Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_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: 1633377
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:627780 original size:33 final size:33
Alignment explanation
Indices: 627735--627824 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
627725 AAAAAGTACT
*
627735 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
627768 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
627801 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
627825 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:627794 original size:19 final size:19
Alignment explanation
Indices: 627735--627795 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
627725 AAAAAGTACT
*
627735 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
627754 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
627768 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
627787 ATCGCAACG
1 ATCGCAACG
627796 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:627866 original size:33 final size:32
Alignment explanation
Indices: 627824--627950 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
627814 ATTAAATTCG
*
627824 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTACGATT-CCT
* * **
627857 CGTTGCGATTTTCATTTCACATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTACG--ATTCCT
627890 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTACGATTC-CT
*
627923 CGTTGCGATTTTCATTTCGTATTACGAT
1 CGTTGCGATTTTCATTTCGCATTACGAT
627951 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTACGATTCCT
Found at i:627897 original size:66 final size:66
Alignment explanation
Indices: 627817--627940 Score: 221
Period size: 66 Copynumber: 1.9 Consensus size: 66
627807 ACGCGAAATT
* *
627817 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCACATTGC
627882 G
66 G
*
627883 AAATTAGCGTTGCGATTTTCATTTCGCATTACGATTCTCTCGTTGCGATTTTCATTTC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTC
627941 GTATTACGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCACATTGC
G
Found at i:630264 original size:12 final size:12
Alignment explanation
Indices: 630247--630273 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
630237 GGGGAATTTT
630247 TTCTTTTTCTTC
1 TTCTTTTTCTTC
630259 TTCTTTTTCTTC
1 TTCTTTTTCTTC
630271 TTC
1 TTC
630274 AGGATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCTTTTTCTTC
Found at i:630482 original size:24 final size:24
Alignment explanation
Indices: 630448--630501 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
630438 CTGAAACATC
*
630448 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
630472 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
630496 ATCAAA
1 ATCAAA
630502 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:631411 original size:20 final size:20
Alignment explanation
Indices: 631364--631413 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
631354 GAGATAATAC
631364 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
631384 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
631404 AAAATCGCAA
1 AAAATCGCAA
631414 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:631659 original size:20 final size:20
Alignment explanation
Indices: 631627--631694 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
631617 CAACGGGGAA
*
631627 ATCGTAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
631647 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
631667 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
631687 ATCGCAAC
1 ATCGCAAC
631695 TAGAAAATCG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:631706 original size:34 final size:34
Alignment explanation
Indices: 631611--631714 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 34
631601 ATTCATTTGA
** * *
631611 CTATCGCAACGGGGAAATCGTAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
631645 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
631685 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
631715 TAAAAATCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 25 0.43
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 28 0.48
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:631762 original size:19 final size:19
Alignment explanation
Indices: 631721--631788 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
631711 GAAATAAAAA
631721 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
631737 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
631754 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
631773 TCGCATTGTGATTTTC
1 TCGCATTGCGATTTTC
631789 TCGTTGCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 29 0.63
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:631946 original size:14 final size:14
Alignment explanation
Indices: 631927--631961 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
631917 TCAATTAAAT
631927 AAATCAACATTTAC
1 AAATCAACATTTAC
* *
631941 AAATCATCTTTTAC
1 AAATCAACATTTAC
631955 AAATCAA
1 AAATCAA
631962 TTAAACAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACATTTAC
Found at i:633853 original size:20 final size:19
Alignment explanation
Indices: 633811--633908 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 19
633801 TAGTTTACTT
* *
633811 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
633831 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
*
633851 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
633870 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
633884 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
633903 TCGCAA
1 TCGCAA
633909 TGACAAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 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 23 0.37
20 21 0.33
21 3 0.05
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:633866 original size:19 final size:19
Alignment explanation
Indices: 633827--633940 Score: 97
Period size: 19 Copynumber: 6.5 Consensus size: 19
633817 CACGAAACTT
*
633827 AAAATCGCAACGCGAAAATG
1 AAAATCGCAATGCG-AAATG
**
633847 ACTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
633866 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
633880 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
633899 AAAATCGCAAT--G--A-C
1 AAAATCGCAATGCGAAATG
633913 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
633932 -AAATCGCAA
1 AAAATCGCAA
633941 CGACAAAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
14 21 0.28
15 2 0.03
16 3 0.04
17 3 0.04
18 11 0.15
19 24 0.32
20 11 0.15
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.14
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:633885 original size:14 final size:14
Alignment explanation
Indices: 633866--633956 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
633856 ATGCGAAATG
633866 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
633880 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
633899 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
633913 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
633929 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
633945 AAAATCGCAACG
1 AAAATCGCAACG
633957 TGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 31 0.50
15 1 0.02
16 9 0.15
17 1 0.02
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:633892 original size:33 final size:33
Alignment explanation
Indices: 633850--633954 Score: 194
Period size: 33 Copynumber: 3.2 Consensus size: 33
633840 GAAAATGACT
633850 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
633883 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
633916 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
633948 ATCGCAA
1 ATCGCAA
633955 CGTGAAACAC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 22 0.31
33 48 0.69
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:633969 original size:65 final size:66
Alignment explanation
Indices: 633850--633972 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
633840 GAAAATGACT
* *
633850 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAATGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAATGACAA
633915 A
66 A
*
633916 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGTGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
633973 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.68
66 16 0.30
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAATGACAA
A
Found at i:633990 original size:19 final size:19
Alignment explanation
Indices: 633968--634083 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
633958 GAAACACAAA
633968 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
633987 TCGCGTTGTGA-TTT--TG
1 TCGCATTGCGATTTTCATT
634003 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
634019 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
634035 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
634052 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
634071 TCCGCATTGCGAT
1 T-CGCATTGCGAT
634084 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
14 14 0.18
15 3 0.04
16 12 0.16
17 4 0.05
18 12 0.16
19 21 0.27
20 11 0.14
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:634013 original size:14 final size:14
Alignment explanation
Indices: 633990--634047 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
633980 TTTCATTTCG
*
633990 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
634004 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
634020 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
634036 CGTTGCGATTTT
1 CGTTGCGATTTT
634048 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:634054 original size:33 final size:33
Alignment explanation
Indices: 633973--634063 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
633963 ACAAATCGCA
* *
633973 TTGCGATTTTCATTTCGCGTTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
634006 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
634038 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
634064 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:634102 original size:20 final size:20
Alignment explanation
Indices: 634048--634091 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
634038 TTGCGATTTT
634048 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
