Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_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: 2862162
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:652525 original size:14 final size:14
Alignment explanation
Indices: 652492--652544 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
652482 TGTGCAATAT
* *
652492 AAATGCAAAGATGCC
1 AAATGTAAATATG-C
652507 AAATGTAAATATGC
1 AAATGTAAATATGC
* *
652521 AAATGTAAAAATGT
1 AAATGTAAATATGC
652535 AAATGTAAAT
1 AAATGTAAAT
652545 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (14 bp):
AAATGTAAATATGC
Found at i:656303 original size:3 final size:3
Alignment explanation
Indices: 656295--656382 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
656285 GGCCCGTTTG
* * * *
656295 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
656342 TTA TAA TTA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
656383 TTTAAATGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:659637 original size:5 final size:5
Alignment explanation
Indices: 659627--659652 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
659617 TGACTTAGAA
659627 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
659653 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:664053 original size:21 final size:23
Alignment explanation
Indices: 664009--664060 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
663999 TTGCCATTGG
664009 AGTGAATTTAGCTCAAACCTTGA
1 AGTGAATTTAGCTCAAACCTTGA
*
664032 AGTGAATTTAGCTC-CA-CTTGA
1 AGTGAATTTAGCTCAAACCTTGA
664053 AGTGAATT
1 AGTGAATT
664061 GTTTACTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 13 0.46
22 1 0.04
23 14 0.50
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (23 bp):
AGTGAATTTAGCTCAAACCTTGA
Found at i:665003 original size:45 final size:45
Alignment explanation
Indices: 664939--665031 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
664929 AAGTGAGGTG
* * * * *
664939 AAAAATTAGGGGCCTCAATTATAAAGATAGAAAGTGAGATTGAAA
1 AAAAATTAGAGACATCAATTATAAAGATAAAAAGAGAGATTGAAA
*
664984 AAAAATTAGAGACATCAATTATAAAGGTAAAAAGAGAGATTGAAA
1 AAAAATTAGAGACATCAATTATAAAGATAAAAAGAGAGATTGAAA
665029 AAA
1 AAA
665032 TTAGGGATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.20
Consensus pattern (45 bp):
AAAAATTAGAGACATCAATTATAAAGATAAAAAGAGAGATTGAAA
Found at i:665048 original size:43 final size:43
Alignment explanation
Indices: 664915--665081 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 43
664905 AGGGGCCATG
* * **
664915 ATTATAAAAGTAAAAAGTGAG-GTG-AAAAATTAGGGGCCTCA
1 ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGATCTCA
* * *
664956 ATTATAAAGATAGAAAGTGAGATTGAAAAAAAATTAGAGA-CATCA
1 ATTATAAAGGTAAAAAGTGAGATTG--AAAAAATTAGGGATC-TCA
* *
665001 ATTATAAAGGTAAAAAGAGAGATTGAAAAAATTAGGGATCTCG
1 ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGATCTCA
* * *
665044 ATTATAAAGGTAAAAATTGGGATTGTAAAAATT-GGGAT
1 ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGAT
665082 TGAAAAAATT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
41 18 0.17
42 7 0.07
43 43 0.41
44 2 0.02
45 35 0.33
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.25
Consensus pattern (43 bp):
ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGATCTCA
Found at i:665068 original size:88 final size:86
Alignment explanation
Indices: 664915--665074 Score: 203
Period size: 88 Copynumber: 1.8 Consensus size: 86
664905 AGGGGCCATG
* * *
664915 ATTATAAAAGTAAAAAGTGAGGTGAAAAATTAGGGGCCTCAATTATAAAGATAGAAAGTGAGATT
1 ATTATAAAAGTAAAAAGAGAGGTGAAAAATTAGGGACCTCAATTATAAAGATAAAAAGTGAGATT
664980 GAAAAAAAATTAGAGACATCA
66 GAAAAAAAATTAGAGACATCA
* * * * * * *
665001 ATTATAAAGGTAAAAAGAGAGATTGAAAAAATTAGGGATCTCGATTATAAAGGTAAAAATTGGGA
1 ATTATAAAAGTAAAAAGAGAG-GTG-AAAAATTAGGGACCTCAATTATAAAGATAAAAAGTGAGA
*
665066 TTGTAAAAA
64 TTGAAAAAA
665075 TTGGGATTGA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 19 0.31
87 2 0.03
88 40 0.66
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.24
Consensus pattern (86 bp):
ATTATAAAAGTAAAAAGAGAGGTGAAAAATTAGGGACCTCAATTATAAAGATAAAAAGTGAGATT
GAAAAAAAATTAGAGACATCA
Found at i:665087 original size:14 final size:15
Alignment explanation
Indices: 665053--665091 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
665043 GATTATAAAG
665053 GTAAAAATTGGGATT
1 GTAAAAATTGGGATT
665068 GTAAAAATTGGGATT
1 GTAAAAATTGGGATT
*
665083 GAAAAAATT
1 GTAAAAATT
665092 AGGGTTCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (15 bp):
GTAAAAATTGGGATT
Found at i:668088 original size:12 final size:12
Alignment explanation
Indices: 668073--668109 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
668063 AATGCCGATG
668073 GAAAATGCAAAT
1 GAAAATGCAAAT
668085 GAAAATGCAAAT
1 GAAAATGCAAAT
668097 GAAAATGCAAAT
1 GAAAATGCAAAT
668109 G
1 G
668110 GTGTCGATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.19, T:0.16
Consensus pattern (12 bp):
GAAAATGCAAAT
Found at i:668102 original size:18 final size:18
Alignment explanation
Indices: 668075--668109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
668065 TGCCGATGGA
*
668075 AAATGCAAATGAAAATGC
1 AAATGAAAATGAAAATGC
*
668093 AAATGAAAATGCAAATG
1 AAATGAAAATGAAAATG
668110 GTGTCGATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (18 bp):
AAATGAAAATGAAAATGC
Found at i:674058 original size:29 final size:29
Alignment explanation
Indices: 673976--674059 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
673966 TAAAACATAT
* *
673976 AACTTTTAAAAATTACAAATTTTAGTCCCTA
1 AACTTTCAAAAATTAC--ATTTTAGCCCCTA
* ** * *
674007 TACTTTTCAAACTTTATACTTTAGCCCCTA
1 AAC-TTTCAAAAATTACATTTTAGCCCCTA
*
674037 AACTTTCAAAAGTTACATTTTAG
1 AACTTTCAAAAATTACATTTTAG
674060 TCACTGGGCC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
29 16 0.40
30 13 0.32
31 2 0.05
32 9 0.22
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (29 bp):
AACTTTCAAAAATTACATTTTAGCCCCTA
Found at i:682555 original size:2 final size:2
Alignment explanation
Indices: 682548--682585 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
682538 ACTTTTGACT
682548 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
682586 ATACTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:695736 original size:18 final size:17
Alignment explanation
Indices: 695708--695741 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
695698 GTAGGTCACA
695708 TTTGTTTTTATATTGAG
1 TTTGTTTTTATATTGAG
*
695725 TTTGTATTTTATTTTGA
1 TTTGT-TTTTATATTGA
695742 CATGGGACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (17 bp):
TTTGTTTTTATATTGAG
Found at i:700590 original size:88 final size:90
Alignment explanation
Indices: 700471--700649 Score: 319
Period size: 88 Copynumber: 2.0 Consensus size: 90
700461 TTCCTCTCTT
700471 TCAATTGAAACCAATATATTTAATATTTGGTAAAGTTTATCTGAGGTAAGGAAATCAGT-TCCAT
1 TCAATTGAAACCAATATATTTAATATTTGGTAAAG-TTATCTGAGGTAAGGAAATCAGTGTCCAT
700535 TCTAGAGCTTCATTTTAAGCCCCATA
65 TCTAGAGCTTCATTTTAAGCCCCATA
*
700561 TCAATTGAAACC-A-ATATTTAATATTTGGTAAAGTTATCTGAGGTAAGGAAATCATTGTCCATT
1 TCAATTGAAACCAATATATTTAATATTTGGTAAAGTTATCTGAGGTAAGGAAATCAGTGTCCATT
700624 CTAGAGCTTCATTTTAAGCCCCATA
66 CTAGAGCTTCATTTTAAGCCCCATA
700649 T
1 T
700650 GTCAAGTTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
87 22 0.25
88 52 0.60
89 1 0.01
90 12 0.14
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (90 bp):
TCAATTGAAACCAATATATTTAATATTTGGTAAAGTTATCTGAGGTAAGGAAATCAGTGTCCATT
CTAGAGCTTCATTTTAAGCCCCATA
Found at i:704021 original size:43 final size:43
Alignment explanation
Indices: 703974--704056 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
703964 GTATATTTTC
703974 AAAGACAAATTTAAGAAGGGGAATTACCTCGAAAAACAAGACT
1 AAAGACAAATTTAAGAAGGGGAATTACCTCGAAAAACAAGACT
704017 AAAGACAAATTTAAGAAGGGGAATTACCTCGAAAAACAAG
1 AAAGACAAATTTAAGAAGGGGAATTACCTCGAAAAACAAG
704057 GCTAGAGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (43 bp):
AAAGACAAATTTAAGAAGGGGAATTACCTCGAAAAACAAGACT
Found at i:708585 original size:35 final size:35
Alignment explanation
Indices: 708539--708616 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
708529 ATTATAACCT
708539 AACAATTTTCTTTTAACAAAACATGAAATGGACCC
1 AACAATTTTCTTTTAACAAAACATGAAATGGACCC
708574 AACAATTTTCTTTTAACAAAACATGAAATGGACCC
1 AACAATTTTCTTTTAACAAAACATGAAATGGACCC
*
708609 AAGAATTT
1 AACAATTT
708617 CTTCATCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (35 bp):
AACAATTTTCTTTTAACAAAACATGAAATGGACCC
Found at i:711100 original size:64 final size:63
Alignment explanation
Indices: 711029--711252 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 63
711019 TTATATGAAT
* *
711029 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
711092 C-
62 CG
* * *
711093 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** ** * ** *
711157 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* *
711221 ATGCACCGATGCATCA-GTAGTGCATCGATGCA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA
711253 TACCTTCATT
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
63 3 0.02
64 124 0.92
65 6 0.04
66 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:711575 original size:24 final size:24
Alignment explanation
Indices: 711548--711597 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
711538 ACATGAATAA
*
711548 GATATAT-ATATGTTCATGTGATAT
1 GATATATGATATGAT-ATGTGATAT
*
711572 GATATGTGATATGATATGTGATAT
1 GATATATGATATGATATGTGATAT
711596 GA
1 GA
711598 CATGTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (24 bp):
GATATATGATATGATATGTGATAT
Found at i:711580 original size:12 final size:12
Alignment explanation
Indices: 711563--711609 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
711553 ATATATGTTC
711563 ATGTGATATGAT
1 ATGTGATATGAT
711575 ATGTGATATGAT
1 ATGTGATATGAT
*
711587 ATGTGATATGAC
1 ATGTGATATGAT
*
711599 ATGTAATATGA
1 ATGTGATATGA
711610 GAACATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:711772 original size:15 final size:15
Alignment explanation
Indices: 711754--711800 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
711744 GAGGGTATAA
711754 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
711769 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
711784 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
711799 TA
1 TA
711801 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:718060 original size:64 final size:63
Alignment explanation
Indices: 717992--718215 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 63
717982 TTATATGAAT
* *
717992 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCACCCA--TTAATAATAAA-ACATCGAATGCAA-T
718055 C-
62 CG
* * *
718056 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
** ** * ** *
718120 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA-CCCATTAATAATAAAACATCGAATGCAATCG
* *
718184 ATGCACCGATGCATCA-GTAGTGCATCGATGCA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCA
718216 TACCTTCATT
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
63 3 0.02
64 124 0.92
65 6 0.04
66 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCACCCATTAATAATAAAACATCGAATGCAATCG
Found at i:718542 original size:12 final size:12
Alignment explanation
Indices: 718524--718559 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
718514 TATATATGTT
718524 CATGTGATATGA
1 CATGTGATATGA
*
718536 TATGTGATATGA
1 CATGTGATATGA
*
718548 CATGTAATATGA
1 CATGTGATATGA
718560 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:718722 original size:15 final size:15
Alignment explanation
Indices: 718704--718750 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
718694 GAGGGTATAA
718704 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
718719 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
718734 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
718749 TA
1 TA
718751 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:731935 original size:62 final size:62
Alignment explanation
Indices: 731864--731983 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
731854 AATCGTAATA
* ***
731864 GCCAAAAGATTAGTATCTTCCTGGTCGACAGTTGAATTTGCTATAACAACAAAAAGATGATT
1 GCCAAAAGATTAGTATCTTCCTAGTCGACAGCCAAATTTGCTATAACAACAAAAAGATGATT
* * *
731926 GCCAAAAGATTGGTATCTTCCTAGTCGACGGCCAAATTTGTTATAACAACAAAAAGAT
1 GCCAAAAGATTAGTATCTTCCTAGTCGACAGCCAAATTTGCTATAACAACAAAAAGAT
731984 TGTCTTCTAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (62 bp):
GCCAAAAGATTAGTATCTTCCTAGTCGACAGCCAAATTTGCTATAACAACAAAAAGATGATT
Found at i:732037 original size:30 final size:30
Alignment explanation
Indices: 732001--732062 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
731991 TACTAAAGAT
732001 AATGTGTTTTGATTTTAAAAACAACATTCA
1 AATGTGTTTTGATTTTAAAAACAACATTCA
732031 AATGTGTTTTGATTTTAAAAACAACATTCA
1 AATGTGTTTTGATTTTAAAAACAACATTCA
732061 AA
1 AA
732063 GGGTTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (30 bp):
AATGTGTTTTGATTTTAAAAACAACATTCA
Found at i:734886 original size:18 final size:18
Alignment explanation
Indices: 734863--734905 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
734853 TAGATTGCAA
734863 TCAATTAGTTCGACACAC
1 TCAATTAGTTCGACACAC
734881 TCAATTAGTTCGACACAC
1 TCAATTAGTTCGACACAC
734899 TCAATTA
1 TCAATTA
734906 AAACAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (18 bp):
TCAATTAGTTCGACACAC
Found at i:735222 original size:43 final size:43
Alignment explanation
Indices: 735165--735246 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
735155 AGAAATAACT
735165 CAATTTCAATCAAAGAATAAGCAAAGGCTAATTTGATTTATAA
1 CAATTTCAATCAAAGAATAAGCAAAGGCTAATTTGATTTATAA
* *
735208 CAATTTTAATCAAAGAATAAGTAAAGGCTAATTTGATTT
1 CAATTTCAATCAAAGAATAAGCAAAGGCTAATTTGATTT
735247 CTAATTCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (43 bp):
CAATTTCAATCAAAGAATAAGCAAAGGCTAATTTGATTTATAA
Found at i:740626 original size:16 final size:16
Alignment explanation
Indices: 740602--740635 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
740592 TATCGCCGAC
*
740602 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
740618 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
740634 CG
1 CG
740636 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:742548 original size:14 final size:14
Alignment explanation
Indices: 742531--742557 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
742521 AATAACAAAC
742531 AAAAATTGAAAAAT
1 AAAAATTGAAAAAT
742545 AAAAATTGAAAAA
1 AAAAATTGAAAAA
742558 AATTTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAAATTGAAAAAT
Found at i:742570 original size:15 final size:14
Alignment explanation
Indices: 742552--742585 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
742542 AATAAAAATT
742552 GAAAAAAATTTAAAA
1 GAAAAAAA-TTAAAA
*
742567 GAAACAAATTAAAA
1 GAAAAAAATTAAAA
742581 GAAAA
1 GAAAA
742586 TGAAATGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (14 bp):
GAAAAAAATTAAAA
Found at i:743886 original size:23 final size:22
Alignment explanation
Indices: 743860--743926 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 22
743850 ATGCCACTGT
*
743860 TGATTGGATCTTCTAGAAGCTGC
1 TGATTGG-CCTTCTAGAAGCTGC
743883 TGATTAGGCCTTCTAGAAGCTGC
1 TGATT-GGCCTTCTAGAAGCTGC
*
743906 TGACTAGGCCTTCTAGAAGCT
1 TGA-TTGGCCTTCTAGAAGCT
743927 ATTGACTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 37 0.93
24 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (22 bp):
TGATTGGCCTTCTAGAAGCTGC
Found at i:743933 original size:23 final size:23
Alignment explanation
Indices: 743869--743926 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
743859 TTGATTGGAT
*
743869 CTTCTAGAAGCTGCTGATTAGGC
1 CTTCTAGAAGCTGCTGACTAGGC
743892 CTTCTAGAAGCTGCTGACTAGGC
1 CTTCTAGAAGCTGCTGACTAGGC
743915 CTTCTAGAAGCT
1 CTTCTAGAAGCT
743927 ATTGACTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
CTTCTAGAAGCTGCTGACTAGGC
Found at i:747239 original size:25 final size:26
Alignment explanation
Indices: 747193--747245 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
747183 TTTTTTAGTT
*
747193 AAAATATATTAAATTATAAGATAGATA
1 AAAATATATTAAA-TATAAGATAAATA
*
747220 AAAATATATTAAA-ATTAGATAAATA
1 AAAATATATTAAATATAAGATAAATA
747245 A
1 A
747246 TCATACTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.46
27 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
AAAATATATTAAATATAAGATAAATA
Found at i:747920 original size:24 final size:24
Alignment explanation
Indices: 747889--747949 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
747879 TTTTAGTTAG
747889 GTTTCGGTTATTTTGGTTGGGATT
1 GTTTCGGTTATTTTGGTTGGGATT
747913 GTTTCGGTTATTTTGGTTGGGATT
1 GTTTCGGTTATTTTGGTTGGGATT
* *
747937 GTTGCTGTTATTT
1 GTTTCGGTTATTT
747950 AGATGGTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.08, C:0.05, G:0.31, T:0.56
Consensus pattern (24 bp):
GTTTCGGTTATTTTGGTTGGGATT
Found at i:748852 original size:13 final size:13
Alignment explanation
Indices: 748834--748861 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
748824 TTTATCATCC
748834 TTTTTATTATCTA
1 TTTTTATTATCTA
748847 TTTTTATTATCTA
1 TTTTTATTATCTA
748860 TT
1 TT
748862 AGTGAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTATTATCTA
Found at i:752396 original size:13 final size:13
Alignment explanation
Indices: 752380--752404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
752370 AATCAATTTC
752380 TCAAATCAGCTAA
1 TCAAATCAGCTAA
752393 TCAAATCAGCTA
1 TCAAATCAGCTA
752405 CTGGAATCAG
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAAATCAGCTAA
Found at i:752792 original size:13 final size:13
Alignment explanation
Indices: 752776--752819 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
752766 ACCATCATTT
752776 TCCTTACAGAGGG
1 TCCTTACAGAGGG
*
752789 TCC-TAAAGGAGTGG
1 TCCTTACA-GAG-GG
752803 TCCTTACAGAGGG
1 TCCTTACAGAGGG
752816 TCCT
1 TCCT
752820 ATTAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.12
