Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:610672 original size:24 final size:24
Alignment explanation
Indices: 610645--610706 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
610635 ATCCGTGAAC
*
610645 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
610669 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
610693 GTTCATTTATGTTC
1 GTTCGTTTATGTTC
610707 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.10, C:0.13, G:0.24, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:611821 original size:16 final size:16
Alignment explanation
Indices: 611802--611868 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
611792 TTTATGTTTG
611802 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
611818 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
611834 TTTATGTTCGTGGTCG
1 TTTATGTTCGTGTTCA
611850 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
611864 TTTAT
1 TTTAT
611869 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 1 0.02
16 41 0.87
ACGTcount: A:0.10, C:0.10, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:611837 original size:32 final size:32
Alignment explanation
Indices: 611796--611860 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
611786 CCAACGTTTA
* *
611796 TGTTTGTTTATGTTCGTGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCGTGGTCATTTATGTTCG
*
611828 TGTTCGTTTATGTTCGTGGTCGTTTATGTTCG
1 TGTTCGTTTATGTTCGTGGTCATTTATGTTCG
611860 T
1 T
611861 TTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.08, C:0.11, G:0.25, T:0.57
Consensus pattern (32 bp):
TGTTCGTTTATGTTCGTGGTCATTTATGTTCG
Found at i:611954 original size:16 final size:16
Alignment explanation
Indices: 611930--611962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
611920 AAAAAAAATT
*
611930 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
611946 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
611962 T
1 T
611963 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:612561 original size:42 final size:42
Alignment explanation
Indices: 612502--612586 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
612492 TAAGTACGTA
* * *
612502 TAAATTCTTAGGCTAAATGTCTAATTAGTTATGCACTTAAAC
1 TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
*
612544 TAAATTCTGAGGCTAAATGACTAATTAATTATGTACTTAAAC
1 TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
612586 T
1 T
612587 TTCACTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (42 bp):
TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
Found at i:613361 original size:40 final size:40
Alignment explanation
Indices: 613301--613436 Score: 263
Period size: 40 Copynumber: 3.4 Consensus size: 40
613291 TAGTGGAAGA
*
613301 TATCTAATTAATGCACCAAGGATTCAAGATACATATGCTG
1 TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
613341 TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
1 TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
613381 TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
1 TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
613421 TATCTAATTAATGCAT
1 TATCTAATTAATGCAT
613437 TGATAAGCAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (40 bp):
TATCTAATTAATGCATCAAGGATTCAAGATACATATGCTG
Found at i:613606 original size:24 final size:24
Alignment explanation
Indices: 613557--613616 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
613547 GCTAGATGTT
* *
613557 TTTTAAAATTATATTTAAAAGCATA
1 TTTTAAATTTTTATTTAAAA-CATA
613582 TTTTAAATTTTTATTATAAAA-ATA
1 TTTTAAATTTTTATT-TAAAACATA
*
613606 TTAT-AATTTTT
1 TTTTAAATTTTT
613617 GTTCCAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 7 0.23
24 6 0.19
25 13 0.42
26 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAATTTTTATTTAAAACATA
Found at i:619765 original size:5 final size:5
Alignment explanation
Indices: 619757--619796 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
619747 AATTATTAAA
* *
619757 AAAAT AAAAAT ACAAT ATAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
619797 ATAATGAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:619894 original size:18 final size:20
Alignment explanation
Indices: 619851--619895 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
619841 CTAGTCAATC
*
619851 ATAAAAAAAAACTAATGATG
1 ATAAAAAAAAACCAATGATG
*
619871 ACAAAAAAAAACCAAT-A-G
1 ATAAAAAAAAACCAATGATG
619889 ATAAAAA
1 ATAAAAA
619896 CCTTAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (20 bp):
ATAAAAAAAAACCAATGATG
Found at i:628780 original size:20 final size:21
Alignment explanation
Indices: 628751--628799 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
628741 CTCTTCTCTC
628751 TTTT-TCTTTTTC-TT-GTTA
1 TTTTCTCTTTTTCTTTAGTTA
628769 TTTTTCTCTTTTTTCTTTAGTTA
1 -TTTTCTC-TTTTTCTTTAGTTA
628792 TTTTCTCT
1 TTTTCTCT
628800 GTGTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.15
20 2 0.08
21 7 0.27
22 9 0.35
23 4 0.15
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTCTCTTTTTCTTTAGTTA
Found at i:628795 original size:22 final size:21
Alignment explanation
Indices: 628757--628799 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
628747 TCTCTTTTTC
628757 TTTTTCTTGTTATTTTTCTCT
1 TTTTTCTTGTTATTTTTCTCT
628778 TTTTTCTTTAGTTA-TTTTCTCT
1 TTTTTC-TT-GTTATTTTTCTCT
628800 GTGTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTTCTTGTTATTTTTCTCT
Found at i:629362 original size:25 final size:25
Alignment explanation
Indices: 629324--629374 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
629314 AAGCCTGCAA
*
629324 AATAAGTAACAG-AATAATTAATAAT
1 AATAAATAACAGAAATAATT-ATAAT
*
629349 AATAAATAATAGAAATAATTATAAT
1 AATAAATAACAGAAATAATTATAAT
629374 A
1 A
629375 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (25 bp):
AATAAATAACAGAAATAATTATAAT
Found at i:632683 original size:42 final size:43
Alignment explanation
Indices: 632613--632701 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
632603 GTCTAAATTT
* * * * *
632613 CAAAGTAACAATCCATAGATATACCAAACTAACATATTAAAAC
1 CAAAGTAACAATCCACAAATAAACCAAACTAACATATCAAAAA
*
632656 CAAA-TAACAATCCACAAATAAATCAAACTAACATATCAAAAA
1 CAAAGTAACAATCCACAAATAAACCAAACTAACATATCAAAAA
632698 CAAA
1 CAAA
632702 ATTGAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 36 0.90
43 4 0.10
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.18
Consensus pattern (43 bp):
CAAAGTAACAATCCACAAATAAACCAAACTAACATATCAAAAA
Found at i:640114 original size:20 final size:21
Alignment explanation
Indices: 640085--640124 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
640075 GGCCGTTTCC
*
640085 TCCTCCTCT-GTCCATCATCT
1 TCCTCCTCTGGTACATCATCT
*
640105 TCCTCGTCTGGTACATCATC
1 TCCTCCTCTGGTACATCATC
640125 CTCCAACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.40, G:0.10, T:0.38
Consensus pattern (21 bp):
TCCTCCTCTGGTACATCATCT
Found at i:642313 original size:13 final size:13
Alignment explanation
Indices: 642295--642321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
642285 ACCTTCATTC
642295 TTCTTCAATTCAA
1 TTCTTCAATTCAA
642308 TTCTTCAATTCAA
1 TTCTTCAATTCAA
642321 T
1 T
642322 GGAACACTAA
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:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTTCAATTCAA
Found at i:651938 original size:29 final size:29
Alignment explanation
Indices: 651906--651965 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
651896 CCTAATTGGT
* * * *
651906 TTTTTTAGAAAGTTTGAGGATTTATTTAA
1 TTTTTTAGAAAATTTAAGAAATTATTTAA
*
651935 TTTTTTATAAAATTTAAGAAATTATTTAA
1 TTTTTTAGAAAATTTAAGAAATTATTTAA
651964 TT
1 TT
651966 CAATTATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (29 bp):
TTTTTTAGAAAATTTAAGAAATTATTTAA
Found at i:651982 original size:16 final size:16
Alignment explanation
Indices: 651963--652007 Score: 67
Period size: 14 Copynumber: 2.9 Consensus size: 16
651953 AAATTATTTA
651963 ATTCAATTATTAAGAT
1 ATTCAATTATTAAGAT
651979 ATTCAA-T-TTAAGAT
1 ATTCAATTATTAAGAT
*
651993 ATTCGATTATTAAGA
1 ATTCAATTATTAAGA
652008 AAGTTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 12 0.46
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTCAATTATTAAGAT
Found at i:652646 original size:2 final size:2
Alignment explanation
Indices: 652639--652696 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
652629 CCAGTTAGTT
652639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
652681 CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
652697 AATGTAATAT
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:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:652727 original size:16 final size:16
Alignment explanation
Indices: 652703--652733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
652693 TATAAATGTA
652703 ATATAATGGATTATTT
1 ATATAATGGATTATTT
*
652719 ATATTATGGATTATT
1 ATATAATGGATTATT
652734 AGATTTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
