Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_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: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 17
Found at i:835879 original size:26 final size:26
Alignment explanation
Indices: 835843--835892 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
835833 GGCCGTAAAC
*
835843 GAGCCGAGTCGAGTTCGAGTATTGCT
1 GAGCCGAGTCGAGCTCGAGTATTGCT
835869 GAGCCGAGTCGAGCTCGAGTATTG
1 GAGCCGAGTCGAGCTCGAGTATTG
835893 TTAAGCTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (26 bp):
GAGCCGAGTCGAGCTCGAGTATTGCT
Found at i:836561 original size:29 final size:31
Alignment explanation
Indices: 836522--836583 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
836512 CATTTTTCTT
836522 AAATATATACGTG-TC-AGACACCCTTT-CAGA
1 AAATATATACG-GATCTA-ACACCCTTTACAGA
836552 AAATAT-TACGGATCTAACACCCTTTACAGA
1 AAATATATACGGATCTAACACCCTTTACAGA
836582 AA
1 AA
836584 GACGTGGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 1 0.03
29 15 0.52
30 13 0.45
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (31 bp):
AAATATATACGGATCTAACACCCTTTACAGA
Found at i:837522 original size:34 final size:30
Alignment explanation
Indices: 837483--837551 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
837473 TTGATATAAC
*
837483 AATTTAAGGCAAAATGGTTTTTTGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTAGACTT-AATTG
837517 AATTT-ACAAAATGTTTTTAGACTTAATTG
1 AATTTAACAAAATGTTTTTAGACTTAATTG
837546 AATTTA
1 AATTTA
837552 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.43
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTAGACTTAATTG
Found at i:837562 original size:29 final size:30
Alignment explanation
Indices: 837492--837551 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
837482 CAATTTAAGG
*
837492 CAAAATGGTTTTTTGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTAGACTTGAATTGAATTTA
837523 CAAAATGTTTTTAGACTT-AATTGAATTTA
1 CAAAATGTTTTTAGACTTGAATTGAATTTA
837552 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (30 bp):
CAAAATGTTTTTAGACTTGAATTGAATTTA
Found at i:837657 original size:21 final size:21
Alignment explanation
Indices: 837630--837686 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
837620 AAGGGTGTCA
*
837630 AAGTGCATCCATGCACCCCT-
1 AAGTGCATCCATGCACCCATG
*
837650 ACAGTGCATCGATGCA-CCATG
1 A-AGTGCATCCATGCACCCATG
837671 AAGTGCATCCATGCAC
1 AAGTGCATCCATGCAC
837687 TCAAACACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (21 bp):
AAGTGCATCCATGCACCCATG
Found at i:837921 original size:21 final size:21
Alignment explanation
Indices: 837892--837931 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
837882 TTTGAGTAGA
837892 AAAATCATCCCTAAACGGCTCC
1 AAAATCATCCC-AAACGGCTCC
*
837914 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
837932 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:838185 original size:34 final size:32
Alignment explanation
Indices: 838146--838215 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
838136 TTTTGTAAAG
* * *
838146 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGATTCTAGCTTAGCCCG-G-AAAAACTA
*
838180 GGGAAAGATTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
838212 GGGA
1 GGGA
838216 GTTGTAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
Found at i:843659 original size:48 final size:48
Alignment explanation
Indices: 843588--843685 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
843578 CAAAGGTCTT
843588 AACCTAAGTAGAGTGGTAGAGATTCGAAATGTCAGGATTCAAACTCCA
1 AACCTAAGTAGAGTGGTAGAGATTCGAAATGTCAGGATTCAAACTCCA
843636 AACCTAAGTAGAGTGGTAGAGATTCGAAATGTCAGGATTCAAACTCCA
1 AACCTAAGTAGAGTGGTAGAGATTCGAAATGTCAGGATTCAAACTCCA
843684 AA
1 AA
843686 TCTTCTTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (48 bp):
AACCTAAGTAGAGTGGTAGAGATTCGAAATGTCAGGATTCAAACTCCA
Found at i:848908 original size:15 final size:15
Alignment explanation
Indices: 848888--848917 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
848878 TAATTAATTT
*
848888 TCAAACAATAATCAA
1 TCAAACAAAAATCAA
848903 TCAAACAAAAATCAA
1 TCAAACAAAAATCAA
848918 AATTGATGCA
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:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (15 bp):
TCAAACAAAAATCAA
Found at i:850510 original size:2 final size:2
Alignment explanation
Indices: 850503--850560 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
850493 ACCTAAATTA
*
850503 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
850545 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
850561 TTTTTTGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:851400 original size:21 final size:21
Alignment explanation
Indices: 851370--851515 Score: 124
Period size: 21 Copynumber: 7.0 Consensus size: 21
851360 GATTTACATA
*
851370 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
851391 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
851414 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
851433 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
**
851456 TT--CGTTGCGATAGTAGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
851475 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
851498 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
851516 AATCGCAACG
Statistics
Matches: 100, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
19 23 0.23
21 51 0.51
23 26 0.26
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:851427 original size:42 final size:42
Alignment explanation
Indices: 851376--851515 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
851366 CATATTCGCA
851376 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
851418 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
**
851460 TTGCGATAGTAGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
851502 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
851516 AATCGCAACG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:851612 original size:6 final size:6
Alignment explanation
Indices: 851601--851653 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
851591 GACACGTATT
851601 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
851646 ACC-CG ACC
1 ACCACG ACC
851654 CGAGACGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.43
6 27 0.57
ACGTcount: A:0.28, C:0.55, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:851639 original size:5 final size:5
Alignment explanation
Indices: 851605--851656 Score: 68
Period size: 5 Copynumber: 9.6 Consensus size: 5
851595 CGTATTACCA
851605 CGACC ACGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC
851654 CGA
1 CGA
851657 GACGAGACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.50
6 23 0.50
ACGTcount: A:0.27, C:0.54, G:0.19, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:852503 original size:6 final size:6
Alignment explanation
Indices: 852492--852516 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
852482 CATATCTCTA
852492 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
852517 AATAAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:856459 original size:22 final size:21
Alignment explanation
Indices: 856431--856476 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
856421 TTATTTAAAT
856431 ATTTCTCTCTCTTCCTGGATAC
1 ATTT-TCTCTCTTCCTGGATAC
856453 A-TTTCTCTCTTCCTGGATAC
1 ATTTTCTCTCTTCCTGGATAC
856473 ATTT
1 ATTT
856477 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 18 0.78
21 4 0.17
22 1 0.04
ACGTcount: A:0.15, C:0.28, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTTTCTCTCTTCCTGGATAC
Found at i:856480 original size:24 final size:20
Alignment explanation
Indices: 856436--856476 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
856426 TAAATATTTC
856436 TCTCTCTTCCTGGATACATT
1 TCTCTCTTCCTGGATACATT
856456 TCTCTCTTCCTGGATACATT
1 TCTCTCTTCCTGGATACATT
856476 T
1 T
856477 ATTTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.10, T:0.46
Consensus pattern (20 bp):
TCTCTCTTCCTGGATACATT
Found at i:856741 original size:20 final size:20
Alignment explanation
Indices: 856716--856949 Score: 215
Period size: 20 Copynumber: 11.6 Consensus size: 20
856706 TTTTCCCAAT
*
856716 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
