Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_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: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 26
Found at i:621310 original size:84 final size:84
Alignment explanation
Indices: 621169--621341 Score: 346
Period size: 84 Copynumber: 2.1 Consensus size: 84
621159 GACTCGCCTA
621169 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
621234 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTG
621253 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
621318 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTG
621337 TCATC
1 TCATC
621342 GTTGAAGAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.23
Consensus pattern (84 bp):
TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
ACCGTTCAAGAGGCCACTG
Found at i:621371 original size:84 final size:84
Alignment explanation
Indices: 621169--621371 Score: 291
Period size: 84 Copynumber: 2.4 Consensus size: 84
621159 GACTCGCCTA
* * * *
621169 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
621234 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTG
* * * *
621253 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
1 TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
621318 ACCGTTCAAGAGGCCACTG
66 ACCGTTCAAGAGGCCACTG
** *
621337 TCATCGTTGAAGAAGTCC-CTCCCACCATTCAAGAG
1 TCATCCCTCAAG-AGTCCACTCCCACCATTCAAGAG
621372 CCCGATTCAC
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
84 106 0.95
85 5 0.05
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (84 bp):
TCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCC
ACCGTTCAAGAGGCCACTG
Found at i:622748 original size:14 final size:14
Alignment explanation
Indices: 622729--622764 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
622719 ATTGTTTAAT
622729 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
622743 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
622757 TGATTTGT
1 TGATTTGT
622765 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:622908 original size:14 final size:14
Alignment explanation
Indices: 622889--622945 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
622879 GCGAAATGAA
622889 AATCGCAACGAAAG
1 AATCGCAACGAAAG
622903 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
*
622920 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
622936 AATCGCAACG
1 AATCGCAACG
622946 CGAAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 6 0.16
17 5 0.14
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:622916 original size:33 final size:33
Alignment explanation
Indices: 622871--622960 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
622861 AAAAAGTACT
*
622871 ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAAAGA
*
622904 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAAAGA
* *
622937 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
622961 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAAAGA
Found at i:622930 original size:19 final size:19
Alignment explanation
Indices: 622871--622931 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
622861 AAAAAGTACT
*
622871 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
622890 ATCGCAA--CGAAA-G--A
1 ATCGCAACGCGAAATGAAA
622904 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
622923 ATCGCAACG
1 ATCGCAACG
622932 AGAGAATCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 8 0.22
16 6 0.16
17 6 0.16
19 17 0.46
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:622978 original size:19 final size:19
Alignment explanation
Indices: 622956--623106 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
622946 CGAAATTAAA
622956 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
622975 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
622990 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
623008 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
623022 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
623041 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
623056 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
623074 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
623093 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
623107 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:623002 original size:33 final size:32
Alignment explanation
Indices: 622960--623086 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
622950 ATTAAATTCG
622960 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
622993 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
623026 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
623059 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
623087 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:623038 original size:66 final size:66
Alignment explanation
Indices: 622953--623085 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
622943 ACGCGAAATT
*
622953 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
623018 G
66 G
*
623019 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
623084 G
66 G
623085 A
1 A
623086 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:625397 original size:12 final size:12
Alignment explanation
Indices: 625380--625404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
625370 TCTTCGGGGA
625380 CTTTTTCTTCTT
1 CTTTTTCTTCTT
625392 CTTTTTCTTCTT
1 CTTTTTCTTCTT
625404 C
1 C
625405 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:625603 original size:24 final size:24
Alignment explanation
Indices: 625569--625622 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
625559 CTGAAACATC
*
625569 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* * *
625593 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
625617 ATCAAA
1 ATCAAA
625623 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:626435 original size:20 final size:21
Alignment explanation
Indices: 626410--626461 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
626400 TTTTCCTAAT
*
626410 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
626430 TCGCAATGTGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
626451 TCGCAATGCGA
1 TCGCAATGCGA
626462 TATCGCAACG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:626530 original size:20 final size:20
Alignment explanation
Indices: 626481--626530 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
626471 GAGATAATAC
*
626481 AAAATCGCAACGAGATTCTG
1 AAAATTGCAACGAGATTCTG
**
626501 -ACTTTCGCAACGAGATTCTG
1 AAAATT-GCAACGAGATTCTG
626521 AAAATTGCAA
1 AAAATTGCAA
626531 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAATTGCAACGAGATTCTG
Found at i:626807 original size:20 final size:20
Alignment explanation
Indices: 626744--626811 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
626734 CAACGGGGAA
626744 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* ** ***
626764 ATCACAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
626784 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
626804 ATCGCAAC
1 ATCGCAAC
626812 TAGAAAATCG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 5 0.15
20 24 0.71
21 5 0.15
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:626862 original size:14 final size:16
Alignment explanation
Indices: 626842--626915 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
626832 TGAAAATCGC
626842 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
626857 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
626874 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
626893 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
626909 -TTGCGAT
1 ATTGCGAT
626916 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:626879 original size:19 final size:19
Alignment explanation
Indices: 626838--626905 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
626828 GAAATGAAAA
626838 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
626854 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
626871 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
626890 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
626906 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:627061 original size:14 final size:14
