Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_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: 2373627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:648960 original size:20 final size:20
Alignment explanation
Indices: 648921--648960 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
648911 TCTAAAAGTG
*
648921 GTATCGATACTGACCTTCGA
1 GTATCGATACTGACCATCGA
* *
648941 GTATCGATATTGTCCATCGA
1 GTATCGATACTGACCATCGA
648961 TACCCTTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATACTGACCATCGA
Found at i:649946 original size:19 final size:19
Alignment explanation
Indices: 649919--649970 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
649909 GAATGCAATT
649919 AGTGCATCGATGCATGAGG
1 AGTGCATCGATGCATGAGG
*
649938 AGTGTATCGATGCATGAGG
1 AGTGCATCGATGCATGAGG
*
649957 AGTACATCGATGCA
1 AGTGCATCGATGCA
649971 CCCCCTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATGAGG
Found at i:650055 original size:24 final size:24
Alignment explanation
Indices: 650023--650079 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
650013 GCATAGAGAG
650023 TGCATCGATGCACACCTTAAGGGA
1 TGCATCGATGCACACCTTAAGGGA
*
650047 TGCATCGATGCACACGTTAAGGGA
1 TGCATCGATGCACACCTTAAGGGA
650071 TGCATCGAT
1 TGCATCGAT
650080 ACACTGTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (24 bp):
TGCATCGATGCACACCTTAAGGGA
Found at i:660637 original size:12 final size:13
Alignment explanation
Indices: 660603--660631 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
660593 GGATGAGAAT
660603 TTAAAAATTTATA
1 TTAAAAATTTATA
660616 TTAAAAATTTATA
1 TTAAAAATTTATA
660629 TTA
1 TTA
660632 GAATTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAAATTTATA
Found at i:661802 original size:20 final size:20
Alignment explanation
Indices: 661768--661819 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
661758 GTTATATAAA
*
661768 ATATATGTTTA-TTATAATT
1 ATATATTTTTATTTATAATT
* *
661787 ATATTTTTTTATTTATATTT
1 ATATATTTTTATTTATAATT
*
661807 TTATATTTTTATT
1 ATATATTTTTATT
661820 ATAGTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
ATATATTTTTATTTATAATT
Found at i:661804 original size:14 final size:14
Alignment explanation
Indices: 661779--661819 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
661769 TATATGTTTA
*
661779 TTATAATTATATTT
1 TTATATTTATATTT
*
661793 TTTTATTTATATTT
1 TTATATTTATATTT
*
661807 TTATATTTTTATT
1 TTATATTTATATT
661820 ATAGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATATTTATATTT
Found at i:661848 original size:26 final size:26
Alignment explanation
Indices: 661819--661895 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 26
661809 ATATTTTTAT
661819 TATAGTTTAAATTGATATAATTCATA
1 TATAGTTTAAATTGATATAATTCATA
* ** * *
661845 TATA--ATAATATTTTTTTGAATTTAT-
1 TATAGTTTAA-ATTGATAT-AATTCATA
*
661870 TATAGTTTAAATTGATATGATTCATA
1 TATAGTTTAAATTGATATAATTCATA
661896 CATAAGTATA
Statistics
Matches: 35, Mismatches: 11, Indels: 10
0.62 0.20 0.18
Matches are distributed among these distances:
24 3 0.09
25 14 0.40
26 15 0.43
27 3 0.09
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.51
Consensus pattern (26 bp):
TATAGTTTAAATTGATATAATTCATA
Found at i:661858 original size:51 final size:51
Alignment explanation
Indices: 661801--661900 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
661791 TTTTTTATTT
* *
661801 ATATTTTTAT-ATTTTTATTATAGTTTAAATTGATATAATTCATATATAATA
1 ATATTTTTATGA-ATTTATTATAGTTTAAATTGATATAATTCATACATAATA
* *
661852 ATATTTTTTTGAATTTATTATAGTTTAAATTGATATGATTCATACATAA
1 ATATTTTTATGAATTTATTATAGTTTAAATTGATATAATTCATACATAA
661901 GTATAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (51 bp):
ATATTTTTATGAATTTATTATAGTTTAAATTGATATAATTCATACATAATA
Found at i:665885 original size:28 final size:28
Alignment explanation