856736 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
856757 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* *
856777 TCGCAATGCG-ATACTTACTA
1 TCGCAATGCGAATACGTA-AA
* *
856797 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
* * * * *
856817 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
856838 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
856858 TCGCAATGCGAATTAGGGAAA
1 TCGCAATGCGAA-TACGTAAA
*
856879 TCGCAATTCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
856899 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
856919 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
856939 TCGCAATGCGA
1 TCGCAATGCGA
856950 TTTACATAGC
Statistics
Matches: 179, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.01
20 129 0.72
21 44 0.25
22 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:856839 original size:122 final size:122
Alignment explanation
Indices: 856700--856957 Score: 328
Period size: 122 Copynumber: 2.1 Consensus size: 122
856690 TACAGTGTCG
**
856700 TTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATT-GGGAAAATCGCAAT
1 TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGG-AAATCGCAAT
* * * * *
856764 GCG-ATAC-TGACTATCGCAATGCG-ATACTTACTATCGCAATGCGATTTACGT-ATTCGCA
65 GCGAATACGT-A-AATCGCAATGCGAATACGTA-AATCGCAATGCGA-ATACGTAAATCGCA
* * *
856822 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGGAAATCGCAATT
1 TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGGAAATCGCAATG
856887 CGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
66 CGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
* *
856944 ATGCGATTTACATA
1 TTGCGATTTTCATA
856958 GCGCCATTCG
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
121 5 0.04
122 99 0.83
123 14 0.12
124 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (122 bp):
TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGGAAATCGCAATG
CGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
Found at i:856903 original size:61 final size:60
Alignment explanation
Indices: 856716--856945 Score: 211
Period size: 61 Copynumber: 3.8 Consensus size: 60
856706 TTTTCCCAAT
* * * *
856716 TCGCAATGCGAATAAGTAAATCGCAACGCGAATT-GGGAAAATCGCAATGCG-ATACTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGG-AAATCGCAATTCGAATACT-A-AA
* * * * * * * * *
856777 TCGCAATGCG-ATACTTACTATCGCAATGCGATTTA-CGTATTCGC-ATTGCGATTTTCATAAT
1 TCGCAATGCGAATACGTA-AATCGCAATGCGAATTAGGGAAATCGCAATT-CGA-ATAC-TAAA
856838 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGGAAATCGCAATTCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGGAAATCGCAATTCGAATAC-TAAA
* *
856899 TCGCAATGCGAATACGTAAATCGCAATGCGAA-TACGTAAATCGCAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGGAAATCGCAAT
856946 GCGATTTACA
Statistics
Matches: 135, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
59 2 0.01
60 25 0.19
61 86 0.64
62 18 0.13
63 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGGAAATCGCAATTCGAATACTAAA
Found at i:857505 original size:19 final size:19
Alignment explanation
Indices: 857468--857534 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
857458 TTTCGAGAAT
857468 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
**
857488 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
857507 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
857526 AAAATCGCA
1 AAAATCGCA
857535 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.49, C:0.25, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:857552 original size:19 final size:19
Alignment explanation
Indices: 857530--857613 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 19
857520 GAAACCAAAA
857530 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
857549 TCGCGTTGC-A-ATTC-TC
1 TCGCATTGCGATTTTCATT
*
857565 TCG--TTGCGATGTTCATT
1 TCGCATTGCGATTTTCATT
*
857582 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
857601 TCGCATTGCGATT
1 TCGCATTGCGATT
857614 CTCTCGTTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.08
15 1 0.02
16 7 0.13
17 7 0.13
18 1 0.02
19 33 0.62
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:857615 original size:52 final size:52
Alignment explanation
Indices: 857530--857647 Score: 175
Period size: 52 Copynumber: 2.2 Consensus size: 52
857520 GAAACCAAAA
* * *
857530 TCGCATTGCGATTTTCATTTCGCGTTGCAATTCTCTCGTTGCGAT-GTTCATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTACGATAG-TCATT
*
857582 TCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTACGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTACGATAGTCATT
857634 TCCGCGTTGCGATT
1 T-CGCGTTGCGATT
857648 CTTATTATCT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 47 0.78
53 13 0.22
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTACGATAGTCATT
Found at i:859530 original size:94 final size:94
Alignment explanation
Indices: 859369--859559 Score: 339
Period size: 94 Copynumber: 2.0 Consensus size: 94
859359 TAGATTGCTT
* *
859369 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTGTTCTTTATCACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
859434 ATTTGTCTTTGA-TTTGTCTTTTGGTTGAA
66 ATTTGTCTTT-ATTTTGTCTTTTGGTTGAA
*
859463 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
859528 ATTTGTCTTTATTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTATTTTGTCTTTTGGTTGAA
859557 AGT
1 AGT
859560 TTGAAATATA
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.01
94 92 0.99
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTATTTTGTCTTTTGGTTGAA
Found at i:859853 original size:21 final size:21
Alignment explanation
Indices: 859829--859895 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
859819 TCATTCCTCG
859829 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
859850 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
859871 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
859892 AGAG
1 AGAG
859896 CCCGATTCAT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:861416 original size:14 final size:14
Alignment explanation
Indices: 861397--861453 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
861387 GCGAAATGAA
861397 AATCGCAACGAAAG
1 AATCGCAACGAAAG
861411 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
*
861428 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
861444 AATCGCAACG
1 AATCGCAACG
861454 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:861424 original size:33 final size:33
Alignment explanation
Indices: 861379--861468 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
861369 AAAAAGTACT
*
861379 ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAAAGA
*
861412 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAAAGA
* *
861445 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
861469 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:861438 original size:19 final size:19
Alignment explanation
Indices: 861379--861439 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
861369 AAAAAGTACT
*
861379 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
861398 ATCGCAA--CGAAA-G--A
1 ATCGCAACGCGAAATGAAA
861412 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
861431 ATCGCAACG
1 ATCGCAACG
861440 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:861486 original size:19 final size:19
Alignment explanation
Indices: 861464--861614 Score: 98
Period size: 19 Copynumber: 8.7 Consensus size: 19
861454 CGAAATTAAA
861464 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
861483 TTCGCATTGCGA--TTCA-
1 TTCGCGTTGCGATTTTCAT
*
861499 --CTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
861516 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
861530 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
861549 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
861564 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
861582 TTCGCATTGCGATAATAAT
1 TTCGCGTTGCGATTTTCAT
861601 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
861615 AGACATTAAG
Statistics
Matches: 99, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 29 0.29
16 7 0.07
17 7 0.07
19 46 0.46
20 10 0.10
