Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005141.1 Hibiscus syriacus cultivar Beakdansim tig00011579_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: 117499
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3213 original size:5 final size:5
Alignment explanation
Indices: 3203--3266 Score: 96
Period size: 5 Copynumber: 13.2 Consensus size: 5
3193 ATATATATAT
* *
3203 TGATA TGATA TGAAA TGAT- TGATA TGATA TGATA TGATA TGGTA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
3252 TGATA T-ATA TGATA T
1 TGATA TGATA TGATA T
3267 AATAAATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
4 8 0.15
5 45 0.85
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:3225 original size:19 final size:19
Alignment explanation
Indices: 3201--3254 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
3191 TTATATATAT
3201 ATTGATATGATATGAAATG
1 ATTGATATGATATGAAATG
*
3220 ATTGATATGATATGATATG
1 ATTGATATGATATGAAATG
*
3239 ATATGGTATGATATGA
1 AT-TGATATGATATGA
3255 TATATATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (19 bp):
ATTGATATGATATGAAATG
Found at i:3237 original size:29 final size:29
Alignment explanation
Indices: 3195--3266 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
3185 TATTTTTTAT
3195 ATATATATTGATATGATATGAAATGAT-TG
1 ATATATA-TGATATGATATGAAATGATATG
**
3224 ATATGATATGATATGATATGGTATGATATG
1 ATAT-ATATGATATGATATGAAATGATATG
3254 ATATATATGATAT
1 ATATATATGATAT
3267 AATAAATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 30 0.77
30 9 0.23
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (29 bp):
ATATATATGATATGATATGAAATGATATG
Found at i:4954 original size:2 final size:2
Alignment explanation
Indices: 4947--4976 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4937 CACATGATGC
4947 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
4977 GAGCGGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18637 original size:14 final size:14
Alignment explanation
Indices: 18618--18656 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
18608 ATATTAATTT
18618 TAATTAACATTTTA
1 TAATTAACATTTTA
*
18632 TAATT-A-ATTTTT
1 TAATTAACATTTTA
18644 TAATTAACATTTT
1 TAATTAACATTTT
18657 TTTCTACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTAACATTTTA
Found at i:18657 original size:14 final size:14
Alignment explanation
Indices: 18615--18658 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
18605 GACATATTAA
18615 TTTTAATTAACATT
1 TTTTAATTAACATT
*
18629 TTATAATT-A-ATT
1 TTTTAATTAACATT
18641 TTTTAATTAACATT
1 TTTTAATTAACATT
18655 TTTT
1 TTTT
18659 TCTACAGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 14 0.54
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAATTAACATT
Found at i:18832 original size:42 final size:42
Alignment explanation
Indices: 18773--18856 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
18763 AAATTAATTT
18773 TGAATATGAGGATTTAAATATTTTAAAAAGATAATAAACGAC
1 TGAATATGAGGATTTAAATATTTTAAAAAGATAATAAACGAC
18815 TGAATATGAGGATTTAAATATTTTAAAAAGATAATAAACGAC
1 TGAATATGAGGATTTAAATATTTTAAAAAGATAATAAACGAC
18857 AGAGTCTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (42 bp):
TGAATATGAGGATTTAAATATTTTAAAAAGATAATAAACGAC
Found at i:19458 original size:16 final size:16
Alignment explanation
Indices: 19437--19481 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
19427 ACCCTTCCAC
19437 AAGTGTCACCCCTCAA
1 AAGTGTCACCCCTCAA
19453 AAGTGTCACCCCTCAA
1 AAGTGTCACCCCTCAA
19469 AAGTGTCACCCCT
1 AAGTGTCACCCCT
19482 GGAGCTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGTGTCACCCCTCAA
Found at i:32006 original size:20 final size:20
Alignment explanation
Indices: 31981--32173 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
31971 GATTTTTCAG
* ** *
31981 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
32001 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
32021 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32041 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
32061 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32081 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
32101 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
32121 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
32142 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
32162 AATCGCAACGCG
1 AATCGCAACGCG
32174 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:32592 original size:33 final size:33
Alignment explanation
Indices: 32553--32623 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
32543 TTCACTTAGA
32553 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
32586 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
32619 TTTCA
1 TTTCA
32624 AGTTAGTATT
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:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:32781 original size:19 final size:20
Alignment explanation
Indices: 32703--32795 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 20
32693 TGCAGAAGAG
32703 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
32724 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
32744 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
32766 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
32785 TCGCAACGAGA
1 TCGCAACGAGA
32796 GAATCGCAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 18 0.30
20 9 0.15
21 24 0.39
22 10 0.16
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:32798 original size:42 final size:41
Alignment explanation
Indices: 32703--32795 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 41
32693 TGCAGAAGAG
* * **
32703 TCGCAACGAGATAAATGAAAATCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
32744 TCTGCAACGAGAAAAATGAAAATCGCAACGCG-AAATGAAAA
1 TC-GCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
32785 TCGCAACGAGA
1 TCGCAACGAGA
32796 GAATCGCAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 9 0.19
41 11 0.23
42 27 0.57
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (41 bp):
TCGCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
Found at i:32844 original size:19 final size:19
Alignment explanation
Indices: 32817--32930 Score: 103
Period size: 19 Copynumber: 6.1 Consensus size: 19
32807 CGAAACCAAA
*
32817 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32836 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
32855 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
32869 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
32889 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
32909 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
32929 TC
1 TC
32931 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.12
16 3 0.04
17 3 0.04
19 31 0.39
20 19 0.24
21 14 0.17
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:32892 original size:21 final size:21
Alignment explanation
Indices: 32866--32930 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
32856 CGCGTTGCGA
32866 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
32887 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
32907 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
32928 TTC
1 TTC
32931 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:34774 original size:93 final size:93
Alignment explanation
Indices: 34615--34837 Score: 428
Period size: 93 Copynumber: 2.4 Consensus size: 93
34605 TAGATTGCTT
*
34615 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34680 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