ATATAATGGATTATTT
Found at i:653182 original size:2 final size:2
Alignment explanation
Indices: 653175--653202 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
653165 TATTAGACTA
653175 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
653203 GAGGATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:660518 original size:18 final size:20
Alignment explanation
Indices: 660495--660546 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
660485 TTTTAAAAAA
660495 TTTAAAATTATT-ATAT-AT
1 TTTAAAATTATTAATATAAT
* *
660513 TTTAAATTTTTTAATATAAT
1 TTTAAAATTATTAATATAAT
660533 TTTATTAAATTATT
1 TTTA--AAATTATT
660547 TTTGTCTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 10 0.38
19 4 0.15
20 6 0.23
22 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAAATTATTAATATAAT
Found at i:686735 original size:14 final size:14
Alignment explanation
Indices: 686712--686772 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
686702 GAACATAGAC
686712 GAACACAAACGAAT
1 GAACACAAACGAAT
*
686726 GAACATAAAC----
1 GAACACAAACGAAT
686736 GAACACAAACGAAT
1 GAACACAAACGAAT
*
686750 GAACATAAACGAA-
1 GAACACAAACGAAT
*
686763 CAACACAAAC
1 GAACACAAAC
686773 ACAAAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 9 0.24
13 8 0.21
14 21 0.55
ACGTcount: A:0.59, C:0.23, G:0.11, T:0.07
Consensus pattern (14 bp):
GAACACAAACGAAT
Found at i:686737 original size:24 final size:24
Alignment explanation
Indices: 686702--686764 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
686692 AATGATAAAC
*
686702 GAACATAGACGAACACAAACGAAT
1 GAACATAAACGAACACAAACGAAT
686726 GAACATAAACGAACACAAACGAAT
1 GAACATAAACGAACACAAACGAAT
686750 GAACATAAACGAACA
1 GAACATAAACGAACA
686765 ACACAAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.57, C:0.21, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACACAAACGAAT
Found at i:687047 original size:14 final size:14
Alignment explanation
Indices: 687028--687080 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
687018 GCTCTCTGTT
687028 CGAACATAAATGAA
1 CGAACATAAATGAA
687042 CGAACATAAAT---
1 CGAACATAAATGAA
*
687053 -GATCATAAATGAA
1 CGAACATAAATGAA
*
687066 CGAACATAAACGAA
1 CGAACATAAATGAA
687080 C
1 C
687081 ATATAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.28
14 23 0.72
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:687064 original size:24 final size:24
Alignment explanation
Indices: 687028--687093 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
687018 GCTCTCTGTT
687028 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
* *
687052 TGATCATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
687076 CGAACATATAATCGAACG
1 CGAACATA-AAT-GAACG
687094 TTCACGAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 28 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (24 bp):
CGAACATAAATGAACGAACATAAA
Found at i:687865 original size:2 final size:2
Alignment explanation
Indices: 687858--687892 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
687848 GCCAAAATCC
687858 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
687893 ATACACAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:690589 original size:21 final size:21
Alignment explanation
Indices: 690565--690608 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
690555 ATTGTTGCCA
690565 ATAGTGAAGCCAACAATTGAG
1 ATAGTGAAGCCAACAATTGAG
690586 ATAGTGAAGCCAACAATTGAG
1 ATAGTGAAGCCAACAATTGAG
690607 AT
1 AT
690609 GGGGATAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (21 bp):
ATAGTGAAGCCAACAATTGAG
Found at i:701818 original size:21 final size:20
Alignment explanation
Indices: 701732--701889 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
701722 AAATGACCAA
**
701732 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
701751 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
701771 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
701791 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
701812 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
701833 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
701853 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
701874 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
701890 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:701880 original size:20 final size:20
Alignment explanation
Indices: 701856--702113 Score: 284
Period size: 20 Copynumber: 12.8 Consensus size: 20
701846 CGATTTTCCA
* ** *
701856 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
701876 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
701896 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
701916 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
701936 TAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
701956 AAATCGCAACGATAATACAT
1 AAATCGCAACGAGAATCCGT
* *
701976 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGAGAATCCGT
*
701997 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
702017 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
702037 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
702057 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
702077 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
702097 AAATCGCAACGAGAATC
1 AAATCGCAACGAGAATC
702114 TTAAATCACA
Statistics
Matches: 203, Mismatches: 32, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
20 187 0.92
21 16 0.08
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:701987 original size:101 final size:101
Alignment explanation
Indices: 701875--702113 Score: 274
Period size: 101 Copynumber: 2.4 Consensus size: 101
701865 CGCGAATATG
* * * *
701875 AAAATCGCAACGCG-AACACATAAATCGCAACGCGT-ATCCGTAAATCGCAACGTGTATCCGTTA
1 AAAATCGCAACGCGTAAC-CATAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCCGTAA
*
701938 ATCGCAACGCGT-ATCCGTAAATCGCAACGATAATACAT
64 ATCGCAACG-ATAATCCGTAAATCGCAACGATAATACAT
* * *
701976 AAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAAT
1 AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
*
702041 CGCAACGATAATCCGTAAATCGCAACGAGAAT-C-T
66 CGCAACGATAATCCGTAAATCGCAACGATAATACAT
* * * *
702075 GTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATC
1 -AAAATCGCAACGCGTAA-CCATAAATCGCAACGATAATC
702114 TTAAATCACA
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
99 3 0.03
100 34 0.28
101 81 0.68
102 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (101 bp):
AAAATCGCAACGCGTAACCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGTAAAT
CGCAACGATAATCCGTAAATCGCAACGATAATACAT
Found at i:702114 original size:40 final size:40
Alignment explanation
Indices: 701856--702125 Score: 321
Period size: 40 Copynumber: 6.8 Consensus size: 40
701846 CGATTTTCCA
* * ** *
701856 AAATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGATAATC-CGT
* * *
701896 AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAT-AATCCGT
* * * * *
701936 TAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGATAATCCGT
* *
701976 AAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 -AAATCGCAACGCGAATCTGTAAATCGCAACGATAATCCGT
*
702017 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGATAATCCGT
*
702057 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGATAATCCGT
* *
702097 AAATCGCAACGAGAATCT-TAAATCACAAC
1 AAATCGCAACGCGAATCTGTAAATCGCAAC
702126 ACTGAAATTT
Statistics
Matches: 208, Mismatches: 18, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
39 10 0.05
40 159 0.76
41 39 0.19
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (40 bp):
AAATCGCAACGCGAATCTGTAAATCGCAACGATAATCCGT
Found at i:705242 original size:33 final size:34
Alignment explanation
Indices: 705191--705439 Score: 242
Period size: 33 Copynumber: 7.2 Consensus size: 34
705181 CGGAAATTAC
* *
705191 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
705224 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
* *
705258 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
* * *
705291 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AATGAAAATCGCAATGCGA-AAT-GAA
*
705330 AAT-GCGA-AATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
705362 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* * *
705400 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
705433 AATCGCA
1 AATCGCA
705440 TTGCGATTCT
Statistics
Matches: 182, Mismatches: 17, Indels: 34
0.78 0.07 0.15
Matches are distributed among these distances:
31 1 0.01
32 7 0.04
33 84 0.46
34 30 0.16
35 2 0.01
36 1 0.01
37 1 0.01
38 49 0.27
39 6 0.03
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:705296 original size:19 final size:19
Alignment explanation
Indices: 705205--705445 Score: 279
Period size: 19 Copynumber: 13.7 Consensus size: 19
705195 GCAACGAGAG
705205 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
705224 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