13 12 0.46
14 8 0.31
15 3 0.12
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (13 bp):
TCCTTACAGAGGG
Found at i:759066 original size:17 final size:17
Alignment explanation
Indices: 759044--759077 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
759034 AGTTTTCGGG
759044 TTCAAGAAATGAATTCT
1 TTCAAGAAATGAATTCT
759061 TTCAAGAAATGAATTCT
1 TTCAAGAAATGAATTCT
759078 GGGCAGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TTCAAGAAATGAATTCT
Found at i:759892 original size:22 final size:22
Alignment explanation
Indices: 759867--759962 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
759857 GGGTATATTA
*
759867 GTCCTTCAGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
759889 GTCCTTCGGGACGTATGCAGTG
1 GTCCTTCGGGACGTATCCAGTG
**
759911 GTCCTTTAGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
759933 GTCCTTCGGGA--TAT--AGTG
1 GTCCTTCGGGACGTATCCAGTG
759951 GTCCTTCGGGAC
1 GTCCTTCGGGAC
759963 AAATACTGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.23
20 3 0.05
22 48 0.73
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:766807 original size:22 final size:22
Alignment explanation
Indices: 766782--766895 Score: 147
Period size: 22 Copynumber: 5.2 Consensus size: 22
766772 ATATTAGTCA
*
766782 TTCGGGACGTATCAAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
* *
766804 TTCGGGACGTATCCAATGGTCA
1 TTCGGGACGTATCCAGTGGTCC
**
766826 TTTTGGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
*
766848 TTCGGGATGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
** *
766870 TTTAGGACGTATCCAGTGGTCT
1 TTCGGGACGTATCCAGTGGTCC
766892 TTCG
1 TTCG
766896 TGACAAATAC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (22 bp):
TTCGGGACGTATCCAGTGGTCC
Found at i:766844 original size:44 final size:44
Alignment explanation
Indices: 766786--766895 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
766776 TAGTCATTCG
* *
766786 GGACGTATCAAGTGGTCCTTCGGGACGTATCCAATGGTCATTTT
1 GGACGTATCCAGTGGTCCTTCGGGACGTATCCAATGGTCATTTA
* * *
766830 GGACGTATCCAGTGGTCCTTCGGGATGTATCCAGTGGTCCTTTA
1 GGACGTATCCAGTGGTCCTTCGGGACGTATCCAATGGTCATTTA
*
766874 GGACGTATCCAGTGGTCTTTCG
1 GGACGTATCCAGTGGTCCTTCG
766896 TGACAAATAC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (44 bp):
GGACGTATCCAGTGGTCCTTCGGGACGTATCCAATGGTCATTTA
Found at i:770744 original size:19 final size:19
Alignment explanation
Indices: 770720--770762 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
770710 GTACTTTTGG
*
770720 TGGAAATGTGCAGCCAATT
1 TGGAAATGTGCAACCAATT
770739 TGGAAATGTGCAACCAATT
1 TGGAAATGTGCAACCAATT
770758 TGGAA
1 TGGAA
770763 TTTCAACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (19 bp):
TGGAAATGTGCAACCAATT
Found at i:773238 original size:16 final size:17
Alignment explanation
Indices: 773217--773257 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
773207 GCAAAAAGAA
*
773217 AAGAAAAGACA-AAACG
1 AAGAAAAGACAGAAAAG
*
773233 AAGAAAA-TCAGAAAAG
1 AAGAAAAGACAGAAAAG
773249 AAGAAAAGA
1 AAGAAAAGA
773258 AAAGTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.71, C:0.07, G:0.20, T:0.02
Consensus pattern (17 bp):
AAGAAAAGACAGAAAAG
Found at i:777935 original size:24 final size:24
Alignment explanation
Indices: 777908--778014 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
777898 AAACGGAGAT
* *
777908 ATCAAAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
777932 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * *
777956 GTTAGGAATCAGAACATATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
777980 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
778004 ATCAGAAATCA
1 ATCAGAAATCA
778015 GATAAAATAT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:778014 original size:48 final size:48
Alignment explanation
Indices: 777908--778016 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
777898 AAACGGAGAT
* * * *
777908 ATCAAAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
777956 GTTAGGAATCAGAACATATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
778004 ATCAGAAATCAGA
1 ATCAGAAATCAGA
778017 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:779184 original size:17 final size:18
Alignment explanation
Indices: 779151--779184 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
779141 TCCATTCTGT
*
779151 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
779169 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
779185 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:780487 original size:18 final size:18
Alignment explanation
Indices: 780466--780512 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
780456 CGTCGGTCAA
*
780466 CGGGTCGGGTCAA-TGGTT
1 CGGGTCGGGTCAACAGG-T
780484 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
780502 CGGGTCGGGTC
1 CGGGTCGGGTC
780513 GGGTTGTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.11, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:799694 original size:77 final size:79
Alignment explanation
Indices: 799518--799700 Score: 196
Period size: 82 Copynumber: 2.3 Consensus size: 79
799508 TCGATAATAA
* * * *
799518 TTAGTTAACTATGACATTCTTGGGTGCAACCTATTTCATTAAAAAAATATTAACATCACATTACC
1 TTAGTGAACCATGACATTCTTGGGCGCAACCGATTTCATTAAAAAAATATTAACATCACATT--C
799583 GATCACAACCTCTTTTC
64 -ATCACAACCTCTTTTC
* * * *
799600 TTAGTGCACCATAACATTCTTGGGCGCAATCGACTTT-ATTAATAAAAATATTAACATTACA-T-
1 TTAGTGAACCATGACATTCTTGGGCGCAACCGA-TTTCATTAA-AAAAATATTAACATCACATTC
799662 ATCACAA-CT-TATTTC
64 ATCACAACCTCT-TTTC
*
799677 TTAGTGAACCATGACATTATTGGG
1 TTAGTGAACCATGACATTCTTGGG
799701 TATAACCGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
76 1 0.01
77 27 0.31
78 7 0.08
82 32 0.37
83 20 0.23
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (79 bp):
TTAGTGAACCATGACATTCTTGGGCGCAACCGATTTCATTAAAAAAATATTAACATCACATTCAT
CACAACCTCTTTTC
Found at i:800966 original size:7 final size:7
Alignment explanation
Indices: 800954--801005 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
800944 AATGAAAGTA
800954 AATAAAT
1 AATAAAT
800961 AATAAAT
1 AATAAAT
800968 AATAAAT
1 AATAAAT
* *
800975 ATTGAAT
1 AATAAAT
*
800982 AAAAAAT
1 AATAAAT
800989 AATGAAA-
1 AAT-AAAT
800996 AGATAAAT
1 A-ATAAAT
801004 AA
1 AA
801006 AGCAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:802803 original size:27 final size:27
Alignment explanation
Indices: 802747--802809 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
802737 GAAATACAAC
*
802747 AAATACCCT-GAGCTTTAAAATGATCG
1 AAATACCCTCGAGCTTTAAAATGACCG
*
802773 AAATACCCTCGAG-TTCTAAAATGACCT
1 AAATACCCTCGAGCTT-TAAAATGACCG
802800 AAATACCCTC
1 AAATACCCTC
802810 ATAACTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (27 bp):
AAATACCCTCGAGCTTTAAAATGACCG
Found at i:808886 original size:25 final size:25
Alignment explanation
Indices: 808858--808912 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
808848 GTAATCGATC
808858 GTTTGATCGGATGTAGTAATTGGTT
1 GTTTGATCGGATGTAGTAATTGGTT
808883 GTTTGATCGGATGTAGTAATTGGTT
1 GTTTGATCGGATGTAGTAATTGGTT
808908 GTTTG
1 GTTTG
808913 CCGCAGTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (25 bp):
GTTTGATCGGATGTAGTAATTGGTT
Found at i:820389 original size:39 final size:37
Alignment explanation
Indices: 820346--820431 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 37
820336 ATTAATAAAA
*
820346 AATAAAAATAAAATAATAAGTTAACTAAT-ATATTATTTT
1 AATAAAAACAAAAT-ATAA-TTAACTAATAATATTA-TTT
* *
820385 AATAAATAACAAAATATTATTAATTAATAATATTATTT
1 AATAAA-AACAAAATATAATTAACTAATAATATTATTT
820423 AATACAAAA
1 AATA-AAAA
820432 AAACCCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
38 17 0.41
39 17 0.41
40 7 0.17
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (37 bp):
AATAAAAACAAAATATAATTAACTAATAATATTATTT
Found at i:821128 original size:39 final size:39
Alignment explanation
Indices: 821085--821164 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
821075 ACACTCATTT
821085 TCGCCTGAAGTTATTTTGTTTATATATATATATATATCA
1 TCGCCTGAAGTTATTTTGTTTATATATATATATATATCA
821124 TCGCCTGAAGTTATTTTGTTTATATATATATATATATCA
1 TCGCCTGAAGTTATTTTGTTTATATATATATATATATCA
821163 TC
1 TC
821165 TTATTATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (39 bp):
TCGCCTGAAGTTATTTTGTTTATATATATATATATATCA
Found at i:821151 original size:2 final size:2
Alignment explanation
Indices: 821144--821198 Score: 78
Period size: 2 Copynumber: 28.0 Consensus size: 2
821134 TTATTTTGTT
*
821144 TA TA TA TA TA TA TA TA TCA TC T- TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
821185 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
821199 GTAATATAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
1 2 0.04
2 45 0.92
3 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:821295 original size:36 final size:35
Alignment explanation
Indices: 821212--821315 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 35