34708 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
34773 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
34801 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
34838 AATACCCTGA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:34972 original size:14 final size:14
Alignment explanation
Indices: 34953--35009 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
34943 CGAAACTTAA
34953 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
34967 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
34986 AATCGCAACGACAG
1 AATCGCAACGAGAG
35000 AATCGCAACG
1 AATCGCAACG
35010 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:34991 original size:19 final size:18
Alignment explanation
Indices: 34967--35058 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
34957 GCAACGAGAG
34967 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
34986 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
35000 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
35019 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
35033 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
35052 AATCGCA
1 AATCGCA
35059 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:34993 original size:33 final size:33
Alignment explanation
Indices: 34935--35058 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
34925 TAGTTTACTT
* * *
34935 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
34969 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
35002 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
35035 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
35059 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:35035 original size:14 final size:14
Alignment explanation
Indices: 34984--35042 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
34974 ACGCGAAATG
34984 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
34998 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
35017 AAAATCGCAACGAC
1 AAAATCGCAACGAC
35031 AAAATCGCAACG
1 AAAATCGCAACG
35043 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:35076 original size:19 final size:19
Alignment explanation
Indices: 35054--35212 Score: 157
Period size: 19 Copynumber: 8.6 Consensus size: 19
35044 GAAACCAAAA
*
35054 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
35073 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
35092 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
**
35108 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
35125 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
35144 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
35163 TCGCGTTGCAATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
35182 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
35202 TCGTGTTGCGA
1 TCGCGTTGCGA
35213 AAGTAAACTA
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
14 7 0.06
16 4 0.03
17 5 0.04
19 92 0.77
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:37156 original size:14 final size:14
Alignment explanation
Indices: 37137--37172 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
37127 ATTGTTTAAT
37137 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
37151 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
37165 TGATTTGT
1 TGATTTGT
37173 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:37287 original size:19 final size:19
Alignment explanation
Indices: 37263--37350 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
37253 GCATTATGTT
37263 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
37282 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
37299 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
37315 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
37334 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
37351 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.48
20 16 0.26
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:37382 original size:53 final size:53
Alignment explanation
Indices: 37263--37369 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
37253 GCATTATGTT
37263 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
37315 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
37368 GA
1 GA
37370 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 19 0.35
53 35 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:37387 original size:19 final size:19
Alignment explanation
Indices: 37359--37672 Score: 336
Period size: 19 Copynumber: 17.7 Consensus size: 19
37349 AACGAGAGAA
*
37359 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37378 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
37397 TCCTCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
37414 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
37431 TCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
37450 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
37466 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
37483 TCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
37502 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
37518 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37535 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
37554 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
*
37571 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
37588 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37607 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
37626 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
37644 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
37660 TCGCATTGCGATT
1 TCGCATTGCGATT
37673 CTCTGGTTGC
Statistics
Matches: 248, Mismatches: 19, Indels: 56
0.77 0.06 0.17
Matches are distributed among these distances:
14 33 0.13
16 26 0.10
17 27 0.11
18 8 0.03
19 120 0.48
20 34 0.14
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:37479 original size:52 final size:52
Alignment explanation
Indices: 37365--37686 Score: 474
Period size: 52 Copynumber: 6.1 Consensus size: 52
37355 AGAATCGCAA
*
37365 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCTCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
37418 TGCGATTTTCATTTCGCATTACGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
37470 TGCGATTTTCATTTCGCATTACGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
37522 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
* *
37575 TGCAATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
* *
37633 TGCGATTTTC--TT-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTGGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
37680 TGCGATT
1 TGCGATT
37687 GTAATTTCCG
Statistics
Matches: 253, Mismatches: 9, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
47 8 0.03
49 1 0.00
50 2 0.01
51 3 0.01
52 112 0.44
53 107 0.42
54 3 0.01
55 3 0.01
56 4 0.02
58 10 0.04
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:37481 original size:33 final size:33
Alignment explanation
Indices: 37439--37686 Score: 223
Period size: 33 Copynumber: 7.2 Consensus size: 33
37429 TTTCGCATTA
37439 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
* *
37472 CGATTTTCATTTCGCATTACGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTG
* * * * *
37510 CGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTG
1 CGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTG
37543 CGATTTTCATTTCCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTT-CGCATTGCGATTCTCTCGTTG