Indices: 665845--665899 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
665835 CATTTGATTG
665845 GGCTTAATGCTTCTTCTAAAATCTGGCA
1 GGCTTAATGCTTCTTCTAAAATCTGGCA
* *
665873 GGCTTAATTCTTCTTCTGAAATCTGGC
1 GGCTTAATGCTTCTTCTAAAATCTGGC
665900 TCACCCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (28 bp):
GGCTTAATGCTTCTTCTAAAATCTGGCA
Found at i:666678 original size:21 final size:22
Alignment explanation
Indices: 666630--666678 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
666620 CCCTCCTTTT
666630 AACTGTTGTTTTTATTGTAATC
1 AACTGTTGTTTTTATTGTAATC
*
666652 --CTTGTTGTTTTTATTGT-TTC
1 AAC-TGTTGTTTTTATTGTAATC
666672 AACTGTT
1 AACTGTT
666679 CCTAACAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.59
Consensus pattern (22 bp):
AACTGTTGTTTTTATTGTAATC
Found at i:669859 original size:78 final size:76
Alignment explanation
Indices: 669752--669958 Score: 236
Period size: 78 Copynumber: 2.7 Consensus size: 76
669742 TGGATGTAGG
* * ** *
669752 TAGAGATGGAGATGAAAGTTATAGAGATGATGAAGTAGATTGTTGTAGTGATGGAGATTAAGTGG
1 TAGAGATAGAGATGGAAGTCGTGGAGATGATGAAGTAGATTGTTGTAGTGATGGAGATTAAGTGG
*
669817 AGGTAGGTGCATA
66 AGGT-GG-ACATA
* * * * * * *
669830 TTGATATAGAGATGGAAGTCTTGGAGATGATGAAGTAGATTATTGTAGTAATGTAGATTGAGTGG
1 TAGAGATAGAGATGGAAGTCGTGGAGATGATGAAGTAGATTGTTGTAGTGATGGAGATTAAGTGG
*
669895 AGGTGGACATG
66 AGGTGGACATA
* *
669906 TAGAGATGGAGATGGAAGTCGTGGAGATAATGAAGTAGATTGTTG-AGATGATG
1 TAGAGATAGAGATGGAAGTCGTGGAGATGATGAAGTAGATTGTTGTAG-TGATG
669959 AAGTAGATTG
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
75 2 0.02
76 46 0.43
77 2 0.02
78 58 0.54
ACGTcount: A:0.33, C:0.02, G:0.36, T:0.29
Consensus pattern (76 bp):
TAGAGATAGAGATGGAAGTCGTGGAGATGATGAAGTAGATTGTTGTAGTGATGGAGATTAAGTGG
AGGTGGACATA
Found at i:669953 original size:21 final size:21
Alignment explanation
Indices: 669929--669970 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
669919 GGAAGTCGTG
669929 GAGATAATGAAGTAGATTGTT
1 GAGATAATGAAGTAGATTGTT
*
669950 GAGATGATGAAGTAGATTGTT
1 GAGATAATGAAGTAGATTGTT
669971 TAAATGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (21 bp):
GAGATAATGAAGTAGATTGTT
Found at i:669977 original size:21 final size:21
Alignment explanation
Indices: 669935--669982 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
669925 CGTGGAGATA
*
669935 ATGAAGTAGATTGTTGAGATG
1 ATGAAGTAGATTGTTGAAATG
*
669956 ATGAAGTAGATTGTTTAAATG
1 ATGAAGTAGATTGTTGAAATG
669977 ATGAAG
1 ATGAAG
669983 ATGAAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (21 bp):
ATGAAGTAGATTGTTGAAATG
Found at i:678300 original size:16 final size:16
Alignment explanation
Indices: 678279--678309 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
678269 TTAGTTTTAG
*
678279 TTTTTGTATATTTAAT
1 TTTTTGAATATTTAAT
678295 TTTTTGAATATTTAA
1 TTTTTGAATATTTAA
678310 AAATTTTATA
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTTGAATATTTAAT
Found at i:678815 original size:26 final size:27
Alignment explanation
Indices: 678786--678839 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
678776 AAATATTATT
* * * *
678786 AATTTAAAAAAT-CCAAAATTTTGAAA
1 AATTAAAAAAATCCCATAAATTTTAAA
678812 AATTAAAAAAATCCCATAAATTTTAAA
1 AATTAAAAAAATCCCATAAATTTTAAA
678839 A
1 A
678840 TTCTTCATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (27 bp):
AATTAAAAAAATCCCATAAATTTTAAA
Found at i:685342 original size:2 final size:2
Alignment explanation
Indices: 685335--685363 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
685325 TCATACCTTT
685335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
685364 TTGTTTCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:696862 original size:17 final size:18
Alignment explanation
Indices: 696827--696864 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
696817 TTTATTTAAT
696827 TTTTAATATTAGTTTATA
1 TTTTAATATTAGTTTATA
696845 TTTTAAT-TT-GTATTATA