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:861510 original size:33 final size:32
Alignment explanation
Indices: 861468--861594 Score: 202
Period size: 33 Copynumber: 3.9 Consensus size: 32
861458 ATTAAATTCG
861468 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
861501 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
861534 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
861567 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
861595 AATAATTTCC
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
31 3 0.03
33 82 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:861544 original size:66 final size:66
Alignment explanation
Indices: 861461--861593 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
861451 ACGCGAAATT
861461 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGC
861526 G
66 G
*
861527 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGC
861592 G
66 G
861593 A
1 A
861594 TAATAATTTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:863902 original size:12 final size:12
Alignment explanation
Indices: 863885--863909 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
863875 TTCTTCGGGA
863885 CTTTTTCTTCTT
1 CTTTTTCTTCTT
863897 CTTTTTCTTCTT
1 CTTTTTCTTCTT
863909 C
1 C
863910 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:864118 original size:24 final size:24
Alignment explanation
Indices: 864084--864137 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
864074 CTGAAACATC
*
864084 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
864108 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
864132 ATCAAA
1 ATCAAA
864138 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:864907 original size:20 final size:20
Alignment explanation
Indices: 864882--864932 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
864872 TGTATTATCT
864882 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
864902 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
864922 CGTTGCGAAAG
1 CGTTGCGAAAG
864933 GCAATCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:865193 original size:33 final size:33
Alignment explanation
Indices: 865151--865277 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
865141 TCATTTGACC
**
865151 ATCGCAATGCGAAATGAAAATCGCAACGATAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
865184 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
*
865217 ATCGCAATGCGAAATCAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
*
865250 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
865278 CGATTTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
Found at i:865305 original size:18 final size:18
Alignment explanation
Indices: 865277--865320 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
865267 AAATCGCAAC
865277 GCGATTTTAGTTTCGCGTT
1 GCGA-TTTAGTTTCGCGTT
865296 GCGATTTAGTTTCGCGTT
1 GCGATTTAGTTTCGCGTT
865314 GCGATTT
1 GCGATTT
865321 TGTCGTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (18 bp):
GCGATTTAGTTTCGCGTT
Found at i:865368 original size:19 final size:19
Alignment explanation
Indices: 865326--865404 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 19
865316 GATTTTGTCG
* *
865326 TTGCAATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
865345 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
865364 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
*
865378 TTTCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
865397 TTGCGATT
1 TTGCGATT
865405 CTCTCGTTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
14 5 0.10
16 8 0.16
17 8 0.16
19 30 0.59
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:865385 original size:33 final size:33
Alignment explanation
Indices: 865343--865417 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
865333 TTTCATTTCG
* *
865343 CGTTGCGATTTTCATTTCGCATTGCGATTCTTT
1 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
*
865376 CGTTTCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTACGATTTTCATTTCGCATTGCGATTCTCT
865409 CGTTACGAT
1 CGTTACGAT
865418 AGTCAGTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (33 bp):
CGTTACGATTTTCATTTCGCATTGCGATTCTCT
Found at i:865387 original size:52 final size:52
Alignment explanation
Indices: 865277--865404 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 52
865267 AAATCGCAAC
*
865277 GCGATTTT-AGTTTCGCGTTGCGA-TTTAGTTTCGCGTTGCGATTTTGTCGTT
1 GCGATTTTCA-TTTCGCGTTGCGATTTTAGTTTCGCATTGCGATTTTGTCGTT
*
865328 GCAATTTTCATTTCGCGTTGCGATTTTCA-TTTCGCATTGCGATTCTT-TCGTT
1 GCGATTTTCATTTCGCGTTGCGATTTT-AGTTTCGCATTGCGATT-TTGTCGTT
* *
865380 TCGATTTTCATTTCGCATTGCGATT
1 GCGATTTTCATTTCGCGTTGCGATT
865405 CTCTCGTTAC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
51 20 0.29
52 45 0.66
53 3 0.04
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (52 bp):
GCGATTTTCATTTCGCGTTGCGATTTTAGTTTCGCATTGCGATTTTGTCGTT
Found at i:865436 original size:34 final size:33
Alignment explanation
Indices: 865354--865428 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
865344 GTTGCGATTT
* * **
865354 TCATTTCGCATTGCGATTCTTTCGTTTCGATTT
1 TCATTTCGCATTGCGATTCTCTCGTTACGATAG
865387 TCATTTCGCATTGCGATTCTCTCGTTACGATAG
1 TCATTTCGCATTGCGATTCTCTCGTTACGATAG
865420 TCAGTTTCG
1 TCA-TTTCG
865429 TGTTGCGACA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.86
34 5 0.14
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (33 bp):
TCATTTCGCATTGCGATTCTCTCGTTACGATAG
Found at i:866932 original size:22 final size:22
Alignment explanation
Indices: 866905--866948 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
866895 GATGGAGATA
866905 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
866927 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
866949 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:867162 original size:20 final size:20
Alignment explanation
Indices: 867137--867188 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
867127 ATTATGTATT
867137 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
* *
867157 ATCGCGTTGTGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
867177 ATCTCGTTGCGA
1 ATCGCGTTGCGA
867189 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:867225 original size:20 final size:20
Alignment explanation
Indices: 867197--867250 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
867187 GATTTTGTAT
867197 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
867217 TATCACATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
867237 TATCGCATTGCGAT
1 TATCGCATTGCGAT
867251 TTTCCCAATT
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:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:867235 original size:61 final size:61
Alignment explanation
Indices: 867116--867253 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 61
867106 CGCTTTGAAA
* * * * * *
867116 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGTGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
* * * * *
867177 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCACATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
867238 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
867254 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCACATTGCGAAAGTCAGT
Found at i:867579 original size:15 final size:14
Alignment explanation
Indices: 867542--867583 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
867532 CAAATAATAT
867542 TTATTTATTTATTC
1 TTATTTATTTATTC
867556 TTATTTATTTCATTC
1 TTATTTATTT-ATTC
867571 TT-TTATATTTATT
1 TTATT-TATTTATT
867584 AAAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTATTTATTC
Found at i:868557 original size:18 final size:16
Alignment explanation
Indices: 868526--868559 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
868516 TCTAAAATTT
868526 TTATTTTATAATTATA
1 TTATTTTATAATTATA
868542 TTATTTATATTAATTATA
1 TTATTT-TA-TAATTATA
868560 AACTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTTTATAATTATA
Found at i:876621 original size:29 final size:29
Alignment explanation
Indices: 876579--876637 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
876569 GGCAGCTTGT
876579 AGCAAAAAGTGGCAGCAGCTTAACTTACC
1 AGCAAAAAGTGGCAGCAGCTTAACTTACC