* *
37577 CAATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTG
* *
37615 CGATTTTCATTTCCGCATTGCGATTTTCTTGTTG
1 CGATTTTCATTT-CGCATTGCGATTCTCTCGTTG
* *
37649 GGATTTTCATTTCGCATTGCGATTCTCTGGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
37682 CGATT
1 CGATT
37687 GTAATTTCCG
Statistics
Matches: 174, Mismatches: 23, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.02
32 6 0.03
33 66 0.38
34 31 0.18
35 8 0.05
36 11 0.06
37 4 0.02
38 22 0.13
39 13 0.07
40 9 0.05
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
Found at i:37485 original size:105 final size:104
Alignment explanation
Indices: 37365--37686 Score: 474
Period size: 105 Copynumber: 3.1 Consensus size: 104
37355 AGAATCGCAA
*
37365 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCTCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
37430 TTCGCATTACGATTTTCATTTCGCATTGCGATTCTCTCGT
65 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
37470 TGCGATTTTCATTTCGCATTACGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
37535 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
66 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
* *
37575 TGCAATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATT
* *
37640 TTC--TT-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTGGT
60 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
37680 TGCGATT
1 TGCGATT
37687 GTAATTTCCG
Statistics
Matches: 201, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
104 50 0.25
105 116 0.58
106 14 0.07
107 3 0.01
108 3 0.01
109 4 0.02
111 11 0.05
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (104 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:37597 original size:72 final size:71
Alignment explanation
Indices: 37365--37672 Score: 305
Period size: 72 Copynumber: 4.4 Consensus size: 71
37355 AGAATCGCAA
* * * *
37365 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCTCATTGCGATTCTCTC-GTTGCG-ATTTTC
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCCGCA-TTGC
* *
37428 -ATTTCGCAT
62 GATTTCTCGT
* * *
37437 TACGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT-CGCATTACGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
*
37496 T-TCAT
66 TCTCGT
* * * *
37501 TTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
37565 ATTCTCTCGT
63 ATT-TCTCGT
*
37575 TGCAATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-T
*
37640 TTCTTGT
65 TTCTCGT
*
37647 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
37673 CTCTGGTTGC
Statistics
Matches: 199, Mismatches: 21, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
64 16 0.08
65 12 0.06
66 17 0.09
68 4 0.02
69 6 0.03
70 3 0.02
71 15 0.08
72 111 0.56
73 7 0.04
74 8 0.04
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (71 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
TCTCGT
Found at i:39988 original size:12 final size:12
Alignment explanation
Indices: 39971--39995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39961 TCTTCGGGGA
39971 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39983 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39995 C
1 C
39996 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:40204 original size:24 final size:24
Alignment explanation
Indices: 40170--40216 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
40160 CTGAAACATC
40170 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
40194 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
40217 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:40939 original size:20 final size:20
Alignment explanation
Indices: 40923--41137 Score: 216
Period size: 20 Copynumber: 10.8 Consensus size: 20
40913 TGATTTACAT
*
40923 ATTCTCGTTGCGATTTACGG
1 ATTCGCGTTGCGATTTACGG
** * *
40943 ATTATCGTTGCGATTAACAG
1 ATTCGCGTTGCGATTTACGG
*
40963 ATTCTCGTTGCGATTTACGG
1 ATTCGCGTTGCGATTTACGG
**
40983 ATTATCGTTGCGATTTACGG
1 ATTCGCGTTGCGATTTACGG
* *
41003 ATACGCGTTGCGATATACGG
1 ATTCGCGTTGCGATTTACGG
* *
41023 ATACGCATTGCGATTTACGG
1 ATTCGCGTTGCGATTTACGG
* *
41043 ATACGCGTTGCTATTTACGG
1 ATTCGCGTTGCGATTTACGG
* * *
41063 ATACACGTTGCGGTTTACGG
1 ATTCGCGTTGCGATTTACGG
* *
41083 ATACGCGTTGCGATTTATGTG
1 ATTCGCGTTGCGATTTACG-G
* **
41104 -TTCGCGTTGCGATTTTCAT
1 ATTCGCGTTGCGATTTACGG
41123 ATTCGCGTTGCGATT
1 ATTCGCGTTGCGATT
41138 CTTGAAAATC
Statistics
Matches: 167, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 166 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGG
Found at i:41190 original size:21 final size:20
Alignment explanation
Indices: 41105--41202 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
41095 ATTTATGTGT
* *
41105 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
41125 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
41146 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
41167 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
41188 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
41203 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:41198 original size:42 final size:43
Alignment explanation
Indices: 41105--41203 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
41095 ATTTATGTGT
* *
41105 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
41146 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
41188 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
41204 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:48675 original size:140 final size:140
Alignment explanation
Indices: 48423--48705 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 140
48413 CAGATGTGTA
48423 ATATAAGAATATGATAACTAAATTCCAAGGAACCACGGTAGAAAAACTGATTGAAAGCACATAAC
1 ATATAAGAATATGATAACTAAATTCCAAGGAACCACGGTAGAAAAACTGATTGAAAGCACATAAC
48488 TACTTATGAACTTGAATACAAAGAATGATACCAAAGGATCAGTCTACAATGCTCACATTCAATCT
66 TACTTATGAACTTGAATACAAAGAATGATACCAAAGGATCAGTCTACAATGCTCACATTCAATCT
48553 TGTCATCTTT
131 TGTCATCTTT
*
48563 ATATAAGAATATGATAACTAAATTGCAAGGAACCACGGTAGAAAAACTGATTGAAAGCACATAAC
1 ATATAAGAATATGATAACTAAATTCCAAGGAACCACGGTAGAAAAACTGATTGAAAGCACATAAC
*
48628 TACTTATGAACTTGAATACAAAGAATGATATCAAAGGATCAGTCTACAATGCTCACATTCAATCT
66 TACTTATGAACTTGAATACAAAGAATGATACCAAAGGATCAGTCTACAATGCTCACATTCAATCT
48693 TGTCATCTTT
131 TGTCATCTTT
48703 ATA
1 ATA
48706 ATCTGCATCC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (140 bp):
ATATAAGAATATGATAACTAAATTCCAAGGAACCACGGTAGAAAAACTGATTGAAAGCACATAAC
TACTTATGAACTTGAATACAAAGAATGATACCAAAGGATCAGTCTACAATGCTCACATTCAATCT
TGTCATCTTT
Found at i:50778 original size:21 final size:21
Alignment explanation
Indices: 50754--50804 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
50744 GATTGGAGCT
50754 GTCGGCAG-CGACTGCATCGTC
1 GTCGGC-GTCGACTGCATCGTC
50775 GTCGGCGTCGACTGCATCGTC
1 GTCGGCGTCGACTGCATCGTC
50796 GTCGGCGTC
1 GTCGGCGTC
50805 TTGGAAGCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.10, C:0.33, G:0.35, T:0.22
Consensus pattern (21 bp):
GTCGGCGTCGACTGCATCGTC
Found at i:53025 original size:19 final size:20
Alignment explanation
Indices: 53001--53041 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
52991 ATTCATAACA
*
53001 TTATAACTTGAAT-TTTTAT
1 TTATAAATTGAATGTTTTAT
*
53020 TTATAAATTTAATGTTTTAT
1 TTATAAATTGAATGTTTTAT
53040 TT
1 TT
53042 TGTTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATAAATTGAATGTTTTAT
Found at i:62500 original size:20 final size:20
Alignment explanation
Indices: 62477--62528 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
