Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_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: 971753
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 6 of 6
Found at i:888884 original size:25 final size:22
Alignment explanation
Indices: 888833--888874 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
888823 GAGTACCAGT
888833 GGAGTGGCCACAGTTCCTCCCA
1 GGAGTGGCCACAGTTCCTCCCA
888855 GGAGTGGCCACAGTTCCTCC
1 GGAGTGGCCACAGTTCCTCC
888875 TCTTTAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (22 bp):
GGAGTGGCCACAGTTCCTCCCA
Found at i:890855 original size:15 final size:16
Alignment explanation
Indices: 890819--890856 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
890809 AGAACCTCTA
* *
890819 AATCATTCAGCATTTG
1 AATCATTCAACACTTG
890835 AATCATTCAACACTT-
1 AATCATTCAACACTTG
890850 AATCATT
1 AATCATT
890857 TTGAAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (16 bp):
AATCATTCAACACTTG
Found at i:892182 original size:5 final size:5
Alignment explanation
Indices: 892169--892202 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
892159 GAAGAATAAC
* *
892169 TTTAT TTTAA TTTAT TTTAT TTTAT TTTAG TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
892203 ACAAAGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:894975 original size:18 final size:19
Alignment explanation
Indices: 894935--894975 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
894925 TGGTTCACGA
*
894935 AATGTAAGATTACCAATGGG
1 AATGTAAGATTACC-AGGGG
894955 AATGTAAGATTACC-GGGG
1 AATGTAAGATTACCAGGGG
894973 AAT
1 AAT
894976 AGGATTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGG
Found at i:895199 original size:37 final size:37
Alignment explanation
Indices: 895126--895200 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
895116 TTTAGAAAAT
* *
895126 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
895163 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
895200 A
1 A
895201 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:896810 original size:18 final size:19
Alignment explanation
Indices: 896787--896824 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
896777 CCAAAATGAC
896787 AAAT-AAAATCGCAACGCG
1 AAATAAAAATCGCAACGCG
896805 AAATAAAAATCGCAACGCG
1 AAATAAAAATCGCAACGCG
896824 A
1 A
896825 TCCCCAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (19 bp):
AAATAAAAATCGCAACGCG
Found at i:896876 original size:21 final size:20
Alignment explanation
Indices: 896791--896947 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
896781 AATGACAAAT
** *
896791 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
896810 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
896830 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
896850 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
896871 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
896892 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
896913 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
896933 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
896948 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:896976 original size:20 final size:20
Alignment explanation
Indices: 896914--897138 Score: 231
Period size: 20 Copynumber: 11.2 Consensus size: 20
896904 CGATTTTCCA
* ** *
896914 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
896934 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
896954 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
896974 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
896994 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
897014 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
897034 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
897054 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
*
897074 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
897094 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
897114 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
897134 AAATC
1 AAATC
897139 CGGTAGGGCA
Statistics
Matches: 175, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:897888 original size:24 final size:24
Alignment explanation
Indices: 897849--897895 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
897839 AAATTTGGTC
897849 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
897873 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
897896 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:900435 original size:33 final size:34
Alignment explanation
Indices: 900393--900553 Score: 134
Period size: 33 Copynumber: 4.7 Consensus size: 34
900383 GCAACGAGAG
*
900393 AATCACAATGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
* * *
900426 AATCGCAATGCGGAAATAAAAATCGCAACGA-GAA
1 AATCGCAATGC-GAAATGAAAATCCCAACAATGAA
*
900460 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * * * *
900498 AATCGCAACGAGATAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAA
900531 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
900554 GCATTGCGAT
Statistics
Matches: 105, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
31 1 0.01
32 6 0.06
33 42 0.40
34 29 0.28
35 2 0.02
37 1 0.01
38 17 0.16
39 6 0.06
40 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAA
Found at i:900448 original size:34 final size:33
Alignment explanation
Indices: 900379--900482 Score: 138
Period size: 33 Copynumber: 3.1 Consensus size: 33
900369 CGGAAATTAC
* * *
900379 AATCGCAACGAGAGAATCACAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
*
900412 AATCCCAAC-ATGAAAATCGCAATGCGGAAATAAA
1 AATCCCAACGA-GAAAATCGCAATGC-GAAATGAA
*
900446 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
900479 AATC
1 AATC
900483 GCAATGCGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 31 0.50
34 29 0.47
35 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.13
Consensus pattern (33 bp):
AATCCCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:900460 original size:19 final size:19
Alignment explanation
Indices: 900393--900562 Score: 181
Period size: 19 Copynumber: 9.7 Consensus size: 19
900383 GCAACGAGAG
*
900393 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
900412 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
900426 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
900446 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
900460 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
900479 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
900498 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
900512 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
900531 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
900550 AATCGCATTGCGA
1 AATCGCAATGCGA
900563 TTCTCTCGTT
Statistics
Matches: 128, Mismatches: 7, Indels: 32
0.77 0.04 0.19
Matches are distributed among these distances:
14 32 0.25
15 2 0.02
16 5 0.04
17 4 0.03
18 3 0.02
19 70 0.55
20 12 0.09
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:900576 original size:52 final size:52
Alignment explanation
Indices: 900421--900556 Score: 245
Period size: 52 Copynumber: 2.6 Consensus size: 52
900411 AAATCCCAAC
* *
900421 ATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
900474 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
900526 ATGAAAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCA
900557 TTGCGATTCT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
52 65 0.80
53 16 0.20
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
Found at i:900665 original size:52 final size:53
Alignment explanation
Indices: 900552--900668 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
900542 GAAATGAAAA
900552 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
900605 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
900657 TCGCATTGCGAT
1 TCGCATTGCGAT
900669 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:900676 original size:19 final size:19
Alignment explanation
Indices: 900571--900668 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
900561 GATTCTCTCG
900571 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
900591 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
900610 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
900624 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
900643 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
900662 TTGCGAT
1 TTGCGAT
900669 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:900790 original size:14 final size:14
Alignment explanation
Indices: 900771--900807 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
900761 CATCAATTAC
900771 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
900785 ACAAATCATCTTTT
1 ACAAATCAACTTTT
900799 ACAAATCAA
1 ACAAATCAA
900808 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:902762 original size:19 final size:19
Alignment explanation
Indices: 902722--902855 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
902712 TAGTTTACTT
* *
902722 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
902742 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
902761 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
**
902780 TCGCAA--C----TTAAAA
1 TCGCAACGCGAAACCAAAA
902793 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
902812 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
902826 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
902845 TCGCAATGCGA
1 TCGCAACGCGA
902856 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
13 11 0.12
14 9 0.10
15 1 0.01
16 4 0.04
17 5 0.05
19 50 0.54
20 13 0.14
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:902798 original size:32 final size:32
Alignment explanation
Indices: 902757--902850 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
902747 ACGCGAAACC
**
902757 AAAATCGCAACGCGAAATGAAAATCGCAACTT
1 AAAATCGCAACGCGAAATGAAAATCGCAACGA
**
902789 AAAATCGCAACGCGAAACCAAAATCGCAACGA
1 AAAATCGCAACGCGAAATGAAAATCGCAACGA
902821 AAGAATCGCAACGCGAAATGAAAATCGCAA
1 AA-AATCGCAACGCGAAATGAAAATCGCAA
902851 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (32 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:902942 original size:33 final size:34
Alignment explanation
Indices: 902851--902942 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 34
902841 AAAATCGCAA
902851 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
902884 TGCGATTTTGGTTTCGCGTTGCGATTCTT-TCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
