAAGTCCGAATCCGAACCCAACACTCAACTTTCTG
Found at i:1022220 original size:89 final size:90
Alignment explanation
Indices: 1022057--1022270 Score: 236
Period size: 89 Copynumber: 2.3 Consensus size: 90
1022047 CACATAATTG
* * * *
1022057 AACCCGAAACTCAACTTTAAG-CCTAAATCCAAACCCGAAACTCAACTTTAAGTCTGAATCCGAA
1 AACCC-AAACTCAACTTTAAGTCC-GAATCCGAACCCGAAACTCAACTTTAAGTCCGAATACGAA
*
1022121 CCCAATACTCAAC-TT-TCTGAATCCA
64 CCCAAGACTCAACTTTATCTGAATCCA
** * *
1022146 AACCCAATACTCAACTTTAAGTCCGAATCCGAACCCGGCACTCAACTTTAAGTCCGATTACTAAC
1 AACCCAA-ACTCAACTTTAAGTCCGAATCCGAACCCGAAACTCAACTTTAAGTCCGAATACGAAC
*
1022211 CTAAGACTCAACTTTAAATCTGAATCCA
65 CCAAGACTCAACTTT--ATCTGAATCCA
* * *
1022239 AACCCAACACTCAAGTCTAAATCCGAATCCGA
1 AACCCAA-ACTCAACTTTAAGTCCGAATCCGA
1022271 GTGGCATAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
88 2 0.02
89 61 0.58
90 4 0.04
93 38 0.36
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.22
Consensus pattern (90 bp):
AACCCAAACTCAACTTTAAGTCCGAATCCGAACCCGAAACTCAACTTTAAGTCCGAATACGAACC
CAAGACTCAACTTTATCTGAATCCA
Found at i:1022260 original size:31 final size:31
Alignment explanation
Indices: 1022057--1022268 Score: 177
Period size: 31 Copynumber: 7.0 Consensus size: 31
1022047 CACATAATTG
*
1022057 AACCCGAA-ACTCAACTTTAAG-CCTAAATCCA
1 AACCC-AACACTCAACTTTAAGTCC-GAATCCA
* *
1022088 AACCCGAA-ACTCAACTTTAAGTCTGAATCCG
1 AACCC-AACACTCAACTTTAAGTCCGAATCCA
* *
1022119 AACCCAATACTCAAC-TT---TCTGAATCCA
1 AACCCAACACTCAACTTTAAGTCCGAATCCA
* *
1022146 AACCCAATACTCAACTTTAAGTCCGAATCCG
1 AACCCAACACTCAACTTTAAGTCCGAATCCA
** * * *
1022177 AACCCGGCACTCAACTTTAAGTCCGATTACT
1 AACCCAACACTCAACTTTAAGTCCGAATCCA
* * * *
1022208 AACCTAAGACTCAACTTTAAATCTGAATCCA
1 AACCCAACACTCAACTTTAAGTCCGAATCCA
* * *
1022239 AACCCAACACTCAAGTCTAAATCCGAATCC
1 AACCCAACACTCAACTTTAAGTCCGAATCC
1022269 GAGTGGCATA
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
27 24 0.16
28 2 0.01
30 4 0.03
31 118 0.79
32 1 0.01
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.23
Consensus pattern (31 bp):
AACCCAACACTCAACTTTAAGTCCGAATCCA
Found at i:1028633 original size:21 final size:21
Alignment explanation
Indices: 1028604--1028656 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1028594 ATTCTGACTA
*
1028604 TCGCATTGCGATTTTTCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
1028625 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
1028646 TCGCAATGCGA
1 TCGCATTGCGA
1028657 ATACGTAATT
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:1028667 original size:20 final size:20
Alignment explanation
Indices: 1028646--1028718 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
1028636 TTTTCCTAAT
*
1028646 TCGCAATGCGAATACGTAAT
1 TCGCAATGCGAATACGTAAA
1028666 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1028686 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1028706 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1028719 CTGACTATCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1028728 original size:20 final size:20
Alignment explanation
Indices: 1028705--1028811 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
1028695 GAATACGTAA
* *
1028705 ATCGCAATGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
1028725 ATCGCAACGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
1028745 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1028765 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1028785 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1028805 ATCGCAA
1 ATCGCAA
1028812 TACTGAATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1028749 original size:60 final size:61
Alignment explanation
Indices: 1028685--1028819 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 61