705238 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
705258 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
705272 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
705291 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
705310 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
705324 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
705343 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
705362 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
705381 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
705400 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
705414 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
705433 AATCGCATTGCGA
1 AATCGCAATGCGA
705446 TTCTCCCGTT
Statistics
Matches: 191, Mismatches: 10, Indels: 42
0.79 0.04 0.17
Matches are distributed among these distances:
14 42 0.22
15 3 0.02
16 7 0.04
17 6 0.03
18 4 0.02
19 116 0.61
20 13 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:705318 original size:52 final size:52
Alignment explanation
Indices: 705233--705407 Score: 287
Period size: 52 Copynumber: 3.2 Consensus size: 52
705223 AAATCCCAAC
705233 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
705286 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
705338 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
705395 ATGAAAATCGCAA
1 ATGAAAATCGCAA
705408 CGAGAGAATC
Statistics
Matches: 116, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
52 68 0.59
53 16 0.14
54 2 0.02
56 1 0.01
57 29 0.25
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:705418 original size:52 final size:51
Alignment explanation
Indices: 705191--705445 Score: 197
Period size: 52 Copynumber: 4.9 Consensus size: 51
705181 CGGAAATTAC
*
705191 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
705238 AATCGCAATGCG-GAAAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
705291 AATCGCAATGCGAAAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
705343 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-G-AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
705400 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGA-AATCGCAATGCGAAATGAAAATCGCAATGCGA
705446 TTCTCCCGTT
Statistics
Matches: 176, Mismatches: 12, Indels: 35
0.79 0.05 0.16
Matches are distributed among these distances:
46 7 0.04
47 15 0.09
48 9 0.05
49 2 0.01
50 1 0.01
51 2 0.01
52 80 0.45
53 14 0.08
54 1 0.01
55 2 0.01
57 28 0.16
58 8 0.05
59 7 0.04
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (51 bp):
AATCGCAACGAGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:705548 original size:52 final size:53
Alignment explanation
Indices: 705435--705551 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
705425 GAAATTAAAA
705435 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
705488 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
705540 TCGCATTGCGAT
1 TCGCATTGCGAT
705552 AGTCATTTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:705559 original size:19 final size:19
Alignment explanation
Indices: 705454--705551 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
705444 GATTCTCCCG
705454 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
705474 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
705493 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
705507 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
705526 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
705545 TTGCGAT
1 TTGCGAT
705552 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:705683 original size:13 final size:14
Alignment explanation
Indices: 705656--705691 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
705646 CATCAATTAC
705656 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
705670 ACAAATCATC-TTT
1 ACAAATCAACTTTT
705683 ACAAATCAA
1 ACAAATCAA
705692 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:707607 original size:20 final size:19
Alignment explanation
Indices: 707582--707646 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
707572 AGTTTTACTT
*
707582 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
707602 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
707620 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
707639 TCGCAACG
1 TCGCAACG
707647 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:707641 original size:19 final size:19
Alignment explanation
Indices: 707582--707679 Score: 91
Period size: 19 Copynumber: 5.4 Consensus size: 19
707572 AGTTTTACTT
* *
707582 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
707602 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
707620 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
707639 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
707653 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
707672 TCGCAACG
1 TCGCAACG
707680 AAAGAATCGC
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
14 8 0.12
16 5 0.08
17 5 0.08
18 16 0.25
19 18 0.28
20 12 0.19
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:707656 original size:14 final size:14
Alignment explanation
Indices: 707637--707691 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
707627 GCGAAATGAA
*
707637 AATCGCAACGACAG
1 AATCGCAACGAAAG
707651 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
707668 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
707684 AATCGCAA
1 AATCGCAA
707692 TGCGATTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 5 0.14
17 6 0.17
19 8 0.23
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:707664 original size:33 final size:33
Alignment explanation
Indices: 707618--707696 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
707608 CGCGAAACCA
* *
707618 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
707651 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
707684 AATCGCAATGCGA
1 AATCGCAATGCGA
707697 TTTTGGTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:707714 original size:19 final size:19
Alignment explanation
Indices: 707692--707820 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
707682 AGAATCGCAA
707692 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
707711 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
707725 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
707744 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
707758 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
707777 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
707796 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
707816 TGCGA
1 TGCGA
707821 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:707734 original size:33 final size:33
Alignment explanation
Indices: 707692--707783 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
707682 AGAATCGCAA
707692 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
707725 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
707758 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
707784 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:708078 original size:91 final size:93
Alignment explanation
Indices: 707867--708327 Score: 807
Period size: 91 Copynumber: 5.1 Consensus size: 93
707857 ATGGATTGCA
*
707867 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTATTTCCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CACAGTGTTAAAGAATACACAGT
707931 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
707960 TTACTTTCAATC-AAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA-TT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
708022 TAGCAG-ATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
708049 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA-AATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
708113 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
708141 TTACTTTCAACCAAAATACAAAACAAA-A-AAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
708204 TAGCAGAATTGGCAGCAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
708231 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
708295 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
708323 TTACT
1 TTACT
708328 AAGCAATCTA
Statistics
Matches: 352, Mismatches: 6, Indels: 20
0.93 0.02 0.05
Matches are distributed among these distances:
89 53 0.15
90 50 0.14
91 162 0.46
92 72 0.20
93 9 0.03
94 6 0.02
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:708177 original size:181 final size:182
Alignment explanation
Indices: 707866--708327 Score: 808
Period size: 181 Copynumber: 2.5 Consensus size: 182
707856 AATGGATTGC
*
707866 ATTACTTCAACCAATAGACAAAACAAAGACAAATACTATTTCCACAGTGTTAAAGAATACACAGT
1 ATTACTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CACAGTGTTAAAGAATACACAGT
*