902917 TGCGATTTTGGTTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
902943 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 54 0.93
34 4 0.07
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:902971 original size:20 final size:19
Alignment explanation
Indices: 902851--902979 Score: 143
Period size: 19 Copynumber: 7.3 Consensus size: 19
902841 AAAATCGCAA
902851 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
902870 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
902884 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
902903 TGCGA--TT-CTTT--CGT
1 TGCGATTTTGGTTTCGCGT
902917 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
902936 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
902955 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
902975 TGCGA
1 TGCGA
902980 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 19 0.20
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 47 0.51
20 13 0.14
ACGTcount: A:0.08, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:903163 original size:93 final size:93
Alignment explanation
Indices: 903027--903490 Score: 896
Period size: 93 Copynumber: 5.0 Consensus size: 93
903017 ATGGATTGCA
*
903027 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
903091 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
903119 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
903184 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
903212 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
903277 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
903305 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
903370 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
903398 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
903462 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
903490 T
1 T
903491 ACTAAGCAAT
Statistics
Matches: 369, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 66 0.18
93 303 0.82
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:905217 original size:14 final size:14
Alignment explanation
Indices: 905198--905254 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
905188 TTGAAATGAA
905198 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
905212 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
905231 AATCGCAACGAGAG
1 AATCGCAACGAGAG
905245 AATCGCAACG
1 AATCGCAACG
905255 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:905229 original size:33 final size:33
Alignment explanation
Indices: 905190--905271 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
905180 TCTTTGGGTT
905190 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
905223 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
905256 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
905272 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:905236 original size:19 final size:19
Alignment explanation
Indices: 905212--905276 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
905202 GCAACGAGAG
905212 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
905231 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
905245 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
905264 AATCGCAATGCGA
1 AATCGCAACGCGA
905277 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:905326 original size:19 final size:19
Alignment explanation
Indices: 905302--905338 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
905292 GCGATTCTCT
905302 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
905321 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
905339 TCTCGTTGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.49
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:905361 original size:20 final size:20
Alignment explanation
Indices: 905295--905371 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
905285 TCGCGTTGCG
*
905295 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACTTTC
* *
905315 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACTTTC
**
905334 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACTTTC
905355 ATTCTCTCGTTGCGACT
1 ATTCTCTCGTTGCGACT
905372 CTTCTGCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.33
20 20 0.41
21 13 0.27
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACTTTC
Found at i:905721 original size:22 final size:22
Alignment explanation
Indices: 905667--905721 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
905657 TGGTTGTGAG
**
905667 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
** *
905689 GGAAATATTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
905711 GGATTTCTTCG
1 GGATTTCTTCG
905722 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:905895 original size:20 final size:20
Alignment explanation
Indices: 905868--906060 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
905858 CTTTAAATAT
*
905868 CGCGTTGCGATTTACGGATT
1 CGCGTTGCGATTTACGGATA
*
905888 CTCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
*
905909 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
905928 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
905948 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
905968 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