1028675 GAATACGTAA
* *
1028685 ATCGCAATACGAATAC-GTA-AATCGCAATGCGAATCTGACTATCGCAACGCGATTATGACT
1 ATCGCAATACGAATACTG-ACAATCGCAACGAGAATCTGACTATCGCAACGCGATTATGACT
* * * *
1028745 ATCGC-A-ACGAGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAATACGA-ATACTGACAATCGCAACGAGAATCTGACTATCGCAACGCGATTATGACT
1028805 ATCGCAATACTGAAT
1 ATCGCAATAC-GAAT
1028820 TTCAAATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
58 4 0.06
59 5 0.08
60 47 0.75
61 1 0.02
62 4 0.06
63 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAATACGAATACTGACAATCGCAACGAGAATCTGACTATCGCAACGCGATTATGACT
Found at i:1029918 original size:15 final size:14
Alignment explanation
Indices: 1029900--1029935 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1029890 GAAAAAGAAG
1029900 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
1029915 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
1029929 AAGAAAA
1 AAGAAAA
1029936 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:1032198 original size:20 final size:20
Alignment explanation
Indices: 1032119--1032200 Score: 128
Period size: 20 Copynumber: 4.1 Consensus size: 20
1032109 GAAATTCATT
*
1032119 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAAAA
* *
1032139 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGAAAA
1032159 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
*
1032179 TGACTATCGTAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
1032199 TG
1 TG
1032201 GTTTCGCGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGAAAA
Found at i:1032250 original size:34 final size:34
Alignment explanation
Indices: 1032207--1032302 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
1032197 AATGGTTTCG
1032207 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1032241 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
1032274 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1032303 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:1033879 original size:21 final size:22
Alignment explanation
Indices: 1033855--1033931 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 22
1033845 TAACAATGGC
*
1033855 CTCTTGAACGG-TGGGAGGGGA
1 CTCTTGAACGGATGAGAGGGGA
* * *
1033876 CTCTT-AAGGGATGATAGGGGC
1 CTCTTGAACGGATGAGAGGGGA
* *
1033897 CTCTTGAAC-GAT-AGGGGAGGC
1 CTCTTGAACGGATGAGAGG-GGA
1033918 CTCTTGAAC-GATGA
1 CTCTTGAACGGATGA
1033932 CAGGTGAGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.16
21 35 0.78
22 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (22 bp):
CTCTTGAACGGATGAGAGGGGA
Found at i:1034442 original size:20 final size:20
Alignment explanation
Indices: 1034419--1034524 Score: 140
Period size: 20 Copynumber: 5.2 Consensus size: 20
1034409 CTTAAAATCA
**
1034419 CAACGCGAAAATGACTATCG
1 CAACGCGAATTTGACTATCG
1034439 CAACGCGAATTTGACTATCG
1 CAACGCGAATTTGACTATCG
* *
1034459 CAATGCAAAATTTGACTATCG
1 CAACGC-GAATTTGACTATCG
*
1034480 CAATGCGAATTTGACTATCG
1 CAACGCGAATTTGACTATCG
* *
1034500 CAATGCGGATTTGACTATCG
1 CAACGCGAATTTGACTATCG
1034520 CAACG
1 CAACG
1034525 AGAGAATCGC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 59 0.76
21 19 0.24
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (20 bp):
CAACGCGAATTTGACTATCG
Found at i:1034481 original size:41 final size:40
Alignment explanation
Indices: 1034430--1034524 Score: 154
Period size: 41 Copynumber: 2.4 Consensus size: 40
1034420 AACGCGAAAA
1034430 TGACTATCGCAACGCGAATTTGACTATCGCAATGCAAAATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAATGC-AAATT
* **
1034471 TGACTATCGCAATGCGAATTTGACTATCGCAATGCGGATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAATGCAAATT
1034511 TGACTATCGCAACG