707931 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAATCAAAGACAAACAAAGACAAATACTA
65 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAACAAAGACAAATACTA
707996 TTTCACAGTGTTAAAGAATACACA-TTTAGCAG-ATTGGCAGCAACCGAACAA
130 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAA
708047 ATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA-AATACACAG
1 A-TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG
*
708111 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAATACAAAACAAA-A-AAATA
64 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGAC-AAACAAAGACAAATA
708174 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAA
127 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAA
708230 ATTACTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 ATTACTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
708295 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
708328 AAGCAATCTA
Statistics
Matches: 270, Mismatches: 4, Indels: 13
0.94 0.01 0.05
Matches are distributed among these distances:
181 131 0.49
182 77 0.29
183 62 0.23
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (182 bp):
ATTACTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAA
Found at i:710036 original size:19 final size:19
Alignment explanation
Indices: 710012--710094 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
710002 GCAACGAGAG
710012 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
710031 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
710050 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
710064 AATCGCAACGCGAAAT-AA
1 AATCGCAACGCGAAATGAA
* *
710082 AAACGCAATGCGA
1 AATCGCAACGCGA
710095 TTTGGTTTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 13 0.24
19 27 0.49
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:710052 original size:52 final size:51
Alignment explanation
Indices: 709990--710094 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 51
709980 TCTTTTGGTT
*
709990 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAAT-AAAAACGCAACGC
*
710042 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATAAAAACGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATAAAAACGCAACGC
710093 GA
1 GA
710095 TTTGGTTTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 13 0.25
52 38 0.75
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (51 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATAAAAACGCAACGC
Found at i:710140 original size:33 final size:33
Alignment explanation
Indices: 710100--710169 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
710090 TGCGATTTGG
*
710100 TTTCGCGTTGCGATTCTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
710133 TTTCGCGTTGCTATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
710166 TTTC
1 TTTC
710170 TCTCGTTGCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:710202 original size:41 final size:41
Alignment explanation
Indices: 710145--710222 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
710135 TCGCGTTGCT
*
710145 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
710186 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
710223 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:710207 original size:20 final size:21
Alignment explanation
Indices: 710146--710221 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
710136 CGCGTTGCTA
710146 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
710167 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
710187 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
710208 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
710222 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:710341 original size:33 final size:33
Alignment explanation
Indices: 710299--710369 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
710289 AATACTAACT
*
710299 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
710332 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
710365 TGAAA
1 TGAAA
710370 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:710842 original size:40 final size:39
Alignment explanation
Indices: 710748--710856 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
710738 TTAAATATCG
** * *
710748 CGTTGCGATTTACGGATACGCGTTGCGATTTTGTATTAT
1 CGTTGCGATTTACGGATACGCGTTGCGATTACGGATTAA
710787 CGTTGCGATTTACGGATACGCGTTGCGATATACGGA-TACA
1 CGTTGCGATTTACGGATACGCGTTGCGAT-TACGGATTA-A
710827 CGTTGCGATTTACGGATACGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
710857 TATGTGTTCG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (39 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTACGGATTAA
Found at i:710847 original size:79 final size:80
Alignment explanation
Indices: 710748--710895 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 80
710738 TTAAATATCG
* *
710748 CGTTGCGATTTACGGATACGCGTTGCGATTT-TGTATTATCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACAGATACGCGTTG
710812 CGATATACGGATACA
66 CGATATACGGATACA
* * * * *
710827 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATTCGCGTTG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACAGATACGCGTTG
710892 CGAT
66 CGAT
710896 TTTGGAAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 31 0.51
80 30 0.49
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (80 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACAGATACGCGTTG
CGATATACGGATACA
Found at i:710871 original size:40 final size:40
Alignment explanation
Indices: 710745--710897 Score: 184
Period size: 40 Copynumber: 3.9 Consensus size: 40
710735 CGCTTAAATA
*
710745 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT-TGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
** * *
710784 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
710824 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
710864 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
710898 TGGAAAATCG
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 31 0.33
40 63 0.66
41 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:710898 original size:20 final size:20
Alignment explanation
Indices: 710746--710897 Score: 166
Period size: 20 Copynumber: 7.7 Consensus size: 20
710736 GCTTAAATAT
710746 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
710766 CGCGTTGCGATTT-TGTATTA
1 CGCGTTGCGATTTACGGA-TA
*
710786 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
710805 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
710825 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
710845 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
710865 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
710885 CGCGTTGCGATTT
1 CGCGTTGCGATTT
710898 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.14
20 95 0.86
21 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:710914 original size:21 final size:21
Alignment explanation
Indices: 710884--710966 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
710874 ATTTTCATAT
*
710884 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
710905 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
710926 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
710947 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
710967 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:710957 original size:42 final size:43
Alignment explanation
Indices: 710864--710962 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
710854 ATTTATGTGT
* *
710864 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
710905 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
710947 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
710963 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:713674 original size:29 final size:29
Alignment explanation
Indices: 713632--713690 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
713622 ATTTTCACCT
713632 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
713661 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
713690 A
1 A
713691 TTAATTTAAG
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:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:718357 original size:29 final size:28
Alignment explanation
Indices: 718316--718373 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 28
718306 TTTTTCACCT
718316 AACTAATTGATGT-AGGCAATGACATCAA
1 AACTAATTGATGTAAGG-AATGACATCAA
718344 AACTAAATTGATGTAAGGAATGACATCAA
1 AACT-AATTGATGTAAGGAATGACATCAA
718373 A
1 A
718374 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.14
29 21 0.75
30 3 0.11
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (28 bp):
AACTAATTGATGTAAGGAATGACATCAA
Found at i:723467 original size:30 final size:30
Alignment explanation
Indices: 723431--723487 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
723421 GTTAAACATA
*
723431 TAGTTTACTCTTATTTGTTTTTCCAACTTG