876608 AGCAAAAAGTGGCAGCAGCTTAACTTACC
1 AGCAAAAAGTGGCAGCAGCTTAACTTACC
876637 A
1 A
876638 ATGATGGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (29 bp):
AGCAAAAAGTGGCAGCAGCTTAACTTACC
Found at i:877927 original size:105 final size:105
Alignment explanation
Indices: 877811--878018 Score: 407
Period size: 105 Copynumber: 2.0 Consensus size: 105
877801 ATAACTGAAC
877811 GTCCTTATTCTTATTAAAGGTTGGTAAGATAATTAATCGATTGTATTTATTCCATTGTATGCATT
1 GTCCTTATTCTTATTAAAGGTTGGTAAGATAATTAATCGATTGTATTTATTCCATTGTATGCATT
877876 AGAAATAGACGTTAACTTGTATGTGTTTAAAAGGGATCAT
66 AGAAATAGACGTTAACTTGTATGTGTTTAAAAGGGATCAT
877916 GTCCTTATTCTTATTAAAGGTTGGTAAGATAATTAATCGATTGTATTTATTCCATTGTATGCATT
1 GTCCTTATTCTTATTAAAGGTTGGTAAGATAATTAATCGATTGTATTTATTCCATTGTATGCATT
*
877981 AGAAATAGATGTTAACTTGTATGTGTTTAAAAGGGATC
66 AGAAATAGACGTTAACTTGTATGTGTTTAAAAGGGATC
878019 CTAAATTAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (105 bp):
GTCCTTATTCTTATTAAAGGTTGGTAAGATAATTAATCGATTGTATTTATTCCATTGTATGCATT
AGAAATAGACGTTAACTTGTATGTGTTTAAAAGGGATCAT
Found at i:881380 original size:14 final size:14
Alignment explanation
Indices: 881361--881432 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 14
881351 AAATAGCTTA
881361 AGTTATTAAGATCG
1 AGTTATTAAGATCG
* **
881375 AGTTA-T-AGCTTA
1 AGTTATTAAGATCG
881387 AGTTATTAAGATCG
1 AGTTATTAAGATCG
* **
881401 AGTTA-T-AGCTTA
1 AGTTATTAAGATCG
881413 AGTTATTAAGATCG
1 AGTTATTAAGATCG
881427 AGTTAT
1 AGTTAT
881433 AATGTTTAGG
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
12 16 0.38
13 4 0.10
14 22 0.52
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (14 bp):
AGTTATTAAGATCG
Found at i:881382 original size:26 final size:26
Alignment explanation
Indices: 881353--881433 Score: 162
Period size: 26 Copynumber: 3.1 Consensus size: 26
881343 TGTCCATCAA
881353 ATAGCTTAAGTTATTAAGATCGAGTT
1 ATAGCTTAAGTTATTAAGATCGAGTT
881379 ATAGCTTAAGTTATTAAGATCGAGTT
1 ATAGCTTAAGTTATTAAGATCGAGTT
881405 ATAGCTTAAGTTATTAAGATCGAGTT
1 ATAGCTTAAGTTATTAAGATCGAGTT
881431 ATA
1 ATA
881434 ATGTTTAGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (26 bp):
ATAGCTTAAGTTATTAAGATCGAGTT
Found at i:882041 original size:23 final size:23
Alignment explanation
Indices: 882014--882072 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
882004 TTTTATATGG
*
882014 CACTTCGGTGCATTTCTACGCGA
1 CACTTCGGTGCATTTCTACACGA
* * *
882037 CACTTCGGTGTATTTCTACATGG
1 CACTTCGGTGCATTTCTACACGA
882060 CACTTCGGTGCAT
1 CACTTCGGTGCAT
882073 ACTATACGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACACGA
Found at i:884322 original size:2 final size:2
Alignment explanation
Indices: 884317--884345 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
884307 TTAATCATTA
884317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
884346 ATTACTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:885538 original size:28 final size:27
Alignment explanation
Indices: 885475--885531 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
885465 CCATTAATAA
* * *
885475 ATTGCATAATTATATATTGGTCCTTAT
1 ATTGTATAATTATACATTGATCCTTAT
885502 ATTGGTATAATTATACATTTGATCCTTAT
1 ATT-GTATAATTATACA-TTGATCCTTAT
885531 A
1 A
885532 ATTTATATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 11 0.44
29 11 0.44
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (27 bp):
ATTGTATAATTATACATTGATCCTTAT
Found at i:885895 original size:16 final size:17
Alignment explanation
Indices: 885858--885895 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
885848 GAATAAAACC
*
885858 TTAAACAAATTATTTGT
1 TTAAACAAATTATTTAT
885875 TTAAACAAATTA-TTAT
1 TTAAACAAATTATTTAT
885891 TTAAA
1 TTAAA
885896 TTAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAACAAATTATTTAT
Found at i:886134 original size:29 final size:29
Alignment explanation
Indices: 886101--886178 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
886091 AAAAATTTGG
886101 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
886130 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAATAATTTTCAAA
* * *
886159 TAAATTTTGGTTCGATTAAT
1 TTAA-TTCGGTTCGGTTAAT
886179 CGAGCCGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 32 0.71
30 13 0.29
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (29 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAA
Found at i:886257 original size:123 final size:126
Alignment explanation
Indices: 886004--886324 Score: 454
Period size: 123 Copynumber: 2.5 Consensus size: 126
885994 ACGAAATTTG
*
886004 TTCGGTTCGGTTAATAATTTTCAAATAAATTTTTGGTTCGATTAACTGAACCCAATTAACCGAAT
1 TTCGGTTCGGTTAATAATTTTCAAATAAA-TTTTGGTTCGATTAACTGAACCGAATTAACCGAAT
* * *
886069 TTTTGCTCCAATTAATAATTAAAAAAATTTGGTTAATTCGGTTCGGTTAATAATTTTCAAATTAA
65 TTTTG---CAATTAATAATTAAAAAAATTCGGTTAATTCGGTTCAGTTAATAAATTTCAAATTAA
*
886134 TTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAA-TCGAGCCGAATTAACCGAAT
1 TTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACT-GAACCGAATTAACCGAAT
* *
886198 TTTTG-GATTAATAATT-AAAAAA-TCGGTTAATTCGGTTTAGTTAATAAATTTCAAATTAA
65 TTTTGCAATTAATAATTAAAAAAATTCGGTTAATTCGGTTCAGTTAATAAATTTCAAATTAA
** * *
886257 TTTAGTTCGGTTAATAATTTTCAGATAAATTTTGGTTCAATTAACTGAACCGAATTAACC-ACAT
1 TTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACTGAACCGAATTAACCGA-AT
886321 TTTT
65 TTTT
886325 TCTTTAATCG
Statistics
Matches: 176, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
122 1 0.01
123 92 0.52
124 7 0.04
125 10 0.06
128 1 0.01
129 36 0.20
130 29 0.16
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (126 bp):
TTCGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACTGAACCGAATTAACCGAATT
TTTGCAATTAATAATTAAAAAAATTCGGTTAATTCGGTTCAGTTAATAAATTTCAAATTAA
Found at i:886414 original size:17 final size:19
Alignment explanation
Indices: 886374--886424 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 19
886364 ATTAGCCGTG
*
886374 AATAATTTATTTAATTACAT
1 AATAATTTGTTTAA-TACAT
886394 AATAATTTGTTTAA-ACA-
1 AATAATTTGTTTAATACAT
886411 AATAATTTGTTTAA
1 AATAATTTGTTTAA
886425 GGTTTCATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 14 0.47
18 3 0.10
20 13 0.43
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
AATAATTTGTTTAATACAT
Found at i:896152 original size:28 final size:28
Alignment explanation
Indices: 896116--896219 Score: 127
Period size: 28 Copynumber: 3.6 Consensus size: 28
896106 AAAAAGTTTG
* * *
896116 AATAGTTTAGGTACCTATTTTGACATAA
1 AATACTTTAGGTACTTATTTTGACAAAA
*
896144 AATACTTTAGATACTTATTTTGACAAAA
1 AATACTTTAGGTACTTATTTTGACAAAA
* *
896172 AATAACTTTAGTTATTTATTTTGACCAAAAA
1 AAT-ACTTTAGGTACTTATTTTGA-C-AAAA
896203 AATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
896220 AAATGAAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 27 0.42
29 18 0.28
30 13 0.20
31 7 0.11
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (28 bp):
AATACTTTAGGTACTTATTTTGACAAAA
Found at i:900688 original size:20 final size:20
Alignment explanation
Indices: 900664--900770 Score: 105
Period size: 19 Copynumber: 5.4 Consensus size: 20
900654 AGTTTCCAAT
900664 TTCGCAACGCGAATTTGTAAA
1 TTCGCAACGCGAATTT-TAAA
* *
900685 -TCGCAACGCG-ATAGTCAAA
1 TTCGCAACGCGAAT-TTTAAA
900704 TTCGCAACGCGGAATTTTAAA
1 TTCGCAACGC-GAATTTTAAA
* *
900725 TTCGCAAC-TGAATTTCAAA
1 TTCGCAACGCGAATTTTAAA
* *
900744 TTCGCAACTCGAA-TTTAAT
1 TTCGCAACGCGAATTTTAAA
900763 TTCGCAAC
1 TTCGCAAC
900771 AGGTTTTAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
19 34 0.47
20 23 0.32
21 13 0.18
22 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTTTAAA
Found at i:900708 original size:40 final size:39
Alignment explanation
Indices: 900664--900770 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
900654 AGTTTCCAAT
900664 TTCGCAACGCGAATTTGTAAA-TCGCAACGCG-ATAGTCAAA
1 TTCGCAACGCGAATTT-TAAATTCGCAAC-CGAAT-GTCAAA
* *
900704 TTCGCAACGCGGAATTTTAAATTCGCAACTGAATTTCAAA
1 TTCGCAACGC-GAATTTTAAATTCGCAACCGAATGTCAAA
* *
900744 TTCGCAACTCGAA-TTTAATTTCGCAAC
1 TTCGCAACGCGAATTTTAAATTCGCAAC
900771 AGGTTTTAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
38 13 0.22
39 3 0.05
40 29 0.48
41 15 0.25
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (39 bp):
TTCGCAACGCGAATTTTAAATTCGCAACCGAATGTCAAA