Alignment explanation
Indices: 627042--627078 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
627032 CATCAATTAA
627042 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
627056 ACAAATCATCTTTT
1 ACAAATCAACATTT
627070 ACAAATCAA
1 ACAAATCAA
627079 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:628542 original size:42 final size:42
Alignment explanation
Indices: 628496--628578 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
628486 CTTCAACGAT
* * * *
628496 GATAGTGGCCTCTTGAACGGTGGGGGGGGACTCTTGAGGGAG
1 GATAGGGGCCTCTTGAACGATGGGAGGGGACACTTGAGGGAG
*
628538 GATAGGGGCCTCTTGAACGATTGGAGGGGACACTTGAGGGA
1 GATAGGGGCCTCTTGAACGATGGGAGGGGACACTTGAGGGA
628579 TGACAGGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.45, T:0.20
Consensus pattern (42 bp):
GATAGGGGCCTCTTGAACGATGGGAGGGGACACTTGAGGGAG
Found at i:628970 original size:20 final size:19
Alignment explanation
Indices: 628947--629014 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
628937 GAAACTTAAA
628947 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
628967 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
628987 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
629006 ATCGCAACG
1 ATCGCAACG
629015 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:629022 original size:14 final size:14
Alignment explanation
Indices: 629003--629093 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
628993 ATGCGAAATG
629003 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
629017 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
629036 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
629050 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
629066 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
629082 AAAATCGCAACG
1 AAAATCGCAACG
629094 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:629078 original size:32 final size:33
Alignment explanation
Indices: 628987--629098 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
628977 GGAAATGGCT
628987 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
629020 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
629053 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
629085 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
629099 CACAAATCGC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 29 0.37
33 49 0.63
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:629106 original size:65 final size:66
Alignment explanation
Indices: 628987--629109 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 66
628977 GGAAATGGCT
* *
628987 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
629052 A
66 A
629053 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
629110 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.69
66 16 0.30
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:629144 original size:14 final size:14
Alignment explanation
Indices: 629121--629184 Score: 76
Period size: 14 Copynumber: 4.4 Consensus size: 14
629111 TGCGATTTTC
629121 ATTTTG-CGTTGCG
1 ATTTTGTCGTTGCG
629134 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
*
629148 ATTTCATTTCGCATTGCG
1 ATTT--TGTCG--TTGCG
629166 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
629180 ATTTT
1 ATTTT
629185 CATTTCGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
13 6 0.14
14 21 0.48
16 8 0.18
18 9 0.20
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
ATTTTGTCGTTGCG
Found at i:629191 original size:33 final size:33
Alignment explanation
Indices: 629110--629200 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
629100 ACAAATCGCA
* *
629110 TTGCGATTTTCATTTTGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
629143 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
629175 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
629201 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:629219 original size:20 final size:19
Alignment explanation
Indices: 629185--629239 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
629175 TTGCGATTTT
*
629185 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
629204 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
629224 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
629240 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:629747 original size:18 final size:18
Alignment explanation
Indices: 629721--629765 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
629711 GTCGATCAGA
*
629721 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
629739 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
629757 TGATGGCTC
1 TGATGGCTC
629766 CCGAAGTGGA
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:631126 original size:20 final size:20
Alignment explanation
Indices: 631103--631147 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
631093 AATCATAACA
631103 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
**
631123 CGAATTTGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
631143 CGAAA
1 CGAAA
631148 CTAAAATCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:631665 original size:41 final size:41
Alignment explanation
Indices: 631602--631715 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
631592 CGATTTGAAA
* *
631602 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
* * * *
631643 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
*
631684 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
631716 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.24
41 45 0.73
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
Found at i:631688 original size:20 final size:20
Alignment explanation
Indices: 631663--631716 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
631653 GATTTTGTAT
631663 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
631683 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
631703 TATCGCATTGCGAT
1 TATCGCATTGCGAT
631717 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:631701 original size:61 final size:62
Alignment explanation
Indices: 631602--631719 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 62
631592 CGATTTGAAA
* * * *
631602 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
631664 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
631720 CCCAATTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 2 0.04
61 36 0.72
62 12 0.24
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:631827 original size:21 final size:21
Alignment explanation
Indices: 631787--631827 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
631777 ACTGTAGACC
** *
631787 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
631808 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
631828 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:635036 original size:32 final size:32
Alignment explanation
Indices: 634995--635063 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
634985 TTACTTGGAT
634995 ATTTTAGCATATAAGACTTATATTATATGTAA
1 ATTTTAGCATATAAGACTTATATTATATGTAA
*
635027 ATTTTAGCATATAAGACTTATATTATATGTAT
1 ATTTTAGCATATAAGACTTATATTATATGTAA
635059 ATTTT
1 ATTTT
635064 TTTATTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (32 bp):
ATTTTAGCATATAAGACTTATATTATATGTAA
Found at i:637372 original size:16 final size:15
Alignment explanation
Indices: 637342--637375 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
637332 AAAAAGGGAA
637342 AAATAATAAAGTAAT
1 AAATAATAAAGTAAT
637357 AAATAATAATAGTAAT
1 AAATAATAA-AGTAAT
637373 AAA
1 AAA
637376 GATAAAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAATAAAGTAAT
Found at i:637943 original size:12 final size:12
Alignment explanation
Indices: 637926--637955 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
637916 AGAGATATGC
637926 GAAAAATAGAGA
1 GAAAAATAGAGA
637938 GAAAAATAGAGA
1 GAAAAATAGAGA
637950 GAAAAA
1 GAAAAA
637956 GAAGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:638196 original size:84 final size:82
Alignment explanation
Indices: 638054--638236 Score: 260
Period size: 84 Copynumber: 2.2 Consensus size: 82
638044 AGATAATTCC
*