634067 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
634087 CATTT
1 CATTT
634092 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:634598 original size:18 final size:18
Alignment explanation
Indices: 634572--634616 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
634562 GTCGATCAGA
*
634572 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
634590 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
634608 TGATGGCTC
1 TGATGGCTC
634617 CCAAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:635984 original size:20 final size:20
Alignment explanation
Indices: 635936--635994 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
635926 AATAGTTTCT
** *
635936 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
635956 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
635976 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
635995 AGAGAATAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:636284 original size:22 final size:22
Alignment explanation
Indices: 636257--636300 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
636247 GATGGAGATA
636257 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
636279 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
636301 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:636514 original size:20 final size:20
Alignment explanation
Indices: 636489--636540 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
636479 GTTATGTATT
636489 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
636509 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
636529 ATCTCGTTGCGA
1 ATCGCGTTGCGA
636541 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:636574 original size:20 final size:20
Alignment explanation
Indices: 636549--636600 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
636539 GATTTTGTAT
*
636549 TATCGCATTGTGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
636569 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
636589 TATCGTATTGCG
1 TATCGCATTGCG
636601 CTTTTCCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:636574 original size:61 final size:61
Alignment explanation
Indices: 636474--636592 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
636464 GAAAATCGCA
* * * *
636474 TTGCGGTTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCG
1 TTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCTCG
* * * * *
636535 TTGCGATTTTGTATTATCGCATTGTGATAGTAAGTATCGCATTGCGATAGTCAGTATC
1 TTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATC
636593 GTATTGCGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (61 bp):
TTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCTCG
Found at i:636600 original size:61 final size:61
Alignment explanation
Indices: 636468--636605 Score: 152
Period size: 61 Copynumber: 2.3 Consensus size: 61
636458 CGCTTTGAAA
* * * * * *
636468 ATCGCATTGCGGTTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGTATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
636529 ATC-TCGTTGCGATTTTGTATTATCGCATTGTGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGT-ATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
*
636590 ATCGTATTGCGCTTTT
1 ATCGTATTGCGATTTT
636606 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
61 61 0.98
62 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (61 bp):
ATCGTATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:636713 original size:21 final size:21
Alignment explanation
Indices: 636673--636713 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
636663 ACTATAGACC
** *
636673 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
636694 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
636714 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:639109 original size:19 final size:19
Alignment explanation
Indices: 639078--639118 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
639068 ACTGAGAACA
*
639078 AAAAGATAATAATTGTTAT
1 AAAAGATAATAATTGTCAT
639097 AAAA-ATAATTAATTGTCAT
1 AAAAGATAA-TAATTGTCAT
639116 AAA
1 AAA
639119 TATTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAAGATAATAATTGTCAT
Found at i:639397 original size:30 final size:28
Alignment explanation
Indices: 639351--639444 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 28
639341 ACACTCTTGT
639351 ATTTT-TTTTATTTTTGACATTAATGAA
1 ATTTTATTTTATTTTTGACATTAATGAA
* *
639378 ATTCTATTCTCTCTTTTTGACATTAATGAA
1 ATTTTATT-T-TATTTTTGACATTAATGAA
*
639408 TTTTTTATTTTATTTTTGACATTAATGAA
1 -ATTTTATTTTATTTTTGACATTAATGAA
639437 ATTTTATT
1 ATTTTATT
639445 ATGCCCCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.07
28 9 0.16
29 19 0.33
30 19 0.33
31 6 0.11
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (28 bp):
ATTTTATTTTATTTTTGACATTAATGAA
Found at i:639424 original size:29 final size:29
Alignment explanation
Indices: 639352--639446 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 29
639342 CACTCTTGTA
*
639352 TTTT-TTTTATTTTTGACATTAATGAA-A
1 TTTTATTTTATTTTTGACATTAATGAATT
* *
639379 TTCTATTCTCTCTTTTTGACATTAATGAATT
1 TTTTATT-T-TATTTTTGACATTAATGAATT
639410 TTTTATTTTATTTTTGACATTAATGAAATT
1 TTTTATTTTATTTTTGACATTAATG-AATT
639440 TTATTAT
1 TT-TTAT
639447 GCCCCAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
27 3 0.05
28 2 0.04
29 17 0.30
30 25 0.44
31 10 0.18
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTTATTTTATTTTTGACATTAATGAATT
Found at i:643385 original size:60 final size:59
Alignment explanation
Indices: 643321--643443 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 59
643311 TTTGAGTAAA
* * *
643321 TTTGGGGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATAAGAGTTATAG
1 TTTGGGAATGAAATTAGAATATTCAAAAGTTTAAGGAC-AATTTAAAATAAGAGTTATAG
* * * *
643381 TTTGGGAATTAAATTAGAATATTTAAAAGTTTAAGGACAATTTAAAATGAGATTTATAG
1 TTTGGGAATGAAATTAGAATATTCAAAAGTTTAAGGACAATTTAAAATAAGAGTTATAG
643440 TTTG
1 TTTG
643444 AGGACATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (59 bp):
TTTGGGAATGAAATTAGAATATTCAAAAGTTTAAGGACAATTTAAAATAAGAGTTATAG
Found at i:643510 original size:111 final size:111
Alignment explanation
Indices: 643377--643593 Score: 364
Period size: 111 Copynumber: 2.0 Consensus size: 111
643367 AATAAGAGTT
* *
643377 ATAGTTTGGGAATTAAATTAGAATATTTAAAAGTTTAAGGACAATTTAAAATGAGATTTATAGTT
1 ATAGTTTGGGAATGAAATTAGAATATTTAAAAGTTTAAGGACAATTTAAAATGAGACTTATAGTT
643442 TGAGGACATATAA-TGTAATTAACTCTATATTTTGTTTTAAAGAATC
66 TGAGGACATATAATTG-AATTAACTCTATATTTTGTTTTAAAGAATC
* * *
643488 ATAGTTTGGGGATGAAATTAGAATATTTAAAAGTTTAATGACAATTTAAAATGAGGCTTATAGTT
1 ATAGTTTGGGAATGAAATTAGAATATTTAAAAGTTTAAGGACAATTTAAAATGAGACTTATAGTT
*
643553 TGAGGACATATGATTGAATTAACTCTATATTTTGTTTTAAA
66 TGAGGACATATAATTGAATTAACTCTATATTTTGTTTTAAA
643594 TAACTATTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
111 97 0.98
112 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.40
Consensus pattern (111 bp):
ATAGTTTGGGAATGAAATTAGAATATTTAAAAGTTTAAGGACAATTTAAAATGAGACTTATAGTT
TGAGGACATATAATTGAATTAACTCTATATTTTGTTTTAAAGAATC
Found at i:644529 original size:39 final size:40
Alignment explanation
Indices: 644460--644539 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
644450 TATTTGGGAA
* ** *
644460 TTTATATTTTATTGAAATATGAATATATTATTTATAAATT
1 TTTATATTTGATTGAAATACAAATACATTATTTATAAATT
*
644500 TTTATATTTGATT-AAATACAAATACATTATTTATGAATT
1 TTTATATTTGATTGAAATACAAATACATTATTTATAAATT
644539 T
1 T
644540 ATATTCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 23 0.66
40 12 0.34
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (40 bp):
TTTATATTTGATTGAAATACAAATACATTATTTATAAATT
Found at i:645607 original size:23 final size:23
Alignment explanation
Indices: 645560--645608 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
645550 AATAACATAT
**
645560 TAGATACTGCTTATATAATGTAA
1 TAGATACTGCTTATATAATAAAA
645583 TAGATAGC-GCTTATATAATAAAA
1 TAGATA-CTGCTTATATAATAAAA
645606 TAG
1 TAG
645609 GTTAATTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (23 bp):
TAGATACTGCTTATATAATAAAA
Found at i:645681 original size:87 final size:87
Alignment explanation
Indices: 645532--645697 Score: 260
Period size: 87 Copynumber: 1.9 Consensus size: 87
645522 TCATTTAATC
* * *
645532 GGAAATATTATCAAACACAATAACATATTAGATACTGCTTATATAATGTAATAGATAGCGCTTAT
1 GGAAACATTATCAAACACAATAACATATTAGATACCGCTTATATAATGTAATAGATAACGCTTAT
645597 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* * *
645619 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAACGCTTAT
1 GGAAACATTATCAAACACAATAACATATTAGATACCGCTTATATAATGTAATAGATAACGCTTAT
**
645684 ATAATGTAATAGGT
66 ATAATAAAATAGGT
645698 AGCGCTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (87 bp):
GGAAACATTATCAAACACAATAACATATTAGATACCGCTTATATAATGTAATAGATAACGCTTAT
ATAATAAAATAGGTTAATTACT
Found at i:645711 original size:110 final size:110
Alignment explanation
Indices: 645568--645796 Score: 350
Period size: 110 Copynumber: 2.1 Consensus size: 110
645558 ATTAGATACT
* *
645568 GCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAA
1 GCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAAGTTAATTACTAGAAACATTATCAA
* *
645633 GCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAAC
66 GCACAATAACATATTAGGTACCGCTTATATAACGTAATAAGTAAC
* *
645678 GCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTAGAAATATTATCAA
1 GCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAAGTTAATTACTAGAAACATTATCAA
* ** * *
645743 GCATAATAACATATTAGGTAGTGTTTATATAACGTAATAAGTAGC
66 GCACAATAACATATTAGGTACCGCTTATATAACGTAATAAGTAAC
*
645788 GTTTATATA
1 GCTTATATA
645797 TTAAAATAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (110 bp):
GCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAAGTTAATTACTAGAAACATTATCAA
GCACAATAACATATTAGGTACCGCTTATATAACGTAATAAGTAAC
Found at i:645717 original size:23 final size:23
Alignment explanation
Indices: 645647--645711 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
645637 AATAACATAT
*
645647 TAGGTACCGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATGTAA
645670 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATGTAA
*
645693 TAGGTAGCGCTTATATAAT
1 TAGGTAACGCTTATATAAT
645712 AAAATAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATGTAA
Found at i:646546 original size:110 final size:111