905988 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
906008 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
*** *
906028 CGCGTTGCGATTTAAATATT
1 CGCGTTGCGATTTACGGATA
906048 CGCGTTGCGATTT
1 CGCGTTGCGATTT
906061 TGGAAAATCG
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:906077 original size:21 final size:21
Alignment explanation
Indices: 906047--906129 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
906037 ATTTAAATAT
*
906047 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
906068 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
906089 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
906110 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
906130 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:912955 original size:15 final size:16
Alignment explanation
Indices: 912935--912971 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
912925 TGACGACGAC
912935 GAAGAAGAA-GAAGAA
1 GAAGAAGAATGAAGAA
*
912950 GAAGAA-AATGATGAA
1 GAAGAAGAATGAAGAA
912965 GAAGAAG
1 GAAGAAG
912972 GCGGAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.05
Consensus pattern (16 bp):
GAAGAAGAATGAAGAA
Found at i:920647 original size:21 final size:21
Alignment explanation
Indices: 920623--920669 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
920613 GTTTCCAGAT
*
920623 TCGCAACGCGAATTTCGACTA
1 TCGCAACGCGAACTTCGACTA
920644 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
920665 TCGCA
1 TCGCA
920670 TTGTGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:920714 original size:21 final size:21
Alignment explanation
Indices: 920684--921319 Score: 453
Period size: 21 Copynumber: 30.6 Consensus size: 21
920674 GATTTACATA
*
920684 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
920705 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
920726 TTCGCATTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
920747 TT--CGTTGCGGTAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
920766 TTCGCGTTGCGGTAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
920787 TTCGCGTTGCGGTAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
920808 TTCGCGTTGTGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
920829 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
920848 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* * *
920871 TT--CATTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
920892 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
920911 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
920934 TTCG-GTT-CGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
920953 TTCGCGTTGCAATTTATTTCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
920976 TT--CGTTGTGATAGTTCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
920995 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
921016 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
921035 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
921058 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
921077 TTCACGTTGCGATTTATTCCCAA-
1 TTCGCGTTGCGA--TAGT-CCAAG
921100 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
921119 TTCGCCGTTGCGATAGTCGAAG
1 TTCG-CGTTGCGATAGTCCAAG
*
921141 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
921164 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
921183 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
921206 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
921225 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
921248 TT--CGTTGTGGTAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
921267 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
921288 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
921307 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
921320 TTATTCCAAA
Statistics
Matches: 486, Mismatches: 86, Indels: 86
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.01
19 126 0.26
20 3 0.01
21 262 0.54
22 23 0.05
23 65 0.13
24 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:921016 original size:124 final size:126
Alignment explanation
Indices: 920875--921132 Score: 414
Period size: 124 Copynumber: 2.1 Consensus size: 126
920865 TCCAAATTCA
*
920875 TTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGGT
1 TTGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC-GT
* * * *
920940 T-CGATAGTCGAAGTTCGCGTTGCAATTTATTTCAAATTCGTTGTGATAGTTCAAGTTCG-CG
64 TGCGATAGTCGAAGTTCACGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCCG
921001 TTGCGATT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTG
1 TTGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTG
* *
921065 CGATAGTCGAAGTTCACGTTGCGATTTATTCCCAATTCGTTGCGATAGTCCAAGTTCGCCG
66 CGATAGTCGAAGTTCACGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCCG
921126 TTGCGAT
1 TTGCGAT
921133 AGTCGAAGTT
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
123 3 0.02
124 103 0.84
125 11 0.09
126 6 0.05
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (126 bp):
TTGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTG
CGATAGTCGAAGTTCACGTTGCAATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCCG
Found at i:921186 original size:148 final size:145
Alignment explanation