1 TGACTATCGCAACG
1034525 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 16 0.32
41 34 0.68
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAATGCAAATT
Found at i:1034597 original size:20 final size:21
Alignment explanation
Indices: 1034569--1034711 Score: 89
Period size: 20 Copynumber: 7.5 Consensus size: 21
1034559 GATTCTTTCG
1034569 TTGCGATAGTCAAATTT-GCA
1 TTGCGATAGTCAAATTTCGCA
* *
1034589 TTGCAATAGTC-ATTTTCGCA
1 TTGCGATAGTCAAATTTCGCA
* *
1034609 TTGCGATAGTC-ATTTTCGCG
1 TTGCGATAGTCAAATTTCGCA
** *
1034629 TTGCGATTTTC--ATTTTGCA
1 TTGCGATAGTCAAATTTCGCA
*
1034648 TTGCGAT--TC---TCTCG--
1 TTGCGATAGTCAAATTTCGCA
* *
1034662 TTGCGATAGTC-ATTTTCGCG
1 TTGCGATAGTCAAATTTCGCA
*
1034682 TTGCGATAGTC-ATTTTCGCA
1 TTGCGATAGTCAAATTTCGCA
1034702 TTGCGATAGT
1 TTGCGATAGT
1034712 AAACTATTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
14 7 0.07
16 5 0.05
17 2 0.02
18 4 0.04
19 16 0.16
20 69 0.67
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (21 bp):
TTGCGATAGTCAAATTTCGCA
Found at i:1034640 original size:93 final size:93
Alignment explanation
Indices: 1034537--1034711 Score: 289
Period size: 93 Copynumber: 1.9 Consensus size: 93
1034527 AGAATCGCAA
*
1034537 TGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTT-GCATTGCAATAGTCA
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTC-AATTTCGCATTGCAATAGTCA
1034601 TTTTCGCATTGCGATAGTCATTTTCGCGT
65 TTTTCGCATTGCGATAGTCATTTTCGCGT
* * * *
1034630 TGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAATTTCGCATTGCAATAGTCAT
1034695 TTTCGCATTGCGATAGT
66 TTTCGCATTGCGATAGT
1034712 AAACTATTCT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (93 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAATTTCGCATTGCAATAGTCAT
TTTCGCATTGCGATAGTCATTTTCGCGT
Found at i:1036614 original size:20 final size:20
Alignment explanation
Indices: 1036591--1036739 Score: 97
Period size: 20 Copynumber: 7.5 Consensus size: 20
1036581 TCTGAAACTT
1036591 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
1036611 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
1036631 ACTATCGCAATGA-GAATTTG
1 AAAATCGCAA-CACGAAAATG
** *
1036651 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
1036670 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
1036690 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** **
1036710 ACTATCGCAATGCG-AAATG
1 AAAATCGCAACACGAAAATG
1036729 AAAATCGCAAC
1 AAAATCGCAAC
1036740 GACATAATCG
Statistics
Matches: 99, Mismatches: 27, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
19 24 0.24
20 74 0.75
21 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1036687 original size:59 final size:59
Alignment explanation
Indices: 1036594--1036739 Score: 229
Period size: 59 Copynumber: 2.5 Consensus size: 59
1036584 GAAACTTAAA
* * *
1036594 ATCGCAACACGAAAATGAAAATCGTAACACGAAAATGACTATCGCAATGAGAATTTGACT
1 ATCGCAACGCG-AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAATTTGACT
* *
1036654 ATCGCAACGCGAAATGAAAATCACAACACGAAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAATTTGACT
*
1036713 ATCGCAATGCGAAATGAAAATCGCAAC
1 ATCGCAACGCGAAATGAAAATCGCAAC
1036740 GACATAATCG
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 69 0.87
60 10 0.13
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (59 bp):
ATCGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAATTTGACT
Found at i:1036728 original size:39 final size:38
Alignment explanation
Indices: 1036626--1036740 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 38
1036616 CGTAACACGA
* *
1036626 AAATGACTATCGCAATGAGAATTTGACTATCGCAACGCG
1 AAATGACTATCGCAATGCGAA-ATGACTATCGCAACGCG
** * **
1036665 AAATGAAAATCACAACACGAAAATGACTATCGCAACGCG