Found at i:900962 original size:16 final size:15
Alignment explanation
Indices: 900927--900965 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
900917 TCCCCATCTC
*
900927 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
900942 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
900958 TAATTTTT
1 TAATTTTT
900966 AAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:901455 original size:12 final size:12
Alignment explanation
Indices: 901434--901467 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
901424 ACCACATTTT
*
901434 CAATACCAAACA
1 CAATATCAAACA
901446 CAATATCAAACA
1 CAATATCAAACA
*
901458 CAATCTCAAA
1 CAATATCAAA
901468 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:901620 original size:24 final size:24
Alignment explanation
Indices: 901593--901646 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
901583 GTATTCGAAA
901593 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
901617 TTTGATCTTGGTGAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
901641 TTTGAT
1 TTTGAT
901647 GATGTGATGG
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:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:903923 original size:18 final size:18
Alignment explanation
Indices: 903900--903935 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
903890 AAGCAAAAGG
903900 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
903918 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
903936 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:904316 original size:20 final size:20
Alignment explanation
Indices: 904293--904332 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
904283 AATCGCAAAC
*
904293 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTATCGCGTTG
904313 CGAATTTGACTATCGCGTTG
1 CGAATTTGACTATCGCGTTG
904333 TACATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (20 bp):
CGAATTTGACTATCGCGTTG
Found at i:904775 original size:18 final size:18
Alignment explanation
Indices: 904754--904790 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
904744 GTAATTGGAG
904754 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
904772 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
904790 T
1 T
904791 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:904797 original size:24 final size:24
Alignment explanation
Indices: 904746--904798 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
904736 TTTCATATGT
* * *
904746 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
904770 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
904794 AATTT
1 AATTT
904799 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:905417 original size:20 final size:20
Alignment explanation
Indices: 905392--905429 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
905382 GCAACGCTTA
*
905392 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCAAATTTGAC
905412 TTTCGCGTTGCAAATTTG
1 TTTCGCGTTGCAAATTTG
905430 TACCTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTGAC
Found at i:905560 original size:66 final size:60
Alignment explanation
Indices: 905488--905627 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 60
905478 TTTTATAAAC
*
905488 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATT----AAGC-AAAAAATAAATCTTATTTACACATC-AATT
905553 A
60 A
* * * *
905554 AACAAATTAACTTTTACAAATCAATTAATCAAAAAATAAATCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACACATCAATTA
905614 AACAAATCAACTTT
1 AACAAATCAACTTT
905628 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
60 18 0.26
61 22 0.32
62 3 0.04
66 25 0.37
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (60 bp):
AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACACATCAATTA
Found at i:907009 original size:21 final size:22
Alignment explanation
Indices: 906985--907037 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
906975 GTGAATCGGG
*
906985 CTCTTGAACGGCGGGC-GGGAC
1 CTCTTGAACGGAGGGCAGGGAC
* *
907006 CTCTTGAAC-GATGGCAGGGGC
1 CTCTTGAACGGAGGGCAGGGAC
907027 CTCTTGAACGG
1 CTCTTGAACGG
907038 TGGAAGGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (22 bp):
CTCTTGAACGGAGGGCAGGGAC
Found at i:907045 original size:21 final size:21
Alignment explanation
Indices: 907005--907102 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
906995 GCGGGCGGGA
*
907005 CCTCTTGAACGATGGCAGGGG
1 CCTCTTGAACGATGGAAGGGG
*
907026 CCTCTTGAACGGTGGAAGGGG
1 CCTCTTGAACGATGGAAGGGG
* *
907047 CTTCTTCG-ATGAT-GAGAGGGG
1 CCTCTT-GAACGATGGA-AGGGG
*
907068 CCTCTTGAACGATAGG-AGGTG
1 CCTCTTGAACGAT-GGAAGGGG
*
907089 CCTCTTGAATGATG
1 CCTCTTGAACGATG
907103 ATAGATGCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.06
21 57 0.90
22 1 0.02
23 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGGAAGGGG
Found at i:907101 original size:42 final size:43
Alignment explanation
Indices: 907005--907103 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
906995 GCGGGCGGGA
* *
907005 CCTCTTGAACGATG-GCAGGGGCCTCTTGAACGGTGGAAGGGG
1 CCTCTTGAATGATGAGCAGGGGCCTCTTGAACGATGGAAGGGG
* *
907047 CTTCTTCG-ATGATGAG-AGGGGCCTCTTGAACGATAGG-AGGTG
1 CCTCTT-GAATGATGAGCAGGGGCCTCTTGAACGAT-GGAAGGGG
907089 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
907104 TAGATGCATC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 43 0.90
43 4 0.08
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.24
Consensus pattern (43 bp):
CCTCTTGAATGATGAGCAGGGGCCTCTTGAACGATGGAAGGGG
Found at i:909308 original size:13 final size:13
Alignment explanation
Indices: 909290--909321 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
909280 GGGTTTTTTC
*
909290 AACAAAAAGGCAA
1 AACAAAAAGACAA
909303 AACAAAAAGACAA
1 AACAAAAAGACAA
909316 AACAAA
1 AACAAA
909322 GACAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:909766 original size:20 final size:20
Alignment explanation
Indices: 909741--909921 Score: 124
Period size: 20 Copynumber: 9.1 Consensus size: 20
909731 GCGTAAAAAC
909741 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
** *
909761 ATTTGAC-TTCTATGTTGTG-
1 ATTTGACTTTC-GCGTTGCGA
*
909780 ATTT-ACAAATTCGCGTTGCGA
1 ATTTGAC--TTTCGCGTTGCGA
* *
909801 ATTTGACTTTTGTGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
909821 ATTTGACTATCACGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
909841 ATTTGACTATCGCGTTACGA
1 ATTTGACTTTCGCGTTGCGA
* *
909861 ATTTAACTATCGCGTTGC-A
1 ATTTGACTTTCGCGTTGCGA
* *
909880 ATTT-ACAAATTCACGTTGCG-
1 ATTTGAC--TTTCGCGTTGCGA
909900 ATTT-ACATATTCGCGTTGCGA
1 ATTTGAC-T-TTCGCGTTGCGA
909921 A
1 A
909922 ATTGGAAATT
Statistics
Matches: 128, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.03
19 13 0.10
20 101 0.79
21 8 0.06
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:909807 original size:60 final size:59
Alignment explanation
Indices: 909741--909921 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 59
909731 GCGTAAAAAC
* * *
909741 ATTTGACTTTCGCGTTGCGAATTTGACTTCTATGTTGTGATTTACAAATTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGAATTTGACTTC-ACGTTGCGATTTACATATTCGCGTTGCGA
* * *
909801 ATTTGACTTTTGTGTTGCGAATTTGACTATCACGTTGCGAATTTGAC-TA-TCGCGTTACGA
1 ATTTGACTTTCGCGTTGCGAATTTGACT-TCACGTTGCG-ATTT-ACATATTCGCGTTGCGA
* *
909861 ATTTAACTATCGCGTTGC-AATTT-ACAAATTCACGTTGCGATTTACATATTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGAATTTGAC---TTCACGTTGCGATTTACATATTCGCGTTGCGA
909921 A
1 A
909922 ATTGGAAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
58 4 0.04
59 11 0.11
60 77 0.75
61 8 0.08
62 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (59 bp):
ATTTGACTTTCGCGTTGCGAATTTGACTTCACGTTGCGATTTACATATTCGCGTTGCGA
Found at i:909957 original size:20 final size:21
Alignment explanation
Indices: 909908--909961 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
909898 CGATTTACAT
909908 ATTCGCGTTGCGAAATTGGAA
1 ATTCGCGTTGCGAAATTGGAA
*
909929 ATT-GGGTTGCGAAATTGG-A
1 ATTCGCGTTGCGAAATTGGAA
*
909948 GTTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
909962 TTTATTGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (21 bp):
ATTCGCGTTGCGAAATTGGAA
Found at i:910911 original size:16 final size:16
Alignment explanation
Indices: 910890--910920 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