Indices: 920978--921279 Score: 498
Period size: 148 Copynumber: 2.1 Consensus size: 145
920968 ATTTCAAATT
*
920978 CGTTGTGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
*
921043 GCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCCAATTCGTTGC
66 GCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGC
921108 GATAGTCCAAGTTCG
131 GATAGTCCAAGTTCG
*
921123 CCGTTGCGATAG-TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 -CGTTGCGATAGTTC-AAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCG
* *
921187 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
62 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCG
* *
921252 TTGTGGTAGTCCAAGTTCG
127 TTGCGATAGTCCAAGTTCG
921271 CGTTGCGAT
1 CGTTGCGAT
921280 TTTCCAAATT
Statistics
Matches: 146, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
145 2 0.01
146 25 0.17
147 11 0.08
148 108 0.74
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (145 bp):
CGTTGCGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGC
GATAGTCCAAGTTCG
Found at i:921206 original size:272 final size:268
Alignment explanation
Indices: 920709--921345 Score: 933
Period size: 272 Copynumber: 2.4 Consensus size: 268
920699 TCCAAGTTCG
* * * *
920709 CGTTGCGATAG-TCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGGTAGTCCAAGTTCGCGT
1 CGTTGTGATAGTTC-AAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* * * * * *
920773 TGCG--GTAGTCCAAGTTCGCGTTGCGGTAGTCCAAGTTCGCGTTGTGATTTTCCAAATTCGTTG
65 TGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGTTCACGTTGCGATTTTCCAAATTCGTTG
* *
920836 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCATTGCGATTTATTCCAAATTCGTTGCG
128 CGATAGTCCAAGTTCGCGTTGCGA-TTAGTCCAAATTCATTGCGATTTATTCCAAATTCGTTGCG
920901 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGGTT-CGATAGTCGAAGTTCGCGTTGCAA
192 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTC-GTTGCGATAGTCGAAGTTCGCGTTGCAA
*
920965 TTTATTTCAAATT
256 TTTATTCCAAATT
920978 CGTTGTGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGTGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
* *
921043 GCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCCAATTCGTTGC
66 GCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGA-TT-TTCCAAATTCGTTGC
* * * *
921108 GATAGTCCAAGTTCGCCGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGC
129 GATAGTCCAAGTTCG-CGTTGCGATTAGTCCAAATT--CATTGCGATTTATTCCAAATTCGTTGC
*
921172 GATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGA
191 GATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCAA
921237 TTTATTCCAAATT
256 TTTATTCCAAATT
* *
921250 CGTTGTGGTAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGTGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
*
921315 GCGATTTATTCCAAAATTCGGTGCGATAGTC
66 GCGATTTATTCC-AAATTCGTTGCGATAGTC
921346 TAAAATCGCA
Statistics
Matches: 335, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
269 86 0.26
270 12 0.04
271 40 0.12
272 180 0.54
273 17 0.05
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (268 bp):
CGTTGTGATAGTTCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTTCCAAATTCGTTGCGA
TAGTCCAAGTTCGCGTTGCGATTAGTCCAAATTCATTGCGATTTATTCCAAATTCGTTGCGATAG
TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTAT
TCCAAATT
Found at i:921234 original size:84 final size:82
Alignment explanation
Indices: 921124--921345 Score: 363
Period size: 84 Copynumber: 2.7 Consensus size: 82
921114 CCAAGTTCGC
* *
921124 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCG
*
921189 TTGCGATTTATTCCAAGTT
66 TTGCGA-TT-TTCCAAATT
* *
921208 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGTGGTAGTCCAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCG
921273 TTGCGATTTTCCAAATT
66 TTGCGATTTTCCAAATT
*
921290 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAATTCGGTGCGATAGTC
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCC-AAATTCGTTGCGATAGTC
921346 TAAAATCGCA
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
82 45 0.35
83 17 0.13
84 67 0.52
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (82 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCG
TTGCGATTTTCCAAATT
Found at i:922070 original size:19 final size:19
Alignment explanation
Indices: 922046--922173 Score: 130
Period size: 19 Copynumber: 6.3 Consensus size: 19
922036 TAGTTGCGAT
922046 TTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
922065 TTTGGAATAAATCGCAACACGAA
1 TTTGGACT--ATCGC-A-ACGAA
* *
922088 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
922107 TTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
922126 TTTGGAATAAATCGCAATGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
922149 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
922168 TTTGGA
1 TTTGGA
922174 ATAAATCGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
19 44 0.49
20 1 0.01
21 24 0.27
22 1 0.01
23 19 0.21
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:922120 original size:61 final size:61
Alignment explanation
Indices: 922046--922173 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 61
922036 TAGTTGCGAT
922046 TTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACGAA
**
922107 TTTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACGAA
922168 TTTGGA