62467 AACGCGATCC
62477 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
62497 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
62517 CCAAAATCGCAA
1 CCAGAATCGCAA
62529 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:62545 original size:21 final size:20
Alignment explanation
Indices: 62518--62616 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
62508 AATCAGTTTC
62518 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
62539 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
62560 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
62580 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
62601 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
62617 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:62645 original size:20 final size:20
Alignment explanation
Indices: 62583--62776 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
62573 CGATTTTCCA
* ** *
62583 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
62603 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
62623 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
62643 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
62663 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
62683 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
62703 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
62723 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
62743 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
62764 AAATCGCAACGCG
1 AAATCGCAACGCG
62777 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:62667 original size:60 final size:60
Alignment explanation
Indices: 62583--62776 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
62573 CGATTTTCCA
* ** * *
62583 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
62643 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
62703 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
62764 AAATCGCAACGCG
1 AAATCGCAACGCG
62777 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:63197 original size:33 final size:33
Alignment explanation
Indices: 63158--63228 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
63148 TTCACTTAGA
*
63158 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
63191 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
63224 TTTCA
1 TTTCA
63229 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:63368 original size:14 final size:14
Alignment explanation
Indices: 63349--63403 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
63339 GGAATGACTG
63349 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
63363 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
63382 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
63396 TCGCAACG
1 TCGCAACG
63404 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:63416 original size:33 final size:33
Alignment explanation
Indices: 63349--63419 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
63339 GGAATGACTG
***
63349 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
63382 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
63415 TCGCA
1 TCGCA
63420 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:63437 original size:19 final size:19
Alignment explanation
Indices: 63415--63512 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
63405 GAAACCAAAA
*
63415 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
63434 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
63448 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
63467 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
63481 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
63500 TCGCGTTGCGATT
1 TCGCGTTGCGATT
63513 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:63456 original size:14 final size:14
Alignment explanation
Indices: 63437--63526 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
63427 TTTCATTTCG
63437 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
63451 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
63470 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
63484 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
63501 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
63517 CGTTGCGATT
1 CGTTGCGATT
63527 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:63462 original size:33 final size:33
Alignment explanation
Indices: 63420--63534 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
63410 CAAAATCGCA
63420 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
63453 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
63486 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
63519 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
63535 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:64851 original size:93 final size:93
Alignment explanation
Indices: 64538--65009 Score: 930
Period size: 93 Copynumber: 5.1 Consensus size: 93
64528 TAGATTGCTT
64538 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT-TTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
64602 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
64630 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
64694 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
64722 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
64787 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
64815 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
64880 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
64908 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
64973 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
65001 AGTAAATTT
1 AGTAAATTT
65010 ATCCATTCAA
Statistics
Matches: 378, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 136 0.36
93 242 0.64
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:65093 original size:19 final size:19
Alignment explanation
Indices: 65053--65181 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
65043 TAGTTTACTT
* *
65053 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
65073 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
65092 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
65111 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
* **
65125 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
65144 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
65158 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
65177 TCGCA
1 TCGCA
65182 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:65136 original size:33 final size:32
Alignment explanation
Indices: 65089--65181 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
65079 CGCGAAACCA
65089 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
*
65121 AGAATCGCAATGCGAAATGAAAATCGCAACGAC
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
**
65154 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAATGAAAATCGCA
65182 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:65199 original size:19 final size:19
Alignment explanation
Indices: 65177--65311 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
65167 GAAACCAAAA
*
65177 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
65196 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
65212 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
65229 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
65245 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
65262 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