1 TAGTTTACTCTTATTTGTTTATCCAACTTG
723461 TAGTTTACTCTTATTTGTTTATCCAAC
1 TAGTTTACTCTTATTTGTTTATCCAAC
723488 GTAACACGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (30 bp):
TAGTTTACTCTTATTTGTTTATCCAACTTG
Found at i:724356 original size:13 final size:14
Alignment explanation
Indices: 724326--724359 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
724316 TGCCTTCAAA
724326 AAATATTTTTTATTT
1 AAATATTTTTTA-TT
724341 AAATATTTTTTA-T
1 AAATATTTTTTATT
724354 AAATAT
1 AAATAT
724360 AAGAAGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
15 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AAATATTTTTTATT
Found at i:730770 original size:20 final size:21
Alignment explanation
Indices: 730745--730786 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
730735 CCAACTTCCA
730745 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
730765 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
730786 A
1 A
730787 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:747578 original size:2 final size:2
Alignment explanation
Indices: 747573--747620 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
747563 GGTCATTAAT
747573 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
747615 GA GA GA
1 GA GA GA
747621 TCAGTCTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:749056 original size:15 final size:15
Alignment explanation
Indices: 749038--749098 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
749028 TATTTTATGT
749038 TAGTATTTTTTTAAA
1 TAGTATTTTTTTAAA
*
749053 TAGTATTATATTTTATAT
1 TAGTATT-T-TTTTA-AA
* * *
749071 TAATATTTATGTAAA
1 TAGTATTTTTTTAAA
*
749086 TATTATTTTTTTA
1 TAGTATTTTTTTA
749099 TTAAAATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
15 18 0.51
16 4 0.11
17 6 0.17
18 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
TAGTATTTTTTTAAA
Found at i:749065 original size:33 final size:32
Alignment explanation
Indices: 749025--749131 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 32
749015 GTGGTAAGAA
* * * *
749025 ATTTATTTTATGTTAGTATTTTTTTAAATAGT
1 ATTTATTTTATATTAATATTTATGTAAATAGT
*
749057 ATTATATTTTATATTAATATTTATGTAAATATT
1 ATT-TATTTTATATTAATATTTATGTAAATAGT
* * * *
749090 ATTT-TTTTATTAAAATAATATTTATATAATTATT
1 ATTTATTTTA-T--ATTAATATTTATGTAAATAGT
749124 ATTTATTT
1 ATTTATTT
749132 AGAATTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
31 5 0.08
32 5 0.08
33 27 0.44
34 22 0.35
35 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (32 bp):
ATTTATTTTATATTAATATTTATGTAAATAGT
Found at i:750886 original size:21 final size:21
Alignment explanation
Indices: 750856--750903 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
750846 GCAGGGGTAC
* *
750856 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
750877 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
750898 ATGCCA
1 ATGCCA
750904 TCTCTGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:750942 original size:21 final size:21
Alignment explanation
Indices: 750909--751035 Score: 134
Period size: 21 Copynumber: 6.0 Consensus size: 21
750899 TGCCATCTCT
* * *
750909 GCAGGGTTATATTCCGAGCCT
1 GCAGGGTTACATTCCTAGCCC
* *
750930 GCAGGGTTATATTCCTATCCC
1 GCAGGGTTACATTCCTAGCCC
750951 GCCA-GGTTACATTCCTAGCCC
1 G-CAGGGTTACATTCCTAGCCC
*
750972 GCCA-GGTTACATTCCGAGCCC
1 G-CAGGGTTACATTCCTAGCCC
*
750993 ACAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCTAGCCC
*
751014 GCCA-GGTTACATGCCTAGCCC
1 G-CAGGGTTACATTCCTAGCCC
751035 G
1 G
751036 AAAGGTTTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.02
21 87 0.94
22 4 0.04
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (21 bp):
GCAGGGTTACATTCCTAGCCC
Found at i:751015 original size:63 final size:63
Alignment explanation
Indices: 750913--751035 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 63
750903 ATCTCTGCAG
* ** * * *
750913 GGTTATATTCCGAGCCTGCAGGGTTATATTCCTATCCCGCCAGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCACAGGGTTACATTCCTAGCCCGCCAGGTTACATGCCTAGCCCGCCA
750976 GGTTACATTCCGAGCCCACAGGGTTACATTCCTAGCCCGCCAGGTTACATGCCTAGCCCG
1 GGTTACATTCCGAGCCCACAGGGTTACATTCCTAGCCCGCCAGGTTACATGCCTAGCCCG
751036 AAAGGTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (63 bp):
GGTTACATTCCGAGCCCACAGGGTTACATTCCTAGCCCGCCAGGTTACATGCCTAGCCCGCCA
Found at i:751606 original size:5 final size:6
Alignment explanation
Indices: 751592--751616 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
751582 TTCGAAATTT
751592 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
751617 TATTATTCGA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:751620 original size:40 final size:40
Alignment explanation
Indices: 751564--751648 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
751554 AAATGTTTTT
* * *
751564 AAAATACAAATTATATTCTTCGAAATTTAAAATAAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAAATAAAAATA
751604 AAAATAAAAATAATATTATTCGAAATTTAAAATAAAAATA
1 AAAATAAAAATAATATTATTCGAAATTTAAAATAAAAATA
*
751644 TAAAT
1 AAAAT
751649 TATAGTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (40 bp):
AAAATAAAAATAATATTATTCGAAATTTAAAATAAAAATA
Found at i:751674 original size:40 final size:39
Alignment explanation
Indices: 751564--751674 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 39
751554 AAATGTTTTT
* * *
751564 AAAATACAAATTATATTCTTCGAAATTTAAAATAAAAATA
1 AAAATAAAAATTATATTATTCGAAATTT-AAATTAAAATA
*
751604 AAAATAAAAATAATATTATTCGAAA--T---TTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAATTAAAATA
* *
751638 AAAATATAAATTATAGTATTCGAAATTTAACATTAAA
1 AAAATAAAAATTATATTATTCGAAATTTAA-ATTAAA
751675 TTTCAACTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
34 29 0.50
36 1 0.02
38 1 0.02
40 27 0.47
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (39 bp):
AAAATAAAAATTATATTATTCGAAATTTAAATTAAAATA
Found at i:752341 original size:128 final size:128
Alignment explanation
Indices: 752070--752419 Score: 621
Period size: 128 Copynumber: 2.7 Consensus size: 128
752060 ACAATCCATC
*
752070 TAGTGTCCCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
752135 GGAATGCGC-CCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
66 GGAAAGCGCGCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
*
752197 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGAAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
752262 GGAAGGCGCGCCCCCGGGAACGCGTCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATAAA
66 GGAAAGCGCGCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
752325 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
752390 GGAAAGCGCGCACCCGAGAACGCGCCTTCA
66 GGAAAGCGCGCCCCCGAGAACGCGCCTTCA
752420 TGTGAATAGT
Statistics
Matches: 211, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
127 71 0.34
128 140 0.66
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAAGCGCGCCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
Found at i:752513 original size:8 final size:8
Alignment explanation
Indices: 752500--752540 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
752490 TCACAAGCTT
752500 TCAAATTC
1 TCAAATTC
752508 TCAAATTC
1 TCAAATTC
* *
752516 CCAAACTC
1 TCAAATTC
752524 T-AAATTC
1 TCAAATTC
752531 TCAAATTC
1 TCAAATTC
752539 TC
1 TC
752541 TGAAAACGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:754830 original size:23 final size:23
Alignment explanation
Indices: 754804--754850 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
754794 TATTTAAATG
*
754804 AATGTTTTTG-TTTATAATAATTT
1 AATGTTATTGATTTAT-ATAATTT
754827 AATGTTATTGCATTTATATAATTT
1 AATGTTATTG-ATTTATATAATTT
754851 GTCAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 7 0.33
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
AATGTTATTGATTTATATAATTT
Found at i:758069 original size:26 final size:28
Alignment explanation
Indices: 758040--758103 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 28
758030 AAAAATTTTA
758040 AACTC-GT-GAGTTTTCGAGTCGAGTCG
1 AACTCAGTAGAGTTTTCGAGTCGAGTCG
*
758066 AACTCAATTTTAGAGTTTTCGAGTCGAGTCG
1 AACTC-A--GTAGAGTTTTCGAGTCGAGTCG
*
758097 AGCTCAG
1 AACTCAG
758104 CAATACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
26 5 0.17
30 2 0.07
31 23 0.77
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (28 bp):
AACTCAGTAGAGTTTTCGAGTCGAGTCG
Found at i:763617 original size:60 final size:59
Alignment explanation
Indices: 763506--763617 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 59
763496 TGACACGATG
* * * ** *
763506 CCTTCAAGTTCTAGGGGAGACATTCAACTGCGAGCTTATTTGACCTCAATGTTAAGATA
1 CCTTCAAGTTCAAGGGGAGACATTCAACTACCAGCTTATTCAACCTAAATGTTAAGATA
* *
763565 CCTTCAAGTTCAAGGGGAAGGCATTCAACTACCAGCTTGTTCAACCTAAATGT
1 CCTTCAAGTTCAAGGGG-AGACATTCAACTACCAGCTTATTCAACCTAAATGT
763618 CAACATCGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 16 0.36
60 28 0.64
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (59 bp):