1 TTTGGA
922174 ATAAATCGCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (61 bp):
TTTGGACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACGAA
Found at i:924457 original size:16 final size:16
Alignment explanation
Indices: 924436--924468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
924426 CTCCAAAATA
*
924436 AAACACATATATAATT
1 AAACACATACATAATT
924452 AAACACATACATAATT
1 AAACACATACATAATT
924468 A
1 A
924469 TAAAAACTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (16 bp):
AAACACATACATAATT
Found at i:924536 original size:7 final size:8
Alignment explanation
Indices: 924519--924671 Score: 55
Period size: 9 Copynumber: 18.6 Consensus size: 8
924509 TTATATAATT
924519 AATATAAA
1 AATATAAA
924527 AATA-AAA
1 AATATAAA
*
924534 AATAT-TA
1 AATATAAA
* *
924541 TATATAATT
1 AATATAA-A
924550 AATATAAA
1 AATATAAA
*
924558 AAAATAAA
1 AATATAAA
*
924566 AA-AGTATA
1 AATA-TAAA
* *
924574 TATATAATT
1 AATATAA-A
924583 AATATAAA
1 AATATAAA
924591 AA-ATAAAA
1 AATAT-AAA
*
924599 AATATTATA
1 AATA-TAAA
* *
924608 TATATAATT
1 AATATAA-A
*
924617 AATAAAAA
1 AATATAAA
*
924625 AATAAAAAA
1 AAT-ATAAA
*
924634 AATATTATA
1 AATA-TAAA
* *
924643 TATATAATT
1 AATATAA-A
924652 AATATAAA
1 AATATAAA
924660 AAT-TAAA
1 AATATAAA
924667 AATAT
1 AATAT
924672 TATATATATA
Statistics
Matches: 104, Mismatches: 27, Indels: 28
0.65 0.17 0.18
Matches are distributed among these distances:
7 22 0.21
8 38 0.37
9 43 0.41
10 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.33
Consensus pattern (8 bp):
AATATAAA
Found at i:924603 original size:25 final size:25
Alignment explanation
Indices: 924575--924629 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
924565 AAAAGTATAT
924575 ATATAAT-TAATATAAAAAATAAAAA
1 ATATAATAT-ATATAAAAAATAAAAA
* **
924600 ATATTATATATATAATTAATAAAAA
1 ATATAATATATATAAAAAATAAAAA
924625 A-ATAA
1 ATATAA
924630 AAAAAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 21 0.84
26 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
ATATAATATATATAAAAAATAAAAA
Found at i:924680 original size:33 final size:33
Alignment explanation
Indices: 924510--924681 Score: 251
Period size: 33 Copynumber: 5.2 Consensus size: 33
924500 GGGTTTGTAT
924510 TATATAATTAATATAAAAATAAAAAATA-T-TA
1 TATATAATTAATATAAAAATAAAAAATATTATA
* *
924541 TATATAATTAATATAAAAA-AATAAAAAAGTATA
1 TATATAATTAATATAAAAATAA-AAAATATTATA
924574 TATATAATTAATATAAAAAATAAAAAATATTATA
1 TATATAATTAATAT-AAAAATAAAAAATATTATA
*
924608 TATATAATTAATAAAAAAATAAAAAAAATATTATA
1 TATATAATTAATATAAAAAT--AAAAAATATTATA
*
924643 TATATAATTAATATAAAAATTAAAAATATTATA
1 TATATAATTAATATAAAAATAAAAAATATTATA
924676 TATATA
1 TATATA
924682 TAATTGGGGT
Statistics
Matches: 128, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
30 2 0.02
31 24 0.19
32 1 0.01
33 40 0.31
34 27 0.21
35 34 0.27
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.35
Consensus pattern (33 bp):
TATATAATTAATATAAAAATAAAAAATATTATA
Found at i:924682 original size:35 final size:33
Alignment explanation
Indices: 924510--924686 Score: 245
Period size: 35 Copynumber: 5.3 Consensus size: 33
924500 GGGTTTGTAT
924510 TATATAATTAATAT-AAAAATAAAAAATAT-TA
1 TATATAATTAATATAAAAAATAAAAAATATATA
*
924541 TATATAATTAATATAAAAAAATAAAAAA-GTATA
1 TATATAATTAATAT-AAAAAATAAAAAATATATA
924574 TATATAATTAATATAAAAAATAAAAAATATTATA
1 TATATAATTAATATAAAAAATAAAAAATA-TATA
924608 TATATAATTAATA-AAAAAATAAAAAAAATATTATA
1 TATATAATTAATATAAAAAAT--AAAAAATA-TATA
*
924643 TATATAATTAATATAAAAATTAAAAATATTATATA
1 TATATAATTAATATAAAAAATAAAAA-A-TATATA
924678 TATATAATT
1 TATATAATT
924687 GGGGTGGGGA
Statistics
Matches: 133, Mismatches: 3, Indels: 16
0.88 0.02 0.11
Matches are distributed among these distances:
31 14 0.11
32 14 0.11
33 35 0.26
34 22 0.17
35 40 0.30
36 8 0.06
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.36
Consensus pattern (33 bp):
TATATAATTAATATAAAAAATAAAAAATATATA
Found at i:931163 original size:20 final size:20
Alignment explanation
Indices: 931138--931175 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
931128 CAATTTATTC
931138 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
931158 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
931176 CACTTTGAAA
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:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:932874 original size:23 final size:22
Alignment explanation
Indices: 932844--932924 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
932834 GCATGGCCTT
932844 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
932866 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
932888 GTGTATCGACGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
*
932911 ATGCATCGATGCAC
1 GTGCATCGATGCAC
932925 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 14 0.31
22 2 0.04
23 29 0.64
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:938444 original size:27 final size:27
Alignment explanation
Indices: 938393--938455 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
938383 CAAAATAGCC
*
938393 TGAGTGCATCGATGCATGGCTTGTGCA
1 TGAGTGCATCGATGCATGGATTGTGCA
938420 TGAGTGCATCGATGCAT-GATATGTGCA
1 TGAGTGCATCGATGCATGGAT-TGTGCA
938447 TCGA-TGCAT
1 T-GAGTGCAT
938456 AAAATGCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (27 bp):