638054 TAAAATAATATCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAACACCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAACACCTAAAACAA
*
638119 AGATAAAATAAATATTATT
66 AGATAAAAT--ATAATATT
* * * *
638138 TAAAATAATATCCTAAATCCTAATTGAAATAC-TAACATCTATTTAAACTAAAATACCTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAA-AACTATTTAAACTAAAACACCTAAAACA
*
638202 AAGATAAAATATAATGTT
65 AAGATAAAATATAATATT
*
638220 TAAAATATTATCCTAAA
1 TAAAATAATATCCTAAA
638237 ACATGAGTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
82 22 0.24
83 3 0.03
84 65 0.72
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (82 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAACACCTAAAACAA
AGATAAAATATAATATT
Found at i:640274 original size:7 final size:6
Alignment explanation
Indices: 640253--640346 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
640243 TGGATACCTG
* * *
640253 AAAAAT AAAAGA- AAAAAT AAAAAT AAAAAT AAATCAG AAAAAT AAAATT
1 AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT
* *
640302 GAAAAT AAAAAT AAAAATT AAACAA- ACAGAA- AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAA-T AAA-AAT A-AAAAT AAAAAT AAAAAT AA
640347 TAATGGATTG
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
5 4 0.06
6 55 0.77
7 10 0.14
8 2 0.03
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:644672 original size:24 final size:24
Alignment explanation
Indices: 644638--644686 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
644628 CAACAAGTGA
*
644638 ATTAACTACTTCAGTTAATTTGTC
1 ATTAACGACTTCAGTTAATTTGTC
644662 ATTAACGACTTCAGTTAATTTGTC
1 ATTAACGACTTCAGTTAATTTGTC
644686 A
1 A
644687 AACTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (24 bp):
ATTAACGACTTCAGTTAATTTGTC
Found at i:645849 original size:15 final size:16
Alignment explanation
Indices: 645829--645862 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
645819 TAAAAAGGGA
645829 AAATAATAA-AGTAAT
1 AAATAATAATAGTAAT
645844 AAATAATAATAGTAAT
1 AAATAATAATAGTAAT
645860 AAA
1 AAA
645863 GATAAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAATAATAATAGTAAT
Found at i:651501 original size:10 final size:10
Alignment explanation
Indices: 651481--651510 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
651471 CTTTTATTGC
651481 TTTTA-TTAT
1 TTTTATTTAT
651490 TTTTATTTAT
1 TTTTATTTAT
651500 TTTTATTTAT
1 TTTTATTTAT
651510 T
1 T
651511 CAATTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:654380 original size:33 final size:33
Alignment explanation
Indices: 654333--654402 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
654323 GAAGACACGC
*
654333 AACAGGATTTTTTAAAATTTTTTAATTGCCCGT
1 AACAGGATTTTTTAAAATATTTTAATTGCCCGT
* * *
654366 AACATGATTTTTTAAAATATTTTAGTTGTCCGT
1 AACAGGATTTTTTAAAATATTTTAATTGCCCGT
654399 AACA
1 AACA
654403 CTCTCATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (33 bp):
AACAGGATTTTTTAAAATATTTTAATTGCCCGT
Found at i:655022 original size:12 final size:12
Alignment explanation
Indices: 655007--655032 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
654997 CTCTTATATT
655007 TTAAATTATTTC
1 TTAAATTATTTC
655019 TTAAATTATTTC
1 TTAAATTATTTC
655031 TT
1 TT
655033 TTAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTATTTC
Found at i:655041 original size:31 final size:34
Alignment explanation
Indices: 654979--655048 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
654969 TAAATCTTTA
* *
654979 ATTTATTAAATTATTTCACTCTTATATTTTAAATT
1 ATTTATTAAATTATTT-ACTCTTATAATTTAAAAT
*
655014 ATTTCTTAAATTATTT-CT-TT-TAATTTAAAAT
1 ATTTATTAAATTATTTACTCTTATAATTTAAAAT
655045 ATTT
1 ATTT
655049 TAAATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 13 0.41
32 2 0.06
33 2 0.06
35 15 0.47
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (34 bp):
ATTTATTAAATTATTTACTCTTATAATTTAAAAT
Found at i:663684 original size:54 final size:53
Alignment explanation
Indices: 663595--663714 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
663585 TTGCACTAAA
* * * * *
663595 TGTGCAACCCATGGTATTCATAATGTGCTTATGAATGACCATTTTGACACTATT
1 TGTGCAATCCATGGAATTCATAATGAGCTTATGAATGACCATTTCGACACT-TC
* * **
663649 TGTGCAATCCATGGAATTCATAATGAGTTTTTGAATTTCCATTTCGACACTTC
1 TGTGCAATCCATGGAATTCATAATGAGCTTATGAATGACCATTTCGACACTTC
*
663702 TGTGCAATGCATG
1 TGTGCAATCCATG
663715 TACCTTGCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 13 0.23
54 43 0.77
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (53 bp):
TGTGCAATCCATGGAATTCATAATGAGCTTATGAATGACCATTTCGACACTTC
Found at i:670470 original size:19 final size:21
Alignment explanation
Indices: 670427--670478 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
670417 GAAACCCCTT
*
670427 TGAAAATACATTATTTTTAAA
1 TGAAAATACATGATTTTTAAA
670448 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
670467 TGAAGATACATG
1 TGAAAATACATG
670479 CTCTTGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:672724 original size:20 final size:19
Alignment explanation
Indices: 672687--672729 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
672677 GAAACCCCTT
672687 TGAAAATACATATTTTTAAA
1 TGAAAATACATATTTTT-AA
672707 TGAAAATACATGA-TTTTAA
1 TGAAAATACAT-ATTTTTAA
672726 TGAA
1 TGAA
672730 GATAATGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 15 0.68
21 1 0.05
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (19 bp):
TGAAAATACATATTTTTAA
Found at i:674568 original size:177 final size:178
Alignment explanation
Indices: 674272--674627 Score: 705
Period size: 177 Copynumber: 2.0 Consensus size: 178
674262 CATGCTTCTT
674272 GGTTCCTCCATATGACAAGTTGTGTCCTTTGAATCATCCTTCACGCTTGATGCATCAACATTGGG
1 GGTTCCTCCATATGACAAGTTGTGTCCTTTGAATCATCCTTCACGCTTGATGCATCAACATTGGG
674337 TAGGATAATCCCATGTATATGAATTGATTTCCTGCAAATTAAATCAAAGTTAGAATATGAGAAAT
66 TAGGATAATCCCATGTATATGAATTGATTTCCTGCAAATTAAATCAAAGTTAGAATATGAGAAAT
674402 TATAAACAAAATGAATGGAAATATC-AACCAAGGTGGATGTTTAATGG
131 TATAAACAAAATGAATGGAAATATCAAACCAAGGTGGATGTTTAATGG
674449 GGTTCCTCCATATGACAAGTTGTGTCCTTTGAATCATCCTTCACGCTTGATGCATCAACATTGGG
1 GGTTCCTCCATATGACAAGTTGTGTCCTTTGAATCATCCTTCACGCTTGATGCATCAACATTGGG
674514 TAGGATAATCCCATGTATATGAATTGATTTCCTGCAAATTAAATCAAAGTTAGAATATGAGAAAT
66 TAGGATAATCCCATGTATATGAATTGATTTCCTGCAAATTAAATCAAAGTTAGAATATGAGAAAT
674579 TATAAACAAAATGAATGGAAATATCAAACCAAGGTGGATGTTTAATGG
131 TATAAACAAAATGAATGGAAATATCAAACCAAGGTGGATGTTTAATGG
674627 G
1 G
674628 AGTTGGTTGC
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
177 155 0.87
178 23 0.13
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (178 bp):
GGTTCCTCCATATGACAAGTTGTGTCCTTTGAATCATCCTTCACGCTTGATGCATCAACATTGGG
TAGGATAATCCCATGTATATGAATTGATTTCCTGCAAATTAAATCAAAGTTAGAATATGAGAAAT
TATAAACAAAATGAATGGAAATATCAAACCAAGGTGGATGTTTAATGG
Found at i:675987 original size:8 final size:8
Alignment explanation
Indices: 675974--675998 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
675964 TCTTTTACTT
675974 TTCTTTTC
1 TTCTTTTC
675982 TTCTTTTC
1 TTCTTTTC
675990 TTCTTTTC
1 TTCTTTTC
675998 T
1 T
675999 GATTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:678368 original size:43 final size:43
Alignment explanation
Indices: 678307--678392 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
678297 TGAAATTGAC
*
678307 TTAAAAACCCATTGTATATGCATTGAGAATCATAGGTGCATTT
1 TTAAAAACCCATTGTATATGCAGTGAGAATCATAGGTGCATTT
678350 TTAAAAACCCATTGTATATGCAGTGAGAATCATAGGTGCATTT
1 TTAAAAACCCATTGTATATGCAGTGAGAATCATAGGTGCATTT
678393 CGACATACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (43 bp):
TTAAAAACCCATTGTATATGCAGTGAGAATCATAGGTGCATTT
Found at i:678647 original size:54 final size:54
Alignment explanation
Indices: 678583--678696 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
678573 AACGGTGCAT
* * *
678583 TTTCGGTACTAAATGTGCAACCCATGGTATTCATAATGTGTTTATGAATGACCA
1 TTTCGATACTAAATGTGCAACCCATGGAATTCATAATGAGTTTATGAATGACCA
** * * **
678637 TTTCGATACTATGTGTGCAATCCATGGAATTCATAATGAGTTTGTGAATTTCCA
1 TTTCGATACTAAATGTGCAACCCATGGAATTCATAATGAGTTTATGAATGACCA
678691 TTTCGA
1 TTTCGA
678697 ATCCATGGAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTCGATACTAAATGTGCAACCCATGGAATTCATAATGAGTTTATGAATGACCA
Found at i:678700 original size:41 final size:41
Alignment explanation
Indices: 678655--678736 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