Alignment explanation
Indices: 646188--646633 Score: 684
Period size: 110 Copynumber: 4.0 Consensus size: 111
646178 GTATTCATAC
* * * *
646188 TTTATAAAAATGTATCGATATTTTACAATATAACAAGTAAAAATATGAC--AACCAATTTCATTA
1 TTTATAAAAA-GGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTA
* *
646251 TGACAAAACAAGTAAAATTTATCTGATCTGTTGAAAGTATCGATCCTT
65 TGACAAAACAAGTAAAATTTACCTGATATGTTGAAAGTATCGATCC-T
* * *
646299 TTTATAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTAT
1 TTTATAAAAAGGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
*
646364 GACAAAA-AGGGTAAAATTTACCTGATATGTTGAAAGTATCGATCCT
66 GACAAAACA-AGTAAAATTTACCTGATATGTTGAAAGTATCGATCCT
*
646410 TTTATAAAAATGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
1 TTTATAAAAAGGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
*
646475 GACAAAA-AAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCT
66 GACAAAACAAGTAAAATTTACCTGATATGTTGAAAGTATCGATCCT
* *
646520 TTTATAAAAAGGATAAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTAT
1 TTTATAAAAAGGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
* * *
646585 GACAAAACCAGTAAAATTTACCTGATATGTTGAAAGTATAGATACT
66 GACAAAACAAGTAAAATTTACCTGATATGTTGAAAGTATCGATCCT
646631 TTT
1 TTT
646634 GGAATTTAAA
Statistics
Matches: 310, Mismatches: 21, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
110 138 0.45
111 118 0.38
112 54 0.17
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (111 bp):
TTTATAAAAAGGATAGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
GACAAAACAAGTAAAATTTACCTGATATGTTGAAAGTATCGATCCT
Found at i:646561 original size:221 final size:222
Alignment explanation
Indices: 646175--646633 Score: 737
Period size: 221 Copynumber: 2.1 Consensus size: 222
646165 TAGCGCCTAT
** * *
646175 AAAGTATTCATAC-TTTATAAAAATGTATCGATATTTTACAATATAACAAGTAAAAATATGACAA
1 AAAGTATAGATACTTTTATAAAAATGTATAGATACTTTACAATATAACAAGTAAAAATATGACAA
*
646239 CCAATTTCATTATGACAAAACAAGTAAAATTTATCTGATCTGTTGAAAGTATCGATCCTTTTTAT
66 CCAATTTCATTATGACAAAACAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCTTTTTAT
**
646304 AAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGACAA
131 AAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGACAA
**
646369 AAAGGGTAAAATTTACCTGATATGTTG
196 AAACAGTAAAATTTACCTGATATGTTG
* *
646396 AAAGTATCGATCCTTTTATAAAAATG-ATAGATACTTTACAATATAACAAGTAAAAATATGACAA
1 AAAGTATAGATACTTTTATAAAAATGTATAGATACTTTACAATATAACAAGTAAAAATATGAC--
*
646460 AACCAGTTTCATTATGACAAAA-AAGTAAAATTTATCTGATATGTTGAAAGTATCGATCC-TTTT
64 AACCAATTTCATTATGACAAAACAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCTTTTT
* *
646523 ATAAAAAGGATAAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGAC
129 ATAAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGAC
*
646588 AAAACCAGTAAAATTTACCTGATATGTTG
194 AAAAACAGTAAAATTTACCTGATATGTTG
646617 AAAGTATAGATACTTTT
1 AAAGTATAGATACTTTT
646634 GGAATTTAAA
Statistics
Matches: 219, Mismatches: 16, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
221 150 0.68
222 48 0.22
223 21 0.10
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (222 bp):
AAAGTATAGATACTTTTATAAAAATGTATAGATACTTTACAATATAACAAGTAAAAATATGACAA
CCAATTTCATTATGACAAAACAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCTTTTTAT
AAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGACAA
AAACAGTAAAATTTACCTGATATGTTG
Found at i:646861 original size:111 final size:111
Alignment explanation
Indices: 646667--647037 Score: 539
Period size: 111 Copynumber: 3.3 Consensus size: 111
646657 TAGCGCCTAT
* * * *
646667 AAAGTATCGATAC-TTTATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAA
1 AAAGTATCGATCCTTTTATAAAAA-GGATCGATACTTTACAATATAACAGGTAAAAATATGACAA
*
646731 AACCAGTTTCATTATGACAAAAACGATAAAATTTATCTGATATGTTG
65 AACCAGTTTCATTATGACAAAAACGATAAAATTTACCTGATATGTTG
* *
646778 AAAGTATCGATCCGTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
*
646843 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAAACGATAAAATTTACCTGATATGTTG
* * *
646889 AAAGTGTCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAAGTATAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * *
646954 ACCGGTTTTATTATGACAAAACCAGA-AAAATTTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAAAC-GATAAAATTTACCTGATATGTTG
* * * *
647000 AAAATATAGATACTTTTTATACAAAGGATCGATACTTT
1 AAAGTATCGAT-CCTTTTATAAAAAGGATCGATACTTT
647038 TTTGAAAGTT
Statistics
Matches: 236, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
111 201 0.85
112 35 0.15
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (111 bp):
AAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAAACGATAAAATTTACCTGATATGTTG
Found at i:646881 original size:272 final size:271
Alignment explanation
Indices: 646396--646893 Score: 854
Period size: 272 Copynumber: 1.8 Consensus size: 271
646386 TGATATGTTG
* * *
646396 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAAGTAAAAATATGACAAA
1 AAAGTATCGATACTTTTATAAAAATGATAGATAATTTACAATATAACAAGTAAAAATATAACAAA
*
646461 ACCAGTTTCATTATGACAAAAAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCTTTTATA
66 ACCAGTTTCATTATGACAAAAAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCGTTTATA
*
646526 AAAAGGATAAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAA
131 AAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAA
*
646591 ACCAGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTGGAATTTAAAAGAAAAACAGTA
196 AACAGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTGGAATTTAAAAGAAAAACAGTA
646656 ATAGCGCCTAT
261 ATAGCGCCTAT
* *
646667 AAAGTATCGATAC-TTTATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAA
1 AAAGTATCGATACTTTTATAAAAATG-ATAGATAATTTACAATATAACAAGTAAAAATATAACAA
*
646731 AACCAGTTTCATTATGACAAAAACGATAAAATTTATCTGATATGTTGAAAGTATCGATCCGTTTA
65 AACCAGTTTCATTATGACAAAAAAG-TAAAATTTATCTGATATGTTGAAAGTATCGATCCGTTTA
* **
646796 TAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACA
129 TAAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACA
*
646861 AAAACGGTAAAATTTACCTGATATGTTGAAAGT
194 AAAACAGTAAAATTTACCTGATATGTTGAAAGT
646894 GTCGATCCTT
Statistics
Matches: 212, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
270 12 0.06
271 70 0.33
272 130 0.61
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (271 bp):
AAAGTATCGATACTTTTATAAAAATGATAGATAATTTACAATATAACAAGTAAAAATATAACAAA
ACCAGTTTCATTATGACAAAAAAGTAAAATTTATCTGATATGTTGAAAGTATCGATCCGTTTATA
AAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAA
AACAGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTGGAATTTAAAAGAAAAACAGTA
ATAGCGCCTAT
Found at i:647373 original size:21 final size:21
Alignment explanation
Indices: 647349--647388 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
647339 TTAATTTTTT
647349 TTACAGTGAAA-TACCTACCTA
1 TTACA-TGAAACTACCTACCTA
*
647370 TTACATTAAACTACCTACC
1 TTACATGAAACTACCTACC
647389 GGATATGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (21 bp):
TTACATGAAACTACCTACCTA
Found at i:647740 original size:111 final size:112
Alignment explanation
Indices: 647473--647839 Score: 510
Period size: 111 Copynumber: 3.3 Consensus size: 112
647463 TGCCTATAAG
* * *
647473 GTATCGATAC--TTTATAAAAATGTATCGATATTTTACAATATAACAGGTAAAAATATGATAAAA
1 GTATCGATACTTTTTATAAAAA-GGATCGATACTTTACAATATAACATGTAAAAATATGATAAAA
*
647536 CCAGTTTCATTATGACAAAAACGGTAAAATTTACATAAT-TGTTGAAA
65 CCAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTGAAA
* *
647583 GTGTCGAT-CCTTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGATAAAAC
1 GTATCGATACTTTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGATAAAAC
*
647647 CAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAA
66 CAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTGAAA
* * * * *
647694 GTATCGATCCTTTTTAT-AAAAGGATCGATACTTTACAATATAACATGTATAAATATAACAAAAT
1 GTATCGATACTTTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGATAAAAC
* * * * *
647758 CAGTTTCATTACGACAAAACCGATAAAATTTACTTGATATGTTTAAA
66 CAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTGAAA
* * *
647805 TTATAGATACTTTTTATAAAAATGATCGATACTTT
1 GTATCGATACTTTTTATAAAAAGGATCGATACTTT
647840 TTTTAAAGTT
Statistics
Matches: 231, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
109 1 0.00
110 83 0.36
111 124 0.54
112 23 0.10
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (112 bp):
GTATCGATACTTTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGATAAAAC
CAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTGAAA
Found at i:647812 original size:802 final size:803
Alignment explanation
Indices: 646618--648124 Score: 2572
Period size: 802 Copynumber: 1.9 Consensus size: 803
646608 GATATGTTGA
*
646618 AAGTATAGATACTTTTGGAATTTAAAAGAAAAACAGTAATAGCGCCTATAAAGTATCGATACTTT
1 AAGTATAGACACTTTTGGAATTTAAAAGAAAAACAGTAATAGCGCCTATAAAGTATCGATACTTT
646683 ATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGA
66 ATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGA
* *
646748 CAAAAACGATAAAATTTATCTGATATGTTGAAAGTATCGATCCGTTTATAAAAATGATCGATACT
131 CAAAAACGATAAAATTTATCTAATATGTTGAAAGTATCGATCCGTTTATAAAAAGGATCGATACT
646813 TTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
196 TTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
*
646878 CTGATATGTTGAAAGTGTCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAAGTATA
261 CTGATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAAGTATA
* * * *
646943 AATATGACAAAACCGGTTTTATTATGACAAAACCAGAAAAATTTACCTGATATGTTGAAAATATA
326 AATATAACAAAACCAGTTTCATTACGACAAAACCAGAAAAATTTACCTGATATGTTGAAAATATA
*
647008 GATACTTTTTATACAAAGGATCGATACTTTTTTGAAAGTTATGTAATCTATGTTTCAAAAAATTT
391 GATACTTTTTATAAAAAGGATCGATACTTTTTTGAAAGTTATGTAATCTATGTTTCAAAAAATTT
*
647073 TAATAATGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATTAT
456 TAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATTAT
*
647138 TTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGAT
521 TTGATTGTTCTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGAT
* *
647203 AATAATAAATATGTAATATCTATGATTATTGTTTTTAATTTAATAATAATATATACTGTAACATA
586 AATAATAAATATGTAATATATATGATTATTGTTTTTAATTTAATAATAATATATACCGTAACATA
* *
647268 AAAAATAAATTATTAGAAGCGTATAATTACTAAATTAATATCTTAAATCTCACTCGAAAGATAAC
651 AAAAATAAATCATTAGAAGAGTATAATTACTAAATTAATATCTTAAATCTCACTCGAAAGATAAC
647333 CTTAAATTAATTTTTTTTACAGTGAAATACCTACCTATTACATTAAACTACCTACCGGATATGTT