1 TTTTAATATTAGT-TTATA
696862 TTT
1 TTT
696865 ATTAAATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 10 0.53
18 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTAATATTAGTTTATA
Found at i:698081 original size:23 final size:23
Alignment explanation
Indices: 698047--698092 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
698037 ATTCAGACTG
*
698047 TATTTTTGTGTTGAATCATTCAA
1 TATTTTTGTGTTGAATCAGTCAA
698070 TATTATTT-TGTTGAATCAGTCAA
1 TATT-TTTGTGTTGAATCAGTCAA
698093 CACTGAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (23 bp):
TATTTTTGTGTTGAATCAGTCAA
Found at i:698650 original size:15 final size:15
Alignment explanation
Indices: 698630--698711 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
698620 TTCCAGAAAA
698630 TGAATTACTGGAATT
1 TGAATTACTGGAATT
698645 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* **
698660 TGAATTATTGGAAAA
1 TGAATTACTGGAATT
698675 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
698690 TGAATTA-TGGAAAA
1 TGAATTACTGGAATT
698704 TGAATTAC
1 TGAATTAC
698712 ATTTCTGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:698664 original size:30 final size:29
Alignment explanation
Indices: 698630--698711 Score: 128
Period size: 30 Copynumber: 2.8 Consensus size: 29
698620 TTCCAGAAAA
**
698630 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTA-TGGAAAATGAATTACTGGAATT
698660 TGAATTATTGGAAAATGAATTACTGGAATT
1 TGAATTA-TGGAAAATGAATTACTGGAATT
698690 TGAATTATGGAAAATGAATTAC
1 TGAATTATGGAAAATGAATTAC
698712 ATTTCTGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 15 0.31
30 34 0.69
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (29 bp):
TGAATTATGGAAAATGAATTACTGGAATT
Found at i:698689 original size:45 final size:44
Alignment explanation
Indices: 698625--698710 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
698615 TGGTTTTCCA
**
698625 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTATTG
1 GAAAATGAATTACTGGAATTTGAATTA-TGGAAAATGAATTATTG
698670 GAAAATGAATTACTGGAATTTGAATTATGGAAAATGAATTA
1 GAAAATGAATTACTGGAATTTGAATTATGGAAAATGAATTA
698711 CATTTCTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.31
45 27 0.69
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTATGGAAAATGAATTATTG
Found at i:698723 original size:20 final size:20
Alignment explanation
Indices: 698697--698763 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
698687 ATTTGAATTA
698697 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
*
698717 TGTAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
698737 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
698757 TGGAAAA
1 TGGAAAA
698764 CATCTGGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (20 bp):
TGGAAAATGAATTACATTTC
Found at i:698972 original size:28 final size:29
Alignment explanation
Indices: 698932--699012 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
698922 TTACTAAAAT
698932 ATTATTGAAATATATAAATAATATTATT-C
1 ATTATT-AAATATATAAATAATATTATTAC
* *
698961 ATTATTAAATATATAAA-AAAATTTATTAT
1 ATTATTAAATATATAAATAATA-TTATTAC
*
698990 ATATATTAAA-ATAAAAATAATAT
1 AT-TATTAAATATATAAATAATAT
699013 CTTATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.07
28 16 0.36
29 15 0.34
30 10 0.23
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
ATTATTAAATATATAAATAATATTATTAC
Found at i:698988 original size:24 final size:28
Alignment explanation
Indices: 698931--699022 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 28
698921 TTTACTAAAA
698931 TATTATTGAAATATATAAATAATATTATT
1 TATTATTGAAATATATAAATAATA-TATT
* * *
698960 CATTATT-AAATATATAAAAAAATTTATT
1 TATTATTGAAATATAT-AAATAATATATT
* *
698988 ATATATATT-AAA-ATAAAAATAATATCTT
1 -TAT-TATTGAAATATATAAATAATATATT
699016 ATATTAT
1 -TATTAT
699023 ATTATTATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.06