678645 CTATGTGTGC
678655 AATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCG
1 AATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCG
678696 AATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCG
1 AATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCG
678737 GCACTTTGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (41 bp):
AATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCG
Found at i:679738 original size:43 final size:44
Alignment explanation
Indices: 679681--679763 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
679671 TGCCATGTAA
*
679681 TTTAGTGGCATTTTTTTACAATAAACGCTGCAATAGTCATATAC
1 TTTAGTGGCATTTTTTTACAATAAACGATGCAATAGTCATATAC
* ** *
679725 TTTAGTGG-TTTTTTTTATTATAAATGATGCAATAGTCAT
1 TTTAGTGGCATTTTTTTACAATAAACGATGCAATAGTCAT
679764 GTATGCTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 26 0.76
44 8 0.24
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (44 bp):
TTTAGTGGCATTTTTTTACAATAAACGATGCAATAGTCATATAC
Found at i:683850 original size:21 final size:21
Alignment explanation
Indices: 683817--683860 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
683807 ATTTACTATA
* * *
683817 ATGGATTTGAAGTTGGTTGTT
1 ATGGAATTAAAGTTGGTTATT
*
683838 ATGGAATTAAAGTTTGTTATT
1 ATGGAATTAAAGTTGGTTATT
683859 AT
1 AT
683861 AGATGTCATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
ATGGAATTAAAGTTGGTTATT
Found at i:691244 original size:28 final size:28
Alignment explanation
Indices: 691209--691262 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
691199 TTTTCAATAA
691209 AAATATTATTTTTGAA-TTTTTAAATTTG
1 AAATATTATTTTT-AAGTTTTTAAATTTG
691237 AAATATTATTTTTAAGTTTTTAAATT
1 AAATATTATTTTTAAGTTTTTAAATT
691263 ATGTTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (28 bp):
AAATATTATTTTTAAGTTTTTAAATTTG
Found at i:694419 original size:27 final size:27
Alignment explanation
Indices: 694369--694424 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
694359 TTAGAGGTAC
*
694369 TTTAGATCATTTTACACTTTAGGGCAT
1 TTTAGATCATTTTACACTTAAGGGCAT
*
694396 TTTAG-TCATTTTACACTTCAAGGGTAT
1 TTTAGATCATTTTACACTT-AAGGGCAT
694423 TT
1 TT
694425 CTATAATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTAGATCATTTTACACTTAAGGGCAT
Found at i:698811 original size:26 final size:27
Alignment explanation
Indices: 698764--698814 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
698754 TCAGGCTTAG
698764 AGGTACTTTGGATCATTTTACACTTTA
1 AGGTACTTTGGATCATTTTACACTTTA
*
698791 AGGTATTTTGG-TCATTTTACACTT
1 AGGTACTTTGGATCATTTTACACTT
698815 CAGGGGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (27 bp):
AGGTACTTTGGATCATTTTACACTTTA
Found at i:698822 original size:27 final size:27
Alignment explanation
Indices: 698764--698826 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
698754 TCAGGCTTAG
* *
698764 AGGTACTTTGGATCATTTTACACTTTA
1 AGGTATTTTGGATCATTTTACACTTCA
698791 AGGTATTTTGG-TCATTTTACACTTCA
1 AGGTATTTTGGATCATTTTACACTTCA
*
698817 GGGGTATTTT
1 -AGGTATTTT
698827 TATAATTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (27 bp):
AGGTATTTTGGATCATTTTACACTTCA
Found at i:699799 original size:18 final size:17
Alignment explanation
Indices: 699758--699797 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
699748 ATAAAATATG
699758 ACTTTTCAAAAATTTTA
1 ACTTTTCAAAAATTTTA
699775 ACTTTTCGAAAAATTTT-
1 ACTTTTC-AAAAATTTTA
699792 ACTTTT
1 ACTTTT
699798 TCAGTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (17 bp):
ACTTTTCAAAAATTTTA
Found at i:701730 original size:10 final size:10
Alignment explanation
Indices: 701715--701739 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
701705 ATCATTGAGT
701715 TAAGAACAAC
1 TAAGAACAAC
701725 TAAGAACAAC
1 TAAGAACAAC
701735 TAAGA
1 TAAGA
701740 TTTCACTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.16, G:0.12, T:0.12
Consensus pattern (10 bp):
TAAGAACAAC
Found at i:704834 original size:17 final size:14
Alignment explanation
Indices: 704799--704825 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
704789 GTTTCATAAC
704799 TAAAATAATTATTA
1 TAAAATAATTATTA
704813 TAAAATAATTATT
1 TAAAATAATTATT
704826 TAGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAATAATTATTA
Found at i:705616 original size:26 final size:26
Alignment explanation
Indices: 705484--705615 Score: 210
Period size: 26 Copynumber: 5.1 Consensus size: 26
705474 ACTGAAGTGC
*
705484 TAATACACATAAGGTCGTGCCCATCA
1 TAATACACATAAGGTCGTGCCCACCA
705510 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
705536 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
* *
705562 TAATACACATAAGGTTGCGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
* * *
705588 TATTACACATAAGGTTGCGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
705614 TA
1 TA
705616 TGCACTTAGT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:710339 original size:18 final size:17
Alignment explanation
Indices: 710312--710345 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
710302 AAAAATGTGG
*
710312 GTTTTAATTACAATTAT
1 GTTTTAATTAAAATTAT
710329 GTTTATAATTAAAATTA
1 GTTT-TAATTAAAATTA
710346 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
GTTTTAATTAAAATTAT
Found at i:716067 original size:44 final size:44
Alignment explanation
Indices: 715935--716081 Score: 240
Period size: 44 Copynumber: 3.3 Consensus size: 44
715925 GTTAGAGGAA
* *
715935 GTTTCTGAAGGCTCATTTGCTATGTTCAAGGTTAAGACCTTACC
1 GTTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
*
715979 ATTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
1 GTTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
716023 GTTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
1 GTTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
* *
716067 GCTTTCCGCAGGCTC
1 G-TTTCTGAAGGCTC
716082 CTCGGCTTTG
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 85 0.89
45 11 0.11
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (44 bp):
GTTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACC
Found at i:716161 original size:39 final size:38
Alignment explanation
Indices: 716087--716189 Score: 91
Period size: 39 Copynumber: 2.6 Consensus size: 38
716077 GGCTCCTCGG
* * *
716087 CTTTGTGCTCAGGGTAAGTCTTTACTGCAAGCTCATCAA
1 CTTTGTGCACA-GGTAAGTCCTTACGGCAAGCTCATCAA
* * **
716126 CTTTGTGCCCATGGTAAGTCCTTACGG-TAGACTCATCTG
1 CTTTGTGCACA-GGTAAGTCCTTACGGCAAG-CTCATCAA
*
716165 CTTTTTGCACAGAGTAAGTCCTTAC
1 CTTTGTGCACAG-GTAAGTCCTTAC
716190 TGGGTGTACA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
38 3 0.06
39 50 0.94
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (38 bp):
CTTTGTGCACAGGTAAGTCCTTACGGCAAGCTCATCAA
Found at i:718053 original size:21 final size:21
Alignment explanation
Indices: 718007--718055 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
717997 TTATCCAGAG
*
718007 CCAGATCCTACAGTTCAGACA
1 CCAGCTCCTACAGTTCAGACA
718028 CCAGCTCCTACAGTTCAGACA
1 CCAGCTCCTACAGTTCAGACA
718049 CCAGCTC
1 CCAGCTC
718056 GTACTCCCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.39, G:0.14, T:0.18
Consensus pattern (21 bp):
CCAGCTCCTACAGTTCAGACA
Found at i:723048 original size:44 final size:44
Alignment explanation
Indices: 722994--723165 Score: 254
Period size: 44 Copynumber: 3.9 Consensus size: 44
722984 TTGGAGGAAG
* * *
722994 TTTCTAAAGGCTCCCTTGCTATATGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCA
* *
723038 TTTCTGAAGGCTCCTTTGCTATGTGCAAAGATAAGACCTTACCA
1 TTTCTGAAGGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCA
* * *
723082 TTTCTGAAGGCTCATTTTCTATGTGCAAGGGTAAGACCTTACCG
1 TTTCTGAAGGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCA
* *
723126 TTTCTGAAGGCTCCTTTCCTATGTTCAAGGGTAAGACCTT
1 TTTCTGAAGGCTCCTTTGCTATGTGCAAGGGTAAGACCTT
723166 TCCTCTTTCC
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 115 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (44 bp):
TTTCTGAAGGCTCCTTTGCTATGTGCAAGGGTAAGACCTTACCA
Found at i:723224 original size:39 final size:39
Alignment explanation
Indices: 723181--723293 Score: 136
Period size: 39 Copynumber: 2.9 Consensus size: 39
723171 TTTCCGCATG
* * *
723181 CTCCTCGGCTTTGTGCTCAGAGTAAGTCTTTACTGCAGA
1 CTCCTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGA
* * * * *