910880 TACATAAGTT
910890 TTTTTTTAAACATAAG
1 TTTTTTTAAACATAAG
910906 TTTTTTTAAACATAA
1 TTTTTTTAAACATAA
910921 ACATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTTTTAAACATAAG
Found at i:922359 original size:18 final size:18
Alignment explanation
Indices: 922336--922371 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
922326 ATTCTCCACT
922336 AGACGAAGAAGGTGAAGA
1 AGACGAAGAAGGTGAAGA
922354 AGACGAAGAAGGTGAAGA
1 AGACGAAGAAGGTGAAGA
922372 GAATTATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.39, T:0.06
Consensus pattern (18 bp):
AGACGAAGAAGGTGAAGA
Found at i:925589 original size:31 final size:31
Alignment explanation
Indices: 925528--925596 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
925518 AAGATTTGAA
* ** *
925528 CAAATATAAGATGGCATCAATATTGTAATTG
1 CAAATATAAGATGACATCAATACAGAAATTG
*
925559 CAAATATAAGATGACATCAATGCAGAAATTG
1 CAAATATAAGATGACATCAATACAGAAATTG
925590 CAAATAT
1 CAAATAT
925597 TTCATGGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (31 bp):
CAAATATAAGATGACATCAATACAGAAATTG
Found at i:930211 original size:20 final size:20
Alignment explanation
Indices: 930186--930225 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
930176 AGCAACAAAA
*
930186 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
930206 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
930226 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:930265 original size:20 final size:20
Alignment explanation
Indices: 930240--930277 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
930230 AATAGAATAT
*
930240 AAACTGATTCTATCTAATTA
1 AAACTGATCCTATCTAATTA
930260 AAACTGATCCTATCTAAT
1 AAACTGATCCTATCTAAT
930278 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (20 bp):
AAACTGATCCTATCTAATTA
Found at i:936947 original size:20 final size:20
Alignment explanation
Indices: 936922--936960 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
936912 CAACAAAATA
* *
936922 AAAAATGATTCTATTTAATT
1 AAAAATGATCCTATCTAATT
936942 AAAAATGATCCTATCTAAT
1 AAAAATGATCCTATCTAAT
936961 AACTAATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATGATCCTATCTAATT
Found at i:936977 original size:52 final size:52
Alignment explanation
Indices: 936918--937066 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
936908 TTAGCAACAA
*
936918 AATAAAAAATGATTCTATTTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
936970 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
* *
937023 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATA
937067 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
52 43 0.46
53 50 0.54
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAAATGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:936984 original size:53 final size:53
Alignment explanation
Indices: 936918--937066 Score: 266
Period size: 52 Copynumber: 2.8 Consensus size: 53
936908 TTAGCAACAA
*
936918 AATAAAAAA-TGATTCTATTTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
936970 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
937023 AAT-AAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
937067 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
52 49 0.52
53 45 0.48
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (53 bp):
AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:937003 original size:20 final size:21
Alignment explanation
Indices: 936974--937013 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
936964 TAATAGAATA
*
936974 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
936995 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
937014 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:937052 original size:20 final size:20
Alignment explanation
Indices: 937027--937065 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
937017 TAATAGAATA
*
937027 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
937047 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
937066 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:944716 original size:18 final size:19
Alignment explanation
Indices: 944674--944717 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
944664 TTATTTGACT
* *
944674 TTATTTATAATTTTTTATA
1 TTATTTATAATTTTTAAAA
944693 TATATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
944712 TTATTT
1 TTATTT
944718 TATATGCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:945452 original size:33 final size:33
Alignment explanation
Indices: 945415--945487 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
945405 CTCACCGTTA
945415 GTTGT-GAGAACAGTTGAAGCTT-CCTCACCCAAG
1 GTTGTCGAG-ACAGTTGAAG-TTCCCTCACCCAAG
* **
945448 GTTGTCGAGATAGTTGAAGTTCCCTCGGCCAAG
1 GTTGTCGAGACAGTTGAAGTTCCCTCACCCAAG
945481 GTTGTCG
1 GTTGTCG
945488 GAATAGTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 30 0.86
34 3 0.09
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (33 bp):
GTTGTCGAGACAGTTGAAGTTCCCTCACCCAAG
Found at i:945494 original size:33 final size:33
Alignment explanation
Indices: 945426--945496 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
945416 TTGTGAGAAC
945426 AGTTGAAGCTTCCTCACCCAAGGTTGTCGAGAT
1 AGTTGAAGCTTCCTCACCCAAGGTTGTCGAGAT
**
945459 AGTTGAAG-TTCCCTCGGCCAAGGTTGTCG-GAAT
1 AGTTGAAGCTT-CCTCACCCAAGGTTGTCGAG-AT
945492 AGTTG
1 AGTTG
945497 CAGATTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (33 bp):
AGTTGAAGCTTCCTCACCCAAGGTTGTCGAGAT
Found at i:945911 original size:60 final size:59
Alignment explanation
Indices: 945814--946278 Score: 428
Period size: 60 Copynumber: 7.9 Consensus size: 59
945804 GAAAGTTTCA
* * * * *
945814 GGAATGGCTGGTGTTTCTTCGCCTAAGATTCTAGGAATACTAAGGGTTTCTTCTGCCAAG
1 GGAATGGCTGGAGTTTCTTCACC-AAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
*
945874 GGAATGGCTGGAGTTTCTTCACTCAAGGTTCTGGGAATACTGGGGGTTTCTTCTGCCAAG
1 GGAATGGCTGGAGTTTCTTCAC-CAAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
* * ** * *
945934 GGAATGGCAGGAG-TTCTTCAGCCAAGGTTCTGGGAATGCTAGGGGAGTCTTCTTCCATG
1 GGAATGGCTGGAGTTTCTTCA-CCAAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
* * * * * * *
945993 GAAATGACTGGTGTTTCTT--TC---GTTCTGGAAATACTAGGGGCTTCTTCGGCC-A-
1 GGAATGGCTGGAGTTTCTTCACCAAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
* * * * * * * *
946045 GTAATAGTTGGCGTTTCTTCAACCAAGGTTCTGGGAATACTAGTGGCTTCATCCGCCAAG
1 GGAATGGCTGGAGTTTCTTC-ACCAAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
* * * * *
946105 GGAATAGCAGTAGTTTCTTCACCTAAGGTTGTGGGAGTACTAGGGGTTTCTTCTGCCACAG
1 GGAATGGCTGGAGTTTCTTCACC-AAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCA-AG
* * *
946166 GG-ATGGCTGGAGTTTCTTCACCCAAGGTTCTGGGAACAATAGGGGTTTCTTC-GACCGAG
1 GGAATGGCTGGAGTTTCTTCA-CCAAGGTTCTGGGAATACTAGGGGTTTCTTCTG-CCAAG
* * **
946225 GGAATAGCTGGAGTTTCTTCACCTGAGGTTCTGGGAATACTAGGATTTTCTTCT
1 GGAATGGCTGGAGTTTCTTCACC-AAGGTTCTGGGAATACTAGGGGTTTCTTCT
946279 TCTAAGGTCA
Statistics
Matches: 327, Mismatches: 60, Indels: 35
0.77 0.14 0.08
Matches are distributed among these distances:
52 14 0.04
54 24 0.07
55 1 0.00
57 1 0.00
58 26 0.08
59 58 0.18
60 196 0.60
61 7 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (59 bp):
GGAATGGCTGGAGTTTCTTCACCAAGGTTCTGGGAATACTAGGGGTTTCTTCTGCCAAG
Found at i:946705 original size:33 final size:33
Alignment explanation
Indices: 946616--946707 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
946606 TGTAGCAATT
* * * *
946616 GGCAATGTTTCCTCATACATGCTCGTGGAGATG
1 GGCAAAGTCTCCTCATACATGCTTGTAGAGATG
* *
946649 GGTAAAGTCTCCTCATACATGCTTGTAGCGATG
1 GGCAAAGTCTCCTCATACATGCTTGTAGAGATG
*
946682 GGCAAAGTCTGCTCATACATGCTTGT
1 GGCAAAGTCTCCTCATACATGCTTGT
946708 GTCGAGGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (33 bp):
GGCAAAGTCTCCTCATACATGCTTGTAGAGATG
Found at i:949604 original size:13 final size:13
Alignment explanation
Indices: 949586--949612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
949576 GATCTTGCCT
949586 ATATATATATATA
1 ATATATATATATA
949599 ATATATATATATA
1 ATATATATATATA
949612 A
1 A
949613 GAGAATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:955135 original size:22 final size:21
Alignment explanation