28 25 0.48
29 17 0.33
30 7 0.13
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTATTGAAATATATAAATAATATATT
Found at i:699032 original size:29 final size:27
Alignment explanation
Indices: 698971--699105 Score: 73
Period size: 27 Copynumber: 5.0 Consensus size: 27
698961 ATTATTAAAT
*
698971 ATATAAAAAAATTTATTATATATATTA
1 ATATAAAAAAATATATTATATATATTA
* *
698998 AAATAAAAATAATATCTTATATTATATT-
1 ATATAAAAA-AATATATTATA-TATATTA
* * *
699026 AT-TATAATAAT-TGATTAT-TTTATATA
1 ATATAAAAAAATAT-ATTATATATAT-TA
* *
699052 ATATTAAAAATATAATATTATAT-TATAA
1 ATA-TAAAAAAAT-ATATTATATATATTA
* * * *
699080 ATATTAATAAATATATTTTAAATATT
1 ATATAAAAAAATATATTATATATATT
699106 TTAATAATTA
Statistics
Matches: 79, Mismatches: 18, Indels: 22
0.66 0.15 0.18
Matches are distributed among these distances:
24 4 0.05
25 2 0.03
26 16 0.20
27 21 0.27
28 20 0.25
29 14 0.18
30 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATATAAAAAAATATATTATATATATTA
Found at i:699066 original size:14 final size:14
Alignment explanation
Indices: 699047--699094 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
699037 TGATTATTTT
699047 ATATAATATTAAAA
1 ATATAATATTAAAA
*
699061 ATATAATATT-ATA
1 ATATAATATTAAAA
*
699074 TTATAAATATTAATAA
1 ATAT-AATATTAA-AA
699090 ATATA
1 ATATA
699095 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 5 0.19
14 16 0.59
15 2 0.07
16 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATATTAAAA
Found at i:699067 original size:31 final size:29
Alignment explanation
Indices: 698949--699094 Score: 89
Period size: 29 Copynumber: 5.1 Consensus size: 29
698939 AAATATATAA
698949 ATAATATTATTCATTATTAAATA-T-ATAAA-
1 ATAATATTA-T-ATTA-TAAATATTAATAAAT
* *
698978 A-AA-ATT-TATTATATATATTAAAATAAAA
1 ATAATATTATATTATAAATATT--AATAAAT
*
699006 ATAATATCTTATATTAT-ATTATT-AT-AAT
1 ATAATA--TTATATTATAAATATTAATAAAT
* *
699034 A-ATTGATTATTTTATATAATATTAA-AAAT
1 ATAAT-ATTATATTATA-AATATTAATAAAT
699063 ATAATATTATATTATAAATATTAATAAAT
1 ATAATATTATATTATAAATATTAATAAAT
699092 ATA
1 ATA
699095 TTTTAAATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 1 0.01
26 8 0.09
27 10 0.11
28 20 0.22
29 27 0.30
30 3 0.03
32 6 0.07
33 6 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
ATAATATTATATTATAAATATTAATAAAT
Found at i:699070 original size:26 final size:26
Alignment explanation
Indices: 699041--699122 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
699031 AATAATTGAT
*
699041 TATTTTATATAATATTAAAAATATAA
1 TATTTTATATAATATTAATAATATAA
*
699067 TATTATATTATAAATATTAATAA-AT-A
1 TATTTTA-TAT-AATATTAATAATATAA
* *
699093 TATTTTAAAT-ATTTTAATAAT-TAA
1 TATTTTATATAATATTAATAATATAA
699117 TATTTT
1 TATTTT
699123 GATGAAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 10 0.21
24 7 0.15
25 2 0.04
26 13 0.28
27 5 0.11
28 10 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTTTATATAATATTAATAATATAA
Found at i:699074 original size:19 final size:20
Alignment explanation
Indices: 699047--699093 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
699037 TGATTATTTT
699047 ATATAATATTAAAAATA-TA
1 ATATAATATTAAAAATATTA
* *
699066 ATATTATATTATAAATATTA
1 ATATAATATTAAAAATATTA
699086 ATA-AATAT
1 ATATAATAT
699094 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATAATATTAAAAATATTA
Found at i:699094 original size:21 final size:20
Alignment explanation
Indices: 699052--699105 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
699042 ATTTTATATA
* *
699052 ATATTAAAAATA-TAATATT
1 ATATTATAAATATTAATAAT
699071 ATATTATAAATATTAATAAAT
1 ATATTATAAATATTAAT-AAT
*
699092 ATATTTTAAATATT
1 ATATTATAAATATT
699106 TTAATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 11 0.37
20 4 0.13
21 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTATAAATATTAATAAT
Found at i:699118 original size:50 final size:50
Alignment explanation