CCTTCAAGTTCAAGGGGAGACATTCAACTACCAGCTTATTCAACCTAAATGTTAAGATA
Found at i:765200 original size:45 final size:46
Alignment explanation
Indices: 765136--765243 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 46
765126 CAGTGCACTA
*
765136 AGAGTGCATCGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCC
*
765181 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
**
765227 TCAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
765244 GGTATGTGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 31 0.54
46 23 0.40
47 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
Found at i:769605 original size:21 final size:21
Alignment explanation
Indices: 769579--769629 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
769569 GGCAAGGTGT
769579 ATCGATGCATATTCAATGTGC
1 ATCGATGCATATTCAATGTGC
769600 ATCGATGCATATTCAATGTGC
1 ATCGATGCATATTCAATGTGC
769621 ATCGATGCA
1 ATCGATGCA
769630 CTCATTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGATGCATATTCAATGTGC
Found at i:769790 original size:20 final size:22
Alignment explanation
Indices: 769745--769802 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
769735 GCATGGGTAG
769745 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
769769 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
769789 TGCATCGATGCACT
1 TGCATCGATGCACT
769803 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:770731 original size:31 final size:31
Alignment explanation
Indices: 770693--770757 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
770683 AGAGTCGAGG
*
770693 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
*
770724 GTTTACCTAGGTTCTTCGAGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
770755 GTT
1 GTT
770758 GCCAAGGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:770768 original size:30 final size:31
Alignment explanation
Indices: 770707--770769 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
770697 ACCTATGTCT
*
770707 TTCGAGACATATGGACAGTTTACCTAGGTTC
1 TTCGAGACATATGGACAGTTTACCAAGGTTC
* *
770738 TTCGAGACCTATGGACAG-TTGCCAAGGTTC
1 TTCGAGACATATGGACAGTTTACCAAGGTTC
770768 TT
1 TT
770770 TGTGATCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (31 bp):
TTCGAGACATATGGACAGTTTACCAAGGTTC
Found at i:774021 original size:20 final size:20
Alignment explanation
Indices: 773996--774053 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
773986 CACATGTTAA
773996 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
774016 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
774036 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
774054 TCAAGGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:774386 original size:16 final size:18
Alignment explanation
Indices: 774347--774389 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
774337 TGATTATACG
*
774347 TATATGCATGACATAAAT
1 TATATGTATGACATAAAT
*
774365 TGTATGTATG-CAT-AAT
1 TATATGTATGACATAAAT
774381 TATATGTAT
1 TATATGTAT
774390 TAACATGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (18 bp):
TATATGTATGACATAAAT
Found at i:775342 original size:2 final size:2
Alignment explanation
Indices: 775335--775413 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
775325 ATGCGTGGAT
775335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
775377 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
775414 ATGGGGTGCA
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:778265 original size:64 final size:63
Alignment explanation
Indices: 778168--778308 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 63
778158 CATATTCAAT
* * *
778168 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAA-TTGATGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTTG-TGCATCGATGCAT-AGGTA
* * * *
778231 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAATTTGTGCATCGATGCATAGGTA
778295 GTGCATCGATGCAC
1 GTGCATCGATGCAC
778309 ATGTTAAAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
63 18 0.27
64 46 0.69
65 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTTGTGCATCGATGCATAGGTA
Found at i:778341 original size:20 final size:20
Alignment explanation
Indices: 778296--778373 Score: 120
Period size: 20 Copynumber: 3.7 Consensus size: 20
778286 GCATGGGTAG
778296 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
778320 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
778340 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
778360 TGCATCGATGCACT
1 TGCATCGATGCACT
778374 TCAAGGGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 38 0.70
22 1 0.02
23 2 0.04
24 13 0.24
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:779307 original size:31 final size:31
Alignment explanation
Indices: 779249--779370 Score: 101
Period size: 31 Copynumber: 4.0 Consensus size: 31
779239 AGAGTCGAGG
* * * *
779249 GTTTACCTATG-TCTTTTGAGACATATGGTTA
1 GTTTACCTAGGTTC-TTTGTGACCTATGGATA
*
779280 GTTTACCTAGGTTCTTTGTGACCTATGGACA
1 GTTTACCTAGGTTCTTTGTGACCTATGGATA
* *
779311 GTTGT--CGAGGTTCTTTGTGACCTCTGGATA
1 GTT-TACCTAGGTTCTTTGTGACCTATGGATA
* * *
779341 G-TTACC-GGGGTCTTTGTGACCTCTGGATA
1 GTTTACCTAGGTTCTTTGTGACCTATGGATA
779370 G
1 G
779371 GTCCTTCGGG
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.01
29 23 0.30
30 24 0.31
31 26 0.34
32 3 0.04
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.39
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGTGACCTATGGATA
Found at i:779322 original size:30 final size:30
Alignment explanation
Indices: 779282--779367 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
779272 TATGGTTAGT
* *
779282 TTACCTAGGTTCTTTGTGACCTATGGACAG
1 TTACCGAGGTTCTTTGTGACCTCTGGACAG
** *
779312 TTGTCGAGGTTCTTTGTGACCTCTGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGACAG
*
779342 TTACCG-GGGTCTTTGTGACCTCTGGA
1 TTACCGAGGTTCTTTGTGACCTCTGGA
779368 TAGGTCCTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 19 0.40
30 29 0.60
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (30 bp):
TTACCGAGGTTCTTTGTGACCTCTGGACAG
Found at i:784836 original size:10 final size:10
Alignment explanation
Indices: 784821--784854 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
784811 TGATTCTCTC
784821 TTGATTGTTG
1 TTGATTGTTG
784831 TTGATTGTTG
1 TTGATTGTTG
*
784841 TT-CTTGTTG
1 TTGATTGTTG
784850 TTGAT
1 TTGAT
784855 CAATGGCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.09, C:0.03, G:0.26, T:0.62
Consensus pattern (10 bp):
TTGATTGTTG
Found at i:785130 original size:45 final size:46
Alignment explanation
Indices: 785057--785164 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 46
785047 CGGTGCACTA
* *
785057 AGAGTGCATCGATGCATTAAGTGAATTCGATG-TTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAA-AGCC
* *
785102 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAAAGCC
**
785148 TTAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
785165 GGTATGTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 29 0.53
46 23 0.42
47 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAAAGCC
Found at i:785239 original size:65 final size:64
Alignment explanation
Indices: 785105--785250 Score: 179
Period size: 65 Copynumber: 2.2 Consensus size: 64
785095 AATAGCCAGA
*
785105 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTTAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGTAT
* ** * *
785170 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGG-AT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGGTA-
785233 T
64 T
*
785234 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
785251 CTTTGAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.06
64 24 0.34
65 42 0.60
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTAT
Found at i:791009 original size:16 final size:17
Alignment explanation
Indices: 790984--791021 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
790974 AAACTAATAC
790984 TAAAAAATTA-AATAAA
1 TAAAAAATTACAATAAA
* *
791000 TAAAACATTACAATAAT
1 TAAAAAATTACAATAAA
791017 TAAAA
1 TAAAA
791022 TAACAACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATTACAATAAA
Found at i:794477 original size:136 final size:140
Alignment explanation
Indices: 794311--794602 Score: 404
Period size: 141 Copynumber: 2.1 Consensus size: 140
794301 AACTAATACT
794311 AAAAAAT--TAAATAAATAAAACATTTACAAT-AA-TT-A-AAATAACAACACAATTTAAAATTG
1 AAAAAATAATAAATAAATAAAACATTTACAATAAATTTAATAAATAACAACACAATTTAAAATTG
* *
794370 TTACCATATTGACAAAATACCTCGAGAAATGATTCTCATCTAAACGTAGCAACATGCCTTCCATT
66 TTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCTAAACGTAGCAACATGCATTCCATT
794435 TTATAACTGC
131 TTATAACTGC
794445 AAAAAATAATAAATAAAT-AAA-ATTAGTACAATAAAATTTAATAAATAACAACACAATTTAAAA
1 AAAAAATAATAAATAAATAAAACATT--TACAAT-AAATTTAATAAATAACAACACAATTTAAAA
* * * * * *
794508 TTGTTATCATATCGACAAAATGCCTCGAGATATGATTCTCATCTAAACGTAGTAGCTTGCATTCC