Indices: 955110--955160 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 21
955100 ACGGTCGGGA
955110 CGGGACGGGTCGAGTCAACGGT
1 CGGG-CGGGTCGAGTCAACGGT
955132 ----CGGGTCGAGTCAACGGT
1 CGGGCGGGTCGAGTCAACGGT
955149 CGGGTCGGGTCG
1 CGGG-CGGGTCG
955161 GTCGGTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
17 17 0.71
22 7 0.29
ACGTcount: A:0.14, C:0.24, G:0.47, T:0.16
Consensus pattern (21 bp):
CGGGCGGGTCGAGTCAACGGT
Found at i:955137 original size:17 final size:17
Alignment explanation
Indices: 955115--955155 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
955105 CGGGACGGGA
955115 CGGGTCGAGTCAACGGT
1 CGGGTCGAGTCAACGGT
955132 CGGGTCGAGTCAACGGT
1 CGGGTCGAGTCAACGGT
955149 CGGGTCG
1 CGGGTCG
955156 GGTCGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.17
Consensus pattern (17 bp):
CGGGTCGAGTCAACGGT
Found at i:955185 original size:10 final size:9
Alignment explanation
Indices: 955163--955253 Score: 92
Period size: 9 Copynumber: 9.4 Consensus size: 9
955153 TCGGGTCGGT
955163 CGGTCAAAC
1 CGGTCAAAC
*
955172 CGGTTCAGAC
1 CGG-TCAAAC
955182 CGGTCAAAC
1 CGGTCAAAC
*
955191 CGGTTCGAAC
1 CGG-TCAAAC
955201 CGGTCGAAAC
1 CGGTC-AAAC
955211 CGGTCAAAC
1 CGGTCAAAC
955220 CGGTCAGAAC
1 CGGTCA-AAC
*
955230 CGGTTGAAAAC
1 CGG-T-CAAAC
*
955241 CGGTTAAAC
1 CGGTCAAAC
955250 CGGT
1 CGGT
955254 TTCCAGCAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
9 31 0.44
10 31 0.44
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:955187 original size:19 final size:19
Alignment explanation
Indices: 955163--955254 Score: 114
Period size: 19 Copynumber: 4.7 Consensus size: 19
955153 TCGGGTCGGT
*
955163 CGGTCAAACCGGTTCAGAC
1 CGGTCAAACCGGTTCAAAC
*
955182 CGGTCAAACCGGTTCGAAC
1 CGGTCAAACCGGTTCAAAC
955201 CGGTCGAAACCGG-TCAAAC
1 CGGTC-AAACCGGTTCAAAC
*
955220 CGGTCAGAACCGGTTGAAAAC
1 CGGTCA-AACCGGTT-CAAAC
*
955241 CGGTTAAACCGGTT
1 CGGTCAAACCGGTT
955255 TCCAGCAGCC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.02
19 38 0.59
20 16 0.25
21 9 0.14
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (19 bp):
CGGTCAAACCGGTTCAAAC
Found at i:955202 original size:29 final size:30
Alignment explanation
Indices: 955169--955254 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 30
955159 CGGTCGGTCA
*
955169 AACCGGTTCAGACCGGTCAAACCGGTTC-G
1 AACCGGTTCAAACCGGTCAAACCGGTTCAG
955198 AACCGG-TCGAAACCGGTCAAACCGG-TCAG
1 AACCGGTTC-AAACCGGTCAAACCGGTTCAG
* *
955227 AACCGGTTGAAAACCGGTTAAACCGGTT
1 AACCGGTT-CAAACCGGTCAAACCGGTT
955255 TCCAGCAGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 4 0.08
29 28 0.57
30 16 0.33
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (30 bp):
AACCGGTTCAAACCGGTCAAACCGGTTCAG
Found at i:962440 original size:5 final size:5
Alignment explanation
Indices: 962430--962484 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
962420 GAAAGTCAAC
* *
962430 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC--G GGTCG GGTCG
962479 GGTCG G
1 GGTCG G
962485 TCAGTCAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 34 0.81
7 8 0.19
ACGTcount: A:0.07, C:0.22, G:0.53, T:0.18
Consensus pattern (5 bp):
GGTCG
Found at i:962449 original size:22 final size:22
Alignment explanation
Indices: 962424--962484 Score: 87
Period size: 17 Copynumber: 3.0 Consensus size: 22
962414 GTCAAAGAAA
962424 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
962446 GTCAA----C-GGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
962463 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
962485 TCAGTCAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 16 0.47
18 1 0.03
21 1 0.03
22 16 0.47
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GTCAACGGTCGGGTCGGGTCGG
Found at i:962457 original size:17 final size:17
Alignment explanation
Indices: 962435--962482 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
962425 TCAACGGTCG
962435 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
962452 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
962469 GGTCGGGTCGGGTC
1 GGTCGGGTCGGGTC
962483 GGTCAGTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:962518 original size:19 final size:19
Alignment explanation
Indices: 962494--962564 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
962484 GTCAGTCAGG
962494 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
962513 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
*
962532 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGAT
962551 TC-GAACCGGTCAAA
1 TCAG-ACCGGTCAAA
962565 ACCGGTCAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 1 0.02
19 49 0.98
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGAT
Found at i:962539 original size:10 final size:9
Alignment explanation
Indices: 962482--962580 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
962472 CGGGTCGGGT
*
962482 CGGTCAGTC
1 CGGTCAGAC
*
962491 AGGTCAGAC
1 CGGTCAGAC
*
962500 CGGTCAAAC
1 CGGTCAGAC
*
962509 CGATTCAGAC
1 CG-GTCAGAC
*
962519 CGGTCAAAC
1 CGGTCAGAC
*
962528 CGATTCAGAC
1 CG-GTCAGAC
*
962538 CGGTCAAAC
1 CGGTCAGAC
962547 CGGTTC-GAAC
1 CGG-TCAG-AC
*
962557 CGGTCAAAAC
1 CGGTC-AGAC
962567 CGGTCAGAAC
1 CGGTCAG-AC
962577 CGGT
1 CGGT
962581 TGAAAACCGG
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
9 34 0.50
10 34 0.50
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.15
Consensus pattern (9 bp):
CGGTCAGAC
Found at i:962574 original size:38 final size:37
Alignment explanation
Indices: 962492--962580 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 37
962482 CGGTCAGTCA
962492 GGTCAGACCGGTCAAACCGATTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACCGATTCAGACCGGTCAAACC
* *
962529 GATTCAGACCGGTCAAACCGGTTC-GAACCGGTCAAAACC
1 G-GTCAGACCGGTCAAACCGATTCAG-ACCGGTC-AAACC
962568 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
962581 TGAAAACCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 2 0.04
38 31 0.69
39 12 0.27
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (37 bp):
GGTCAGACCGGTCAAACCGATTCAGACCGGTCAAACC
Found at i:962590 original size:11 final size:9
Alignment explanation
Indices: 962498--962601 Score: 55
Period size: 10 Copynumber: 10.8 Consensus size: 9
962488 GTCAGGTCAG
*
962498 ACCGGTCAA
1 ACCGGTTAA
* *
962507 ACCGATTCAG
1 ACCGGTT-AA
*
962517 ACCGGTCAA
1 ACCGGTTAA
* *
962526 ACCGATTCAG
1 ACCGGTT-AA
*
962536 ACCGGTCAA
1 ACCGGTTAA
*
962545 ACCGGTTCGA
1 ACCGGTT-AA
*
962555 ACCGGTCAAA
1 ACCGGT-TAA
*
962565 ACCGGTCAGA
1 ACCGGTTA-A
962575 ACCGGTTGAAA
1 ACCGGTT--AA
962586 ACCGGTTAA
1 ACCGGTTAA
962595 ACCGGTT
1 ACCGGTT
962602 TCCAGCAGCC
Statistics
Matches: 70, Mismatches: 18, Indels: 14
0.69 0.18 0.14
Matches are distributed among these distances:
9 28 0.40
10 33 0.47
11 8 0.11
12 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:962597 original size:20 final size:20
Alignment explanation
Indices: 962543--962601 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
962533 CAGACCGGTC
*
962543 AAACCGGTTCGAACCGG-TCA
1 AAACCGGTT-AAACCGGTTCA
* *
962563 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTTA-AACCGGTTCA
962584 AAACCGGTTAAACCGGTT
1 AAACCGGTTAAACCGGTT
962602 TCCAGCAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (20 bp):
AAACCGGTTAAACCGGTTCA
Found at i:963555 original size:21 final size:21
Alignment explanation
Indices: 963531--963617 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
963521 GCAAATTCGC
*
963531 GTTGCATTTCGCGTTGCGGTA
1 GTTGCATTTCGCGTTGCGATA
* **
963552 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
963572 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* *
963593 GTCTACAGTT-GTCGTTGCGATA
1 GT-TGCATTTCG-CGTTGCGATA
963615 GTT
1 GTT
963618 AAAAAAAAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 15 0.29
21 19 0.37
22 17 0.33
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:963727 original size:6 final size:6
Alignment explanation
Indices: 963697--963726 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
963687 ACGTATTAGA
*
963697 ACGACC ACGACC ACGACC ACGACC CCGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
963727 CGAGACGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:964370 original size:22 final size:22
Alignment explanation