Indices: 699016--699120 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
699006 ATAATATCTT
* ** *
699016 ATATTATATTATTATAATAATTGATTATTTTATATAATATTAAAAATATA
1 ATATTATATTATAATAATAATAAATTATTTTAAATAATATTAAAAATATA
* * *
699066 ATATTATATTATAAATATTAATAAATATATTTTAAAT-ATTTTAATAAT-TA
1 ATATTATATTAT-AATAATAATAAAT-TATTTTAAATAATATTAAAAATATA
699116 ATATT
1 ATATT
699121 TTGATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 19 0.41
51 18 0.39
52 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (50 bp):
ATATTATATTATAATAATAATAAATTATTTTAAATAATATTAAAAATATA
Found at i:699353 original size:42 final size:42
Alignment explanation
Indices: 699294--699413 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
699284 ATGAATTACA
*
699294 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
699336 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
699378 TTCCGGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
699414 TTCGGGGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:699700 original size:22 final size:22
Alignment explanation
Indices: 699675--699951 Score: 369
Period size: 22 Copynumber: 12.5 Consensus size: 22
699665 TATTTTAAAT
* *
699675 TTTATTTTAAAATATAGAATGA
1 TTTATTTTAAAATATGGATTGA
*
699697 TTTATTTTAAAATATCGATTGA
1 TTTATTTTAAAATATGGATTGA
* ***
699719 TTTATTTTAAAATATGAAAAAA
1 TTTATTTTAAAATATGGATTGA
*
699741 TTTATTTTAAAATATAGATTGA
1 TTTATTTTAAAATATGGATTGA
*
699763 TTTATTTAAAAAATATGGATTGA
1 TTTATTT-TAAAATATGGATTGA
699786 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
699808 TTTATTTTAAAATATGGA-AAA
1 TTTATTTTAAAATATGGATTGA
*
699829 TTTTATTTTAAAATATTGATTGA
1 -TTTATTTTAAAATATGGATTGA
* *
699852 TTTAATTTAAAGTATGGATTGA
1 TTTATTTTAAAATATGGATTGA
699874 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
699896 TTTATTTTAAAATATGGA-AAA
1 TTTATTTTAAAATATGGATTGA
699917 TTTTATTTTAAAATATGGATTGA
1 -TTTATTTTAAAATATGGATTGA
699940 TTTATTTTAAAA
1 TTTATTTTAAAA
699952 AAATTATTAT
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
21 2 0.01
22 197 0.89
23 22 0.10
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTATTTTAAAATATGGATTGA
Found at i:700032 original size:31 final size:31
Alignment explanation
Indices: 699975--700033 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
699965 AGTTGTATGG
* *
699975 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTACTACAAAACTAAA
*
700006 ATTATTTAAATTTCAGTACTGCAAAACT
1 ATTATTTAAATTTCAGTACTACAAAACT
700034 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTACTACAAAACTAAA
Found at i:700646 original size:47 final size:47
Alignment explanation
Indices: 700592--700687 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
700582 TAAAAGACTT
700592 TAAAATGACAATAAAGAACAAGCATACTCTCAATCTAAGTCAGTAGG
1 TAAAATGACAATAAAGAACAAGCATACTCTCAATCTAAGTCAGTAGG
700639 TAAAATGACAATAAAGAACAAGCATACTCTCAATCTAAGTCAGTAGG
1 TAAAATGACAATAAAGAACAAGCATACTCTCAATCTAAGTCAGTAGG
700686 TA
1 TA
700688 GTGCCTTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.22
Consensus pattern (47 bp):
TAAAATGACAATAAAGAACAAGCATACTCTCAATCTAAGTCAGTAGG
Found at i:700889 original size:17 final size:16
Alignment explanation
Indices: 700859--700892 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
700849 TCACTATACC
700859 TATAAGTAAAAATTCT
1 TATAAGTAAAAATTCT
*
700875 TATAGAGTAAGAATTCT
1 TATA-AGTAAAAATTCT
700892 T
1 T
700893 GTGACTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
TATAAGTAAAAATTCT
Found at i:703032 original size:28 final size:29
Alignment explanation
Indices: 702989--703048 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
702979 GCTGAAAAAT
*
702989 AAAAGATAATTGTTTAAACTTAAATTCTA
1 AAAAGACAATTGTTTAAACTTAAATTCTA
* *
703018 AAAAGACAATT-TTTAAACTTGAATTTTA
1 AAAAGACAATTGTTTAAACTTAAATTCTA
703046 AAA
1 AAA