821202 ATATAGTTTG
* * *
821212 TGAAAATGTTTTTGACAAA-ATAATATATA-ATTTTC
1 TGAAAATGATTTTGA-AAATAT-ATATATAGTTTTTT
*
821247 AGAAAATGATTTTGAAAATTTATATATATAGTTTTTT
1 TGAAAATGATTTTGAAAA--TATATATATAGTTTTTT
* *
821284 TGAAAAT-ATTTTTAAAATATATATGTAGTTTT
1 TGAAAATGATTTTGAAAATATATATATAGTTTT
821316 GAAAACATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
34 17 0.29
35 13 0.22
36 16 0.28
37 12 0.21
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (35 bp):
TGAAAATGATTTTGAAAATATATATATAGTTTTTT
Found at i:821376 original size:61 final size:63
Alignment explanation
Indices: 821300--821439 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 63
821290 TATTTTTAAA
* *
821300 ATATATATGTAGTTTTGAAAACA-TTT-ATATACTATATAGTTTT-AAAC-A-CTTTGAAAACTT
1 ATATATATATAGTTTTGAAAACATTTTAATATA--ATATAGTTTTAAAACTATCTTTGAAAAATT
* * *
821360 ATATAGTATATAGTTTTTAAAACGTTTTAATATAATATAGTTTTAAAAACTATTTTTGAAAAATT
1 ATATA-TATATAGTTTTGAAAACATTTTAATATAATATAGTTTT-AAAACTATCTTTGAAAAATT
821425 ATATATATATAGTTT
1 ATATATATATAGTTT
821440 AAAAAAATAG
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
60 5 0.07
61 25 0.37
62 3 0.04
63 9 0.13
64 11 0.16
65 15 0.22
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (63 bp):
ATATATATATAGTTTTGAAAACATTTTAATATAATATAGTTTTAAAACTATCTTTGAAAAATT
Found at i:821435 original size:37 final size:38
Alignment explanation
Indices: 821389--821555 Score: 204
Period size: 37 Copynumber: 4.5 Consensus size: 38
821379 AAACGTTTTA
821389 ATATA-ATATAGTTTTAAAAACTA-TTTTTGAAAAATT
1 ATATATATATAGTTTTAAAAACTAGTTTTTGAAAAATT
* * *
821425 ATATATATATAGTTTAAAAAAATAGTTTTTGAAAAAAT
1 ATATATATATAGTTTTAAAAACTAGTTTTTGAAAAATT
*
821463 ATATAGTATATAGTTTTAAAAAC-A-TTTTTGAAAAGTT
1 ATATA-TATATAGTTTTAAAAACTAGTTTTTGAAAAATT
* *
821500 ATATAATATATAGTTTTAAAAA-TAGTTTGTGAAAACTT
1 ATAT-ATATATAGTTTTAAAAACTAGTTTTTGAAAAATT
*
821538 ATATA-ATAT-TTTTTAAAA
1 ATATATATATAGTTTTAAAA
821556 CATTTGAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
35 8 0.07
36 9 0.08
37 49 0.43
38 34 0.30
39 15 0.13
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (38 bp):
ATATATATATAGTTTTAAAAACTAGTTTTTGAAAAATT
Found at i:821478 original size:76 final size:75
Alignment explanation
Indices: 821394--821534 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 75
821384 TTTTAATATA
*
821394 ATATAGTTTTAAAAACTATTTTTGAAAAATTATAT-ATATATAGTTTAAAAAAATAGTTTTTGAA
1 ATATAGTTTTAAAAAC-ATTTTTGAAAAATTATATAATATATAGTTT-AAAAAATAGTTTGTGAA
821458 AAAATATATAGT
64 AAAATATATAGT
* *
821470 ATATAGTTTTAAAAACATTTTTGAAAAGTTATATAATATATAGTTTTAAAAATAGTTTGTGAAAA
1 ATATAGTTTTAAAAACATTTTTGAAAAATTATATAATATATAGTTTAAAAAATAGTTTGTGAAAA
821535 CTTATATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
75 34 0.56
76 27 0.44
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (75 bp):
ATATAGTTTTAAAAACATTTTTGAAAAATTATATAATATATAGTTTAAAAAATAGTTTGTGAAAA
AATATATAGT
Found at i:821705 original size:19 final size:18
Alignment explanation
Indices: 821673--821712 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
821663 TTATTATATT
*
821673 TTTATTTTATTCATTTTA
1 TTTATTTTATTCATTTCA
821691 TTTATTTTAATTCATTTCA
1 TTTATTTT-ATTCATTTCA
821710 TTT
1 TTT
821713 TCTTTTCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTTATTCATTTCA
Found at i:825088 original size:13 final size:13
Alignment explanation
Indices: 825070--825094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
825060 ATTTTAATCG
825070 ATTAATAATTAAT
1 ATTAATAATTAAT
825083 ATTAATAATTAA
1 ATTAATAATTAA
825095 ACATAAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAATAATTAAT
Found at i:838489 original size:117 final size:120
Alignment explanation
Indices: 838283--838520 Score: 446
Period size: 117 Copynumber: 2.0 Consensus size: 120
838273 TCTTCTCAAT
838283 AGACAAGCCCTCAGAGTTATCCGACTGACGTTATCCCGCAAGGTTGCTTTCAACATAGCAAAGGA
1 AGACAAGCCCTCAGAGTTATCCGACTGACGTTATCCCGCAAGGTTGCTTTCAACATAGCAAAGGA
838348 AAAGACCACGATGAGTCTTATGGCGGCTCTCT-CAGTATG-AT-GAAGCCATCGG
66 AAAGACCACGATGAGTCTTATGGCGGCTCTCTCCAGTATGTATAGAAGCCATCGG
838400 AGACAAGCCCTCAGAGTTATCCGACTGACGTTATCCCGCAAGGTTGCTTTCAACATAGCAAAGGA
1 AGACAAGCCCTCAGAGTTATCCGACTGACGTTATCCCGCAAGGTTGCTTTCAACATAGCAAAGGA
838465 AAAGACCACGATGAGTCTTATGGCGGCTCTCTCCAGTATGTATGAGAAGCCATCGG
66 AAAGACCACGATGAGTCTTATGGCGGCTCTCTCCAGTATGTAT-AGAAGCCATCGG
838521 CCTCAAACAA
Statistics
Matches: 117, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
117 97 0.83
118 7 0.06
119 2 0.02
121 11 0.09
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (120 bp):
AGACAAGCCCTCAGAGTTATCCGACTGACGTTATCCCGCAAGGTTGCTTTCAACATAGCAAAGGA
AAAGACCACGATGAGTCTTATGGCGGCTCTCTCCAGTATGTATAGAAGCCATCGG
Found at i:843140 original size:27 final size:27
Alignment explanation
Indices: 843109--843160 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
843099 ACAAAGATTA
843109 AATGTTATTCAAATTAGTCCTTACTAC
1 AATGTTATTCAAATTAGTCCTTACTAC
843136 AATGTTATTCAAATTAGTCCTTACT
1 AATGTTATTCAAATTAGTCCTTACT
843161 CCCCAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (27 bp):
AATGTTATTCAAATTAGTCCTTACTAC
Found at i:846369 original size:426 final size:420
Alignment explanation
Indices: 845576--846420 Score: 1602
Period size: 427 Copynumber: 2.0 Consensus size: 420
845566 AGGATGTTGC
845576 CACAAAAGTATACGTTGGAGGGATTCCATATCGCTATTCCGAGGATGATATCGATATTATTTTGA
1 CACAAAAGTATACGTTGGAGGGATTCCATATCGCTATTCCGAGGATGATATCGATATTATTTTGA
845641 AAGTTGTGGCACCATAACTGATATTGATTGTATGAAGTTTCCCGACACTGGGAAGTTCAGAGGAA
66 AAGTTGTGGCACCATAACTGATATTGATTGTATGAAGTTTCCCGACACTGGGAAGTTCAGAGGAA
845706 TTGCAATTGTTAGTTTCGAGGTAATTATCCATGATGCTTGCTTGTACACACTTATAAATGCTTTA
131 TTGCAATTGTTAGTTTCGAGGTAATTATCCATGATGCTTGCTTGTACACACTTATAAATGCTTTA
845771 CTAATTCGAGGTGGATCAGTTTATTCATATTAGTATCATCCGGTGTGTTAATCGTTATTGCTATG
196 CTAATTCGAGGTGGATCAGTTTATTCATATTAGTATCATCCGGTGTGTTAATCGTTATTGCTATG
845836 ATAAGCTAGTTATTACTAAAGTTGGAAGGAGCAGAAGCTGAAGTATTCTAACACTATTCTTTGCA
261 ATAAGCTAGTTATTACTAAAGTTGGAAGGAGCAGAAGCTGAAGTATTCTAACACTATTCTTTGCA
*
845901 TCGGAGTTGGCTCTATTTGTTCTTTGAAAATGGATATTTCATGCATATATATATATATATATATA
326 TCGGAGTTGGCTCTATTTGTTCTTTGAAAATGGATATTTCATGC------ACATATATATATATA
845966 TGCTTGAAACAAGTAAAGTCTTCTTGTAGTTTATCT
385 TGCTTGAAACAAGTAAAGTCTTCTTGTAGTTTATCT
846002 CACAAAAGTATACGTTGGAGGGATTCCATATCGCTATTCCGAGGATGATATTCGATATTATTTTG
1 CACAAAAGTATACGTTGGAGGGATTCCATATCGCTATTCCGAGGATGATA-TCGATATTATTTTG
846067 AAAGTTGTGGCACCATAACTGATATTGATTGTATGAAGTTTCCCGACACTGGGAAGTTCAGAGGA
65 AAAGTTGTGGCACCATAACTGATATTGATTGTATGAAGTTTCCCGACACTGGGAAGTTCAGAGGA
846132 ATTGCAATTGTTAGTTTCGAGGTAATTATCCATGATGCTTGCTTGTACACACTTATAAATGCTTT
130 ATTGCAATTGTTAGTTTCGAGGTAATTATCCATGATGCTTGCTTGTACACACTTATAAATGCTTT
846197 ACTAATTCGAGGTGGATCAGTTTATTCATATTAGTATCATCCGGTGT-TTAATCGTTATTGCTAT
195 ACTAATTCGAGGTGGATCAGTTTATTCATATTAGTATCATCCGGTGTGTTAATCGTTATTGCTAT
846261 GATAAGCTAGTTATTACTAAAGTTGGAAGGAGCAGAAGCTGAAGTATTCTAACACTATTCTTTGC
260 GATAAGCTAGTTATTACTAAAGTTGGAAGGAGCAGAAGCTGAAGTATTCTAACACTATTCTTTGC
846326 ATCGGAGTTGGCTCTATTTGTTCTTTGAAAATGGATATTTCATGCACATATATATATATATGCTT
325 ATCGGAGTTGGCTCTATTTGTTCTTTGAAAATGGATATTTCATGCACATATATATATATATGCTT
*
846391 GAAATAAGTAAAGTCTTCTTGTAGTTTATC
390 GAAACAAGTAAAGTCTTCTTGTAGTTTATC
846421 GCTATTGTTA
Statistics
Matches: 416, Mismatches: 2, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
420 48 0.12
426 177 0.43
427 191 0.46
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (420 bp):
CACAAAAGTATACGTTGGAGGGATTCCATATCGCTATTCCGAGGATGATATCGATATTATTTTGA
AAGTTGTGGCACCATAACTGATATTGATTGTATGAAGTTTCCCGACACTGGGAAGTTCAGAGGAA
TTGCAATTGTTAGTTTCGAGGTAATTATCCATGATGCTTGCTTGTACACACTTATAAATGCTTTA
CTAATTCGAGGTGGATCAGTTTATTCATATTAGTATCATCCGGTGTGTTAATCGTTATTGCTATG
ATAAGCTAGTTATTACTAAAGTTGGAAGGAGCAGAAGCTGAAGTATTCTAACACTATTCTTTGCA
TCGGAGTTGGCTCTATTTGTTCTTTGAAAATGGATATTTCATGCACATATATATATATATGCTTG
AAACAAGTAAAGTCTTCTTGTAGTTTATCT
Found at i:847460 original size:18 final size:18
Alignment explanation
Indices: 847438--847501 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
847428 CTGCAGGTGT
847438 CGAAGCACCTACTGGTAA
1 CGAAGCACCTACTGGTAA
* * ***
847456 GGAAGTACCT-CTGAGCGT
1 CGAAGCACCTACTG-GTAA
847474 CGAAGCACCTACTGGTAA
1 CGAAGCACCTACTGGTAA
*
847492 TGAAGCACCT
1 CGAAGCACCT
847502 CTGAGAGTCG
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
17 3 0.09
18 27 0.82
19 3 0.09
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (18 bp):
CGAAGCACCTACTGGTAA
Found at i:847514 original size:18 final size:18
Alignment explanation
Indices: 847457--847517 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
847447 TACTGGTAAG
* *
847457 GAAGTACCTCTGAGCGTC
1 GAAGCACCTCTGAGAGTC
*
847475 GAAGCACCTACTG-GTAAT-
1 GAAGCACCT-CTGAG-AGTC
847493 GAAGCACCTCTGAGAGTC
1 GAAGCACCTCTGAGAGTC
847511 GAAGCAC
1 GAAGCAC
847518 TTACAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 26 0.74
19 4 0.11
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (18 bp):