TGAGTGCATCGATGCATGGATTGTGCA
Found at i:938491 original size:91 final size:92
Alignment explanation
Indices: 938351--938521 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 92
938341 TACACTAAGA
* *
938351 GTGCATCGATGCATGAAATGAATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT-
1 GTGCATCGATGCATAAAATGAATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGATTG
938415 GTGCAT-GAGTGCATCGATGCATGATAT
66 GTGCATCG-GTGCATCGATGCATGATAT
* ** * *
938442 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCATTG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGAATTCGATGTTTCAAAATA-GC-CTGAGTGCATCGATGCATGGAT
938505 TGGTGCATCGGTGCATC
64 TGGTGCATCGGTGCATC
938522 ACTTTGAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
90 7 0.10
91 46 0.67
92 15 0.22
93 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (92 bp):
GTGCATCGATGCATAAAATGAATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGATTG
GTGCATCGGTGCATCGATGCATGATAT
Found at i:938508 original size:20 final size:20
Alignment explanation
Indices: 938483--938520 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
938473 CAATTTATTC
938483 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
938503 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
938521 CACTTTGAAA
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:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:940661 original size:16 final size:16
Alignment explanation
Indices: 940642--940681 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
940632 AATGAGTACC
940642 GAGCTTAACGAGTAAT
1 GAGCTTAACGAGTAAT
940658 GAGCTTAACGAGTAAT
1 GAGCTTAACGAGTAAT
940674 GAGCTTAA
1 GAGCTTAA
940682 TGAGCAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
GAGCTTAACGAGTAAT
Found at i:945559 original size:16 final size:17
Alignment explanation
Indices: 945528--945560 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
945518 ACTCAAAATT
945528 AATTTTTGATGTTTAAAG
1 AATTTTTGA-GTTTAAAG
945546 AATTTTTG-GTTTAAA
1 AATTTTTGAGTTTAAA
945561 ATAGGTGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (17 bp):
AATTTTTGAGTTTAAAG
Found at i:945907 original size:18 final size:18
Alignment explanation
Indices: 945884--945921 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
945874 TTTATATACC
945884 AATAAA-AATCTAGATTTA
1 AATAAATAAT-TAGATTTA
*
945902 AATAAATAATTTGATTTA
1 AATAAATAATTAGATTTA
945920 AA
1 AA
945922 CTTATCCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAAATAATTAGATTTA
Found at i:946593 original size:21 final size:21
Alignment explanation
Indices: 946547--946593 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
946537 ATACATCGCA
*
946547 AACGATTTTGTAATAAGATTT
1 AACGTTTTTGTAATAAGATTT
946568 AACGTTTTTGTAATAAGATTT
1 AACGTTTTTGTAATAAGATTT
946589 AACGT
1 AACGT
946594 GTTTCAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (21 bp):
AACGTTTTTGTAATAAGATTT
Found at i:946929 original size:19 final size:19
Alignment explanation
Indices: 946905--946965 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
946895 AAAACCGAAA
946905 TCGGTTTTTTCGGTTCGGT
1 TCGGTTTTTTCGGTTCGGT
*
946924 TCGGTTTTTT---TAACGGT
1 TCGGTTTTTTCGGT-TCGGT
*
946941 TCGGGTTTTTCGGTTCGGT
1 TCGGTTTTTTCGGTTCGGT
946960 TCGGTT
1 TCGGTT
946966 CGGTTTATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
19 19 0.56
20 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (19 bp):
TCGGTTTTTTCGGTTCGGT
Found at i:952367 original size:28 final size:25
Alignment explanation
Indices: 952332--952381 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
952322 AATGCACATA
952332 ATAATAATAATTAAAAACATTGTAC
1 ATAATAATAATTAAAAACATTGTAC
952357 ATAATAATAATTAAAAACATTGTAC
1 ATAATAATAATTAAAAACATTGTAC
952382 CGAATCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAATAATAATTAAAAACATTGTAC
Found at i:956791 original size:43 final size:42
Alignment explanation
Indices: 956695--956894 Score: 240
Period size: 42 Copynumber: 4.7 Consensus size: 42
956685 CTGCAAAAGG
* * * *
956695 TAGCGGCG-TTTTCTGAAAAATGCCGTAAAAGGTCAAGATCTA
1 TAGCGGCGTTTTTCT-TAAAACGCCGCAAAAGGTCAAGCTCTA
* *
956737 TAGCGGCGTTTTTCTTAAAACGCCACAAAAGGCCAAGCTCTA
1 TAGCGGCGTTTTTCTTAAAACGCCGCAAAAGGTCAAGCTCTA
* * *
956779 TAGCGCCGGTTTTCTTTAAAACGCCGCAAAAGGTCAAACTCTA
1 TAGCGGCGTTTTTC-TTAAAACGCCGCAAAAGGTCAAGCTCTA
* * *
956822 TAGCGGCGTTTTTCTTAAAACGTCGTAAAAGGTCAAGCTTTA
1 TAGCGGCGTTTTTCTTAAAACGCCGCAAAAGGTCAAGCTCTA
*
956864 TAGCGGCGTTTATTTTCTAAAACGCCGCAAA
1 TAGCGGCGTTT-TTCT-TAAAACGCCGCAAA
956895 TGTGTGGTCA
Statistics
Matches: 134, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 76 0.57
43 46 0.34
44 12 0.09
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTTTCTTAAAACGCCGCAAAAGGTCAAGCTCTA
Found at i:956852 original size:85 final size:84
Alignment explanation
Indices: 956695--956894 Score: 249
Period size: 85 Copynumber: 2.3 Consensus size: 84
956685 CTGCAAAAGG
* ** * *
956695 TAGCGGCGTTTTCTGAAAAATGCCGTAAAAGGTCAAGATCTATAGCGGCGTTTTTCTTAAAACGC
1 TAGCGCCGTTTTCTTTAAAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTCTTAAAACGC
956760 CACAAAAGGCCAAGCTCTA
66 CACAAAAGGCCAAGCTCTA
956779 TAGCGCCGGTTTTCTTTAAAACGCCGCAAAAGGTCAA-ACTCTATAGCGGCGTTTTTCTTAAAAC
1 TAGCGCC-GTTTTCTTTAAAACGCCGCAAAAGGTCAAGA-TCTATAGCGGCGTTTTTCTTAAAAC