723220 CTCCTCAGCTTTGTGTTCAGGGTAAGTCCTTGCGGTATA
1 CTCCTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGA
* *
723259 CTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACTG
1 CTCCTCAGCTTTGTGCTCAGGGTAAGTCCTTACTG
723294 GGTGTACAGG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.35
Consensus pattern (39 bp):
CTCCTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGA
Found at i:724311 original size:133 final size:134
Alignment explanation
Indices: 724172--724415 Score: 321
Period size: 134 Copynumber: 1.8 Consensus size: 134
724162 ATACTATTCC
* *
724172 TTAGGGGATATCAGACTTGAGAAA-CATTGATTCA-TTCCACTATTCTCCAGGAAAAATTGAATC
1 TTAGGGGAGATCAGACTTGAGAAATCATTGATCCACTT-CACTATTCTCCAGGAAAAATTGAATC
* ** * * *
724235 GAGGTTTATTTGCTTCGCTGTTTTTCAGGAAGACCAAATCTGAAAAAAGAATAATCTGCTCCACT
65 AAACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAAAGAATAATCTGCTCCACT
724300 ACTCT
130 ACTCT
* * * * *
724305 TTAGGGGAGATCAGACTTGAGAAATCTTTGATCCACTTCGCTATTCTTCAGGGAAGATTGAATCA
1 TTAGGGGAGATCAGACTTGAGAAATCATTGATCCACTTCACTATTCTCCAGGAAAAATTGAATCA
* * *
724370 AACTTGATTTGCTTCGCTGTTCTTCAAGAATATCAACTCTGAAAAA
66 AACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAA
724416 TGACGATCTG
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
133 23 0.25
134 68 0.73
135 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (134 bp):
TTAGGGGAGATCAGACTTGAGAAATCATTGATCCACTTCACTATTCTCCAGGAAAAATTGAATCA
AACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAAAGAATAATCTGCTCCACTA
CTCT
Found at i:724439 original size:133 final size:133
Alignment explanation
Indices: 724172--724450 Score: 312
Period size: 134 Copynumber: 2.1 Consensus size: 133
724162 ATACTATTCC
* * *
724172 TTAGGGGATATCAGACTTGAGAAACATTGATTCATTCCACTATTCTCCAGGAAAAATTGAATCGA
1 TTAGGGGAGATCAGACTTGAGAAACATTGATCCATTCCACTATTCTCCAGGAAAAATTGAATCAA
** * * * *
724237 GGTTTATTTGCTTCGCTGTTTTTCAGGAAGACCAAATCTGAAAAAAGAATAATCTGCTCCACTAC
66 ACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAAAGAACAATCTGCTCCACTAC
724302 TCT
131 TCT
* * * * *
724305 TTAGGGGAGATCAGACTTGAGAAATCTTTGATCCACTT-CGCTATTCTTCAGGGAAGATTGAATC
1 TTAGGGGAGATCAGACTTGAGAAA-CATTGATCCA-TTCCACTATTCTCCAGGAAAAATTGAATC
* * * * * *
724369 AAACTTGATTTGCTTCGCTGTTCTTCAAGAATATCAACTCTGAAAAATG-ACGATCTGCTCTGA-
64 AAACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAAAGAACAATCTGCTC-CAC
724432 TACTCT
128 TACTCT
* *
724438 TTAAGAGAGATCA
1 TTAGGGGAGATCA
724451 TATCAAAGGG
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
133 49 0.40
134 70 0.58
135 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (133 bp):
TTAGGGGAGATCAGACTTGAGAAACATTGATCCATTCCACTATTCTCCAGGAAAAATTGAATCAA
ACTTGATTTGCTTCGCTGTTCTTCAAGAAGACCAAATCTGAAAAAAGAACAATCTGCTCCACTAC
TCT
Found at i:724650 original size:89 final size:89
Alignment explanation
Indices: 724479--724910 Score: 528
Period size: 89 Copynumber: 4.8 Consensus size: 89
724469 TCTGCTCTAT
* * *
724479 TACTCTTTAGGGGAGATCAGACTCGAGATTGATTTTTATCCACTTCGCTGC-TCTTCAGGAAGAC
1 TACTCATTAGGAGAGATCAGACTCGAGATTGA---TT-T--GCTTCGCTGCTTCTTCAGGAAGAC
* * *
724543 CAAATCTGAAATAAGAAGAATTTGTTCCAC
60 CAAATCTAAAATAAGAAGAATATGCTCCAC
* * * * *
724573 TACTCTTTA-GAGGAGATTAGACTTGAGATTGATTTGCTTTGTTGCTTCTTCAGGAAGACCAAAT
1 TACTCATTAGGA-GAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAAT
* * *
724637 CTGAAATAAGAAGAATCTGCTTCAC
65 CTAAAATAAGAAGAATATGCTCCAC
* * * * * *
724662 TACTCATTAGGGGAGATTATACTCGAGATTGATTTGATTCACTGCTTCTTCAGGAATACCAAATC
1 TACTCATTAGGAGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATC
724727 TAAAATAAGAAGAATATGCTCCAC
66 TAAAATAAGAAGAATATGCTCCAC
* * *
724751 TACTCATTAGGAGAGATCAGACTCGAGATTGATTTTCTTTGTTGCTTCTTCAGGAAGACCAAATC
1 TACTCATTAGGAGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATC
724816 TAAAATAAGAAGAATATGCTCCAC
66 TAAAATAAGAAGAATATGCTCCAC
* * ** *
724840 TACTCATTAGGTGA-ATCAGACTGGAGATTGATTTGCTTCGCTATTTCTTCAAGAAGACCAAATC
1 TACTCATTAGGAGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATC
724904 TAAAATA
66 TAAAATA
724911 TTGACTTCTC
Statistics
Matches: 297, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
88 57 0.19
89 208 0.70
90 2 0.01
91 2 0.01
93 1 0.00
94 27 0.09
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (89 bp):
TACTCATTAGGAGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATC
TAAAATAAGAAGAATATGCTCCAC
Found at i:724793 original size:178 final size:178
Alignment explanation
Indices: 724479--724910 Score: 589
Period size: 178 Copynumber: 2.4 Consensus size: 178
724469 TCTGCTCTAT
* * *
724479 TACTCTTTAGGGGAGATCAGACTCGAGATTGATTTTTATCCACTTCGCTGCTCTTCAGGAAGACC
1 TACTCATTAGGGGAGATCAGACTCGAGATTGA-TTTGATTCAC-T-GCT--TCTTCAGGAAGACC
* * * * * *
724544 AAATCTGAAATAAGAAGAATTTGTTCCACTACTCTTTAGAGGAGATTAGACTTGAGATTGATTTG
61 AAATCTAAAATAAGAAGAATATGCTCCACTACTCATTAGAGGAGATCAGACTCGAGATTGATTTG
* * *
724609 CTTTGTTGCTTCTTCAGGAAGACCAAATCTGAAATAAGAAGAATCTGCTTCAC
126 CTTTGTTGCTTCTTCAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCAC
* * *
724662 TACTCATTAGGGGAGATTATACTCGAGATTGATTTGATTCACTGCTTCTTCAGGAATACCAAATC
1 TACTCATTAGGGGAGATCAGACTCGAGATTGATTTGATTCACTGCTTCTTCAGGAAGACCAAATC
*
724727 TAAAATAAGAAGAATATGCTCCACTACTCATTAG-GAGAGATCAGACTCGAGATTGATTTTCTTT
66 TAAAATAAGAAGAATATGCTCCACTACTCATTAGAG-GAGATCAGACTCGAGATTGATTTGCTTT
724791 GTTGCTTCTTCAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCAC
130 GTTGCTTCTTCAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCAC
* * * * ** *
724840 TACTCATTAGGTGA-ATCAGACTGGAGATTGATTTGCTTCGCTATTTCTTCAAGAAGACCAAATC
1 TACTCATTAGGGGAGATCAGACTCGAGATTGATTTGATTCACTGCTTCTTCAGGAAGACCAAATC
724904 TAAAATA
66 TAAAATA
724911 TTGACTTCTC
Statistics
Matches: 222, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
177 49 0.22
178 132 0.59
180 3 0.01
181 1 0.00
182 8 0.04
183 29 0.13
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (178 bp):
TACTCATTAGGGGAGATCAGACTCGAGATTGATTTGATTCACTGCTTCTTCAGGAAGACCAAATC
TAAAATAAGAAGAATATGCTCCACTACTCATTAGAGGAGATCAGACTCGAGATTGATTTGCTTTG
TTGCTTCTTCAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCAC
Found at i:726979 original size:29 final size:28
Alignment explanation
Indices: 726947--727014 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
726937 ATTTTCTTGT
* *
726947 ATTATTATATATTATAATATTATA-TAAAA
1 ATTATTATATATTA-AAT-TCATAGGAAAA
*
726976 ATTATTTTTATATTAAATTCATAGGAAAA
1 ATTA-TTATATATTAAATTCATAGGAAAA
727005 ATTATTATAT
1 ATTATTATAT
727015 TTCTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 9 0.27
29 15 0.45
30 9 0.27
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
ATTATTATATATTAAATTCATAGGAAAA
Found at i:728606 original size:20 final size:20
Alignment explanation
Indices: 728577--728624 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
728567 ATTTTCACAA
*
728577 CGTTGTGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
728597 CGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
728617 TGTTGCGA
1 CGTTGCGA
728625 ATTTAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.17, G:0.23, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:728635 original size:20 final size:20
Alignment explanation
Indices: 728592--728635 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
728582 TGATTTTCAT
* * *
728592 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
728612 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
728632 TTTC
1 TTTC
728636 AAAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:729163 original size:20 final size:21
Alignment explanation
Indices: 729133--729368 Score: 92
Period size: 20 Copynumber: 11.7 Consensus size: 21
729123 TTCAAAAATA
*
729133 ATATTCGCGTTGCGA-TTTAC
1 ATATTCACGTTGCGATTTTAC
729153 ATATT-ATCGTTGCGATTTTAC
1 ATATTCA-CGTTGCGATTTTAC
* *
729174 CTATTCACGTTGCGAATTTGAC
1 ATATTCACGTTGCG-ATTTTAC
*
729196 -T-TTCGCGTTGCGATTTTA-
1 ATATTCACGTTGCGATTTTAC
* * * *
729214 ACT-TTCGCGTTGCCAATTT-G
1 A-TATTCACGTTGCGATTTTAC
* *
729234 ATTTTCGCGTTGCGATTTTGAC
1 ATATTCACGTTGCGATTTT-AC
* * *
729256 -T-TTCGCGTTGCCAATTTGAC
1 ATATTCACGTTG-CGATTTTAC
** *
729276 -T-TTCGTGTTGTGA-TTTAC
1 ATATTCACGTTGCGATTTTAC
*
729294 ATATT-ATCGTTGC-AATTTAC
1 ATATTCA-CGTTGCGATTTTAC
* *
729314 CTATTCACATTGCGA-TTTAC