63 TTGTTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCTAAACGTAGCAACATGCATTCC
*
794573 ATTTTATTACTGC
128 ATTTTATAACTGC
*
794586 AAAAAGTAATAAA-AAAT
1 AAAAAATAATAAATAAAT
794603 TAGTACAATA
Statistics
Matches: 139, Mismatches: 10, Indels: 12
0.86 0.06 0.07
Matches are distributed among these distances:
134 10 0.07
135 3 0.02
136 15 0.11
138 2 0.01
139 2 0.01
140 5 0.04
141 102 0.73
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.30
Consensus pattern (140 bp):
AAAAAATAATAAATAAATAAAACATTTACAATAAATTTAATAAATAACAACACAATTTAAAATTG
TTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCTAAACGTAGCAACATGCATTCCATT
TTATAACTGC
Found at i:794507 original size:141 final size:135
Alignment explanation
Indices: 794346--794624 Score: 414
Period size: 141 Copynumber: 2.0 Consensus size: 135
794336 ACAATAATTA
*
794346 AAATAACAACACAATTTAAAATTGTTACCATATTGACAAAATACCTCGAGAAATGATTCTCATCT
1 AAATAACAACACAATTTAAAATTGTTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCT
*
794411 AAACGTAGCAACATGCCTTCCATTTTATAACTGCAAAAAATAATAAATAAATAAAATTAGTACAA
66 AAACGTAGCAACATGCATTCCATTTTATAACTGC--AAAA-AAT-AAT-AA-AAAATTAGTACAA
794476 TAAAATTTAAT
125 TAAAATTTAAT
* * *
794487 AAATAACAACACAATTTAAAATTGTTATCATATCGACAAAATGCCTCGAGATATGATTCTCATCT
1 AAATAACAACACAATTTAAAATTGTTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCT
* * * * *
794552 AAACGTAGTAGCTTGCATTCCATTTTATTACTGCAAAAAGTAATAAAAAATTAGTACAATAAAAT
66 AAACGTAGCAACATGCATTCCATTTTATAACTGCAAAAAATAATAAAAAATTAGTACAATAAAAT
794617 TTAAT
131 TTAAT
794622 AAA
1 AAA
794625 CTAATAAATT
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
135 27 0.21
136 2 0.02
137 3 0.02
138 2 0.02
139 4 0.03
141 90 0.70
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (135 bp):
AAATAACAACACAATTTAAAATTGTTACCATATCGACAAAATACCTCGAGAAATGATTCTCATCT
AAACGTAGCAACATGCATTCCATTTTATAACTGCAAAAAATAATAAAAAATTAGTACAATAAAAT
TTAAT
Found at i:797628 original size:13 final size:13
Alignment explanation
Indices: 797610--797634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
797600 CGTGGGTATT
797610 GTTGGGATGAGGG
1 GTTGGGATGAGGG
797623 GTTGGGATGAGG
1 GTTGGGATGAGG
797635 AATCCATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (13 bp):
GTTGGGATGAGGG
Found at i:809593 original size:21 final size:21
Alignment explanation
Indices: 809550--809594 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
809540 TATCGCATTA
**
809550 CGATTTTCCAAATTCGCGTTG
1 CGATTTTCCAAATTCGCAATG
*
809571 CGATTTTCCGAATTCGCAATG
1 CGATTTTCCAAATTCGCAATG
809592 CGA
1 CGA
809595 ATATGTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (21 bp):
CGATTTTCCAAATTCGCAATG
Found at i:809626 original size:20 final size:20
Alignment explanation
Indices: 809603--809696 Score: 161
Period size: 20 Copynumber: 4.7 Consensus size: 20
809593 GAATATGTAA
*
809603 ATCGCAACGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
809623 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
809643 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
809663 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
809683 ATCGCAACGCGATT
1 ATCGCAACGCGATT
809697 TTCAAAGCGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:809629 original size:40 final size:40
Alignment explanation
Indices: 809584--809696 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
809574 TTTTCCGAAT
*
809584 TCGCAATGCGAATATGTA-AATCGCAACGCGATTATGACTA
1 TCGCAACGCGAATATG-ACAATCGCAACGCGATTATGACTA
* * * * *
809624 TCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACTA
1 TCGCAACGCGAATATGACAATCGCAACGCGATTATGACTA
* *
809664 TCGCAACGCG-ATGCTGACTATCGCAACGCGATT
1 TCGCAACGCGAAT-ATGACAATCGCAACGCGATT
809697 TTCAAAGCGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
TCGCAACGCGAATATGACAATCGCAACGCGATTATGACTA
Found at i:809883 original size:22 final size:22
Alignment explanation
Indices: 809858--809919 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
809848 TCTCTCACTC
* *
809858 TCTAAGGCGACATCCGTCCCCA
1 TCTACGGCGAAATCCGTCCCCA
* * *
809880 TCTACGACCAAATCAGTCCCCA
1 TCTACGGCGAAATCCGTCCCCA
*
809902 TCTCCGGCGAAATCCGTC
1 TCTACGGCGAAATCCGTC
809920 TATCTCCATC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.19
Consensus pattern (22 bp):
TCTACGGCGAAATCCGTCCCCA
Found at i:810324 original size:19 final size:19
Alignment explanation
Indices: 810302--810387 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 19
810292 GAATCGCAAC
810302 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
810321 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
** * *
810340 GCGATAGTCAAATTCACGTT
1 GCGATTTTC-ATTTCGCGTT
** *
810360 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
810380 GCGATTTT
1 GCGATTTT
810388 AAGTTTCAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
19 25 0.45
20 30 0.55
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.43
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:810380 original size:20 final size:19
Alignment explanation
Indices: 810312--810384 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
810302 GCGATTTTAG
**
810312 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
810331 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTC-A
* *
810351 ATTCACGTTGCGATAGTCA
1 TTTCGCGTTGCGATAGTCA
*
810370 TTTTCGTGTTGCGAT
1 -TTTCGCGTTGCGAT
810385 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:812291 original size:20 final size:20
Alignment explanation
Indices: 812266--812333 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
812256 TAGTTTACTT
812266 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
812286 TCGCAACGCAAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
812306 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
812326 TCACAACG
1 TCGCAACG
812334 AAAGAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:812977 original size:21 final size:20
Alignment explanation
Indices: 812882--812982 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 20
812872 GCCCGACTCA
812882 CCTGTCATCGTTCAAGAGGC
1 CCTGTCATCGTTCAAGAGGC
** *
812902 CTCCCTTATCGTTCAAGAGGCC
1 C-CTGTCATCGTTCAAGAGG-C
* ** *
812924 CCTATCATCCCTCAAGAGTC
1 CCTGTCATCGTTCAAGAGGC
*
812944 CCT-TCCCACCGTTCAAGAGGC
1 CCTGT--CATCGTTCAAGAGGC
*
812965 CACTGTCATCGTTGAAGA
1 C-CTGTCATCGTTCAAGA
812983 TGTCCCTCCC
Statistics
Matches: 60, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
19 1 0.02
20 5 0.08
21 49 0.82
22 4 0.07
23 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.25
Consensus pattern (20 bp):
CCTGTCATCGTTCAAGAGGC
Found at i:814666 original size:34 final size:34
Alignment explanation
Indices: 814628--814724 Score: 140
Period size: 34 Copynumber: 2.9 Consensus size: 34
814618 GTCGAATACC
*
814628 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
*
814662 CGTTGCGATAGTCAAATTTGCGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
* * * *
814696 AGTTGCAATAATCAAATTCTCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
814725 AGTCAAATTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Found at i:814686 original size:54 final size:53
Alignment explanation
Indices: 814559--814690 Score: 165
Period size: 54 Copynumber: 2.5 Consensus size: 53
814549 AAATCGCAAC
* * * *
814559 GCGAAAGTCAATTCGCGTTGCAATAGTCTAATACGCTTTGCGATTTTCTCGTT
1 GCGATAGTCAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTT
* * * *
814612 GCGATAGTCGAATACCCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTCGTT
1 GCGATAGTC-AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTT
*
814666 GCGATAGTCAAATTTGCGTTGCGAT
1 GCGATAGTC-AATTCGCGTTGCGAT
814691 TTTTGAGTTG
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 8 0.12
54 58 0.88
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (53 bp):
GCGATAGTCAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTCTCGTT
Found at i:814687 original size:20 final size:20
Alignment explanation
Indices: 814608--814752 Score: 91
Period size: 20 Copynumber: 7.8 Consensus size: 20
814598 GCGATTTTCT
* ***
814608 CGTTGCGATAGTCGAATACC
1 CGTTGCGATAGTCAAATTTG
*
814628 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
814648 CGTTGCGAT--T----TTTT
1 CGTTGCGATAGTCAAATTTG
814662 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
814682 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTTG
* * *
814696 AGTTGCAATAATCAAATTCT-
1 CGTTGCGATAGTCAAATT-TG
*
814716 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTTG
*
814736 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
814753 GAATGTGTAA
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.22
16 2 0.02
18 2 0.02
20 71 0.72
21 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:817254 original size:24 final size:24
Alignment explanation
Indices: 817220--817273 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
817210 CTGAAACATC