65281 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
65301 TCGTGTTGCGA
1 TCGCGTTGCGA
65312 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
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:65218 original size:14 final size:14
Alignment explanation
Indices: 65199--65255 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
65189 TTTCATTTCG
65199 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
65213 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
65230 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
65246 CGTTGCGATT
1 CGTTGCGATT
65256 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:65224 original size:33 final size:33
Alignment explanation
Indices: 65182--65274 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
65172 CAAAATCGCA
*
65182 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
65215 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
65248 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
65275 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:67170 original size:38 final size:38
Alignment explanation
Indices: 67127--67199 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
67117 TAATTGATTG
*
67127 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
67165 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
67200 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:67186 original size:19 final size:19
Alignment explanation
Indices: 67123--67186 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
67113 AGTTTAATTG
67123 ATTG-TTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
67141 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
67159 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
67179 ATTGATTT
1 ATTGATTT
67187 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 12, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
18 9 0.29
19 17 0.55
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:67200 original size:14 final size:14
Alignment explanation
Indices: 67181--67216 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
67171 ATTGTTTAAT
67181 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
67195 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
67209 TGATTTGT
1 TGATTTGT
67217 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:67351 original size:19 final size:19
Alignment explanation
Indices: 67329--67430 Score: 133
Period size: 19 Copynumber: 5.6 Consensus size: 19
67319 AAAAATGACT
67329 ATCGCAATGCGGAATGAAA
1 ATCGCAATGCGGAATGAAA
*
67348 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAATGAAA
*
67367 ATCGCAA--C-G-A-GAGA
1 ATCGCAATGCGGAATGAAA
*
67381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAATGAAA
67400 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGG-AATGAAA
67420 ATCGCAATGCG
1 ATCGCAATGCG
67431 TTTATAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 39 0.55
20 18 0.25
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGGAATGAAA
Found at i:67483 original size:19 final size:19
Alignment explanation
Indices: 67459--67746 Score: 331
Period size: 19 Copynumber: 16.4 Consensus size: 19
67449 GATTATCTCG
67459 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67478 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67497 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
67511 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67530 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67549 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
67568 TTGCGA--TT-ATGTCTG--
1 TTGCGATTTTCATTTC-GCA
67583 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67601 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
67620 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
67634 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
67653 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
67672 TTGCGATTCTCA---CG--
1 TTGCGATTTTCATTTCGCA
67686 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
67706 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
67720 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
67739 TTGCGATT
1 TTGCGATT
67747 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 8, Indels: 56
0.78 0.03 0.19
Matches are distributed among these distances:
14 37 0.16
15 2 0.01
16 26 0.11
17 23 0.10
18 5 0.02
19 128 0.55
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:67499 original size:52 final size:49
Alignment explanation
Indices: 67437--67746 Score: 291
Period size: 52 Copynumber: 5.9 Consensus size: 49
67427 TGCGTTTATA
*
67437 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-T-TCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
*
67489 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-T-TTTCGTTGCGA-TTTCATTTCGCGTTGCGATTTTC
* * *
67541 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTAT-GTCTGTT-CGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCG-C-GTTGCGATTTTC
* * * *
67593 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
* * * *
67645 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCACGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTC-ATT-TCGCGTTGCGATTTTC
*
67697 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTTTC--GTTGCGA-TTTCATTTCGCGTTGCGATT
67747 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 12, Indels: 25
0.86 0.04 0.09
Matches are distributed among these distances:
50 11 0.05
51 9 0.04
52 171 0.73
53 31 0.13
54 5 0.02
55 6 0.03
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (49 bp):
ATTTCGCATTGCGATTTTCGTTGCGATTTCATTTCGCGTTGCGATTTTC
Found at i:67534 original size:71 final size:72
Alignment explanation
Indices: 67459--67746 Score: 354
Period size: 71 Copynumber: 4.1 Consensus size: 72
67449 GATTATCTCG
67459 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTC-GTTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCTGTTGCGATTTTCA
67523 TTTCGCA
66 TTTCGCA
* *
67530 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATGTCTGTT-CGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCTGTTGCGATTTTCA
67594 TTTCGCA
66 TTTCGCA
*
67601 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTC-GCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCTG--TTGCGAT
67660 TTTCATTTCGCA
61 TTTCATTTCGCA
* *
67672 TTGCGATTCTCA---CG--TTGCGATTTTCATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTTTC-TGTTGCGATTTT
*
67730 CATTTCGCG
64 CATTTCGCA
67739 TTGCGATT
1 TTGCGATT
67747 GTATTTTCCG
Statistics
Matches: 193, Mismatches: 9, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.06
67 29 0.15
68 12 0.06
69 10 0.05
70 4 0.02
71 117 0.61
72 9 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCTGTTGCGATTTTCA
TTTCGCA
Found at i:67589 original size:123 final size:123
Alignment explanation
Indices: 67437--67679 Score: 452
Period size: 123 Copynumber: 2.0 Consensus size: 123
67427 TGCGTTTATA
67437 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
67502 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
*
67560 ATTTCGCATTGCGATTATGTCTGTT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTATCTC-GTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
67624 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
65 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
67680 CTCACGTTGC
Statistics
Matches: 117, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
123 114 0.97
124 3 0.03