1 ATATTCACGTTGCGATTTTAC
729334 ATATT-ATCGTTGCGA-TTTAC
1 ATATTCA-CGTTGCGATTTTAC
* **
729354 CTATTTGCGTTGCGA
1 ATATTCACGTTGCGA
729369 ATTTGGAACC
Statistics
Matches: 172, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.02
19 10 0.06
20 126 0.73
21 25 0.15
22 7 0.04
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (21 bp):
ATATTCACGTTGCGATTTTAC
Found at i:729178 original size:21 final size:20
Alignment explanation
Indices: 729140--729188 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
729130 ATAATATTCG
*
729140 CGTTGCGA-TTTACATATTA
1 CGTTGCGATTTTACCTATTA
729159 TCGTTGCGATTTTACCTATTCA
1 -CGTTGCGATTTTACCTATT-A
729181 CGTTGCGA
1 CGTTGCGA
729189 ATTTGACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTACCTATTA
Found at i:729187 original size:41 final size:41
Alignment explanation
Indices: 729134--729278 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 41
729124 TCAAAAATAA
* *
729134 TATTCGCGTTGCG-ATTT-ACATATTATCGTTGCGATTTTACC
1 TATTCGCGTTGCGAATTTGAC-T-TTAGCGTTGCGATTTTAAC
* *
729175 TATTCACGTTGCGAATTTGACTTTCGCGTTGCGATTTTAAC
1 TATTCGCGTTGCGAATTTGACTTTAGCGTTGCGATTTTAAC
* * * *
729216 T-TTCGCGTTGCCAATTTGATTTTCGCGTTGCGATTTTGAC
1 TATTCGCGTTGCGAATTTGACTTTAGCGTTGCGATTTTAAC
*
729256 T-TTCGCGTTGCCAATTTGACTTT
1 TATTCGCGTTGCGAATTTGACTTT
729279 CGTGTTGTGA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
40 57 0.61
41 29 0.31
42 5 0.05
43 2 0.02
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (41 bp):
TATTCGCGTTGCGAATTTGACTTTAGCGTTGCGATTTTAAC
Found at i:729234 original size:40 final size:40
Alignment explanation
Indices: 729160--729291 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
729150 TACATATTAT
* * *
729160 CGTTGCGATTTTACCTATTCACGTTGCGAATTTGACTTTCG
1 CGTTGCGATTTTAACT-TTCGCGTTGCCAATTTGACTTTCG
*
729201 CGTTGCGATTTTAACTTTCGCGTTGCCAATTTGATTTTCG
1 CGTTGCGATTTTAACTTTCGCGTTGCCAATTTGACTTTCG
*
729241 CGTTGCGATTTTGACTTTCGCGTTGCCAATTTGACTTTCG
1 CGTTGCGATTTTAACTTTCGCGTTGCCAATTTGACTTTCG
* *
729281 TGTTGTGATTT
1 CGTTGCGATTT
729292 ACATATTATC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 68 0.82
41 15 0.18
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (40 bp):
CGTTGCGATTTTAACTTTCGCGTTGCCAATTTGACTTTCG
Found at i:729305 original size:40 final size:40
Alignment explanation
Indices: 729160--729346 Score: 154
Period size: 40 Copynumber: 4.7 Consensus size: 40
729150 TACATATTAT
* *
729160 CGTTGCGATTTTACCTATTCA-CGTTGCGAATTTGACTTTCG
1 CGTTGCGATTTTA-C-ATTTAGCGTTGCCAATTTGACTTTCG
* *
729201 CGTTGCGATTTTA-ACTTTCGCGTTGCCAATTTGATTTTCG
1 CGTTGCGATTTTACA-TTTAGCGTTGCCAATTTGACTTTCG
*
729241 CGTTGCGATTTTGAC-TTTCGCGTTGCCAATTTGACTTTCG
1 CGTTGCGATTTT-ACATTTAGCGTTGCCAATTTGACTTTCG
* * * *
729281 TGTTGTGA-TTTACATATTATCGTTG-CAATTT-ACCTATTCA
1 CGTTGCGATTTTACAT-TTAGCGTTGCCAATTTGA-CT-TTCG
* *
729321 CATTGCGA-TTTACATATTATCGTTGC
1 CGTTGCGATTTTACAT-TTAGCGTTGC
729347 GATTTACCTA
Statistics
Matches: 124, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 4 0.03
39 14 0.11
40 92 0.74
41 14 0.11
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (40 bp):
CGTTGCGATTTTACATTTAGCGTTGCCAATTTGACTTTCG
Found at i:729305 original size:60 final size:60
Alignment explanation
Indices: 729181--729311 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 60
729171 TACCTATTCA
* * * * * *
729181 CGTTGCGAATTTGACTTTCGCGTTGCGATTTTAACTTTCGCGTTGCCAATTTGATTTTCG
1 CGTTGCGATTTTGACTTTCGCGTTGCCAATTTAACTTTCGCGTTGCCAATTTCATATTAG
* * ** *
729241 CGTTGCGATTTTGACTTTCGCGTTGCCAATTTGACTTTCGTGTTG-TGATTTACATATTAT
1 CGTTGCGATTTTGACTTTCGCGTTGCCAATTTAACTTTCGCGTTGCCAATTT-CATATTAG
*
729301 CGTTGCAATTT
1 CGTTGCGATTT
729312 ACCTATTCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 4 0.07
60 54 0.93
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (60 bp):
CGTTGCGATTTTGACTTTCGCGTTGCCAATTTAACTTTCGCGTTGCCAATTTCATATTAG
Found at i:729367 original size:40 final size:40
Alignment explanation
Indices: 729282--729368 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
729272 TGACTTTCGT
*
729282 GTTGTGATTTACATATTATCGTTGCAATTTACCTATTCAC
1 GTTGCGATTTACATATTATCGTTGCAATTTACCTATTCAC
* * **
729322 ATTGCGATTTACATATTATCGTTGCGATTTACCTATTTGC
1 GTTGCGATTTACATATTATCGTTGCAATTTACCTATTCAC
729362 GTTGCGA
1 GTTGCGA
729369 ATTTGGAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (40 bp):
GTTGCGATTTACATATTATCGTTGCAATTTACCTATTCAC
Found at i:729539 original size:79 final size:79
Alignment explanation
Indices: 729408--729570 Score: 281
Period size: 79 Copynumber: 2.1 Consensus size: 79
729398 TCGCGTTGAG
*
729408 ATTTTGTTGGTCATTTTTTTAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTT
1 ATTTTGTTGGTCATTTTTGTAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTT
*
729473 CGATCACTGAAGTT
66 CGATCACTAAAGTT
*
729487 ATTTTGTTGGTCATTTTTGTAAATCCAAAAAAGGTTGGTTAAAATCGTATATTATAAGGCATTTT
1 ATTTTGTTGGTCATTTTTGTAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTT
* *
729552 TGGTCACTAAAGTT
66 CGATCACTAAAGTT
729566 ATTTT
1 ATTTT
729571 CTCTAATAAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (79 bp):
ATTTTGTTGGTCATTTTTGTAAATCCAAAAAAAGTTGGTTAAAATCGTATATTATAAGGCATTTT
CGATCACTAAAGTT
Found at i:733178 original size:45 final size:45
Alignment explanation
Indices: 733065--733181 Score: 164
Period size: 44 Copynumber: 2.6 Consensus size: 45
733055 TCGTCACAAA
* * *
733065 ACTTGAGTACATATTAGTTACATTTTTGCTTAGTTAATTGATTGG
1 ACTTGAGTACATATTAGTTACACTTTTACTTAGTTAATTGATTGC
* *
733110 ACTT-TGTACATATTAGTTACACTTTTACTTAGTTAGTTGATTGC
1 ACTTGAGTACATATTAGTTACACTTTTACTTAGTTAATTGATTGC
* *
733154 AGTTGAGTACATATTAGTTTCACTTTTA
1 ACTTGAGTACATATTAGTTACACTTTTA
733182 GTGAAATACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 38 0.60
45 25 0.40
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (45 bp):
ACTTGAGTACATATTAGTTACACTTTTACTTAGTTAATTGATTGC
Found at i:733604 original size:15 final size:16
Alignment explanation
Indices: 733584--733620 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
733574 ATAAGATTTG
733584 TTATTTTCCA-TTTTT
1 TTATTTTCCATTTTTT
733599 TTATTTTCCATTTTTT
1 TTATTTTCCATTTTTT
733615 TTATTT
1 TTATTT
733621 GTATTATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCCATTTTTT
Found at i:733612 original size:14 final size:14
Alignment explanation
Indices: 733579--733614 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
733569 GGTGTATAAG
*
733579 ATTTGTTATTTTCC
1 ATTTTTTATTTTCC
733593 ATTTTTTTATTTTCC
1 A-TTTTTTATTTTCC
733608 ATTTTTT
1 ATTTTTT
733615 TTATTTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.72
Consensus pattern (14 bp):
ATTTTTTATTTTCC
Found at i:734450 original size:3 final size:3
Alignment explanation
Indices: 734442--734500 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
734432 CCTACAAAAA
734442 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
734490 TAT TAT TAT TA
1 TAT TAT TAT TA
734501 ATACATTACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:743269 original size:20 final size:21
Alignment explanation
Indices: 743244--743374 Score: 101
Period size: 20 Copynumber: 6.4 Consensus size: 21
743234 TTTTCCCAAT
*
743244 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
743264 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
743285 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
743305 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* **
743326 TCGCAATGCG-A-TACTGACTA
1 TCGCAATGCGAATTA-AGAAAA
*
743346 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCGA-ATTAAGAAAA
743367 TCGCAATG
1 TCGCAATG
743375 AGATACTTAC
Statistics
Matches: 85, Mismatches: 20, Indels: 11
0.73 0.17 0.09
Matches are distributed among these distances:
19 1 0.01
20 41 0.48
21 40 0.47
22 1 0.01
23 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:743287 original size:21 final size:21
Alignment explanation
Indices: 743261--743336 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
743251 GCGAATAAGT
743261 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
743282 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
743302 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
743323 AAATCGCAATGCGA
1 AAATCGCAACGCGA
743337 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:743289 original size:41 final size:41