703049 TGATTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAAGACAATTGTTTAAACTTAAATTCTA
Found at i:704609 original size:20 final size:22
Alignment explanation
Indices: 704581--704631 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
704571 AACACGAAAA
*
704581 CCAATTTCGCAACAC-AATTT-
1 CCAAATTCGCAACACAAATTTG
*
704601 CCGAATTCGCAACACAAATTTG
1 CCAAATTCGCAACACAAATTTG
704623 CCAAATTCG
1 CCAAATTCG
704632 AGTCGCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 5 0.19
22 8 0.31
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.25
Consensus pattern (22 bp):
CCAAATTCGCAACACAAATTTG
Found at i:704663 original size:22 final size:20
Alignment explanation
Indices: 704625--705009 Score: 183
Period size: 20 Copynumber: 19.0 Consensus size: 20
704615 CAAATTTGCC
*
704625 AAATTCGAGTCGCGAATTCG
1 AAATTCGAGTTGCGAATTCG
*
704645 CTAAATTCGAGTTGTGAATTCG
1 --AAATTCGAGTTGCGAATTCG
*
704667 AAATTCGAGTTGCAAATTCG
1 AAATTCGAGTTGCGAATTCG
** * *
704687 ATTTTCGAGTTGCAAATTTG
1 AAATTCGAGTTGCGAATTCG
** * *
704707 AGTTTCGAGTTGAGAATTTG
1 AAATTCGAGTTGCGAATTCG
*
704727 AATTTCGAGTTGCGAATTCG
1 AAATTCGAGTTGCGAATTCG
** * *
704747 ATTTTCAAGTTGCGAATTTG
1 AAATTCGAGTTGCGAATTCG
*
704767 AATTTCGAGTTGCGAATTCG
1 AAATTCGAGTTGCGAATTCG
** ** *
704787 ATTTTTAAGTTGCGAAATC-
1 AAATTCGAGTTGCGAATTCG
* *
704806 AATATTCAAGTTACGAATTCG
1 AA-ATTCGAGTTGCGAATTCG
*
704827 AAAATT-GAGTTGCAAAATTGGCG
1 -AAATTCGAGTTGC-GAATT--CG
* *
704850 -AATTCGAGTTGTGAAATCCG
1 AAATTCGAGTTGCG-AATTCG
*
704870 -AATTCGAGTTGCGAATT-T
1 AAATTCGAGTTGCGAATTCG
** * *
704888 AAAAACTGAGTTGCAAATTTGG
1 AAATTC-GAGTTGCGAA-TTCG
* *
704910 TAAATTCGTGTTGCGAAAT-G
1 -AAATTCGAGTTGCGAATTCG
*** *
704930 TAAATTTTTGTTGTGAATTCG
1 -AAATTCGAGTTGCGAATTCG
* * * *
704951 AAA-ACTGTGTTGGGAATTTG
1 AAATTC-GAGTTGCGAATTCG
*** *
704971 GTTTTCGTGTTGCGAATTCG
1 AAATTCGAGTTGCGAATTCG
704991 AAATT-GAGTTGCGAATTCG
1 AAATTCGAGTTGCGAATTCG
705010 TTGGTTATTA
Statistics
Matches: 282, Mismatches: 65, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
19 20 0.07
20 203 0.72
21 16 0.06
22 37 0.13
23 6 0.02
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.36
Consensus pattern (20 bp):
AAATTCGAGTTGCGAATTCG
Found at i:704672 original size:20 final size:20
Alignment explanation
Indices: 704628--704886 Score: 202
Period size: 20 Copynumber: 12.8 Consensus size: 20
704618 ATTTGCCAAA
* *
704628 TTCGAGTCGCGAATTCGCTAAA
1 TTCGAGTTGCGAATTCG--AAT
* *
704650 TTCGAGTTGTGAATTCGAAA
1 TTCGAGTTGCGAATTCGAAT
* *
704670 TTCGAGTTGCAAATTCGATT
1 TTCGAGTTGCGAATTCGAAT
* * *
704690 TTCGAGTTGCAAATTTGAGT
1 TTCGAGTTGCGAATTCGAAT
* *
704710 TTCGAGTTGAGAATTTGAAT
1 TTCGAGTTGCGAATTCGAAT
*
704730 TTCGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGAAT
* *
704750 TTCAAGTTGCGAATTTGAAT
1 TTCGAGTTGCGAATTCGAAT
*
704770 TTCGAGTTGCGAATTCGATT
1 TTCGAGTTGCGAATTCGAAT
** *
704790 TTTAAGTTGCGAAATC-AAT
1 TTCGAGTTGCGAATTCGAAT
* * *
704809 ATTCAAGTTACGAATTCGAAAA
1 -TTCGAGTTGCGAATTCG-AAT
*
704831 TT-GAGTTGCAAAATTGGCGAA-
1 TTCGAGTTGC-GAATT--CGAAT
* *
704852 TTCGAGTTGTGAAATCCGAA-
1 TTCGAGTTGCG-AATTCGAAT
704872 TTCGAGTTGCGAATT
1 TTCGAGTTGCGAATT
704887 TAAAAACTGA
Statistics
Matches: 193, Mismatches: 36, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
19 5 0.03
20 150 0.78
21 8 0.04
22 28 0.15
23 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.36
Consensus pattern (20 bp):
TTCGAGTTGCGAATTCGAAT
Found at i:704885 original size:62 final size:62
Alignment explanation
Indices: 704794--704928 Score: 155
Period size: 62 Copynumber: 2.2 Consensus size: 62
704784 TCGATTTTTA
* * * *
704794 AGTTGCGAAAT-CAATATTCAAGTTACGAATTCGAAAATTGAGTTGCAAAATTGGCGAATTCG
1 AGTTGCGAAATCCGA-ATTCAAGTTACGAATTCAAAAACTGAGTTGCAAAATTGGCAAATTCG
* * * * * *
704856 AGTTGTGAAATCCGAATTCGAGTTGCGAATTTAAAAACTGAGTTGCAAATTTGGTAAATTCG
1 AGTTGCGAAATCCGAATTCAAGTTACGAATTCAAAAACTGAGTTGCAAAATTGGCAAATTCG