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (123 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:67690 original size:33 final size:33
Alignment explanation
Indices: 67478--67746 Score: 253
Period size: 33 Copynumber: 7.8 Consensus size: 33
67468 TCATTTCGCA
*
67478 TTGCGATTTTCATTTCGCATTGCGATTCTT-TCG
1 TTGCGATTTTCATTTCGCATTGCGATT-TTCACG
67511 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCA---CG
*
67547 CATTGCGATTTTCATTTCGCATTGCGATTATGTC-TG
1 --TTGCGATTTTCATTTCGCATTGCGATT-T-TCACG
67583 TT-CGATTTTCATTTCGCATTGCGATTTTCA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCACG
* * * *
67613 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA---CG
*
67651 CATTGCGATTTTCATTTCGCATTGCGATTCTCACG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCACG
*
67686 TTGCGATTTTCATTTCCGCATTGCGATTTTCATG
1 TTGCGATTTTCATTT-CGCATTGCGATTTTCACG
* *
67720 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
67747 GTATTTTCCG
Statistics
Matches: 200, Mismatches: 14, Indels: 44
0.78 0.05 0.17
Matches are distributed among these distances:
30 2 0.01
31 7 0.04
32 7 0.04
33 92 0.46
34 32 0.16
35 2 0.01
36 3 0.01
38 41 0.20
39 5 0.03
40 9 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCACG
Found at i:70281 original size:24 final size:24
Alignment explanation
Indices: 70247--70293 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
70237 CTGAAACATC
70247 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
70271 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
70294 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:70994 original size:20 final size:20
Alignment explanation
Indices: 70966--71334 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
70956 AAATTTCAGT
* * * *
70966 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
70986 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
71006 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
71026 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
71046 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
71066 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
71086 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
71106 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
71126 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
71146 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
71166 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
71186 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
71206 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
71226 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
71246 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
71266 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
71286 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
71306 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
71326 GTTGCGATT
1 GTTGCGATT
71335 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:78038 original size:22 final size:22
Alignment explanation
Indices: 77995--78038 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
77985 AAATTTACAT
*
77995 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
78017 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
78039 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:80010 original size:17 final size:17
Alignment explanation
Indices: 79973--80015 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
79963 GGCTTCGCCT
*
79973 TTTTCTTTCTCTCTTAG
1 TTTTCTTTCTCTCTTAC
* *
79990 TTTTCTTTCTTTCTTTC
1 TTTTCTTTCTCTCTTAC
*
80007 TTTTTTTTC
1 TTTTCTTTC
80016 CCAATGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTAC
Found at i:80663 original size:16 final size:16
Alignment explanation
Indices: 80656--80688 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
80646 ATTAATAAAC
80656 ATAATAATAATAAATA
1 ATAATAATAATAAATA
80672 ATAATAATAATAAATA
1 ATAATAATAATAAATA
80688 A
1 A
80689 AAAAAACCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATAATAATAAATA
Found at i:80688 original size:13 final size:13
Alignment explanation
Indices: 80656--80681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80646 ATTAATAAAC
80656 ATAATAATAATAA
1 ATAATAATAATAA
80669 ATAATAATAATAA
1 ATAATAATAATAA
80682 TAAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:81029 original size:40 final size:40
Alignment explanation
Indices: 80973--81213 Score: 234
Period size: 40 Copynumber: 5.8 Consensus size: 40
80963 TATCTATGGT
* *
80973 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGA
81013 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGGAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGG-A
* *
81053 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG---TCT---GGGGA
* * * * * ** *
81099 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCATACGTGATGAAGA-GATCTGG---TCTGGGGA
* *
81142 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGA
*
81182 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
81214 CCATCTAAAG
Statistics
Matches: 167, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
39 4 0.02
40 98 0.59
42 1 0.01
43 30 0.18
46 30 0.18
47 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (40 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGA
Found at i:81130 original size:169 final size:171
Alignment explanation
Indices: 80834--81213 Score: 622
Period size: 169 Copynumber: 2.2 Consensus size: 171
80824 TATTGGTTGT
* * * * *
80834 TGGGGACGACACTGCTCATACGTGATGAAGAGTTTGGGTCGTCTAAAGGTGACACGGCTCCTACG
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTCT-GGTCGTCGAAA-GTGACACGGCTCATACG
* *
80899 TGATGAAGAGTTCTTGGCTATTTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
64 TGATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
80964 ATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
129 ATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
* *
81007 TGGGGATGACACGGCTCATACGTGATGAAGAGATCTGGTCG-GGGAA-TGACACGGCTCATACGT
1 TGGGGATGACACGGCTCATACGTGATGAAGAG-TCTGGTCGTCGAAAGTGACACGGCTCATACGT
81070 GATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
65 GATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
81134 TCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
130 TCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
81176 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGGGGATGACACGGCTCATACGTGATGAAGAG-TCTGG
81214 CCATCTAAAG
Statistics
Matches: 196, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
169 129 0.66
170 28 0.14
172 2 0.01
173 35 0.18
174 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (171 bp):
TGGGGATGACACGGCTCATACGTGATGAAGAGTCTGGTCGTCGAAAGTGACACGGCTCATACGTG
ATGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTAT
CTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
Found at i:81170 original size:129 final size:129
Alignment explanation
Indices: 81013--81265 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
81003 GGTCTGGGGA
81013 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGGAATGACACGGCTCATACGTGATGAAG
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGG-ATGACACGGCTCATACGTGATGAAG
81077 AGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
65 AGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
* *
81142 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
*
81207 GTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGATGAGGACGGCTGGTTATCT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT
81266 CTAGGATAAT