GAAGCACCTCTGAGAGTC
Found at i:847529 original size:36 final size:36
Alignment explanation
Indices: 847436--847532 Score: 140
Period size: 36 Copynumber: 2.7 Consensus size: 36
847426 ACCTGCAGGT
* * *
847436 GTCGAAGCACCTACTGGTAAGGAAGTACCTCTGAGC
1 GTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGA
847472 GTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGA
1 GTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGA
* * *
847508 GTCGAAGCACTTACAGTTAATGAAG
1 GTCGAAGCACCTACTGGTAATGAAG
847533 TTGATAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (36 bp):
GTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGA
Found at i:847677 original size:207 final size:207
Alignment explanation
Indices: 847315--847692 Score: 488
Period size: 207 Copynumber: 1.8 Consensus size: 207
847305 AAGCCCCTCA
* * *
847315 AGTTAGTGAAGTTGATAACGGAGGTTTGAGCGTTAGCAGTGGTAAGCTGAGGAGAAGGACGTGTT
1 AGTTAATGAAGTTGATAACGGAGGCTTGAGCGTTAGCAGTGGTAAGCTGAGGAGAAGGACGTGCT
* * * * **
847380 ATCAGTGCGGAGAGAAGGGTCATATTTCTTCTGCTTGCACTAAAGGACCTGCAGGTGTCGAAGCA
66 ATCAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCACAAAAGGACCTGCAGGTACCGAAGCA
** ** *
847445 CCTACTGGTAAGGAAGTACCTCTGAGCGTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGAGT
131 CCTACCAGTAAGGAAACAACTCTGAGCGTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGAGT
847510 CGAAGCACTTAC
196 CGAAGCACTTAC
* ** * * *
847522 AGTTAATGAAGTTGATAATGTTGGCTTGAGTGTTAGCAGTGGTAAGTTGAGGAGACGGACGTGCT
1 AGTTAATGAAGTTGATAACGGAGGCTTGAGCGTTAGCAGTGGTAAGCTGAGGAGAAGGACGTGCT
* * * **
847587 A-CGTGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGACCTGTGGGTACCGAAGC
66 ATC-AGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCACAAAAGGACCTGCAGGTACCGAAGC
* * *
847651 GCCTACCAGTAATGAAACAACTCTGAGTGTCGAAGCACCTAC
130 ACCTACCAGTAAGGAAACAACTCTGAGCGTCGAAGCACCTAC
847693 GACTAATGAA
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
206 1 0.01
207 141 0.99
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (207 bp):
AGTTAATGAAGTTGATAACGGAGGCTTGAGCGTTAGCAGTGGTAAGCTGAGGAGAAGGACGTGCT
ATCAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCACAAAAGGACCTGCAGGTACCGAAGCA
CCTACCAGTAAGGAAACAACTCTGAGCGTCGAAGCACCTACTGGTAATGAAGCACCTCTGAGAGT
CGAAGCACTTAC
Found at i:861125 original size:24 final size:26
Alignment explanation
Indices: 861075--861130 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
861065 GAAGGCGCGG
*
861075 ATGGCGATCCACGTGTCGTGTCGTGAC
1 ATGGCGATCCACG-GTCCTGTCGTGAC
861102 ATGGCGATCCAC-G-CCTGTCGTGAC
1 ATGGCGATCCACGGTCCTGTCGTGAC
861126 ATGGC
1 ATGGC
861131 ACCAGCTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 15 0.54
25 1 0.04
27 12 0.43
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.23
Consensus pattern (26 bp):
ATGGCGATCCACGGTCCTGTCGTGAC
Found at i:861705 original size:25 final size:25
Alignment explanation
Indices: 861666--861726 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
861656 AAAACATATA
* *
861666 TATAGGCTCTACCTCGTTCCTTTTC
1 TATAGGCTTTTCCTCGTTCCTTTTC
861691 TATAGGCTTTTCCTCGTTCCTTTTC
1 TATAGGCTTTTCCTCGTTCCTTTTC
861716 TATAGGCTTTT
1 TATAGGCTTTT
861727 AATCAAAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.11, C:0.26, G:0.13, T:0.49
Consensus pattern (25 bp):
TATAGGCTTTTCCTCGTTCCTTTTC
Found at i:866407 original size:2 final size:2
Alignment explanation
Indices: 866400--866439 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
866390 TTGAAAATTA
*
866400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
866440 TTATGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:867235 original size:50 final size:50
Alignment explanation
Indices: 867107--867282 Score: 131
Period size: 50 Copynumber: 3.4 Consensus size: 50
867097 TTTATGTTAA
* *
867107 TTTACATTGGTATAAATTATTATTTTTTAAATTAGTGAACTATCAATACTTG
1 TTTACATTGATATAAATTA--ATTCTTTAAATTAGTGAACTATCAATACTTG
* * * ** * * *
867159 TGTATATT-AGTGTAAATTAAAACTTTAAGTTATTGAATTATCAATACTTG
1 TTTACATTGA-TATAAATTAATTCTTTAAATTAGTGAACTATCAATACTTG
* * * * *
867209 TTTACATTGATATAAGTTAATTCTTT-AATTCACTCAACAATCAATACTTA
1 TTTACATTGATATAAATTAATTCTTTAAATT-AGTGAACTATCAATACTTG
* *
867259 TTTGCATTAATATAAGAGTTAATT
1 TTTACATTGATATAA-A-TTAATT
867283 GCATCATACG
Statistics
Matches: 94, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
49 3 0.03
50 70 0.74
51 1 0.01
52 20 0.21
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (50 bp):
TTTACATTGATATAAATTAATTCTTTAAATTAGTGAACTATCAATACTTG
Found at i:867425 original size:59 final size:60
Alignment explanation
Indices: 867302--867470 Score: 182
Period size: 59 Copynumber: 2.8 Consensus size: 60
867292 GTCCCTAATT
* * * * * * *
867302 TATGACCCTAATTTTAAATTAGTCTTTAAACTTTTCAACATTCCAATTTCATCCCTAAAC
1 TATGACCTTCATTCTAAATTAGTCCTCAAACTTTTCAACATTTCAATTTCATCCCCAAAC
* *
867362 TATGA-CTATTATTCTAAATTAGTCCTCAAACTTTT-AACATTTCATTTTCATCCCCAAAC
1 TATGACCT-TCATTCTAAATTAGTCCTCAAACTTTTCAACATTTCAATTTCATCCCCAAAC
* * *
867421 TATGACCTTCATTCTAGATTGGTCC-CTAAACTTTTTGAACATTTCAATTT
1 TATGACCTTCATTCTAAATTAGTCCTC-AAAC-TTTTCAACATTTCAATTT
867471 AATACTAAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 45 0.49
60 34 0.37
61 12 0.13
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (60 bp):
TATGACCTTCATTCTAAATTAGTCCTCAAACTTTTCAACATTTCAATTTCATCCCCAAAC
Found at i:867707 original size:61 final size:61
Alignment explanation
Indices: 867629--867765 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 61
867619 TATGCACAAG
* * ** * *
867629 TTTAGGGACTAAATTAGAATGGTATTCATAG-TTTGGGGATGAAATT-AGAATGTTCAAAAAA
1 TTTAAGGACTAATTTAGAATGAAATTCATAGTTTTGGAGATGAAATTGA-AATATT-AAAAAA
* * *
867690 TTTAAGGACTAATTTAGAATGAAATTCATAGTTTTTGAGATGAAATTGAAATATTTAAAAG
1 TTTAAGGACTAATTTAGAATGAAATTCATAGTTTTGGAGATGAAATTGAAATATTAAAAAA
867751 TTTAAGGACTAATTT
1 TTTAAGGACTAATTT
867766 GAAATGAGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 46 0.71
62 18 0.28
63 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (61 bp):
TTTAAGGACTAATTTAGAATGAAATTCATAGTTTTGGAGATGAAATTGAAATATTAAAAAA
Found at i:867919 original size:88 final size:87
Alignment explanation
Indices: 867814--868116 Score: 333
Period size: 88 Copynumber: 3.4 Consensus size: 87
867804 AACTCTTAAT
* * * * *
867814 ATAATGCAGTGATCAGAAACACTAGTAAATTTTATTCTTTGATTAGTCTTTGACTGAGAAGAATA
1 ATAATGCAGTGACCAGAAACACTAGTAAATATCATTCTTTGATTAGACTGTGACTGAGAAG-ATA
867879 TAATGCAATAGGCTTAATAACAG
65 TAATGCAATAGGCTTAATAACAG
* ** * * *
867902 ATAATACAGTGACCAGAAATGCTAGTAAATATCGTTCTTTTATTAGCCTGTGACTGAGAATGATA
1 ATAATGCAGTGACCAGAAACACTAGTAAATATCATTCTTTGATTAGACTGTGACTGAGAA-GATA
*
867967 TAATACAATAGG-TTCAATAACAG
65 TAATGCAATAGGCTT-AATAACAG
* * *
867990 ATAATGGAGTGACCAGAAACA-TCAGTAAATCTCATTCTTTGATTAGACTGCGACTGAGAAGTAT
1 ATAATGCAGTGACCAGAAACACT-AGTAAATATCATTCTTTGATTAGACTGTGACTGAGAAG-AT
* *
868054 ATAATGCAATAGGCTCAATAACAT
64 ATAATGCAATAGGCTTAATAACAG
* * * * *
868078 ATAATGTAGTGACTATAAACA-TCATTAAATTTCATTCTT
1 ATAATGCAGTGACCAGAAACACT-AGTAAATATCATTCTT
868117 ATAACATGTT
Statistics
Matches: 182, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
87 4 0.02
88 176 0.97
89 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (87 bp):
ATAATGCAGTGACCAGAAACACTAGTAAATATCATTCTTTGATTAGACTGTGACTGAGAAGATAT
AATGCAATAGGCTTAATAACAG
Found at i:870297 original size:16 final size:17
Alignment explanation
Indices: 870268--870304 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
870258 CCAATTGTTT
870268 TTATTTTATATTTTAAA
1 TTATTTTATATTTTAAA
*
870285 TTATTTT-TATTTTTAA
1 TTATTTTATATTTTAAA
870301 TTAT
1 TTAT
870305 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTTATATTTTAAA
Found at i:874206 original size:12 final size:12
Alignment explanation
Indices: 874189--874213 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
874179 GGAATTTCTC
874189 AAATTAAATTTT
1 AAATTAAATTTT
874201 AAATTAAATTTT
1 AAATTAAATTTT
874213 A
1 A
874214 TTAGAAAGTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:877296 original size:31 final size:31
Alignment explanation
Indices: 877261--877332 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
877251 TTCAGGGATT
*
877261 AAATTGATATTTTATCTAAAATTCATGAGTC
1 AAATTAATATTTTATCTAAAATTCATGAGTC
* * * *
877292 AAATTTATATTTTATCTAAAGTTTATGAGTT
1 AAATTAATATTTTATCTAAAATTCATGAGTC
877323 AAATTAATAT
1 AAATTAATAT
877333 CAATTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (31 bp):
AAATTAATATTTTATCTAAAATTCATGAGTC
Found at i:882130 original size:28 final size:28
Alignment explanation
Indices: 882090--882149 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
882080 GACTTCTTTG
882090 ATGTCCATAAAGTATAAGTGTCAACAAA
1 ATGTCCATAAAGTATAAGTGTCAACAAA
882118 ATGTCCATAAAGTATAAGTGTCAACAAA
1 ATGTCCATAAAGTATAAGTGTCAACAAA
882146 ATGT
1 ATGT
882150 GAGAGGGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (28 bp):
ATGTCCATAAAGTATAAGTGTCAACAAA
Found at i:882891 original size:27 final size:27