*
704918 TGTTGCGAAAT
1 AGTTGCGAAAT
704929 GTAAATTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 58 0.97
63 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (62 bp):
AGTTGCGAAATCCGAATTCAAGTTACGAATTCAAAAACTGAGTTGCAAAATTGGCAAATTCG
Found at i:705769 original size:32 final size:32
Alignment explanation
Indices: 705732--705794 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
705722 TTAATAAATT
* *
705732 ATGTGACATGTGTCATATCACCTAAAGTGATG
1 ATGTGACATATGTCATATCACCCAAAGTGATG
* *
705764 ATGTGACATATGTTATGTCACCCAAAGTGAT
1 ATGTGACATATGTCATATCACCCAAAGTGAT
705795 AACATATGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (32 bp):
ATGTGACATATGTCATATCACCCAAAGTGATG
Found at i:708147 original size:2 final size:2
Alignment explanation
Indices: 708140--708184 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
708130 TACCAACTCA
708140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
708182 AT A
1 AT A
708185 CACACTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:722978 original size:21 final size:21
Alignment explanation
Indices: 722939--722984 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
722929 CATTTCCAAC
*
722939 ACAACCCCAGAAAATAACAAA
1 ACAACCCCAGAAAAAAACAAA
*
722960 ACAA-CCCAGAAAGAAAACAAG
1 ACAACCCCAGAAA-AAAACAAA
722981 ACAA
1 ACAA
722985 ATGTTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.63, C:0.26, G:0.09, T:0.02
Consensus pattern (21 bp):
ACAACCCCAGAAAAAAACAAA
Found at i:723907 original size:6 final size:6
Alignment explanation
Indices: 723892--723929 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
723882 GATAATTAAC
* *
723892 GGGGTA GGGGTG GGGGTA GGGGTG GGGGTG GGGGTG GG
1 GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GG
723930 ATTAGAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.05, C:0.00, G:0.79, T:0.16
Consensus pattern (6 bp):
GGGGTG
Found at i:723909 original size:12 final size:12
Alignment explanation
Indices: 723892--723929 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
723882 GATAATTAAC
723892 GGGGTAGGGGTG
1 GGGGTAGGGGTG
723904 GGGGTAGGGGTG
1 GGGGTAGGGGTG
*
723916 GGGGTGGGGGTG
1 GGGGTAGGGGTG
723928 GG
1 GG
723930 ATTAGAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.00, G:0.79, T:0.16
Consensus pattern (12 bp):
GGGGTAGGGGTG
Found at i:726253 original size:59 final size:59
Alignment explanation
Indices: 726181--726301 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
726171 AATAGATGGA
* * *
726181 TAAGTGTCCTATCGAACCCTCCTAGTCACAATGGAAAGGCAAACTCGATAATATGGCCC
1 TAAGTGTCCTATCGAACCCTCCTAATCACAATGAAAAGGCAAACTCAATAATATGGCCC
* * *
726240 TAAGTGTCCTATCGAACCCTCCTAATCGCAATGAAAATGCAAACTCAATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAATCACAATGAAAAGGCAAACTCAATAATATGGCCC
726299 TAA
1 TAA
726302 CCAACCCTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (59 bp):
TAAGTGTCCTATCGAACCCTCCTAATCACAATGAAAAGGCAAACTCAATAATATGGCCC
Found at i:728302 original size:38 final size:38
Alignment explanation
Indices: 728190--728303 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 38
728180 TGAATTTTTT
*
728190 ATTTATAATTT-TCAAATTATTTTA-ATTTAACATTCTAA
1 ATTT-TAATTTCTCAAATTATTTCACA-TTAACATTCTAA
* *
728228 ATTCTTAATTTCTTAAATT-TTGCTACCA-TAACATTCTAA
1 ATT-TTAATTTCTCAAATTATTTC-A-CATTAACATTCTAA
*
728267 ATTTTAATTTCTCAAATTATTTCACATTAATATTCTA
1 ATTTTAATTTCTCAAATTATTTCACATTAACATTCTA
728304 GATTATTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
37 2 0.03
38 35 0.56
39 25 0.40
41 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.01, T:0.50
Consensus pattern (38 bp):
ATTTTAATTTCTCAAATTATTTCACATTAACATTCTAA
Found at i:728658 original size:32 final size:32
Alignment explanation
Indices: 728596--728658 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
728586 ACACGGACCA