716 CTTAAATTAATTTTTTTTACAGTGAAATACCTACCTATTACATTAAACTACCTACCGGATATGTT
647398 GAAAGTATCGATTCCATTTAAAT
781 GAAAGTATCGATTCCATTTAAAT
* * * *
647421 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAGTAATAGTGCCTATAAGGTATCGATACTTT
1 AAGTATAGACACTTTTGGAATTTAAAAGAAAAACAGTAATAGCGCCTATAAAGTATCGATACTTT
* * *
647486 ATAAAAATGTATCGATATTTTACAATATAACAGGTAAAAATATGATAAAACCAGTTTCATTATGA
66 ATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGA
* * *
647551 CAAAAACGGTAAAATTTA-CATAAT-TGTTGAAAGTGTCGATCCTTTTATAAAAAGGATCGATAC
131 CAAAAACGATAAAATTTATC-TAATATGTTGAAAGTATCGATCCGTTTATAAAAAGGATCGATAC
* *
647614 TTTACAATATAACATGTAAAAATATGATAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTA
195 TTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTA
*
647679 CCTGATATGTTGAAAGTATCGATCCTTTT-TATAAAAGGATCGATACTTTACAATATAACATGTA
260 CCTGATATGTTGAAAGTATCGATCCTTTTATA-AAAAGGATCGATACTTTACAATATAACAAGTA
* * * *
647743 TAAATATAACAAAATCAGTTTCATTACGACAAAACC-GATAAAATTTACTTGATATGTTTAAATT
324 TAAATATAACAAAACCAGTTTCATTACGACAAAACCAGA-AAAATTTACCTGATATGTTGAAAAT
* * * **
647807 ATAGATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAAATT
388 ATAGATACTTTTTATAAAAAGGATCGATACTTTTTTGAAAGTTATGTAATCTATGTTTCAAAAAA
* * *
647872 TTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
453 TTTTAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAAT
*
647937 TATTTGATTGTTCTGATATTTTATAAAATATTATTTAGAGTTTAAATTTAACAATTTTAACCAAA
518 TATTTGATTGTTCTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAA
*
648002 GATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAAC
583 GATAATAATAAATATGTAATATATATGATTATTGTTTTTAATTTAATAATAATATATACCGTAAC
*
648067 ATAAAAAATAAATCATTAGACGAGTATAATTACTAAATTAATATCTTAAATCTCACTC
648 ATAAAAAATAAATCATTAGAAGAGTATAATTACTAAATTAATATCTTAAATCTCACTC
648125 AAAAAAATGG
Statistics
Matches: 658, Mismatches: 43, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
801 4 0.01
802 512 0.78
803 142 0.22
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (803 bp):
AAGTATAGACACTTTTGGAATTTAAAAGAAAAACAGTAATAGCGCCTATAAAGTATCGATACTTT
ATAAAAATGTATCGATAATTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGA
CAAAAACGATAAAATTTATCTAATATGTTGAAAGTATCGATCCGTTTATAAAAAGGATCGATACT
TTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
CTGATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAATATAACAAGTATA
AATATAACAAAACCAGTTTCATTACGACAAAACCAGAAAAATTTACCTGATATGTTGAAAATATA
GATACTTTTTATAAAAAGGATCGATACTTTTTTGAAAGTTATGTAATCTATGTTTCAAAAAATTT
TAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATTAT
TTGATTGTTCTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATTTTAACCAAAGAT
AATAATAAATATGTAATATATATGATTATTGTTTTTAATTTAATAATAATATATACCGTAACATA
AAAAATAAATCATTAGAAGAGTATAATTACTAAATTAATATCTTAAATCTCACTCGAAAGATAAC
CTTAAATTAATTTTTTTTACAGTGAAATACCTACCTATTACATTAAACTACCTACCGGATATGTT
GAAAGTATCGATTCCATTTAAAT
Found at i:649229 original size:31 final size:31
Alignment explanation
Indices: 649167--649239 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
649157 TTTGGAGACC
*
649167 AATTTAGAATGAGAGACATAGTTTGATGATG
1 AATTTAGAATGAGAGACATAGTTTGAGGATG
* * *
649198 AATTTAGAATTATAGTCATAGTTT-AGGGATG
1 AATTTAGAATGAGAGACATAGTTTGA-GGATG
* *
649229 AAATTAAAATG
1 AATTTAGAATG
649240 CTTAAAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (31 bp):
AATTTAGAATGAGAGACATAGTTTGAGGATG
Found at i:650327 original size:85 final size:84
Alignment explanation
Indices: 650154--650457 Score: 434
Period size: 85 Copynumber: 3.6 Consensus size: 84
650144 ACAATTATGT
* * * *
650154 GTCATAAATCTATGACGCGCATTTATGACTTACATT-CGCGTCATTGAAGCCCCGTTATAAATTA
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCGTCATAAATTA
650218 AGATGACACACATTTGTGC
66 AGATGACACACATTTGTGC
* *
650237 GTCATAAATTTATGACATGCATGTATGACTTACATTGCGCGTCATGGAAGCCTCCGTCATAAATT
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCC-CCGTCATAAATT
650302 AAGATGACACACATTTGTGC
65 AAGATGACACACATTTGTGC
650322 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATC
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG-CCCCGTCATAAAT-
* * * *
650387 T--GCTTGAAATACATTTGTGT
64 TAAG-ATGACACACATTTGTGC
* * *
650407 GTCATAAATTTATGACACGCATATATGACTTACATTACGTGTCATTGAAGC
1 GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC
650458 ACACATCATT
Statistics
Matches: 201, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
83 32 0.16
84 16 0.08
85 150 0.75
86 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (84 bp):
GTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCGTCATAAATTA
AGATGACACACATTTGTGC
Found at i:650492 original size:85 final size:83
Alignment explanation
Indices: 650151--650494 Score: 381
Period size: 85 Copynumber: 4.1 Consensus size: 83
650141 CGCACAATTA
* * * *
650151 TGTGTCATAAATCTATGACGCGCATTTATGACTTACATT-CGCGTCATTGAAGCCCCGTTATAAA
1 TGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCGTCATAAA
* *
650215 TTAAGATGACACACATTTG
66 -TAAGACGACAAACATTTG
* * *
650234 TGCGTCATAAATTTATGACATGCATGTATGACTTACATTGCGCGTCATGGAAGCCTCCGTCATAA
1 TGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCC-CCGTCATAA
* *
650299 ATTAAGATGACACACATTTG
65 A-TAAGACGACAAACATTTG
*
650319 TGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAA
1 TGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG-CCCCGTCATAA
**
650384 ATCTG-CTTGA-AATACATTTG
65 ATAAGAC--GACAA-ACATTTG
* * * * *
650404 TGTGTCATAAATTTATGACACGCATATATGACTTACATTACGTGTCATTGAAGCACACATCATTT
1 TGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC-CCCGTCA--T
* *
650469 AAA-AAGACGACAAACGTTCG
63 AAATAAGACGACAAACATTTG
650489 TGTGTC
1 TGTGTC
650495 GTAATTGTAT
Statistics
Matches: 227, Mismatches: 23, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
83 34 0.15
84 18 0.08
85 165 0.73
86 5 0.02
87 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (83 bp):
TGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCGTCATAAA
TAAGACGACAAACATTTG
Found at i:650521 original size:2 final size:2
Alignment explanation
Indices: 650514--650572 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
650504 TTTCGGAAAT
* *
650514 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
650556 TA AA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
650573 TGTAGATTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:656794 original size:20 final size:20
Alignment explanation
Indices: 656769--656808 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
656759 TTTTGGTGCA
*
656769 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
656789 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
656809 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:656849 original size:21 final size:21
Alignment explanation
Indices: 656812--656851 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
656802 CCCCCTTTGA
*
656812 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
656833 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
656852 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:659492 original size:22 final size:22
Alignment explanation
Indices: 659464--659513 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
659454 GGAACTGGTT
659464 CCCCCTAAGGGGGTACCGATTC
1 CCCCCTAAGGGGGTACCGATTC
659486 CCCCCTAAGGGGGTACCGATTC
1 CCCCCTAAGGGGGTACCGATTC
659508 CCCCCT
1 CCCCCT
659514 GAATGGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (22 bp):
CCCCCTAAGGGGGTACCGATTC
Found at i:670589 original size:14 final size:14
Alignment explanation
Indices: 670566--670605 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
670556 TTATCCGGGA
*
670566 AATAAATATTATAT
1 AATAATTATTATAT
*
670580 AATAATTATTGTAT
1 AATAATTATTATAT
*
670594 TATAATTATTAT
1 AATAATTATTAT
670606 TATTATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
AATAATTATTATAT
Found at i:670599 original size:17 final size:15
Alignment explanation
Indices: 670566--670640 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
670556 TTATCCGGGA
*
670566 AATAAATATTA-TAT
1 AATAATTATTATTAT
670580 AATAATTATTGTATTAT
1 AATAATTA-T-TATTAT
*
670597 AATTATTATTATTAT
1 AATAATTATTATTAT
670612 AA-AATT-TTAATTATT
1 AATAATTATT-ATTA-T
*
670627 ATTAA-TATTATTAT
1 AATAATTATTATTAT
670641 TTTACAACGT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
13 2 0.04
14 15 0.30
15 16 0.32
16 7 0.14
17 10 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
AATAATTATTATTAT
Found at i:676373 original size:7 final size:6
Alignment explanation
Indices: 676355--676393 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
676345 AATGACACCT
* *
676355 TTTGTA TTTGCA TTTTGCA TTTGCA TTTGCA TTTACA TT
1 TTTGCA TTTGCA -TTTGCA TTTGCA TTTGCA TTTGCA TT
676394 GTATGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.56
Consensus pattern (6 bp):
TTTGCA
Found at i:676376 original size:13 final size:13
Alignment explanation
Indices: 676354--676393 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
676344 GAATGACACC
*
676354 TTTTGTATTTGCA
1 TTTTGCATTTGCA
676367 TTTTGCATTTGCA
1 TTTTGCATTTGCA
*
676380 -TTTGCATTTACA
1 TTTTGCATTTGCA
676392 TT
1 TT
676394 GTATGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (13 bp):
TTTTGCATTTGCA
Found at i:679817 original size:125 final size:125
Alignment explanation
Indices: 679605--679894 Score: 418
Period size: 125 Copynumber: 2.3 Consensus size: 125
679595 GGGGCATGGT
* * * * * * **
679605 TGAAGCCACATCATGTTGAGATGACCAGATTCATAACAAGTAGGCGTTGAGAATGAGCCTTACAA
1 TGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATAAAGAATGAGCCTTACAA
* *
679670 TTTGAGGTGATGGGGCATTTTGAAGGCCTGTACTAGTATAAGATAATGTGGGGGCACGAC
66 TTTGAGGTGATGGGGCATTTTGAAGGCCTGTACCAGTATAAGATAAGGTGGGGGCACGAC
*
679730 TGAACCCATATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATAAAGAATGAGCCTTACAA
1 TGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATAAAGAATGAGCCTTACAA
* * *
679795 TTTGGGGTGATGGGGCATTTTGAAGGCTTGTACCAGTATAAGATAAGGTTGGGGCACGAC
66 TTTGAGGTGATGGGGCATTTTGAAGGCCTGTACCAGTATAAGATAAGGTGGGGGCACGAC
* * **
679855 TGAACCCACGTCATGATGAGAAAACAAGATTCAGACCAAG
1 TGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAG
679895 AAGTCATGGA
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 146 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (125 bp):
TGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATAAAGAATGAGCCTTACAA
TTTGAGGTGATGGGGCATTTTGAAGGCCTGTACCAGTATAAGATAAGGTGGGGGCACGAC
Found at i:681185 original size:42 final size:41
Alignment explanation
Indices: 681108--681209 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
681098 TTCAAAATTT
* * * * *
681108 ATAAGTCCTTCGGGCCATCAGTTAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
681149 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
681191 ATAAATCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
681210 CATAAGACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:681188 original size:217 final size:216
Alignment explanation
Indices: 680666--681233 Score: 937
Period size: 212 Copynumber: 2.6 Consensus size: 216
680656 TTACTAAACT
*
680666 ATTTCCAAAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTT
1 ATTT-CAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTT
* * *
680731 CGGGTTATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGG
65 CGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGG
* * *
680796 TATGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATATTTTAAAAAGATGGAATTTTTGAA
130 TAGGATGTTTTCACATGAATTTGAAAATGAAAAAAACGATATTCTAAAAAGATGGAATTTTTGAA
*
680861 AACAAAGAATGCGATTTTCAAA
195 AACAAAGAATGCAATTTTCAAA
* *
680883 A--TC--AATTTATAAATCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTC
1 ATTTCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTC
*
680944 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTCGGGT
66 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGT
* *
681009 AGGATGTTTTCACATGAATTTGAAAATGAAAAAAAACGATGTTCTAAGAAGATGGAATTTTTGAA
131 AGGATGTTTTCACATGAATTTGAAAATG-AAAAAAACGATATTCTAAAAAGATGGAATTTTTGAA
*
681074 AACGAAGAATGCAATTTTCAAA
195 AACAAAGAATGCAATTTTCAAA
* *
681096 ATTTCAAAATTTATAAGTCCTTCGGGCCATCAGTTAGTCTTTCGAGCATGATGCTTAAATCCTTC
1 ATTTCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTC
*
681161 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAATCCTTCGGGCCATCCATAAGACCTTCGGGT
66 GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGT
681226 AGGATGTT
131 AGGATGTT
681234 ACTTAAGCGT
Statistics
Matches: 326, Mismatches: 20, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
212 143 0.44
213 53 0.16
214 1 0.00
215 3 0.01
217 126 0.39
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (216 bp):
ATTTCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTC
GGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGT
AGGATGTTTTCACATGAATTTGAAAATGAAAAAAACGATATTCTAAAAAGATGGAATTTTTGAAA
ACAAAGAATGCAATTTTCAAA
Found at i:681284 original size:99 final size:99
Alignment explanation
Indices: 681144--681332 Score: 324
Period size: 99 Copynumber: 1.9 Consensus size: 99
681134 CTTTCGAGCA
* *
681144 TGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAATCCTTCGGGCCAT
1 TGATGATTAAATCCTTCGGGTCATCTATAAGCCTTTAGAGCAAGATGATAAATCCTTCGGGCCAT
681209 CCATAAGACCTTCGGGTAGGATGTTACTTAAGCG
66 CCATAAGACCTTCGGGTAGGATGTTACTTAAGCG
* * *
681243 TGATGATTAAATCCTTCGGGTCATCTATAAGCCTTTTGAGCAAGATGTTAAGTCCTTCGGGCCAT
1 TGATGATTAAATCCTTCGGGTCATCTATAAGCCTTTAGAGCAAGATGATAAATCCTTCGGGCCAT
*
681308 CCATAAGACCTTTGGGTAGGATGTT
66 CCATAAGACCTTCGGGTAGGATGTT
681333 TTCACATGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (99 bp):
TGATGATTAAATCCTTCGGGTCATCTATAAGCCTTTAGAGCAAGATGATAAATCCTTCGGGCCAT
CCATAAGACCTTCGGGTAGGATGTTACTTAAGCG
Found at i:681630 original size:14 final size:13
Alignment explanation
Indices: 681607--681651 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
681597 TGTCTAGGAA
681607 ATAAATATTATATT
1 ATAAA-ATTATATT
681621 ATAATAATTATTATT
1 ATAA-AATTA-TATT
681636 ATAAAATTATAATT
1 ATAAAATTAT-ATT
681650 AT
1 AT
681652 TATTAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 18 0.64
15 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATAAAATTATATT
Found at i:681632 original size:17 final size:17
Alignment explanation
Indices: 681606--681666 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
681596 TTGTCTAGGA
*
681606 AATAAATATTATATTAT
1 AATAATTATTATATTAT
681623 AATAATTA-T-TATTAT
1 AATAATTATTATATTAT
*
681638 AA-AATTATAATTATTATT
1 AATAATTATTA-TATTA-T
681656 AAT-ATTATTAT
1 AATAATTATTAT
681667 TTTACAACGT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 1 0.03
17 13 0.36
18 9 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATTATTATATTAT
Found at i:681637 original size:20 final size:20
Alignment explanation
Indices: 681612--681663 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
681602 AGGAAATAAA
681612 TATTATATTATAATAATTAT
1 TATTATATTATAATAATTAT
** *
681632 TATTATAAAATTATAATTAT
1 TATTATATTATAATAATTAT
681652 TATTAATATTAT
1 TATT-ATATTAT
681664 TATTTTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATTATAATAATTAT
Found at i:687473 original size:22 final size:22
Alignment explanation
Indices: 687445--687497 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
687435 TAAAAAAAAT
687445 CTTAAACTTAACTCAGTTGAAG
1 CTTAAACTTAACTCAGTTGAAG
687467 CTTAAACTTAACTCAGTTGAAG
1 CTTAAACTTAACTCAGTTGAAG
687489 CTTAAACTT
1 CTTAAACTT
687498 GAATTCGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAAACTTAACTCAGTTGAAG
Found at i:690235 original size:13 final size:12
Alignment explanation
Indices: 690217--690264 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
690207 GAAAGAGAAG
690217 AAAATAAAAGAGA
1 AAAATAAAA-AGA
690230 AAAATAAAAAGGA
1 AAAATAAAAA-GA
*
690243 AAAATAAAAAAA
1 AAAATAAAAAGA
690255 AAAGATAAAA
1 AAA-ATAAAA
690265 GGGTATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 5 0.16
13 27 0.84
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (12 bp):
AAAATAAAAAGA
Found at i:692096 original size:19 final size:20
Alignment explanation
Indices: 692072--692115 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
692062 GGGTACGACA
* *
692072 TATAAAATA-ATTTTAAAAT
1 TATAAAATAGATGTAAAAAT
692091 TAT-AAATAGATGTAAAAAT
1 TATAAAATAGATGTAAAAAT
692110 TATAAA
1 TATAAA
692116 TAAAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TATAAAATAGATGTAAAAAT
Found at i:693401 original size:17 final size:17
Alignment explanation
Indices: 693376--693425 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
693366 GTCACGACCC
693376 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
693393 GACCTGA--C--CCGTT
1 GACCCGACCCGACCGTT
693406 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
693423 GAC
1 GAC
693426 TGTTGACCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 11 0.41
15 2 0.07
17 14 0.52
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:693406 original size:13 final size:13
Alignment explanation
Indices: 693381--693416 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
693371 GACCCGACCC
693381 GACCCGA-CCGTT
1 GACCCGACCCGTT
*
693393 GACCTGACCCGTT
1 GACCCGACCCGTT
693406 GACCCGACCCG
1 GACCCGACCCG
693417 ACCGTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.17, C:0.44, G:0.25, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:693538 original size:57 final size:58
Alignment explanation
Indices: 693434--693570 Score: 215
Period size: 57 Copynumber: 2.4 Consensus size: 58
693424 ACTGTTGACC
* *
693434 GGTGCTATTTTGGTAAATAATTTAGTTTTGGTGTTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTTAGTTTTGGTGTTATTCTGGTAAATAATTCAATTTT
693492 GGTGCTATTCTGGTAAATAATTT-GTTTTGGT-TCTATTCTGGTAAATAATTCAATTTT
1 GGTGCTATTCTGGTAAATAATTTAGTTTTGGTGT-TATTCTGGTAAATAATTCAATTTT
* *
693549 GGTGCTAGTCTGGTAATTAATT
1 GGTGCTATTCTGGTAAATAATT
693571 CAAAATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
56 1 0.01
57 51 0.69
58 22 0.30
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.48
Consensus pattern (58 bp):
GGTGCTATTCTGGTAAATAATTTAGTTTTGGTGTTATTCTGGTAAATAATTCAATTTT
Found at i:693573 original size:29 final size:29
Alignment explanation
Indices: 693434--693572 Score: 199
Period size: 29 Copynumber: 4.8 Consensus size: 29
693424 ACTGTTGACC
* *
693434 GGTGCTATTTTGGTAAATAATTTAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
*
693463 GGTGTTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
*
693492 GGTGCTATTCTGGTAAATAATT-TGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
* *
693520 GGTTCTATTCTGGTAAATAATTCAATTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
* *
693549 GGTGCTAGTCTGGTAATTAATTCA
1 GGTGCTATTCTGGTAAATAATTCA
693573 AAATGGGTGT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 26 0.27
29 72 0.73
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCAGTTTT
Found at i:693581 original size:29 final size:29
Alignment explanation
Indices: 693528--693613 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 29
693518 TTGGTTCTAT
* ** *
693528 TCTGGTAAATAATTCAATTTTGGTGCTAG
1 TCTGGTAATTAATTCAAAATGGGTGCTAG
* *
693557 TCTGGTAATTAATTCAAAATGGGTGTTAT
1 TCTGGTAATTAATTCAAAATGGGTGCTAG
* * * *
693586 TTTGGTAATTATTTTAAAAAGGGTGCTA
1 TCTGGTAATTAATTCAAAATGGGTGCTA
693614 TTTGTGTAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (29 bp):
TCTGGTAATTAATTCAAAATGGGTGCTAG
Found at i:700832 original size:18 final size:17
Alignment explanation
Indices: 700809--700843 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
700799 TGACCGGTCA
700809 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
700827 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
700844 GTTGATCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:700895 original size:29 final size:29
Alignment explanation
Indices: 700851--700989 Score: 208
Period size: 29 Copynumber: 4.8 Consensus size: 29
700841 ACCGTTGATC
*
700851 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *
700880 GGTGCGATTCTAGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *
700909 GGTGCTATTATGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
700938 GGTGCTATTCTGGTAAATAATTTGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
700967 -GTGCTATTCTGGTAATTAATTCG
1 GGTGCTATTCTGGTAAATAATTCG
700990 AAATAGGTTC
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 21 0.21
29 77 0.79
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:701003 original size:57 final size:58
Alignment explanation
Indices: 700851--701010 Score: 162
Period size: 58 Copynumber: 2.8 Consensus size: 58
700841 ACCGTTGATC
* * ** * * *
700851 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCGATTCTAGTAAATAATTCGGTTTT