Alignment explanation
Indices: 882853--882911 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
882843 ATGAATATCT
882853 TGATGCAGTGGACTTTCAAGTTCAAAG
1 TGATGCAGTGGACTTTCAAGTTCAAAG
*
882880 TGATGCTA-TGGAGTTTCAAGTTCAAAG
1 TGATGC-AGTGGACTTTCAAGTTCAAAG
882907 TGATG
1 TGATG
882912 ATGGTGGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TGATGCAGTGGACTTTCAAGTTCAAAG
Found at i:887818 original size:16 final size:16
Alignment explanation
Indices: 887799--887832 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
887789 CAATATACGA
887799 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
887815 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
887831 AT
1 AT
887833 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:887907 original size:17 final size:19
Alignment explanation
Indices: 887874--887908 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
887864 TATTAATGTA
887874 TGAATCATTTATATTTTTT
1 TGAATCATTTATATTTTTT
887893 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
887909 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (19 bp):
TGAATCATTTATATTTTTT
Found at i:888047 original size:28 final size:27
Alignment explanation
Indices: 887984--888047 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
887974 TATAAATATG
* *
887984 AAAAATATAATTATTAAATTTAGTTTA
1 AAAAATATAAATATTAAATTTACTTTA
* * *
888011 AAAATATATAAATCTTAAATTATTCTTTT
1 AAAA-ATATAAATATTAAATT-TACTTTA
888040 AAAAATAT
1 AAAAATAT
888048 TGTATCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AAAAATATAAATATTAAATTTACTTTA
Found at i:888589 original size:130 final size:129
Alignment explanation
Indices: 888370--888613 Score: 425
Period size: 130 Copynumber: 1.9 Consensus size: 129
888360 CTTAATTTTC
*
888370 TAATTAGGTGGTGACAGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGATC
1 TAATTAGGTGGTGACAGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATC
*
888435 CTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
888499 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTTAGAT
1 TAATTAGGTGGTGACA-GTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
888564 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATT
65 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATT
888614 TATTATATAA
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 16 0.15
130 92 0.85
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (129 bp):
TAATTAGGTGGTGACAGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATC
CTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:889058 original size:35 final size:35
Alignment explanation
Indices: 889008--889083 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
888998 AATTGAATTT
* *
889008 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
889043 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
889078 AATTGA
1 AATTGA
889084 GAACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:891630 original size:31 final size:31
Alignment explanation
Indices: 891593--891695 Score: 161
Period size: 31 Copynumber: 3.3 Consensus size: 31
891583 TAATTATTTG
*
891593 CATTTCGTTTTAATTAAGATGTGATCACTTT
1 CATTTCGTTTTAATTAAGATGTGATCTCTTT
*
891624 CATTTCGTTTTAATTAAGATGTGATCTTTTT
1 CATTTCGTTTTAATTAAGATGTGATCTCTTT
* *
891655 CGTTTCGTTTTAATTAAGATGTGTTCTCTTT
1 CATTTCGTTTTAATTAAGATGTGATCTCTTT
*
891686 CGTTTCGTTT
1 CATTTCGTTT
891696 CGTTTTAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (31 bp):
CATTTCGTTTTAATTAAGATGTGATCTCTTT
Found at i:891692 original size:36 final size:33
Alignment explanation
Indices: 891595--891716 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 33
891585 ATTATTTGCA
* * *
891595 TTTCGTTTTAATTAAGATGTGATCAC--TTTCA
1 TTTCGTTTTAATTAAGATGTGTTCTCTTTTTCG
*
891626 TTTCGTTTTAATTAAGATGTG--ATCTTTTTCG
1 TTTCGTTTTAATTAAGATGTGTTCTCTTTTTCG
891657 TTTCGTTTTAATTAAGATGTGTTCTCTTTCGTTTCG
1 TTTCGTTTTAATTAAGATGTGTTCTC-TT--TTTCG
*
891693 TTTCGTTTTAATTAAAATGTGTTC
1 TTTCGTTTTAATTAAGATGTGTTC
891717 ATTAAAACAT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.01
31 46 0.58
33 2 0.03
34 2 0.03
36 28 0.35
ACGTcount: A:0.20, C:0.11, G:0.15, T:0.53
Consensus pattern (33 bp):
TTTCGTTTTAATTAAGATGTGTTCTCTTTTTCG
Found at i:892814 original size:34 final size:34
Alignment explanation
Indices: 892776--892856 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
892766 CATAGGTCTC
892776 GTTCGTTCATTTACGTTC-GTGAACGTTCGGTTAT
1 GTTCGTTCATTTACGTTCGGT-AACGTTCGGTTAT
*** * * *
892810 GTTCGTTTGGTTACGTTCGGTTATGTTCGTTTAT
1 GTTCGTTCATTTACGTTCGGTAACGTTCGGTTAT
*
892844 GTTCATTCATTTA
1 GTTCGTTCATTTA
892857 TGCTTAACCC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.14, C:0.15, G:0.22, T:0.49
Consensus pattern (34 bp):
GTTCGTTCATTTACGTTCGGTAACGTTCGGTTAT
Found at i:892816 original size:24 final size:24
Alignment explanation
Indices: 892789--892840 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
892779 CGTTCATTTA
892789 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* *
892813 CGTTTGGTTACGTTCGGTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
892837 CGTT
1 CGTT
892841 TATGTTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.10, C:0.15, G:0.29, T:0.46
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:893958 original size:16 final size:16
Alignment explanation
Indices: 893937--893997 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
893927 GGGTCTCCAA
893937 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
893953 CGTTTATATTCGTGTT
1 CGTTTATGTTCGTGTT
* *
893969 CATTTCTGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
893985 TGTTTATGTTCGT
1 CGTTTATGTTCGT
893998 TTATTTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.57
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:894087 original size:16 final size:16
Alignment explanation
Indices: 894066--894096 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
894056 AAAAAAAAAT
894066 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
894082 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
894097 ATTTATTTAT
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:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:895367 original size:26 final size:26
Alignment explanation
Indices: 895310--895376 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
895300 TCGAAAATTG
* *
895310 TAAATGACCAAAATACCCTTAGACCC
1 TAAATGACTAAAATACCCTAAGACCC
895336 TAAATGACTAAAATACCCTCAAAGA-CC
1 TAAATGACTAAAATACCCT--AAGACCC
895363 T-AATGACTAAAATA
1 TAAATGACTAAAATA
895377 ACATAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 31 0.84
27 3 0.08
28 3 0.08
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (26 bp):
TAAATGACTAAAATACCCTAAGACCC
Found at i:896479 original size:60 final size:59
Alignment explanation
Indices: 896408--896606 Score: 188
Period size: 60 Copynumber: 3.3 Consensus size: 59
896398 TGGGCCAAAT
* * * *
896408 GGTAAGACCTTATGGACCATATGGCACTCCCATAGGGTGGCTCATTTGCTTTGTGCATTG
1 GGTAAGTCCTTATGGACCATAAGGCACTCCCTTA-GATGGCTCATTTGCTTTGTGCATTG
* * * * * *
896468 GGTAAGTCCTTATGGACC-TAAGGGAAGTTCCTTTCGATGGATCATTTGCTTTATGCATTG
1 GGTAAGTCCTTATGGACCATAA-GGCA-CTCCCTTAGATGGCTCATTTGCTTTGTGCATTG
* *
896528 GATAAGTCCTTATGGA-CATGAGGACACTCCCCTTAGATGGGCTCATTTGCTTTGTGC-TTAG
1 GGTAAGTCCTTATGGACCATAAGG-CACT-CCCTTAGAT-GGCTCATTTGCTTTGTGCATT-G
**
896589 TTTAAGTCCTTATGGACC
1 GGTAAGTCCTTATGGACC
896607 TACAAGCACA
Statistics
Matches: 111, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
59 6 0.05
60 69 0.62
61 35 0.32
62 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (59 bp):
GGTAAGTCCTTATGGACCATAAGGCACTCCCTTAGATGGCTCATTTGCTTTGTGCATTG
Found at i:900166 original size:26 final size:26
Alignment explanation
Indices: 900123--900175 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
900113 AAATTCATAA
900123 AGAAGTTTCTCAAAGAGTT-CCATGTG
1 AGAAGTTTCTCAAAGAGTTACCA-GTG
*
900149 AGAAGTTTCT-AAGCGAGTTACCAGTG
1 AGAAGTTTCTCAA-AGAGTTACCAGTG
900175 A
1 A
900176 TAAGCTCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 19 0.79
27 3 0.12
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (26 bp):
AGAAGTTTCTCAAAGAGTTACCAGTG
Found at i:904426 original size:23 final size:23
Alignment explanation
Indices: 904400--904446 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
904390 CCAAAATTTG
* * *
904400 AACATATAATTGAACATTAAATA
1 AACATATAAATAAACACTAAATA
904423 AACATATAAATAAACACTAAATA
1 AACATATAAATAAACACTAAATA
904446 A
1 A
904447 TAATGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.26
Consensus pattern (23 bp):
AACATATAAATAAACACTAAATA
Found at i:904432 original size:12 final size:12
Alignment explanation
Indices: 904400--904438 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
904390 CCAAAATTTG
* *
904400 AACATATAATTG
1 AACATATAAATA
904412 AACAT-TAAATA
1 AACATATAAATA
904423 AACATATAAATA
1 AACATATAAATA
904435 AACA