Alignment explanation
Indices: 743244--743336 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
743234 TTTTCCCAAT
743244 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
743285 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
743326 TCGCAATGCGA
1 TCGCAATGCGA
743337 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:743349 original size:41 final size:41
Alignment explanation
Indices: 743263--743397 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
743253 GAATAAGTAA
* *
743263 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
743304 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * *
743345 ATCGCAATGCGATAAT-AAAAAATCGCAATGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
743386 TTCGCAACGCGA
1 ATCGCAACGCGA
743398 TACTGACTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:743392 original size:20 final size:20
Alignment explanation
Indices: 743367--743419 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
743357 TAATAAAAAA
* *
743367 TCGCAATGAGATACTTACTT
1 TCGCAACGAGATACTGACTT
*
743387 TCGCAACGCGATACTGACTT
1 TCGCAACGAGATACTGACTT
*
743407 TCGCAACGCGATA
1 TCGCAACGAGATA
743420 ATACATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGAGATACTGACTT
Found at i:743635 original size:22 final size:22
Alignment explanation
Indices: 743607--743650 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
743597 CACTCTCTCA
743607 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
743629 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
743651 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:743943 original size:20 final size:20
Alignment explanation
Indices: 743920--743962 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
743910 GATAGTCGAA
743920 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
743940 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
743960 TTC
1 TTC
743963 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:745303 original size:18 final size:18
Alignment explanation
Indices: 745282--745326 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
745272 TCCACTTCGG
*
745282 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
745300 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
745318 GAGCCATCA
1 GAGCCATCA
745327 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:745862 original size:19 final size:20
Alignment explanation
Indices: 745808--745874 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
745798 TAGTTTACTT
* *
745808 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
745828 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
745848 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
745867 TCGCAACG
1 TCGCAACG
745875 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:745886 original size:14 final size:14
Alignment explanation
Indices: 745863--745920 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
745853 ATGCGAAATG
745863 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
745877 AAAATTGCAATGCGAA
1 AAAATCGCAA--CGAC
745893 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
745909 AAAATCGCAACG
1 AAAATCGCAACG
745921 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:745905 original size:32 final size:33
Alignment explanation
Indices: 745847--745937 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
745837 GGAAATGGCT
745847 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
745880 ATTGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
745912 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
745938 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:745973 original size:14 final size:14
Alignment explanation
Indices: 745954--746011 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
745944 TTGTGTTTCG
745954 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
745968 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
745984 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
746000 CGTTGCGATTTT
1 CGTTGCGATTTT
746012 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:745988 original size:32 final size:33
Alignment explanation
Indices: 745949--746027 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
745939 GCGATTTGTG
745949 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
745981 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
746014 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
746028 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:746026 original size:19 final size:19
Alignment explanation
Indices: 745968--746085 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
745958 GCGATTTTGT
745968 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
745986 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
746000 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
746019 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
746039 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
746058 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
746078 TGTTGCGA
1 CGTTGCGA
746086 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:747934 original size:14 final size:14
Alignment explanation
Indices: 747915--747950 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
747905 ATTGTTTAAT
747915 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
747929 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
747943 TGATTTGT
1 TGATTTGT
747951 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:749101 original size:24 final size:24
Alignment explanation
Indices: 749074--749127 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
749064 GTATTCGAAA
* *
749074 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
749098 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
749122 TTTGAT
1 TTTGAT
749128 GATGTTTCAG
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:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:749319 original size:12 final size:12
Alignment explanation
Indices: 749302--749326 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
749292 ATATAATCCT
749302 GAAGAAGAAAAA
1 GAAGAAGAAAAA
749314 GAAGAAGAAAAA
1 GAAGAAGAAAAA
749326 G
1 G
749327 TCCCTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:751637 original size:19 final size:19
Alignment explanation
Indices: 751615--751745 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
751605 TGAAATTACT
751615 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
751634 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
751648 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
751667 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
751681 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
751700 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
751714 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
751733 ATCGCAACGCGAA
1 ATCGCAATGCGAA
751746 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:751657 original size:33 final size:33
Alignment explanation
Indices: 751615--751741 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
751605 TGAAATTACT
751615 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
751648 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
751680 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
751714 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
751742 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:751722 original size:66 final size:66
Alignment explanation
Indices: 751616--751748 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
751606 GAAATTACTA
*
751616 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
751681 T
66 T
*
751682 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
751747 T
66 T
751748 T
1 T
751749 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:751944 original size:14 final size:14
Alignment explanation
Indices: 751925--751961 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
751915 CATCAATTAA
751925 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
751939 ACAAATCACCTTTT
1 ACAAATCAACTTTT
751953 ACAAATCAA
1 ACAAATCAA