1 GGTGCTATTATGGTAAATAATTCAGAATAGGTGCTATTCTGGTAAATAATTCGGTTTT
** * *
700909 GGTGCTATTATGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTTGGTTTT
1 GGTGCTATTATGGTAAATAATTCAGAATAGGTGCTATTCTGGTAAATAATTCGGTTTT
* * * *
700967 -GTGCTATTCTGGTAATTAATTC-GAAATAGGTTCTATTTTGGTAA
1 GGTGCTATTATGGTAAATAATTCAG-AATAGGTGCTATTCTGGTAA
701011 TTATTTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
56 1 0.01
57 35 0.39
58 53 0.60
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (58 bp):
GGTGCTATTATGGTAAATAATTCAGAATAGGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:706185 original size:196 final size:197
Alignment explanation
Indices: 705821--706217 Score: 638
Period size: 196 Copynumber: 2.0 Consensus size: 197
705811 TGAATGACCA
*
705821 AAATAAAACCAAAACATAACATTAGACAATTTTAGAAAATAATAATAGAGAAGTTAAAACATAAT
1 AAATAAAACCAAAACATAACATTAAACAATTTTAGAAAATAATAATAGAGAAGTTAAAACATAAT
*
705886 AAAAGTAATAATTGAGATTCTAAACATTTAGTTTACCCAAAATAATAATAATGCAAAAATATAGA
66 AAAAGTAATAATTGAGATTCTAAACATTTAGGTTACCCAAAATAATAATAATGCAAAAATATAGA
* *
705951 TCAAGAGTGTAATTCAACTCGCTCGCACCATAAATGTCAGAG-TCTAAGAGTGTGATCGTTTATT
131 TCAAGAATGTAATTCAACTCGCTCGCACCATAAATGTCAGAGTTC-AAGAGTGTGATCATTTATT
*
706015 GTC
195 ATC
* *
706018 AAATAAAACCAAAA-ATAACTTTAAACAATTTTAGAAAATAATAATAGAGAAGTTAAAATATAAT
1 AAATAAAACCAAAACATAACATTAAACAATTTTAGAAAATAATAATAGAGAAGTTAAAACATAAT
* *
706082 AAAAGTAGTAATTGAGATTCTAAATATTTAGGTTACCCAAAATAATAATAATGCAAAAATATAGA
66 AAAAGTAATAATTGAGATTCTAAACATTTAGGTTACCCAAAATAATAATAATGCAAAAATATAGA
* * * *
706147 TCAATAATGTAATTCAACTCGCCTC-CACCATGAATGTCAGGGTTCATGAGTGTGATCATTTATT
131 TCAAGAATGTAATTCAACTCG-CTCGCACCATAAATGTCAGAGTTCAAGAGTGTGATCATTTATT
706211 ATC
195 ATC
706214 AAAT
1 AAAT
706218 GATTGAGAGT
Statistics
Matches: 185, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
196 166 0.90
197 19 0.10
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (197 bp):
AAATAAAACCAAAACATAACATTAAACAATTTTAGAAAATAATAATAGAGAAGTTAAAACATAAT
AAAAGTAATAATTGAGATTCTAAACATTTAGGTTACCCAAAATAATAATAATGCAAAAATATAGA
TCAAGAATGTAATTCAACTCGCTCGCACCATAAATGTCAGAGTTCAAGAGTGTGATCATTTATTA
TC
Found at i:716184 original size:14 final size:14
Alignment explanation
Indices: 716147--716177 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
716137 ATTGTATATG
716147 ATTATATTAAAAAA
1 ATTATATTAAAAAA
716161 ATTATATTAAAAAA
1 ATTATATTAAAAAA
716175 ATT
1 ATT
716178 TGTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTATATTAAAAAA
Found at i:718196 original size:20 final size:20
Alignment explanation
Indices: 718171--718213 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
718161 TCTAAAAGCC
*
718171 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
718191 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
718211 CAT
1 CAT
718214 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:719644 original size:20 final size:22
Alignment explanation
Indices: 719615--719656 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
719605 CATATTACCA
719615 CCATCCCA-TTT-CCACAACAT
1 CCATCCCATTTTGCCACAACAT
*
719635 CCATCTCATTTTGCCACAACAT
1 CCATCCCATTTTGCCACAACAT
719657 TATCATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.29, C:0.40, G:0.02, T:0.29
Consensus pattern (22 bp):
CCATCCCATTTTGCCACAACAT
Found at i:723729 original size:109 final size:107
Alignment explanation
Indices: 723504--723734 Score: 243
Period size: 107 Copynumber: 2.1 Consensus size: 107
723494 ACTAAAGTGT
723504 AAAAACACGCCT-AACTTAAAGGGACGAAACAGAGAATAACCCAAAAAATAAAAAACATGCAAAA
1 AAAAACACG-CTAAACTTAAAGGGACGAAACAGAGAATAACCCAAAAAATAAAAAACATGCAAAA
* * *
723568 AAGGGAAAATAATAGTTTTAAACCCTACAAGTGACCAAAATAC
65 AAGGGAAAATAACAGATTTAAACCCTACAAGTGACAAAAATAC
* * * * * * *
723611 AAAATCACGCTAAAGTTAGAGGGACTAAACA-ATGAATAACCCAAAAATTACAAAGCA-GACAAA
1 AAAAACACGCTAAACTTAAAGGGACGAAACAGA-GAATAACCCAAAAAATAAAAAACATG-CAAA
*** ** * *
723674 GAAATGGGAAAATAACAGATTTGGTCCCTTTAGGTGACAAAAATGC
64 -AAA-GGGAAAATAACAGATTTAAACCCTACAAGTGACAAAAATAC
723720 AAAAACACGCTAAAC
1 AAAAACACGCTAAAC
723735 CTAGGGGGAC
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
106 4 0.04
107 49 0.49
108 3 0.03
109 44 0.44
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.16
Consensus pattern (107 bp):
AAAAACACGCTAAACTTAAAGGGACGAAACAGAGAATAACCCAAAAAATAAAAAACATGCAAAAA
AGGGAAAATAACAGATTTAAACCCTACAAGTGACAAAAATAC
Found at i:724667 original size:22 final size:22
Alignment explanation
Indices: 724642--724684 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
724632 TTTCGGGTCA
*
724642 GGCTTGAGGTTGGTTTGGGTTG
1 GGCTTGAGGTCGGTTTGGGTTG
724664 GGCTTGAGGTCGGTTTGGGTT
1 GGCTTGAGGTCGGTTTGGGTT
724685 AGGTTTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.07, G:0.49, T:0.40
Consensus pattern (22 bp):
GGCTTGAGGTCGGTTTGGGTTG
Found at i:725115 original size:135 final size:135
Alignment explanation
Indices: 724890--725380 Score: 598
Period size: 135 Copynumber: 3.6 Consensus size: 135
724880 CTTTCTACTG
* * * * *
724890 GAAATGTTGATCCCTCGAGTGAGACATTGCTGATTCGAAATACTGTGAATCGAGCAA-AGGTTGA
1 GAAATGTTAATCCCTCAAGTGAGGCTTTGCTGATTCGAAATACCGTGAATCGAGCAATAGGTTGA
* ** * *
724954 ACAAGTTTTTCTCATTACAAAGTTCTTCTCCCTCTATTGGATGAGTTCTTCTCATTATGAACTCT
66 ACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCT
725019 CTATT
131 CTATT
* * *
725024 GTAAATGTTAATCCTTCAAGTGAGG-TTTCACTGATTCGAAATACCGTGAATTGAGCAA-AGGTT
1 G-AAATGTTAATCCCTCAAGTGAGGCTTT-GCTGATTCGAAATACCGTGAATCGAGCAATAGGTT
* *
725087 GAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCTATCGGATGAGTTTTTCTCATTATGAACT
64 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
725152 CTCCT-TT
129 CT-CTATT
* * * *
725159 GGATATGTTAATCCCTCAAGCGAGGCTTTGCTGATTCGAAATGA-CGTGAATCAAGCAATAGGTC
1 -GAAATGTTAATCCCTCAAGTGAGGCTTTGCTGATTCGAAAT-ACCGTGAATCGAGCAATAGGTT
* * * *
725223 AAATAAGTTCTTCTCATTATGAACTTATTCTCCCTCTATCGGAT-AATCTCTTCTCATTATGAAC
64 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGT-TCTTCTCATTATGAAC
*
725287 TCTCCATT
128 TCTCTATT
* * * * * *
725295 AGAAATATTAATCCCTCAAGTGAGGCGTTGTTGATTCAAAATGCCGTGAATCGAGCAATAGGCTG
1 -GAAATGTTAATCCCTCAAGTGAGGCTTTGCTGATTCGAAATACCGTGAATCGAGCAATAGGTTG
*
725360 AACAAGTTCTTCTCATCATGA
65 AACAAGTTCTTCTCATTATGA
725381 TATTTCCACT
Statistics
Matches: 304, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
134 3 0.01
135 159 0.52
136 142 0.47
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (135 bp):
GAAATGTTAATCCCTCAAGTGAGGCTTTGCTGATTCGAAATACCGTGAATCGAGCAATAGGTTGA
ACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCT
CTATT
Found at i:725779 original size:116 final size:116
Alignment explanation
Indices: 725587--725809 Score: 329
Period size: 116 Copynumber: 1.9 Consensus size: 116
725577 GTCGAACAAA
* ** * * * *
725587 TTCTTCTCATTATGAACTTCTTATCCCTCTATTGGATGAGTTTTTCTCATTATGAACTTTTCATT
1 TTCTTCTCATTATGAACTTATTATCCCTCTATCAGATGAGCTCTTCTCATTATGAACTCTCCATT
* *
725652 GGAAATGTTAATCCCTCAAGCAAGGCTTTGCTGATTCAAAATGACGTTAAG
66 GGAAATATTAATCCCTCAAGCAAGGCATTGCTGATTCAAAATGACGTTAAG
*
725703 TTCTTCTCATTATGAACTTATTCTCCCTCTATCAGATGAGCTCTTCTCATTATGAACTCTCCATT
1 TTCTTCTCATTATGAACTTATTATCCCTCTATCAGATGAGCTCTTCTCATTATGAACTCTCCATT
** *
725768 GGAAATATTAATCCCTCAAGTGAGGCATTGCTGATTCGAAAT
66 GGAAATATTAATCCCTCAAGCAAGGCATTGCTGATTCAAAAT
725810 TCCGTGAATC
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 94 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (116 bp):
TTCTTCTCATTATGAACTTATTATCCCTCTATCAGATGAGCTCTTCTCATTATGAACTCTCCATT
GGAAATATTAATCCCTCAAGCAAGGCATTGCTGATTCAAAATGACGTTAAG
Found at i:725944 original size:136 final size:136
Alignment explanation
Indices: 725700--726315 Score: 776
Period size: 135 Copynumber: 4.6 Consensus size: 136
725690 AAATGACGTT
* * *
725700 AAGTTCTTCTCATTATGAACTTATTCTCCCTCTATCAGATGAGCTCTTCTCATTATGAACTCTCC
1 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCC
* *
725765 ATTGGAAATATTAATCCCTCAAGTGAGGCATTGCTGATTCGAAATTCCGTGAATCGAGTAATAGG
66 ATTGGAAATATTAATCCCTCAAGTGAGGCATTACTGATTCGAAATTCCGTGAATCGAGCAATAGG
725830 -CTGAAC
131 TC-GAAC
* * * * **
725836 AAGTTTTTCTCATTATGACCCCCTTCTCTCTCTATCAAATGAGCTCTTCTCATTATGAACTCTCC
1 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCC
* * * * *
725901 ATTAGAAATATTAATCCCTCAAGAGAGGCATTATTGATTCGAAATGCCGTGAATCGAG-AAAAGG
66 ATTGGAAATATTAATCCCTCAAGTGAGGCATTACTGATTCGAAATTCCGTGAATCGAGCAATAGG
*
725965 TTGAAC
131 TCGAAC
* * * * * *
725971 AAGTTCTTCACATTATGAACCTCTTCTCCCTATATCGGATGAGTTATTCTTATTATAAACTC-CC
1 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCC
* * * * * * *
726035 ATTTGAAATGTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAATACCGTGAATCAAGCAATAGA
66 ATTGGAAATATTAATCCCTCAAGTGAGGCATTACTGATTCGAAATTCCGTGAATCGAGCAATAGG
*
726100 TCAAAC
131 TCGAAC
* * *
726106 AAGTTCTTCTTATTATAAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCT
1 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCC
* * * * *
726171 ATTGGAAATATTAATCCCTCAAGTGAGGCGTTAATGATTCAAAATGT-TGTGAATAGAGCAA-AG
66 ATTGGAAATATTAATCCCTCAAGTGAGGCATTACTGATTCGAAAT-TCCGTGAATCGAGCAATAG
726234 GTCGAAC
130 GTCGAAC
* * * *
726241 AAGTTCTTCAT-ATTATGAACCTTTTCTCCCTCTATTGAATGAGCTTTTCTCATTATGAACTCTC
1 AAGTTCTTC-TCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTC
726305 CATTGGAAATA
65 CATTGGAAATA
726316 CTGACTAATT
Statistics
Matches: 412, Mismatches: 63, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
134 53 0.13
135 195 0.47
136 164 0.40
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (136 bp):
AAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGAGCTCTTCTCATTATGAACTCTCC
ATTGGAAATATTAATCCCTCAAGTGAGGCATTACTGATTCGAAATTCCGTGAATCGAGCAATAGG
TCGAAC
Found at i:727360 original size:7 final size:7
Alignment explanation
Indices: 727337--727380 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
727327 TGAACTCTCC
727337 TTTTCTTT
1 TTTTC-TT
727345 TTCTTCTT
1 TT-TTCTT
727353 TTTTCTT
1 TTTTCTT
727360 TTTTCTT
1 TTTTCTT
* *
727367 TCTTCAT
1 TTTTCTT
727374 TTTTCTT
1 TTTTCTT
727381 AGGCGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 22 0.71
8 6 0.19
9 3 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:727360 original size:21 final size:21
Alignment explanation
Indices: 727336--727380 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
727326 TTGAACTCTC
*
727336 CTTTTCTT-TTTCTTCTTTTTT
1 CTTTT-TTCTTTCTTCATTTTT
727357 CTTTTTTCTTTCTTCATTTTT