Indices: 964342--964394 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
964332 AATTTGGAAA
964342 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
964364 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
964386 ATCGCAACG
1 ATCGCAACG
964395 CGAAATGGAA
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:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:964411 original size:20 final size:20
Alignment explanation
Indices: 964386--964458 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
964376 ACTGTAGACT
964386 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
964406 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
**
964427 ATCGCAATACGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
964447 AGCGCAACGCGA
1 ATCGCAACGCGA
964459 TTTTCAACTA
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 24 0.65
21 13 0.35
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:964432 original size:41 final size:41
Alignment explanation
Indices: 964383--964483 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
964373 ACAACTGTAG
*
964383 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
**
964424 ACTATCGCAATACGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
964465 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
964484 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
Found at i:964487 original size:21 final size:21
Alignment explanation
Indices: 964361--964487 Score: 80
Period size: 21 Copynumber: 6.1 Consensus size: 21
964351 ACAACTGTAG
* *
964361 ACTATCGCAACGAC-AACTGTA
1 ACTATCGCAACG-CGAAATGCA
*
964382 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* ** *
964404 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
** *
964424 ACTATCGCAATACGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
964445 A-AAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
964465 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
964486 AC
1 AC
964488 GCGAATTTGC
Statistics
Matches: 75, Mismatches: 27, Indels: 7
0.69 0.25 0.06
Matches are distributed among these distances:
20 27 0.36
21 31 0.41
22 17 0.23
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:973277 original size:22 final size:22
Alignment explanation
Indices: 973220--973285 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
973210 CCTATATATT
* *
973220 TGTCACGAAGGACCATTGTATA
1 TGTCCCGAAGGACCACTGTATA
* *
973242 TGTTCTGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
* *
973264 TGTCCCGAATGACCGC-GTATA
1 TGTCCCGAAGGACCACTGTATA
973285 T
1 T
973286 AACACCCCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:973878 original size:17 final size:18
Alignment explanation
Indices: 973845--973878 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
973835 TATTCTTATA
973845 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
973863 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
973879 ATACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:974190 original size:118 final size:117
Alignment explanation
Indices: 974034--974346 Score: 307
Period size: 118 Copynumber: 2.7 Consensus size: 117
974024 AGTATGCTTC
* ** * * *
974034 TCCTT-TCATTTTAGCACACGAAGTGC-CCTATTAAAAAATTCATAC-CATTAGTATGATTTTTG
1 TCCTTATCAATTTAGCACACTCAGTGCTCC-A-TATAAAATTCATACAC-TCAGTATGA-TTTTC
* * * ***
974096 TTACCATTTTAGCA-AATAAAATGC-CCTATTTGGAAATCCATATTTTCAATATGATT
62 TTATCATTTTAGCACAAT-AAATGCTCC-ATATGAAAATCCATACACTCAATATGATT
*
974152 TCCTTAT-AATTTAGCACACTCAGTGCTCCATATGAAAATAT-ATACAGTCAGTATGATTTTCTT
1 TCCTTATCAATTTAGCACACTCAGTGCTCCATAT-AAAAT-TCATACACTCAGTATGATTTTCTT
* * * * *
974215 ATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATT
64 ATCATTTTAGCACAATAAATGCTCCATATGAAAATCCATACACTCAATATGATT
* * *
974269 TTCTTATCATTTTAGCACACTCAGTGCTCCATATAAAAATCTATACACTCAGTATGATTTTCTTA
1 TCCTTATCAATTTAGCACACTCAGTGCTCCATATAAAATTC-ATACACTCAGTATGATTTTCTTA
974334 TCATTTTAGCACA
65 TCATTTTAGCACA
974347 CAAAGTGCCA
Statistics
Matches: 163, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
116 1 0.01
117 55 0.34
118 103 0.63
119 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (117 bp):
TCCTTATCAATTTAGCACACTCAGTGCTCCATATAAAATTCATACACTCAGTATGATTTTCTTAT
CATTTTAGCACAATAAATGCTCCATATGAAAATCCATACACTCAATATGATT
Found at i:974354 original size:59 final size:59
Alignment explanation
Indices: 974145--974347 Score: 354
Period size: 59 Copynumber: 3.5 Consensus size: 59
974135 ATATTTTCAA
* * * *
974145 TATGATTTCCTTAT-AATTTAGCACACTCAGTGCTCCATATGAAAATATATACAGTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
974203 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
*
974262 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATAAAAATCTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
974321 TATGATTTTCTTATCATTTTAGCACAC
1 TATGATTTTCTTATCATTTTAGCACAC
974348 AAAGTGCCAT
Statistics
Matches: 139, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 13 0.09
59 126 0.91
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (59 bp):
TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
Found at i:974372 original size:59 final size:58
Alignment explanation
Indices: 974145--974374 Score: 263
Period size: 59 Copynumber: 3.9 Consensus size: 58
974135 ATATTTTCAA
* * * *
974145 TATGATTTCCTTAT-AATTTAGCACACTCAGTGCTCCATATGAAAATA-TATACAGTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGC-CCAT-TGATAATACTATACACTCAG
*
974203 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAAT-CTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGC-CCAT-TGATAATACTATACACTCAG
* *
974262 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATAAAAAT-CTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGC-CCAT-TGATAATACTATACACTCAG
** *
974321 TATGATTTTCTTATCATTTTAGCACACAAAGTG-CCATTCGGTAATCACTATACA
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCCCATT-GATAAT-ACTATACA
974375 TACATCAATA
Statistics
Matches: 158, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
56 1 0.01
57 7 0.04
58 13 0.08
59 137 0.87
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (58 bp):
TATGATTTTCTTATCATTTTAGCACACTCAGTGCCCATTGATAATACTATACACTCAG
Found at i:976762 original size:24 final size:27
Alignment explanation
Indices: 976703--976762 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 27
976693 GTCGAAATTA
*
976703 ACTTCAAATTCAACTTATAAACTCTTTT
1 ACTT-AAATTCAACTTATAAACTCTTTC
**
976731 ACAGAAATTC-A-TTA-AAACTCTTTC
1 ACTTAAATTCAACTTATAAACTCTTTC
976755 ACTTAAAT
1 ACTTAAAT
976763 CTTTCATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 15 0.56
25 3 0.11
26 1 0.04
27 6 0.22
28 2 0.07
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (27 bp):
ACTTAAATTCAACTTATAAACTCTTTC
Found at i:985569 original size:17 final size:18
Alignment explanation
Indices: 985536--985569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
985526 TATTTTGATA
985536 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
985554 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
985570 ATACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:985932 original size:59 final size:59
Alignment explanation
Indices: 985836--986038 Score: 354
Period size: 59 Copynumber: 3.5 Consensus size: 59
985826 ATATTTTCAA
* * * *
985836 TATGATTTCCTTATCA-TTTAGCACACTCAGTGTTCCATATGAAAATATATACAATCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
985894 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
*
985953 TATGATTTTCTTATCATTTTAGCACACTTAGTGCTCCATATGAAAATCTATACACTCAG
1 TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
986012 TATGATTTTCTTATCATTTTAGCACAC
1 TATGATTTTCTTATCATTTTAGCACAC
986039 AAAGTGTCAT
Statistics
Matches: 139, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 15 0.11
59 124 0.89
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (59 bp):
TATGATTTTCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAG
Found at i:995704 original size:3 final size:3
Alignment explanation
Indices: 995696--995732 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
995686 AGAGAGAGAG
995696 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
995733 AATAGAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Done.