751962 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:755479 original size:33 final size:33
Alignment explanation
Indices: 755442--755562 Score: 116
Period size: 33 Copynumber: 3.5 Consensus size: 33
755432 TCTTTTGGTT
*
755442 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAAATCGCAACGC
** * * * *
755475 GAAATGACTATAGCGACCAGACAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAAATCGCAACGC
*
755508 GAAATGAAAATCGCAACCGTGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAA-C--G--A-GAAAATCGCAACGC
755547 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
755563 TGCGAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 39 0.57
34 1 0.01
38 1 0.01
39 28 0.41
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAAAATCGCAACGC
Found at i:755519 original size:19 final size:19
Alignment explanation
Indices: 755497--755586 Score: 126
Period size: 19 Copynumber: 4.7 Consensus size: 19
755487 GCGACCAGAC
*
755497 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
*
755516 AATCGCAACCGTGAAATAAA
1 AATCGCAA-CGCGAAATAAA
*
755536 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
*
755555 AATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAATAAA
*
755574 AATCGCAATGCGA
1 AATCGCAACGCGA
755587 TTTTTGTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 47 0.73
20 17 0.27
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:755551 original size:39 final size:38
Alignment explanation
Indices: 755497--755586 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
755487 GCGACCAGAC
*
755497 AATCGCAACGCGAAATGAAAATCGCAACCGTGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
755536 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
755574 AATCGCAATGCGA
1 AATCGCAACGCGA
755587 TTTTTGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:755598 original size:19 final size:19
Alignment explanation
Indices: 755582--755628 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
755572 AAAATCGCAA
*
755582 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
755601 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
755620 TGCGATTTT
1 TGCGATTTT
755629 CATTCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.06, C:0.15, G:0.23, T:0.55
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:756169 original size:20 final size:20
Alignment explanation
Indices: 756144--756197 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
756134 GGCGCTATGT
756144 AAATCGCGTTGCGAAAGTCA
1 AAATCGCGTTGCGAAAGTCA
756164 AAATCGCGTTGCGAAAGTCA
1 AAATCGCGTTGCGAAAGTCA
** *
756184 GTATCTCGTTGCGA
1 AAATCGCGTTGCGA
756198 TTTTGATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (20 bp):
AAATCGCGTTGCGAAAGTCA
Found at i:756228 original size:20 final size:20
Alignment explanation
Indices: 756205--756258 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
756195 CGATTTTGAT
756205 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
756225 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
756245 TATCGCATTGCGAT
1 TATCGCATTGCGAT
756259 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:756249 original size:40 final size:40
Alignment explanation
Indices: 756146--756258 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
756136 CGCTATGTAA
* * * * *
756146 ATCGCGTTGCGAAAGTCAAAATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAATATCGCATTGCGATAGTAAGT
* ** * *
756186 ATCTCGTTGCGATTTTGATTATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTCAATATCGCATTGCGATAGTAAGT
* *
756226 ATCGCATTGCGATAGTCAGTATCGCATTGCGAT
1 ATCGCGTTGCGATAGTCAATATCGCATTGCGAT
756259 TTTCCCAATT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (40 bp):
ATCGCGTTGCGATAGTCAATATCGCATTGCGATAGTAAGT
Found at i:763577 original size:24 final size:24
Alignment explanation
Indices: 763547--763660 Score: 167
Period size: 24 Copynumber: 4.8 Consensus size: 24
763537 TCGATTTGAT
*
763547 TTCTGATCTAATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
763571 TTCTGATTTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
763595 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
763619 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
763643 TTTTGATATGATACTTGA
1 TTCTGATCTGATACTTGA
763661 GGTGAATTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:763599 original size:12 final size:12
Alignment explanation
Indices: 763562--763624 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
763552 ATCTAATACT
763562 TGACATGGATTC
1 TGACATGGATTC
* *
763574 TGA-TTTGATATC
1 TGACATGGAT-TC
763586 TGACATGGATTC
1 TGACATGGATTC
*
763598 TGATC-T-GATAC
1 TGA-CATGGATTC
763609 TTGACATGGATTC
1 -TGACATGGATTC
763622 TGA
1 TGA
763625 TCTGATACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
11 9 0.23
12 21 0.54
13 9 0.23
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:763601 original size:48 final size:48
Alignment explanation
Indices: 763547--763678 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
763537 TCGATTTGAT
*
763547 TTCTGATCTAATACTTGACATGGATTCTGATTTGATA-TCTGACATGGA
1 TTCTGATCTGATACTTGACATGGATTCTGATTTGATACT-TGACATGGA
* *
763595 TTCTGATCTGATACTTGACATGGATTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGATTCTGATTTGATACTTGACATGGA
* * ** * *
763643 TTTTGATATGATACTTGAGGTGAATTATGATTTGAT
1 TTCTGATCTGATACTTGACATGGATTCTGATTTGAT
763679 TTTTGATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 72 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (48 bp):
TTCTGATCTGATACTTGACATGGATTCTGATTTGATACTTGACATGGA
Found at i:763673 original size:24 final size:24
Alignment explanation
Indices: 763550--763678 Score: 134
Period size: 24 Copynumber: 5.4 Consensus size: 24
763540 ATTTGATTTC
* *
763550 TGATCTAATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTA
* *
763574 TGATTTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGACATGGATTA
*
763598 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTA
* *
763622 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTA
* ** *
763646 TGATATGATACTTGAGGTGAATTA
1 TGATCTGATACTTGACATGGATTA
*
763670 TGATTTGAT
1 TGATCTGAT
763679 TTTTGATATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 90 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTA
Found at i:768046 original size:24 final size:24
Alignment explanation
Indices: 768016--768130 Score: 133
Period size: 24 Copynumber: 4.8 Consensus size: 24
768006 TCGATTTGAT
* *
768016 TTCTGATCTAATACTTGACATGGA
1 TTCTGATATGATACTTGACATGGA
*
768040 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATATGATACT-TGACATGGA
* *
768064 TTCTGATATGATACTTGACTTGAA
1 TTCTGATATGATACTTGACATGGA
* * *
768088 TTCTGGTATGATACTTGACCTAGA
1 TTCTGATATGATACTTGACATGGA
*
768112 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
768131 GTGAATTATG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 77 0.97
25 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:768100 original size:48 final size:48
Alignment explanation
Indices: 768016--768147 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 48
768006 TCGATTTGAT
* * * * *
768016 TTCTGATCTAATACTTGACATGGATTCTGATCTGATA-TCTGACATGGA
1 TTCTGATATGATACTTGACATGAATTCTGATATGATACT-TGACATAGA
* * *
768064 TTCTGATATGATACTTGACTTGAATTCTGGTATGATACTTGACCTAGA
1 TTCTGATATGATACTTGACATGAATTCTGATATGATACTTGACATAGA
* * * *
768112 TTTTGATATGATACTTGACGTGAATTATGATTTGAT
1 TTCTGATATGATACTTGACATGAATTCTGATATGAT
768148 TTTTGATATA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (48 bp):
TTCTGATATGATACTTGACATGAATTCTGATATGATACTTGACATAGA
Found at i:768142 original size:24 final size:24
Alignment explanation
Indices: 768016--768147 Score: 124
Period size: 24 Copynumber: 5.5 Consensus size: 24
768006 TCGATTTGAT
* * *
768016 TTCTGATCTAATACTTGACATGGA
1 TTCTGATATGATACTTGACATGAA
* *
768040 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATATGATACT-TGACATGAA
*
768064 TTCTGATATGATACTTGACTTGAA
1 TTCTGATATGATACTTGACATGAA
* *
768088 TTCTGGTATGATACTTGACCT-AGA
1 TTCTGATATGATACTTGACATGA-A
* *
768112 TTTTGATATGATACTTGACGTGAA
1 TTCTGATATGATACTTGACATGAA
* *
768136 TTATGATTTGAT
1 TTCTGATATGAT
768148 TTTTGATATA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.02
24 89 0.96
25 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGAA
Done.