1 CTTTTTTCTTTCTTCATTTTT
727378 CTT
1 CTT
727381 AGGCGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTTTTCTTTCTTCATTTTT
Found at i:740531 original size:51 final size:46
Alignment explanation
Indices: 740438--740540 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 46
740428 TTTTTCAAAG
*
740438 ATTATATATATTATATATGTTTTCAATAATAGTTTTAAAAAACTAT
1 ATTATATATATTATATATGTTTTCAATAATAATTTTAAAAAACTAT
*
740484 ATATATATATATATATATATGTTTTCAAAATAATATATTTTTAAAAACTAT
1 AT-TATATATAT-TATATATGTTTTC--AATAATA-ATTTTAAAAAACTAT
740535 ATTATA
1 ATTATA
740541 CGTTTTCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
46 2 0.04
47 9 0.18
48 13 0.26
50 11 0.22
51 15 0.30
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (46 bp):
ATTATATATATTATATATGTTTTCAATAATAATTTTAAAAAACTAT
Found at i:740591 original size:38 final size:39
Alignment explanation
Indices: 740491--740596 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 39
740481 TATATATATA
**
740491 TATATATATATATGTTTTCAAAATAATATATTTTTAAAAAC
1 TATATAT-TATATGTTTTCAAAA-ACCATATTTTTAAAAAC
*
740532 --TATATTATACGTTTTCAAAAACCAT-TTTTTAAAAAC
1 TATATATTATATGTTTTCAAAAACCATATTTTTAAAAAC
* *
740568 TATATATTATGTGTTTTCAAAAACTATAT
1 TATATATTATATGTTTTCAAAAACCATAT
740597 ATTATATGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
36 11 0.20
37 3 0.05
38 36 0.64
39 6 0.11
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (39 bp):
TATATATTATATGTTTTCAAAAACCATATTTTTAAAAAC
Found at i:740604 original size:26 final size:24
Alignment explanation
Indices: 740557--740608 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
740547 CAAAAACCAT
*
740557 TTTTTAAAAACTATATATTATGTG
1 TTTTCAAAAACTATATATTATGTG
*
740581 TTTTCAAAAACTATATATTATATG
1 TTTTCAAAAACTATATATTATGTG
740605 TTTT
1 TTTT
740609 GAAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTCAAAAACTATATATTATGTG
Found at i:747399 original size:3 final size:3
Alignment explanation
Indices: 747391--747436 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
747381 TCTGGGTCTT
*
747391 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
747437 ATTAATTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:748921 original size:2 final size:2
Alignment explanation
Indices: 748914--748959 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
748904 TTATATTTAC
* **
748914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT GC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
748956 AT AT
1 AT AT
748960 TTATGTGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:748960 original size:16 final size:16
Alignment explanation
Indices: 748918--748964 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
748908 ATTTACATAT
* **
748918 ATATATATATATATAT
1 ATATATATATTTATGC
748934 ATATATATATTTATGC
1 ATATATATATTTATGC
748950 ATATATATATTTATG
1 ATATATATATTTATG
748965 TGTGTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
ATATATATATTTATGC
Found at i:749042 original size:19 final size:18
Alignment explanation
Indices: 749010--749049 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
749000 TATATATTGC
* *
749010 TTATTTCATTATATTATT
1 TTATCTCATTATATTAAT
749028 TTATCTCATTCATATTAAT
1 TTATCTCATT-ATATTAAT
749047 TTA
1 TTA
749050 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATCTCATTATATTAAT
Found at i:751558 original size:19 final size:19
Alignment explanation
Indices: 751518--751559 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
751508 GGATCAATAT
**
751518 TTTTGCATATGCATTTGTA
1 TTTTGCATATGCATTTCAA
*
751537 TTTTGCATCTGCATTTCAA
1 TTTTGCATATGCATTTCAA
751556 TTTT
1 TTTT
751560 TAAGCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTGCATATGCATTTCAA
Found at i:752904 original size:17 final size:18
Alignment explanation
Indices: 752871--752906 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
752861 AGAGAAAATA
752871 AGCAAAGAAGAAATAAAG
1 AGCAAAGAAGAAATAAAG
*
752889 AGCAAA-AAGAATTAAAG
1 AGCAAAGAAGAAATAAAG
752906 A
1 A
752907 AAAAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (18 bp):
AGCAAAGAAGAAATAAAG
Found at i:753861 original size:24 final size:23
Alignment explanation
Indices: 753805--753861 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
753795 TGAAAGGAGC
*
753805 AATATTTTCAAAACTTTTGATTA
1 AATATTTTCAAAACTTTTAATTA
753828 AATATTTTCAAAACTCTTTTAATT-
1 AATATTTTCAAAA--CTTTTAATTA
*
753852 GATATTTTCA
1 AATATTTTCA
753862 TACTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 13 0.43
24 9 0.30
25 8 0.27
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (23 bp):
AATATTTTCAAAACTTTTAATTA
Found at i:754760 original size:36 final size:37
Alignment explanation
Indices: 754663--754792 Score: 167
Period size: 38 Copynumber: 3.5 Consensus size: 37
754653 TTGAGATTGC
*
754663 TTTCTCAAAAACAACTTTTGTCTCGCTTGAGACAATT
1 TTTCTCAAAAACAAATTTTGTCTCGCTTGAGACAATT
754700 GTTT-TCTAAAAACAAATTTTGTCTCGCTTGAGACAATT
1 -TTTCTC-AAAAACAAATTTTGTCTCGCTTGAGACAATT
* *
754738 TCTCTC-AAAACAAATTTCGTCTCGCTTGAGAC-ATT
1 TTTCTCAAAAACAAATTTTGTCTCGCTTGAGACAATT
*
754773 TTTCTCTAAGATACAAATTT
1 TTTCTC-AA-AAACAAATTT
754793 AAATTTGTTG
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
35 8 0.10
36 25 0.30
37 5 0.06
38 44 0.54
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (37 bp):
TTTCTCAAAAACAAATTTTGTCTCGCTTGAGACAATT
Found at i:754847 original size:174 final size:172
Alignment explanation
Indices: 754532--754948 Score: 495
Period size: 172 Copynumber: 2.4 Consensus size: 172
754522 GTTTAATTTG
* * *
754532 AAACAAATTTTGTCTCATTTGAGGCAGTTTC-CGTCGAAAACAAATTTTGTCTCGCTTGAGACAT
1 AAACAAATTTTGTCTCGTTTGAGACAATTTCTC-TC-AAAACAAA-TTTGTCTCGCTTGAGACAT
* * * * * * * * *
754596 TTTCCCTTTCAGATACAAATTTTGAATTTGTTTCACATTAAAGAAAGTTGATTTCACTTGAGATT
63 TTT-TCTCTAAGATACAAATTTTAAATTTGTTTCACATTAAACAAAATTAATCTCACTTGAGATC
* * * *
754661 GCTTTCTCAAAAA-CAACTTTTGTCTCGCTTGAGACAATTGTTTTCTAA
127 GCTTTCTCAAAAATAAAC-GTTGTATCGCTTGAGACAA-T-TTCTCTAA
*
754709 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAAAACAAATTTCGTCTCGCTTGAGACATTT
1 AAACAAATTTTGTCTCGTTTGAGACAATTTCTCTCAAAACAAATTT-GTCTCGCTTGAGACATTT
754774 TTCTCTAAGATACAAA-TTTAAATTTGTTGT-AC-TTGAAACAAAATTAATCTCACTTGAGATCG
65 TTCTCTAAGATACAAATTTTAAATTTGTT-TCACATT-AAACAAAATTAATCTCACTTGAGATCG
*
754836 TTTTCTCAAAAATAAACGTTGTATCGCTTGAGACAATTTCTCTAA
128 CTTTCTCAAAAATAAACGTTGTATCGCTTGAGACAATTTCTCTAA
* * *
754881 AAAC-AATGTTTGTCTCGTTTGAGACAATTTCTCTAAAAACAAATGTTGTCTCACTTGAGACAAT
1 AAACAAAT-TTTGTCTCGTTTGAGACAATTTCTCTCAAAACAAAT-TTGTCTCGCTTGAGACATT
754945 TTTC
64 TTTC
754949 CAAATTATGA
Statistics
Matches: 211, Mismatches: 22, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
171 3 0.01
172 64 0.30
173 5 0.02
174 63 0.30
175 19 0.09
176 27 0.13
177 29 0.14
178 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (172 bp):
AAACAAATTTTGTCTCGTTTGAGACAATTTCTCTCAAAACAAATTTGTCTCGCTTGAGACATTTT
TCTCTAAGATACAAATTTTAAATTTGTTTCACATTAAACAAAATTAATCTCACTTGAGATCGCTT
TCTCAAAAATAAACGTTGTATCGCTTGAGACAATTTCTCTAA
Found at i:754883 original size:36 final size:35
Alignment explanation
Indices: 754837--754946 Score: 141
Period size: 36 Copynumber: 3.1 Consensus size: 35
754827 TTGAGATCGT
* *
754837 TTTCTC-AAAAATAAACGTTGTATCGCTTGAGACAA
1 TTTCTCTAAAAA-AAATGTTGTCTCGCTTGAGACAA
* *
754872 TTTCTCTAAAAACAATGTTTGTCTCGTTTGAGACAA
1 TTTCTCTAAAAAAAATG-TTGTCTCGCTTGAGACAA
*
754908 TTTCTCTAAAAACAAATGTTGTCTCACTTGAGACAA
1 TTTCTCTAAAAA-AAATGTTGTCTCGCTTGAGACAA
754944 TTT
1 TTT
754947 TCCAAATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
35 9 0.14
36 52 0.80
37 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (35 bp):
TTTCTCTAAAAAAAATGTTGTCTCGCTTGAGACAA
Found at i:755020 original size:30 final size:31
Alignment explanation
Indices: 754984--755042 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
754974 AACAAATATC
754984 ATCTTTGAGTC-ATTTCTTTTGAAACAAAGG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
755014 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
755043 ACTTTGTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
Found at i:755182 original size:64 final size:64
Alignment explanation
Indices: 755114--755239 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
755104 AAATGAAAAA
* * *
755114 AATCTTTGAGTTTGTTTCTTT-GATAAAAAAATTTTGTCTCTTTTGAGAAAGTTTCTTTTGAAAG
1 AATCTTTGAGTATGTTTCTTTGGA-AAAAAAATTTTGTCACTTTTGAGAAAGTTCCTTTTGAAAG
* *
755178 AATCTTTGAGTATGTTTCTTTGGAAATAAAATTTTGTCACTTTTGAGACAGTTCCTTTTGAA
1 AATCTTTGAGTATGTTTCTTTGGAAAAAAAATTTTGTCACTTTTGAGAAAGTTCCTTTTGAA
755240 GAAAAATCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 54 0.96
65 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.47
Consensus pattern (64 bp):
AATCTTTGAGTATGTTTCTTTGGAAAAAAAATTTTGTCACTTTTGAGAAAGTTCCTTTTGAAAG
Found at i:755280 original size:66 final size:64
Alignment explanation
Indices: 755110--755293 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 64
755100 AACAAAATGA
* * * * * *
755110 AAAAAATCTTTGAGTTTGTTTCTTTGATAAA-AAAATTTTGTCTCTTTTGAGAAAGTTTCTTTTG
1 AAAAAATCTTTAAATATGTTTCTTTGA-AAACAAAAGTTTGTCTCTTTTGAGACAGTTCCTTTTG
* * * * * * *
755174 AAAGAATCTTTGAGTATGTTTCTTTGGAAATAAAATTTTGTCACTTTTGAGACAGTTCCTTTTG
1 AAAAAATCTTTAAATATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTGAGACAGTTCCTTTTG
* *
755238 AAGAAAAATCTTTAAATATGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTAAGACA
1 -A-AAAAATCTTTAAATATGTTTCTT-TGAAAACAAAAGTTTGTCTCTTTTGAGACA
755294 ATTTCTCTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.03
64 54 0.53
65 3 0.03
66 41 0.41
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (64 bp):
AAAAAATCTTTAAATATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTGAGACAGTTCCTTTTG
Found at i:755338 original size:30 final size:29
Alignment explanation
Indices: 755295--755461 Score: 147
Period size: 30 Copynumber: 5.6 Consensus size: 29
755285 TTTAAGACAA
* *
755295 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTCTTGAAACAAAAATCTTTGAG-TTG
* *
755325 TTTCCCTTGAAACAAAACCTATCTTTGAATTG
1 TTTCTCTTGAAACAAAA---ATCTTTGAGTTG
* * *
755357 TTTCTTTTGAAATAAAAAATCTGTGAGTTG
1 TTTCTCTTGAAA-CAAAAATCTTTGAGTTG
* *
755387 TTTCTTTTGAAATAAAAATCTTTGAGTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* *
755416 TTTCTTTTGAAA-AAAAATTATTTGAGTCTG
1 TTTCTCTTGAAACAAAAA-TCTTTGAGT-TG
* *