1 AACA
904439 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (12 bp):
AACATATAAATA
Found at i:904892 original size:22 final size:22
Alignment explanation
Indices: 904863--904917 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
904853 TCCAGAGAGA
904863 ACCGATTCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCAAGGGGGT
*
904885 ACTGATTCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCAAGGGGGT
904907 ACCGATTCCCC
1 ACCGATTCCCC
904918 TGAATGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.16
Consensus pattern (22 bp):
ACCGATTCCCCCCCAAGGGGGT
Found at i:906175 original size:23 final size:23
Alignment explanation
Indices: 906135--906201 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
906125 CATTTTAATC
906135 AAAATATTAATTATTAATATATT-T
1 AAAATA-TAATTATTAATAT-TTAT
*
906159 AAAATATATTTATTAATATTTAT
1 AAAATATAATTATTAATATTTAT
906182 AATAATATAA-TATT-ATATTT
1 AA-AATATAATTATTAATATTT
906202 TTAATATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.21
23 19 0.49
24 12 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATATAATTATTAATATTTAT
Found at i:906187 original size:12 final size:11
Alignment explanation
Indices: 906149--906208 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
906139 TATTAATTAT
906149 TAATATATTTA
1 TAATATATTTA
*
906160 AAATATATTTA
1 TAATATATTTA
*
906171 TTA-ATATTTA
1 TAATATATTTA
*
906181 TAATA-ATATAA
1 TAATATAT-TTA
* *
906192 TATTATATTTT
1 TAATATATTTA
906203 TAATAT
1 TAATAT
906209 TATAATAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
10 11 0.30
11 24 0.65
12 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATATATTTA
Found at i:906199 original size:22 final size:22
Alignment explanation
Indices: 906152--906215 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
906142 TAATTATTAA
* *
906152 TATATTTAAAAT-ATAT-TTAT
1 TATATTTATAATAATATAATAT
906172 TAATATTTATAATAATATAATAT
1 T-ATATTTATAATAATATAATAT
* *
906195 TATATTTTTAATATTATAATA
1 TATATTTATAATAATATAATA
906216 AAATAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 22 0.59
23 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTTATAATAATATAATAT
Found at i:906214 original size:30 final size:29
Alignment explanation
Indices: 906179--906284 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 29
906169 TATTAATATT
*
906179 TATAATAATATAATATTATATTTTTAATAT
1 TATAATAATATAATATTATA-TTTTAATAA
* *
906209 TATAATAAAATAATCAATTATATTATAATAA
1 TATAATAATATAAT--ATTATATTTTAATAA
*
906240 TATAATCAAT-T-ATATTTTATTTTAATAA
1 TATAAT-AATATAATATTATATTTTAATAA
906268 TAT-ATAATA-AATTATTA
1 TATAATAATATAA-TATTA
906285 ATAGAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
26 3 0.05
27 3 0.05
28 20 0.32
30 15 0.24
31 14 0.22
32 8 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAATAATATAATATTATATTTTAATAA
Found at i:906234 original size:23 final size:23
Alignment explanation
Indices: 906205--906255 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
906195 TATATTTTTA
906205 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATCAATT
*
906228 ATATTATAATAATATAATCAATT
1 ATATTATAATAAAATAATCAATT
906251 ATATT
1 ATATT
906256 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAATCAATT
Found at i:906275 original size:53 final size:53
Alignment explanation
Indices: 906178--906282 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
906168 TTATTAATAT
*
906178 TTATAATAATATAATATTATATTTTTAATATTATAATAAAATAATCAATTATA
1 TTATAATAATATAATATTATATTTTTAATATTATAATAAAATAATAAATTATA
906231 TTATAATAATATAATCAATTATA-TTTT-AT-TT-TAATAATATATAATAAATTAT
1 TTATAATAATATAAT--ATTATATTTTTAATATTATAATAA-A-ATAATAAATTAT
906283 TAATAGAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
51 6 0.13
52 3 0.06
53 28 0.60
54 4 0.09
55 6 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (53 bp):
TTATAATAATATAATATTATATTTTTAATATTATAATAAAATAATAAATTATA
Found at i:906355 original size:19 final size:18
Alignment explanation
Indices: 906331--906399 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
906321 ATATTATTAA
906331 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
906350 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
906368 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
906390 ATT-TTAATAA
1 ATTATTAATAA
906400 ATATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:906413 original size:23 final size:23
Alignment explanation
Indices: 906366--906438 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
906356 TATATATTTA
*
906366 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
906390 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
906413 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
906436 ATA
1 ATA
906439 ATATAACACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 29 0.69
24 13 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:906564 original size:20 final size:20
Alignment explanation
Indices: 906531--906570 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
906521 TAATAAAATT
906531 ATAAAAAAAATATTTTAATA
1 ATAAAAAAAATATTTTAATA
* *
906551 ATAAATAAATTATTTTAATA
1 ATAAAAAAAATATTTTAATA
906571 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAAAATATTTTAATA
Found at i:908563 original size:22 final size:23
Alignment explanation
Indices: 908514--908567 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
908504 AATTCTTTTC
*
908514 ATCTTTTACTTACTTTAGTTACT
1 ATCTTTTACTTACTTTAGTTAAT
*
908537 TTCTTTTA-TTAC-TTAGATTAAT
1 ATCTTTTACTTACTTTAG-TTAAT
908559 ATCTTTTAC
1 ATCTTTTAC
908568 ATTCTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 15 0.58
23 7 0.27
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.57
Consensus pattern (23 bp):
ATCTTTTACTTACTTTAGTTAAT
Found at i:911729 original size:17 final size:17
Alignment explanation
Indices: 911707--911742 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
911697 TTAAGAGTGT
911707 TACCAATCATCTAATAA
1 TACCAATCATCTAATAA
911724 TACCAATCATCTAATAA
1 TACCAATCATCTAATAA
911741 TA
1 TA
911743 TATGGCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (17 bp):
TACCAATCATCTAATAA
Found at i:914973 original size:54 final size:54
Alignment explanation
Indices: 914797--915368 Score: 851
Period size: 54 Copynumber: 10.6 Consensus size: 54
914787 TGATTATTTC
* * * * *
914797 AACTCATTATAAATTCCGTGGTTTTGCACACATAGTACCGATACGGTAATTCACA
1 AACTCATTATGAATTACGTGG-GTTGCACACATAGTGCCAATACGGTAATTCACA
* * * * *
914852 AACTCATTATGAATTATGTGGGTTACATACATAGTGTC-ATAC-GTAATTCAAA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
* * *
914904 AACTAATTATTAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTAACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
* *
914958 AACTCATTATGAATTACGTGAGTTGCACACATAGTGCCAATACTGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
*
915012 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGATAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
* * *
915066 AATTCATTATGAATTACGTAGGTTGCACACATAGTGCCAATACTGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
* *
915120 AACTCATTATGAATTACGTGAGTTGCACACATAGTGACAATACGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
*** * *
915174 AACTCATTATGAATTACGTGGGTTGCACACATAGTATTAGTATGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
*
915228 AACTCATTATGAATTACGTGGGTTGCACACATAGTACCAATACGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
* * *
915282 AACTCATTATGAATTACGTAGGTTGCACACATAGTGTCAATACAGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
915336 AACTCATTATGAATTACGTGGGTTGCACACATA
1 AACTCATTATGAATTACGTGGGTTGCACACATA
915369 TACATTAAAC
Statistics
Matches: 466, Mismatches: 49, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
52 41 0.09
53 8 0.02
54 399 0.86
55 18 0.04
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATACGGTAATTCACA
Found at i:928115 original size:2 final size:2
Alignment explanation
Indices: 928108--928150 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
928098 GATAAAAAGT
928108 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
928150 T
1 T
928151 TATGAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:930802 original size:38 final size:40
Alignment explanation
Indices: 930737--930851 Score: 189
Period size: 38 Copynumber: 2.9 Consensus size: 40
930727 ACTGTAATTA
*
930737 ATTGTCTTAAATTATATTGTGATTGATTGTCTTAAACCAC
1 ATTGTCTTGAATTATATTGTGATTGATTGTCTTAAACCAC
930777 ATTGTCTTGAA-T-TATTGTGATTGATTGTCTTAAACCAC
1 ATTGTCTTGAATTATATTGTGATTGATTGTCTTAAACCAC
*
930815 ATTGTTCTTGAATTATATTGTAATTGATTGTCTTAAA
1 ATTG-TCTTGAATTATATTGTGATTGATTGTCTTAAA
930852 TTATACTGTA
Statistics
Matches: 70, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
38 30 0.43
39 8 0.11
40 11 0.16
41 21 0.30
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (40 bp):
ATTGTCTTGAATTATATTGTGATTGATTGTCTTAAACCAC
Found at i:930848 original size:25 final size:25
Alignment explanation