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
129 116 0.97
130 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
Found at i:81661 original size:35 final size:36
Alignment explanation
Indices: 81614--81696 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
81604 ACAAAATTCA
**
81614 TTTCAAGAGAAA-CGATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACCGAT-TCAAAGATGGTGAATTTTG
*
81649 TTTCAAGGGAAACCGATTCAAAGATGGTGAATTTTG
1 TTTCAAGAGAAACCGATTCAAAGATGGTGAATTTTG
81685 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
81697 TAAAATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 19 0.46
36 19 0.46
37 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACCGATTCAAAGATGGTGAATTTTG
Found at i:82055 original size:31 final size:30
Alignment explanation
Indices: 81991--82065 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
81981 ATAGAAAATG
*
81991 TTTCAAGTGAAACGACTCAAAAATGGTTTTA
1 TTTCAAGTGAAACAACTCAAAAAT-GTTTTA
*
82022 TTTCAAGTGAAACAAACTCAAAGAT-TTTGTA
1 TTTCAAGTGAAAC-AACTCAAAAATGTTT-TA
* *
82053 TTTCTAGAGAAAC
1 TTTCAAGTGAAAC
82066 TGCCTCAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 26 0.68
32 9 0.24
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (30 bp):
TTTCAAGTGAAACAACTCAAAAATGTTTTA
Found at i:82158 original size:40 final size:40
Alignment explanation
Indices: 82098--82177 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
82088 GTTTTAATAA
*
82098 AAACAATCTCAAAGGTGGGTAATTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGATGGGT-ATTTTCAAAAGAAATTGTCT
* * *
82138 AAACGATCTCAAATATGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGATGGGTATTTTCAAAAGAAATTGTCT
82178 CGAGAGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.14
40 30 0.86
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (40 bp):
AAACAATCTCAAAGATGGGTATTTTCAAAAGAAATTGTCT
Found at i:82231 original size:63 final size:63
Alignment explanation
Indices: 82159--82283 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 63
82149 AATATGGGTA
* * *
82159 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
* * *
82221 TTTTCCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTT-CAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
82284 GGATCCCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 4 0.07
63 13 0.24
64 38 0.69
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (63 bp):
TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
Found at i:82559 original size:66 final size:68
Alignment explanation
Indices: 82482--82673 Score: 203
Period size: 70 Copynumber: 2.8 Consensus size: 68
82472 AAACGGTCTC
* * * * *
82482 AAGAGATACAAAATTCAATTT-AAGAGAAACAGATTCAAAGA-TTTTTGTCTCAAAAGAAATTAT
1 AAGAGAGACAAAATTCAATTTCAAAAGAAACAAACTCAAAGATTTTTTGTCTCAAAAGAAACTAT
82545 CTT
66 CTT
*** *
82548 AAGAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTTTTGTTTCAAAAGAAACT
1 AAGAGAGACAAAATTCAATTTCAAAAGAAACAAACTCAAAGA--TTTTTTGTCTCAAAAGAAACT
82613 ATCTT
64 ATCTT
*** * *
82618 AAGAGAGA-AAGAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTT-TCGCAAAA
1 AAGAGAGACAA-AATTCAATTTCAAAAGAAACAAACTCAAAGATTTTTTGTCTCAAAA
82674 TTGTCTCAAG
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
66 17 0.16
67 23 0.21
68 6 0.06
69 2 0.02
70 61 0.56
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (68 bp):
AAGAGAGACAAAATTCAATTTCAAAAGAAACAAACTCAAAGATTTTTTGTCTCAAAAGAAACTAT
CTT
Found at i:82573 original size:37 final size:36
Alignment explanation
Indices: 82524--82648 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 36
82514 ATTCAAAGAT
* *
82524 TTTTGTCTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGA-AAAA
* * * ****
82561 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AGATTTT
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAA
82594 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAGAA
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAA-AA
*
82631 TTTTGTTTCCAAAGAAAC
1 TTTTGTTTCAAAAGAAAC
82649 AAACTCAAAG
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
33 20 0.30
34 5 0.07
35 2 0.03
36 5 0.07
37 35 0.52
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAA
Found at i:82616 original size:70 final size:70
Alignment explanation
Indices: 82523--82666 Score: 245
Period size: 70 Copynumber: 2.1 Consensus size: 70
82513 GATTCAAAGA
*
82523 TTTTTGTCTCAAAAGAAATTATCTTAAGAGAGACAA-AATTTTGTTTCAAAAGAAACAAACTCAA
1 TTTTTGTCTCAAAAGAAACTATCTTAAGAGAGA-AAGAATTTTGTTTCAAAAGAAACAAACTCAA
82587 AGATTT
65 AGATTT
* *
82593 TTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAGAATTTTGTTTCCAAAGAAACAAACTCAAA
1 TTTTTGTCTCAAAAGAAACTATCTTAAGAGAGAAAGAATTTTGTTTCAAAAGAAACAAACTCAAA
82658 GATTT
66 GATTT
82663 TTTT
1 TTTT
82667 CGCAAAATTG
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 2 0.03
70 68 0.97
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (70 bp):
TTTTTGTCTCAAAAGAAACTATCTTAAGAGAGAAAGAATTTTGTTTCAAAAGAAACAAACTCAAA
GATTT
Found at i:82731 original size:52 final size:53
Alignment explanation
Indices: 82651--82755 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 53
82641 AAAGAAACAA
* *
82651 ACTCAAAGATTTTTTTCGCAAAATTGTCTCAAGAGATACAAAACTTTGTTTCAG
1 ACTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
*
82705 ACTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
82756 AAATAAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 39 0.81
54 9 0.19
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (53 bp):
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
Found at i:82780 original size:26 final size:27
Alignment explanation
Indices: 82751--82872 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 27
82741 CAAAACTTTG
*
82751 TTTCAAAATAAATAGACTCAAAG-T-TT
1 TTTCAAAAGAAA-AGACTCAAAGATATT
*
82777 TTTCAAAAGAAACGACTCAAAGATATT
1 TTTCAAAAGAAAAGACTCAAAGATATT
* * *
82804 TATTCAAAAGGAACCA-ACTCCAAGATTTT
1 T-TTCAAAA-GAA-AAGACTCAAAGATATT
82833 TATTCAAAAGGAACAA-ACTCAAAGAT-TT
1 T-TTCAAAA-GAA-AAGACTCAAAGATATT
*
82861 TTTCAAGAGAAA
1 TTTCAAAAGAAA
82873 CTGTCTCAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
25 10 0.12
26 15 0.18
27 9 0.11
28 10 0.12
29 38 0.46
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGAAAAGACTCAAAGATATT
Found at i:82828 original size:29 final size:28
Alignment explanation
Indices: 82766--82866 Score: 120
Period size: 29 Copynumber: 3.7 Consensus size: 28
82756 AAATAAATAG
* *
82766 ACTCAAAG-TTTT-TTCAAAA-GAAACG
1 ACTCAAAGATTTTATTCAAAAGGAACCA
82791 ACTCAAAGATATTTATTCAAAAGGAACCA
1 ACTCAAAGAT-TTTATTCAAAAGGAACCA
* *
82820 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGA-TTTTATTCAAAAGGAACCA
82849 ACTCAAAGATTTT-TTCAA
1 ACTCAAAGATTTTATTCAA
82867 GAGAAACTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.12
26 1 0.02
27 8 0.12
28 11 0.17
29 37 0.56
30 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (28 bp):
ACTCAAAGATTTTATTCAAAAGGAACCA
Found at i:83194 original size:36 final size:35
Alignment explanation
Indices: 83110--83212 Score: 113
Period size: 36 Copynumber: 3.0 Consensus size: 35
83100 GAGAAAATGA
* *
83110 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AT
* **
83144 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAGT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAA-T
*
83180 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAA
83213 AACGATCTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 19 0.33
35 10 0.18
36 28 0.49
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAT
Found at i:83222 original size:36 final size:36
Alignment explanation
Indices: 83111--83229 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
83101 AGAAAATGAT
* * *
83111 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** ***
83145 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAGTT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
83181 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
83216 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
83230 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 38 0.56
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:83369 original size:105 final size:101
Alignment explanation
Indices: 83181--83413 Score: 265
Period size: 105 Copynumber: 2.3 Consensus size: 101
83171 TAGAGAAGTT
* *
83181 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
* *
83246 TGAAATAAATCCGAAATTTGGATCTCAAAGGGAAAAG
65 TGAAATAAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
83283 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTGTTT
* * * *
83347 -TTAGTG-AATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AAT-GTGAAAT-AAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
83388 GTCTCAAGCGAAACACAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
83414 AAAATTCTCA
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
101 5 0.04
102 21 0.19
103 2 0.02
104 8 0.07
105 76 0.68
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (101 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAATAAATCCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:83887 original size:4 final size:4
Alignment explanation
Indices: 83878--83921 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
83868 TGTATCATGG
83878 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
83922 ATACTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:85113 original size:12 final size:11
Alignment explanation
Indices: 85085--85122 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
85075 TCCTCTTTTG
*
85085 TTCTTTGCTTT
1 TTCTTTGATTT
85096 TTCTTTGATTT
1 TTCTTTGATTT
85107 TTGCTTTGATTT
1 TT-CTTTGATTT
85119 TTCT
1 TTCT
85123 CTTTTCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:85139 original size:12 final size:12
Alignment explanation
Indices: 85080--85126 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
85070 CTTTGTCCTC
85080 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
85092 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
85104 TTTTTGCTTTGA
1 TTTTTTCTTTGA
85116 TTTTTCTCTTT
1 TTTTT-TCTTT
85127 TCTCTTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 7 0.24
12 18 0.62
13 4 0.14
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:85817 original size:20 final size:20
Alignment explanation
Indices: 85789--85830 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
85779 CAAAGAGAGG
*
85789 GAATGTTTCAAGGTCTAAAA
1 GAATATTTCAAGGTCTAAAA
*
85809 GAATATTTCAAGGTCTCAAA
1 GAATATTTCAAGGTCTAAAA
85829 GA
1 GA
85831 GATAGAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (20 bp):
GAATATTTCAAGGTCTAAAA
Found at i:85837 original size:26 final size:25
Alignment explanation
Indices: 85761--85840 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 25
85751 TCAAGGTGGA
85761 AAGAATGTTTCAAGGTCTCAAAGAG
1 AAGAATGTTTCAAGGTCTCAAAGAG
*
85786 AGGGAATGTTTCAAGGTCT---A-A-
1 A-AGAATGTTTCAAGGTCTCAAAGAG
*
85807 AAGAATATTTCAAGGTCTCAAAGAG
1 AAGAATGTTTCAAGGTCTCAAAGAG
85832 ATAGAATGT
1 A-AGAATGT
85841 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
20 15 0.34
21 1 0.02
22 1 0.02
23 2 0.05
24 1 0.02
25 2 0.05
26 22 0.50
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (25 bp):
AAGAATGTTTCAAGGTCTCAAAGAG
Found at i:85839 original size:46 final size:45
Alignment explanation
Indices: 85747--85840 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 45
85737 AAAAATGCAG
* * *
85747 TGTTTCAAGGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
* *
85792 TGTTTCAAGGTCTAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
85838 TGT
1 TGT
85841 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 11 0.26
46 32 0.74
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:88325 original size:31 final size:32
Alignment explanation
Indices: 88269--88330 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
88259 TGACAAAATG
88269 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
88301 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
88331 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:89869 original size:22 final size:22
Alignment explanation
Indices: 89826--89869 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
89816 AAATTTACAT
*
89826 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
89848 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
89870 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:90251 original size:30 final size:28
Alignment explanation
Indices: 90194--90253 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
90184 ATTACAAACC
* *
90194 AAATAATATAAAAACATTTAAGAGGCTA
1 AAATAATATAAAAAAACTTAAGAGGCTA
*
90222 AAATAATATAAACAGAAACTTAGGAGGCTA
1 AAATAATATAAA-A-AAACTTAAGAGGCTA
90252 AA
1 AA
90254 CAGCAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 14 0.52
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.22
Consensus pattern (28 bp):
AAATAATATAAAAAAACTTAAGAGGCTA
Found at i:91835 original size:17 final size:17
Alignment explanation
Indices: 91798--91840 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
91788 GGCTTCGCCT
*
91798 TTTTCTTTCTCTCTTAG
1 TTTTCTTTCTCTCTTAC
* *
91815 TTTTCTTTCTTTCTTTC
1 TTTTCTTTCTCTCTTAC
*
91832 TTTTTTTTC
1 TTTTCTTTC
91841 CCAATGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTAC
Found at i:92490 original size:3 final size:3
Alignment explanation
Indices: 92482--92518 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
92472 ATTAATAAAC
92482 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
92519 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:100252 original size:15 final size:15
Alignment explanation
Indices: 100232--100270 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
100222 CATCATATAG
100232 TAATTTTTTTTTATT
1 TAATTTTTTTTTATT
** *
100247 TAATTTTAATTTCTT
1 TAATTTTTTTTTATT
100262 TAATTTTTT
1 TAATTTTTT
100271 ATATAAATTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TAATTTTTTTTTATT
Found at i:100775 original size:37 final size:37
Alignment explanation
Indices: 100699--100775 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
100689 TTTTTATATT
*
100699 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
100736 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
100773 TTT
1 TTT
100776 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:113212 original size:58 final size:60
Alignment explanation
Indices: 113104--113216 Score: 180
Period size: 58 Copynumber: 1.9 Consensus size: 60
113094 ACCTGTTAAT
113104 TTAATAAAAAATTCAAGCAGAAGGTCTATCCAAGACCCCAACATAAGTTGATAAAAATTC
1 TTAATAAAAAATTCAAGCAGAAGGTCTATCCAAGACCCCAACATAAGTTGATAAAAATTC
113164 TTAATAAAAAATATTCAAGCAGAA-GTCTATCC-A-A-CCCAACATAAGTTGATAAA
1 TTAAT-AAAAA-ATTCAAGCAGAAGGTCTATCCAAGACCCCAACATAAGTTGATAAA
113217 TTCTTTGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
58 19 0.37
59 1 0.02
60 6 0.12
61 13 0.25
62 12 0.24
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.24
Consensus pattern (60 bp):
TTAATAAAAAATTCAAGCAGAAGGTCTATCCAAGACCCCAACATAAGTTGATAAAAATTC
Done.