817220 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
817244 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
817268 ATCAAA
1 ATCAAA
817274 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:817287 original size:24 final size:24
Alignment explanation
Indices: 817220--817287 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
817210 CTGAAACATC
* * *
817220 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
817244 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
817268 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
817288 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:817930 original size:62 final size:62
Alignment explanation
Indices: 817864--818109 Score: 161
Period size: 60 Copynumber: 4.0 Consensus size: 62
817854 CGCGAATATG
* * *
817864 AAAATCGCAATGCG-AACACATAAATCACAACGCG-ATTCTTACTATCGCAACGAGTATCCGTA
1 AAAATCGCAACGCGTAAC-CATAAATCACAACGCGTATCCGTA-TATCGCAACGAGTATCCGTA
* * * * *
817926 AAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT-
1 AAAATCGCAACGCGTAACCATAAATCACAACGCGTATCCGTATATCGCAACGAGTATCCGTA
* * * * * * *
817987 -AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGA-TAATCCGT-
1 AAAATCGCAACGCGTAA-CCATAAATCACAACGCGTATCCGTATATCGCAACGAGT-ATCCGTA
* ** * * * * *
818047 -AAATCGCAACGAG-AATCTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AAAATCGCAACGCGTAA-CCATAAATCACAACGCGT-ATCCGTATATCGCAACGAGTATCCGTA
818108 AA
1 AA
818110 TCACAACACT
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
59 3 0.02
60 97 0.64
62 45 0.30
63 7 0.05
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (62 bp):
AAAATCGCAACGCGTAACCATAAATCACAACGCGTATCCGTATATCGCAACGAGTATCCGTA
Found at i:817936 original size:82 final size:80
Alignment explanation
Indices: 817846--818111 Score: 272
Period size: 80 Copynumber: 3.3 Consensus size: 80
817836 GATTTTCTAG
* * * * *
817846 AATCGCAACGCGAATATGAAAATCGCAATGCG-AACACATAAATCACAACGCG-ATTCTTACTAT
1 AATCGCAACGCGAATCTGTAAATCGCAATGCGTAAC-CATAAATCACAACGCGTATCCGTA-AAT
817909 CGCAACGAGT-ATCCGTAAA
64 CGCAACGA-TAATCCGT--A
* * * * * *
817928 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCG
1 AATCGCAACGCGAATCTGTAAATCGCAATGCGTAACCATAAATCACAACGCGTATCCGTAAATCG
817993 CAACGATAATCCGTA
66 CAACGATAATCCGTA
* * * * * *
818008 AATCGCAACGAGAATCTGTAAATCGCAA--CGATAATCCGTAAATCGCAACGAGAATCTGTAAAT
1 AATCGCAACGCGAATCTGTAAATCGCAATGCG-TAA-CCATAAATCACAACGCGTATCCGTAAAT
818071 CGCAACGATAATCCGTA
64 CGCAACGATAATCCGTA
*
818088 AATCGCAACGAGAATCTGTAAATC
1 AATCGCAACGCGAATCTGTAAATC
818112 ACAACACTGA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.01
79 2 0.01
80 91 0.57
81 1 0.01
82 57 0.36
83 7 0.04
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (80 bp):
AATCGCAACGCGAATCTGTAAATCGCAATGCGTAACCATAAATCACAACGCGTATCCGTAAATCG
CAACGATAATCCGTA
Found at i:817952 original size:20 final size:20
Alignment explanation
Indices: 817907--818116 Score: 246
Period size: 20 Copynumber: 10.4 Consensus size: 20
817897 GATTCTTACT
817907 ATCGCAACGAGTATCCGTAAAA
1 ATCGCAACGAGTATCCGT--AA
*
817929 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
817949 ATCGCAATGCGTATCCGTAT
1 ATCGCAACGAGTATCCGTAA
*
817969 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
817989 ATCGCAACGA-TAATCCGTAA
1 ATCGCAACGAGT-ATCCGTAA
* *
818009 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGAGTATCCGTAA
818029 ATCGCAACGA-TAATCCGTAA
1 ATCGCAACGAGT-ATCCGTAA
* *
818049 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGAGTATCCGTAA
818069 ATCGCAACGA-TAATCCGTAA
1 ATCGCAACGAGT-ATCCGTAA
* *
818089 ATCGCAACGAGAATCTGTAA
1 ATCGCAACGAGTATCCGTAA
*
818109 ATCACAAC
1 ATCGCAAC
818117 ACTGAAATTT
Statistics
Matches: 165, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.01
20 147 0.89
22 17 0.10
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:817984 original size:40 final size:40
Alignment explanation
Indices: 817907--818116 Score: 282
Period size: 40 Copynumber: 5.2 Consensus size: 40
817897 GATTCTTACT
* * *
817907 ATCGCAACGAGT-ATCCGTAAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGA-TAATCCGT--AAATCGCAACGAGAATCTGTAA
* * * *
817949 ATCGCAATGCG-T-ATCCGTATATCGCAACGCGTATCCGTAA
1 ATCGCAA--CGATAATCCGTAAATCGCAACGAGAATCTGTAA
817989 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
1 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
818029 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
1 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
818069 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
1 ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
*
818109 ATCACAAC
1 ATCGCAAC
818117 ACTGAAATTT
Statistics
Matches: 158, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 139 0.88
42 14 0.09
44 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAA
Found at i:821128 original size:19 final size:19
Alignment explanation
Indices: 821104--821239 Score: 166
Period size: 19 Copynumber: 7.7 Consensus size: 19
821094 GCAACGAGAG
821104 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
821123 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
821142 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
821156 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
821175 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
821194 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
821208 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
821227 AATCGCATTGCGA
1 AATCGCAATGCGA
821240 TTCTCCCGTT
Statistics
Matches: 101, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
14 20 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 69 0.68
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:821172 original size:52 final size:52
Alignment explanation
Indices: 821094--821239 Score: 274
Period size: 52 Copynumber: 2.8 Consensus size: 52
821084 TTCATAAAAG
821094 GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
821146 GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
* *
821198 GCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
821240 TTCTCCCGTT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
GCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
Found at i:821212 original size:33 final size:33
Alignment explanation
Indices: 821094--821233 Score: 124
Period size: 33 Copynumber: 4.1 Consensus size: 33
821084 TTCATAAAAG
821094 GCAACGAGAGAATCGCAATGCGAAATGAAAATC
1 GCAACGAGAGAATCGCAATGCGAAATGAAAATC
* * * * *
821127 GCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATC
1 GCAACGAGAGAATCG-CAATGCGAAATGA-A-AATC
*
821160 GCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATC
*
821198 GCAACGAGAGAATCGCAATGCGAAATTAAAATC
1 GCAACGAGAGAATCGCAATGCGAAATGAAAATC
821231 GCA
1 GCA
821234 TTGCGATTCT
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
31 7 0.08
32 7 0.08
33 42 0.50
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.12
39 7 0.08
40 7 0.08
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
GCAACGAGAGAATCGCAATGCGAAATGAAAATC
Found at i:821288 original size:19 final size:19
Alignment explanation
Indices: 821248--821345 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
821238 GATTCTCCCG
821248 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
821268 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
821287 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
821301 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
821320 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
821339 TTGCGAT
1 TTGCGAT
821346 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.51
20 14 0.20
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:821342 original size:52 final size:53
Alignment explanation
Indices: 821229--821345 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
821219 GAAATTAAAA
821229 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
* *
821282 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
821334 TCGCATTGCGAT
1 TCGCATTGCGAT
821346 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCAATTTTCATT
Found at i:821467 original size:14 final size:14
Alignment explanation
Indices: 821450--821486 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
821440 GCATCATTAC
821450 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
821464 ACAAATCATCTTTT
1 ACAAATCAACTTTT
821478 ACAAATCAA
1 ACAAATCAA
821487 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:822979 original size:45 final size:45
Alignment explanation
Indices: 822927--823013 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
822917 TGATGACAGT
* * *
822927 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGGGGG
* * *
822972 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
823014 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.21
Consensus pattern (45 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGGGGG
Done.