1 AAATGACTATCGCAATGCG-AAATGACTATCGCAACGCG
* **
1036704 AATTTGACTATCGCAATGCGAAATGAAAATCGCAACG
1 AA-ATGACTATCGCAATGCGAAATGACTATCGCAACG
1036741 ACATAATCGC
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 46 0.78
40 13 0.22
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (38 bp):
AAATGACTATCGCAATGCGAAATGACTATCGCAACGCG
Found at i:1037138 original size:22 final size:22
Alignment explanation
Indices: 1037076--1037141 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
1037066 TGACCGTGAA
* *
1037076 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
1037098 TGATATCGTCAGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1037120 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1037142 GGATGTCGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1037362 original size:20 final size:20
Alignment explanation
Indices: 1037339--1037471 Score: 221
Period size: 20 Copynumber: 6.7 Consensus size: 20
1037329 CGATAGTCAG
* * *
1037339 ATTCGCGTTACGATTTACAT
1 ATTCGCATTGCGATTTACGT
1037359 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1037379 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1037399 ATTTGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1037419 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1037439 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1037459 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1037472 ATTAGGAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 106 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1037492 original size:21 final size:21
Alignment explanation
Indices: 1037468--1037513 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1037458 TATTCGCATT
1037468 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1037489 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1037510 GCGA
1 GCGA
1037514 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:1037777 original size:31 final size:31
Alignment explanation
Indices: 1037742--1037816 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
1037732 AAATCATAAA
* * *
1037742 TTTTGGTCACTT-AAGTTATTGTTTTATTAAG
1 TTTTGGTCACTTGAACTT-TGGCTTTATTAAG
* * *
1037773 TTTTGGTTACTTGGACTTTGGCTTTATTAGG
1 TTTTGGTCACTTGAACTTTGGCTTTATTAAG
1037804 TTTTGGTCACTTG
1 TTTTGGTCACTTG
1037817 GACGTAGAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.16, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
TTTTGGTCACTTGAACTTTGGCTTTATTAAG
Found at i:1043226 original size:23 final size:23
Alignment explanation
Indices: 1043181--1043226 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1043171 CAATCTTGTA
*
1043181 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
* * *
1043204 TGGCACTTCGGTGTATTTATACG
1 TGGCACTACGGTGCAATTATACG
1043227 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:1043334 original size:2 final size:2
Alignment explanation
Indices: 1043327--1043358 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1043317 TGAATACAAC
1043327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1043359 GATGTGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1043392 original size:12 final size:11
Alignment explanation
Indices: 1043329--1043392 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 11
1043319 AATACAACAT
1043329 ATATATATAT-
1 ATATATATATG
1043339 ATATATATAT-
1 ATATATATATG
1043349 ATATATATATG
1 ATATATATATG
* *
1043360 ATGTGTAATATG
1 ATATAT-ATATG
*
1043372 A-AT-TGTATG
1 ATATATATATG
1043381 ATATGATATATG
1 ATAT-ATATATG
1043393 TGTGTTATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.11
10 23 0.52
11 5 0.11
12 11 0.25
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (11 bp):
ATATATATATG
Done.