755446 TTTCTTTTGAACCAAA
1 TTTCTCTTGAAACAAA
755462 GTTTTGTTTC
Statistics
Matches: 117, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.04
29 35 0.30
30 49 0.42
31 3 0.03
32 13 0.11
33 12 0.10
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (29 bp):
TTTCTCTTGAAACAAAAATCTTTGAGTTG
Found at i:755413 original size:29 final size:29
Alignment explanation
Indices: 755312--755456 Score: 166
Period size: 30 Copynumber: 4.8 Consensus size: 29
755302 TAAAACAAAC
** *
755312 ATCTTTGAGATTGTTTCCCTTGAAACAAAA
1 ATCTTTGAG-TTGTTTCTTTTGAAATAAAA
*
755342 CCTATCTTTGAATTGTTTCTTTTGAAATAAAAA
1 ---ATCTTTGAGTTGTTTCTTTTGAAAT-AAAA
*
755375 ATCTGTGAGTTGTTTCTTTTGAAATAAAA
1 ATCTTTGAGTTGTTTCTTTTGAAATAAAA
755404 ATCTTTGAGTTGTTTCTTTTGAAA-AAAA
1 ATCTTTGAGTTGTTTCTTTTGAAATAAAA
*
755432 ATTATTTGAGTCTGTTTCTTTTGAA
1 A-TCTTTGAGT-TGTTTCTTTTGAA
755457 CCAAAGTTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
28 5 0.05
29 35 0.35
30 36 0.36
32 13 0.13
33 12 0.12
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (29 bp):
ATCTTTGAGTTGTTTCTTTTGAAATAAAA
Found at i:755422 original size:59 final size:59
Alignment explanation
Indices: 755345--755456 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
755335 AACAAAACCT
*
755345 ATCTTTGAATTGTTTCTTTTGAAATAAAAAATCTGTGAGT-TGTTTCTTTTGAAATAAAA
1 ATCTTTGAATTGTTTCTTTTGAAA-AAAAAATATGTGAGTCTGTTTCTTTTGAAATAAAA
* * *
755404 ATCTTTGAGTTGTTTCTTTTGAAAAAAAATTATTTGAGTCTGTTTCTTTTGAA
1 ATCTTTGAATTGTTTCTTTTGAAAAAAAAATATGTGAGTCTGTTTCTTTTGAA
755457 CCAAAGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 12 0.25
59 36 0.75
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (59 bp):
ATCTTTGAATTGTTTCTTTTGAAAAAAAAATATGTGAGTCTGTTTCTTTTGAAATAAAA
Found at i:755495 original size:91 final size:93
Alignment explanation
Indices: 755400--755615 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 93
755390 CTTTTGAAAT
*
755400 AAAAATCTTTGAGTTGTTTCTTTTGAAAAAAAATTATTTGAGTCTGTTTCTTTTGAACCAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAAAAAAATT-TTTGAGTCTGTTTCTTTTGAAACAAAGTT
* *
755465 TTGTTTCTTTTAAGACAA-TTTT-GTGA-
65 TTGTCTCTCTTAAGACAATTTTTCGTGAG
** * *
755491 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATTTTTGAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAA-AAAAATTTTTGAGTCTGTTTCTTTTGAAACAAAGTT
* * *
755556 TTGTCTCTCTTGAGATAATTTTTCTTGAG
65 TTGTCTCTCTTAAGACAATTTTTCGTGAG
*
755585 AAAAATCTTTGAGTCTGTTCCTTTTGAAAAA
1 AAAAATCTTTGAGT-TGTTTCTTTTGAAAAA
755616 TCTTTGAGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
91 67 0.63
92 10 0.09
93 3 0.03
94 15 0.14
95 11 0.10
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (93 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAAAAAAATTTTTGAGTCTGTTTCTTTTGAAACAAAGTTT
TGTCTCTCTTAAGACAATTTTTCGTGAG
Found at i:755530 original size:29 final size:29
Alignment explanation
Indices: 755492--755557 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
755482 ATTTTGTGAA
*
755492 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATTTTTGAGTTCATTTCTTTTGAAA-C
**
755521 AAAATTTTTGAGTTTGTTTCTTTTGAAAC
1 AAAATTTTTGAGTTCATTTCTTTTGAAAC
*
755550 AAAGTTTT
1 AAAATTTT
755558 GTCTCTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (29 bp):
AAAATTTTTGAGTTCATTTCTTTTGAAAC
Found at i:756205 original size:134 final size:133
Alignment explanation
Indices: 755828--756182 Score: 494
Period size: 134 Copynumber: 2.7 Consensus size: 133
755818 AATCATTATC
* * * *
755828 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCTTGACCAGATCTCGTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATATCCTCAT
* * * * *
755893 CACGTAGGAACCGTTTCAACCATAGATAACAAGCCGTCCTCATCACGTAGGAACCGTGTTATCGC
66 CACGTAGGAACCGTGTC-ACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
755958 CATT
130 CATT
* * *
755962 CATAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATATCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATATCCTCAT
* * *
756027 CGCGTATGAGCCGTGTCACTCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
66 CACGTAGGAACCGTGTCAC-CCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
*
756092 CCTT
130 CATT
* ** ** *
756096 CCTAAAGATGGCCAGAACTGTTCATCACGTATGAGCAATGTCATCCCTCGGTCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATATCCTCAT
756161 CACGTAGGAACCGTGTCACCCT
66 CACGTAGGAACCGTGTCACCCT
756183 TAGACGACCC
Statistics
Matches: 193, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
133 5 0.03
134 188 0.97
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATATCCTCAT
CACGTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
ATT
Found at i:757879 original size:16 final size:16
Alignment explanation
Indices: 757854--757888 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
757844 ATATTTATGC
* *
757854 TTTATTATTTTGTCCT
1 TTTATAATTTAGTCCT
757870 TTTATAATTTAGTCCT
1 TTTATAATTTAGTCCT
757886 TTT
1 TTT
757889 GTTTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATAATTTAGTCCT
Found at i:757975 original size:2 final size:2
Alignment explanation
Indices: 757968--757992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
757958 GATGTTTTAT
757968 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
757993 TTATGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:758075 original size:19 final size:18
Alignment explanation
Indices: 758043--758082 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
758033 TATATATTGA
* *
758043 TTATTTCATTATATTATT
1 TTATCTCATTATATTAAT
758061 TTATCTCATTCATATTAAT
1 TTATCTCATT-ATATTAAT
758080 TTA
1 TTA
758083 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATCTCATTATATTAAT
Found at i:769801 original size:16 final size:16
Alignment explanation
Indices: 769780--769810 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
769770 AATGGCTACC
*
769780 GATGTTATCCTGCAAA
1 GATGTTATCATGCAAA
769796 GATGTTATCATGCAA
1 GATGTTATCATGCAA
769811 TCTTTTCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
GATGTTATCATGCAAA
Found at i:789797 original size:59 final size:59
Alignment explanation
Indices: 789694--789895 Score: 296
Period size: 59 Copynumber: 3.4 Consensus size: 59
789684 ATTATTTCCA
* * *
789694 ATATGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACATGAAGCGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACATGAAGTGCCCT
** * *
789753 ATACAGAAATTCATACACTTAGTATGAATTCCTTTTTATGTTAGCACATGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACATGAAGTGCCCT
** * * *
789812 ATATGGAAATTCATACACTTAGTATGTCTTCCTTCTCATGTTAGCACACGAAGTTCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACATGAAGTGCCCT
789871 ATATGGAAATTCATACACTTAGTAT
1 ATATGGAAATTCATACACTTAGTAT
789896 AGCACACGAA
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 128 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACATGAAGTGCCCT
Found at i:795658 original size:25 final size:26
Alignment explanation
Indices: 795629--795677 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
795619 GCAAGCACTC
795629 AAAAACAAAA-ACAAAGAA-GAAAAAG
1 AAAAACAAAAGA-AAAGAATGAAAAAG
*
795654 AAAAAGAAAAGAAAAGAATGAAAA
1 AAAAACAAAAGAAAAGAATGAAAA
795678 GTTGAAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (26 bp):
AAAAACAAAAGAAAAGAATGAAAAAG
Found at i:799846 original size:15 final size:15
Alignment explanation
Indices: 799823--799852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
799813 CTTGAATTTC
*
799823 AATTTATTTTAATAT
1 AATTCATTTTAATAT
799838 AATTCATTTTAATAT
1 AATTCATTTTAATAT
799853 TTAACCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTCATTTTAATAT
Found at i:807522 original size:34 final size:34
Alignment explanation
Indices: 807479--807549 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
807469 ATGTGCTTGA
807479 GAAAGAATATCTTTATTCAATTCATCATCATGCG
1 GAAAGAATATCTTTATTCAATTCATCATCATGCG
807513 GAAAGAATATCTTTATTCAATTCATCATCATGCG
1 GAAAGAATATCTTTATTCAATTCATCATCATGCG
807547 GAA
1 GAA
807550 TACAAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (34 bp):
GAAAGAATATCTTTATTCAATTCATCATCATGCG
Found at i:807675 original size:9 final size:8
Alignment explanation
Indices: 807651--807693 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
807641 TCATCTATCA
807651 TTTTTTCT
1 TTTTTTCT
*
807659 CTTTTTCT
1 TTTTTTCT
807667 TTTTATTCT
1 TTTT-TTCT
* *
807676 TTTTCTAT
1 TTTTTTCT
807684 TTTTTTCT
1 TTTTTTCT
807692 TT
1 TT
807694 ATATAATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCT
Found at i:807676 original size:15 final size:16
Alignment explanation
Indices: 807658--807693 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
807648 TCATTTTTTC
807658 TCTTTTTCT-TTTTAT
1 TCTTTTTCTATTTTAT
*
807673 TCTTTTTCTATTTTTT
1 TCTTTTTCTATTTTAT
807689 TCTTT
1 TCTTT
807694 ATATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TCTTTTTCTATTTTAT
Found at i:807679 original size:23 final size:23
Alignment explanation
Indices: 807652--807695 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
807642 CATCTATCAT
*
807652 TTTTTCTCTTTTTCTT-TTTATTC
1 TTTTTCTATTTTT-TTCTTTATTC
807675 TTTTTCTATTTTTTTCTTTAT
1 TTTTTCTATTTTTTTCTTTAT
807696 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTATTTTTTTCTTTATTC
Found at i:809380 original size:20 final size:22
Alignment explanation
Indices: 809334--809380 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
809324 GATCTTCATC
809334 TGATT-AAACTTTTCTTATAAT
1 TGATTCAAACTTTTCTTATAAT
**
809355 CCATTCAAACTTTT-TT-TAAT
1 TGATTCAAACTTTTCTTATAAT
809375 TGATTC
1 TGATTC
809381 TTCCAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (22 bp):
TGATTCAAACTTTTCTTATAAT
Found at i:810597 original size:45 final size:45
Alignment explanation
Indices: 810462--810640 Score: 279
Period size: 45 Copynumber: 4.0 Consensus size: 45
810452 ACTAGCATAT
*
810462 CCAAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
* *
810507 CCAATATACTTACCATTTAATTACAGAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTA
* * *
810553 CAAATACACTTACCATTTATTCTATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
*
810598 CCAATATACTTTCCA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
810641 CATGATTACC
Statistics
Matches: 121, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 27 0.22
45 53 0.44
46 41 0.34
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (45 bp):
CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
Done.