* ** * *
956843 GTCGTAAAAGGTCAAGCTTTA
64 GCCACAAAAGGCCAAGCTCTA
* *
956864 TAGCGGCGTTTATTTTCTAAAACGCCGCAAA
1 TAGCGCCGTTT-TCTT-TAAAACGCCGCAAA
956895 TGTGTGGTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 11 0.11
85 75 0.75
86 14 0.14
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (84 bp):
TAGCGCCGTTTTCTTTAAAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTCTTAAAACGC
CACAAAAGGCCAAGCTCTA
Found at i:960677 original size:41 final size:40
Alignment explanation
Indices: 960627--961105 Score: 312
Period size: 41 Copynumber: 11.7 Consensus size: 40
960617 CTGATAAATT
* * *
960627 GCGGTGTTTATTCAAAAACGCCACTAAAGTATGGGTATTTA
1 GCGGCGTTTATGCAAAAACGCCACTAAAGTAT-AGTATTTA
* ** * * * * * * *
960668 GCGACGTTTATATAGAAACACCTCTAAAGTACGAATCTTTG
1 GCGGCGTTTATGCAAAAACGCCACTAAAGTA-TAGTATTTA
* * *
960709 GCGGCGTTTGTGCTTAAAATGCCACTAAAGTATAGTATTTA
1 GCGGCGTTTATGC-AAAAACGCCACTAAAGTATAGTATTTA
* * * *
960750 GCGGCATTTATACAAAAACGCCACTAAAGTACAAGCATTTA
1 GCGGCGTTTATGCAAAAACGCCACTAAAGTA-TAGTATTTA
* * * * * * *
960791 GCAGCGTTTGTGCTTAAAACACCACTAAAATACAATATTTA
1 GCGGCGTTTATGC-AAAAACGCCACTAAAGTATAGTATTTA
* * * * *
960832 GCGGCGTTTATACAAAAATGCCACTAAAGTACGAGCACTTA
1 GCGGCGTTTATGCAAAAACGCCACTAAAGTA-TAGTATTTA
* * * * *
960873 GCGTCGTTTGTGCTTAAAACGCCACTAAAGTATAGCATATA
1 GCGGCGTTTATGC-AAAAACGCCACTAAAGTATAGTATTTA
* * * * * *
960914 GCGGCGTTTTATACAAAAATGCCACTAAAGAACGAGCACTTA
1 GCGGCG-TTTATGCAAAAACGCCACTAAAGTA-TAGTATTTA
* * *
960956 GCGGCGTTTGTGCTTAAAATGCCACTAAAGTATAGTATTTA
1 GCGGCGTTTATGC-AAAAACGCCACTAAAGTATAGTATTTA
* ** * * * *
960997 GCGGCGTTTGTGCTTGAAACGCTACTAAAATACATTATTTA
1 GCGGCGTTTATGC-AAAAACGCCACTAAAGTATAGTATTTA
* * *
961038 GCGGCGTTTATAC-AAAACACCACTAAAGTATATTATTTA
1 GCGGCGTTTATGCAAAAACGCCACTAAAGTATAGTATTTA
* ** *
961077 ACGGCGTTTATATAAAAGCGCCACTAAAG
1 GCGGCGTTTATGCAAAAACGCCACTAAAG
961106 AACAAGTATA
Statistics
Matches: 334, Mismatches: 94, Indels: 21
0.74 0.21 0.05
Matches are distributed among these distances:
39 32 0.10
40 43 0.13
41 182 0.54
42 77 0.23
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTATGCAAAAACGCCACTAAAGTATAGTATTTA
Found at i:960798 original size:82 final size:82
Alignment explanation
Indices: 960641--961111 Score: 500
Period size: 82 Copynumber: 5.7 Consensus size: 82
960631 TGTTTATTCA
* * * * * * *
960641 AAAACGCCACTAAAGTATGGGTATTTAGCGACGTTTATATAGAAACACCTCTAAAGTACGAATC-
1 AAAACGCCACTAAAGTAT-AGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTAC-AAGCA
*
960705 TTTGGCGGCGTTTGTGCTT
64 TTTAGCGGCGTTTGTGCTT
* *
960724 AAAATGCCACTAAAGTATAGTATTTAGCGGCATTTATACAAAAACGCCACTAAAGTACAAGCATT
1 AAAACGCCACTAAAGTATAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAGCATT
*
960789 TAGCAGCGTTTGTGCTT
66 TAGCGGCGTTTGTGCTT
* * * * * * *
960806 AAAACACCACTAAAATACAATATTTAGCGGCGTTTATACAAAAATGCCACTAAAGTACGAGCACT
1 AAAACGCCACTAAAGTATAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAGCATT
*
960871 TAGCGTCGTTTGTGCTT
66 TAGCGGCGTTTGTGCTT
* * * * * *
960888 AAAACGCCACTAAAGTATAGCATATAGCGGCGTTTTATACAAAAATGCCACTAAAGAACGAGCAC
1 AAAACGCCACTAAAGTATAGTATTTAGCGGCG-TTTATACAAAAACGCCACTAAAGTACAAGCAT
960953 TTAGCGGCGTTTGTGCTT
65 TTAGCGGCGTTTGTGCTT
* * * ** * * **
960971 AAAATGCCACTAAAGTATAGTATTTAGCGGCGTTTGTGCTTGAAACGCTACTAAAATAC-ATTAT
1 AAAACGCCACTAAAGTATAGTATTTAGCGGCGTTTATAC-AAAAACGCCACTAAAGTACAAGCAT
* *
961035 TTAGCGGCGTTTATAC--
65 TTAGCGGCGTTTGTGCTT
* * * * * *
961051 AAAACACCACTAAAGTATATTATTTAACGGCGTTTATATAAAAGCGCCACTAAAGAACAAG
1 AAAACGCCACTAAAGTATAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAG
961112 TATACTACAA
Statistics
Matches: 324, Mismatches: 60, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
79 13 0.04
80 33 0.10
81 3 0.01
82 168 0.52
83 107 0.33
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (82 bp):
AAAACGCCACTAAAGTATAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACAAGCATT
TAGCGGCGTTTGTGCTT
Found at i:966166 original size:21 final size:21
Alignment explanation
Indices: 966140--966184 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
966130 ACGACGATGA
966140 TGGTGGTTGTGATGATCATGT
1 TGGTGGTTGTGATGATCATGT
966161 TGGTGGTTGTGATGATCATGT
1 TGGTGGTTGTGATGATCATGT
966182 TGG
1 TGG
966185 CGATAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.04, G:0.40, T:0.42
Consensus pattern (21 bp):
TGGTGGTTGTGATGATCATGT
Found at i:969225 original size:3 final size:3
Alignment explanation
Indices: 969217--969270 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
969207 CTTTTTTAAA
** ** *
969217 TAT TAT TAT CGT TAT T-T TAT TAT TAT TAT TAT TAT TAT GCT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
969264 TAT TAT T
1 TAT TAT T
969271 TTTTTATTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:969271 original size:9 final size:9
Alignment explanation
Indices: 969231--969281 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
969221 ATTATCGTTA
969231 TTTTATTAT
1 TTTTATTAT
*
969240 TATTATTAT
1 TTTTATTAT
*
969249 TATTATGCTTAT
1 T-TT-T-ATTAT
969261 TTTTATTAT
1 TTTTATTAT
969270 TTTT-TTAT
1 TTTTATTAT
969278 TTTT
1 TTTT
969282 TTTACATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.23
9 17 0.49
10 2 0.06
11 3 0.09
12 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTATTAT
Done.