Indices: 930815--930900 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
930805 CTTAAACCAC
*
930815 ATTGTTCTTGAATTATATTGTAATTG
1 ATTG-TCTTAAATTATATTGTAATTG
*
930841 ATTGTCTTAAATTATACTGTAATTG
1 ATTGTCTTAAATTATATTGTAATTG
*
930866 ATTGTCTTAAATTATATTGTGATTG
1 ATTGTCTTAAATTATATTGTAATTG
930891 ATTGTCTTAA
1 ATTGTCTTAA
930901 TGTTCTCGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
25 52 0.93
26 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (25 bp):
ATTGTCTTAAATTATATTGTAATTG
Found at i:933124 original size:13 final size:13
Alignment explanation
Indices: 933108--933132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
933098 GCGTGATATA
933108 AAAAATAGTAAAG
1 AAAAATAGTAAAG
933121 AAAAATAGTAAA
1 AAAAATAGTAAA
933133 AAATATTAAC
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAAAATAGTAAAG
Found at i:936212 original size:430 final size:434
Alignment explanation
Indices: 935406--936270 Score: 1602
Period size: 430 Copynumber: 2.0 Consensus size: 434
935396 TTTTTTATGA
935406 ATAATGTAATTTTGTTTTTCGTTGCTGTCTGGCTCGATATTGAATGGTTGTATGTTTAATGAATT
1 ATAATGTAATTTTGTTTTTCGTTGCTGTCTGGCTCGATATTGAATGGTTGTATGTTTAATGAATT
*
935471 TTGACTATCTTCGGAGGTTGTCCAAGTATTATAACTTGTTCGAGTGTGATGTAGGTGCTGAAATA
66 TTGACTATCTTCGGAGGTTGTCCAAGTATTATAAATTGTTCGAGTGTGATGTAGGTGCTGAAATA
935536 TTTTTATTCCGAAGTTAGGTAACTCTAGTTCGATGGCTTAGAATGATGGGATATGATACTTTACA
131 TTTTTATTCCGAAGTTAGGTAACTCTAGTTCGATGGCTTAGAATGATGGGATATGATACTTTACA
935601 ATTGATGTTTTGTGTTTGCTTGTGAGATTAAGTATGTGGAAGTAGAAAATGGCAACCGTCAAGTT
196 ATTGATGTTTTGTGTTTGCTTGTGAGATTAAGTATGTGGAAGTAGAAAATGGCAACCGTCAAGTT
935666 GGACTGGATTTTAGTCAATTTAATTTAACTTTAAAAAAATATTTTTTATCTAAATTTGATCTGAT
261 GGACTGGATTTTAGTCAATTTAATTTAACTTTAAAAAAATATTTTTTATCTAAATTTGATCTGAT
935731 CGAAAGTATATATTATCCATCTAACATGGTCTGACCCAAAAATTAAAAACCATTTAGCTGAACCT
326 CGAAAGTATATATTATCCATCTAACATGGTCTGACCCAAAAATTAAAAACCATTTAGCTGAACCT
* *
935796 GACTCGACCTAGATTTTAAAGTATAAATTCAACTCAACCCGATT
391 GACTCGACCTAGATTTTAAAATATAAATTCAACTCAACCCAATT
935840 ATAATGTAATTTTGTTTTTCGTTGCTGTCTGGCTCGATATTGAATGGTTGTATGTTTAATGAA-T
1 ATAATGTAATTTTGTTTTTCGTTGCTGTCTGGCTCGATATTGAATGGTTGTATGTTTAATGAATT
935904 TTGACTATCTTCGGAGGTTGTCCAAGTATTATATAATTGTTCGAGTGTGATGTAGGTGCTG-AA-
66 TTGACTATCTTCGGAGGTTGTCCAAGTATTATA-AATTGTTCGAGTGTGATGTAGGTGCTGAAAT
935967 ATTTTTATTCCGAATAGTTAGGTAACTCTAGTTCGATGGC-TAGAATGATGGGATATGATAC-TT
130 ATTTTTATTCCG-A-AGTTAGGTAACTCTAGTTCGATGGCTTAGAATGATGGGATATGATACTTT
936030 ACAATTGATG-TTTGTG-TTGCTTGTGAGATTAAGTATGTGGAAGTAGAAAATGGCAACCGTCAA
193 ACAATTGATGTTTTGTGTTTGCTTGTGAGATTAAGTATGTGGAAGTAGAAAATGGCAACCGTCAA
*
936093 GTTGGACTGGTTTTTAGTCAATTTAATTTAACTTTAAAAAAATATTTTTTATCTAAATTTGATCT
258 GTTGGACTGGATTTTAGTCAATTTAATTTAACTTTAAAAAAATATTTTTTATCTAAATTTGATCT
936158 GATCGAAAAGTATATATTATCCATCTAACATGGTCTGACCCAAAAATT-AAAACCATTTAGCTGA
323 GATCG-AAAGTATATATTATCCATCTAACATGGTCTGACCCAAAAATTAAAAACCATTTAGCTGA
936222 ACCTGACTCGACCTAGATTTTAAAATATAAATTCAACTCAACCCAATT
387 ACCTGACTCGACCTAGATTTTAAAATATAAATTCAACTCAACCCAATT
936270 A
1 A
936271 AATATAAAAT
Statistics
Matches: 423, Mismatches: 4, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
430 179 0.42
431 48 0.11
432 24 0.06
433 58 0.14
434 114 0.27
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (434 bp):
ATAATGTAATTTTGTTTTTCGTTGCTGTCTGGCTCGATATTGAATGGTTGTATGTTTAATGAATT
TTGACTATCTTCGGAGGTTGTCCAAGTATTATAAATTGTTCGAGTGTGATGTAGGTGCTGAAATA
TTTTTATTCCGAAGTTAGGTAACTCTAGTTCGATGGCTTAGAATGATGGGATATGATACTTTACA
ATTGATGTTTTGTGTTTGCTTGTGAGATTAAGTATGTGGAAGTAGAAAATGGCAACCGTCAAGTT
GGACTGGATTTTAGTCAATTTAATTTAACTTTAAAAAAATATTTTTTATCTAAATTTGATCTGAT
CGAAAGTATATATTATCCATCTAACATGGTCTGACCCAAAAATTAAAAACCATTTAGCTGAACCT
GACTCGACCTAGATTTTAAAATATAAATTCAACTCAACCCAATT
Found at i:936789 original size:20 final size:19
Alignment explanation
Indices: 936739--936785 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
936729 TAAAAATATG
936739 TCAAGTTTTAACCGTTCCT
1 TCAAGTTTTAACCGTTCCT
*
936758 TCAAGTTTTAACCGTTCTT
1 TCAAGTTTTAACCGTTCCT
936777 TCAAGTTTT
1 TCAAGTTTT
936786 TAACGGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TCAAGTTTTAACCGTTCCT
Found at i:937544 original size:25 final size:25
Alignment explanation
Indices: 937490--937538 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
937480 ATAGACTGTA
* * *
937490 ATTGATTGTCTTACATTATATTGTG
1 ATTGATTGTCTTAAATCACATTGTG
937515 ATTGATTGTCTTAAATCACATTGT
1 ATTGATTGTCTTAAATCACATTGT
937539 TCTTGAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTGATTGTCTTAAATCACATTGTG
Found at i:940392 original size:21 final size:21
Alignment explanation
Indices: 940368--940421 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
940358 AATTGTCTCA
* * *
940368 AAGGTCCTCGTAGATGTCCTG
1 AAGGACCTCGTACATGTCCCG
* *
940389 AAGGACCACATACATGTCCCG
1 AAGGACCTCGTACATGTCCCG
940410 AAGGACCTCGTA
1 AAGGACCTCGTA
940422 AAACATTCGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (21 bp):
AAGGACCTCGTACATGTCCCG
Found at i:941563 original size:35 final size:34
Alignment explanation
Indices: 941516--941584 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
941506 CATCACAAGA
941516 ATGGTACGATACT-TCCACATT-AGTATCGATACCC
1 ATGGTACGATACTAT-CAC-TTCAGTATCGATACCC
941550 ATGGTACCGATACTATCACTTCAGTATCGATACCC
1 ATGGTA-CGATACTATCACTTCAGTATCGATACCC
941585 CATGAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 8 0.25
35 23 0.72
36 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (34 bp):
ATGGTACGATACTATCACTTCAGTATCGATACCC
Found at i:956312 original size:110 final size:108
Alignment explanation
Indices: 956119--956591 Score: 734
Period size: 108 Copynumber: 4.3 Consensus size: 108
956109 CGTTTGATGG
*
956119 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTG-T-G
*
956184 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
64 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGTTGA
*
956229 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGTTGAAGATTGTTCG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTG-T-G
*
956294 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGA
64 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGTTGA
* * *
956339 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATT-TATGAAGATTGTGG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT-TGAAGATTGTGA
*
956403 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
65 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGTTGA
* *
956447 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGG
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTGAG
* **
956512 TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGA
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGTTGA
* * *
956555 AGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 AGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
956592 AGCGAACCCG
Statistics
Matches: 340, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
107 1 0.00
108 175 0.51
109 2 0.01
110 162 0.48
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (108 bp):
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTGAG
TCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGTTGA
Found at i:956594 original size:55 final size:55
Alignment explanation
Indices: 956119--956591 Score: 742
Period size: 55 Copynumber: 8.7 Consensus size: 55
956109 CGTTTGATGG
*
956119 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
956174 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
956229 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
956284 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* *
956339 AGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATT-TATGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT-TGA
* *
956394 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
*
956447 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* * * *
956502 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGA
1 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
* * *
956555 AGATTGTCCGAGT-TCTATACTCTCTAAAGAAAGAGGG
1 AGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGG
956592 AGCGAACCCG
Statistics
Matches: 389, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
53 94 0.24
54 6 0.02
55 289 0.74
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGA
Found at i:963956 original size:33 final size:30
Alignment explanation
Indices: 963886--963958 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 30
963876 ATTAGGCTCC
* *
963886 TAATAATAAATATTAGAAAAATTGGCCTCA
1 TAATAATAAATATTAAAAAAATGGGCCTCA
963916 TAATAATAAATATTAAAAATAAATGGGTCCT-A
1 TAATAATAAATATT-AAAA-AAATGGG-CCTCA
963948 TAACTAATAAA
1 TAA-TAATAAA
963959 AAGTTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 14 0.38
31 3 0.08
32 10 0.27
33 10 0.27
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.30
Consensus pattern (30 bp):
TAATAATAAATATTAAAAAAATGGGCCTCA
Done.