* * *
728596 ATATTTTGATACCCGAAAATTCTAGATACCCT
1 ATATTTCGATACCCGAAAAATCGAGATACCCT
728628 ATATTTCGAGTACCCGAAAAATCGAG-TACCC
1 ATATTTCGA-TACCCGAAAAATCGAGATACCC
728659 GGTTTTGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.29
Consensus pattern (32 bp):
ATATTTCGATACCCGAAAAATCGAGATACCCT
Found at i:730445 original size:14 final size:14
Alignment explanation
Indices: 730426--730452 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
730416 GATGTATAAT
730426 TAAAATCTTTTTAA
1 TAAAATCTTTTTAA
730440 TAAAATCTTTTTA
1 TAAAATCTTTTTA
730453 TCGAGTTAAA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATCTTTTTAA
Found at i:734462 original size:16 final size:16
Alignment explanation
Indices: 734422--734462 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
734412 CCAAGTCAAC
*
734422 CCGTTGACCAGTCTGA
1 CCGTTGACTAGTCTGA
734438 CCGTTGACTAGTCTGA
1 CCGTTGACTAGTCTGA
734454 CCGTTGACT
1 CCGTTGACT
734463 TTGACCGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.29
Consensus pattern (16 bp):
CCGTTGACTAGTCTGA
Found at i:736526 original size:19 final size:20
Alignment explanation
Indices: 736483--736529 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
736473 TCTGATCACG
736483 GTTTTCACTGAAAAATATGA
1 GTTTTCACTGAAAAATATGA
736503 GTTTTCACTGAAAAATATGA
1 GTTTTCACTGAAAAATATGA
*
736523 TTTTTCA
1 GTTTTCA
736530 TGATTTATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
GTTTTCACTGAAAAATATGA
Found at i:742922 original size:15 final size:17
Alignment explanation
Indices: 742899--742939 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
742889 AATTATTGTT
*
742899 AATATTTTA-TTTT-AC
1 AATAGTTTACTTTTAAC
742914 AATAGTTTACTTTTTAAC
1 AATAGTTTAC-TTTTAAC
742932 AATAGTTT
1 AATAGTTT
742940 TTAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
17 4 0.18
18 10 0.45
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (17 bp):
AATAGTTTACTTTTAAC
Found at i:746724 original size:85 final size:85
Alignment explanation
Indices: 746580--746737 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
746570 GATAAATTCC
*
746580 CACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGTAAGTCATAAATA
1 CACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATA
746645 CGTGTCATTAATTTATGACA
66 CGTGTCATTAATTTATGACA
* * *** ** *
746665 CACAAATGTGTGTCATCTTTATTTATGATGGGGGCTTCAATGACGTTCAATGCGCGTCATAAATG
1 CACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATA
746730 CGTGTCAT
66 CGTGTCAT
746738 AAATGCGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (85 bp):
CACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATA
CGTGTCATTAATTTATGACA
Found at i:746731 original size:13 final size:13
Alignment explanation
Indices: 746713--746777 Score: 103
Period size: 13 Copynumber: 5.0 Consensus size: 13
746703 AATGACGTTC
*
746713 AATGCGCGTCATA
1 AATGCGTGTCATA
746726 AATGCGTGTCATA
1 AATGCGTGTCATA
746739 AATGCGTGTCATA
1 AATGCGTGTCATA
*
746752 AATGCATGTCATA
1 AATGCGTGTCATA
*
746765 AATGCGCGTCATA
1 AATGCGTGTCATA
746778 GATTTATGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:754228 original size:13 final size:13
Alignment explanation
Indices: 754210--754234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
754200 TTAGACAAGC
754210 AGGAAAAGTTCCT
1 AGGAAAAGTTCCT
754223 AGGAAAAGTTCC
1 AGGAAAAGTTCC
754235 AGATTCATAC
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:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (13 bp):
AGGAAAAGTTCCT
Found at i:759098 original size:21 final size:21
Alignment explanation
Indices: 759074--759113 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
759064 AATACTACAC
*
759074 TTGTTTTTAGGTTCAATAGCT
1 TTGTTTTTAGATTCAATAGCT
759095 TTGTTTTTAGATTCAATAG
1 TTGTTTTTAGATTCAATAG
759114 TTTTAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (21 bp):
TTGTTTTTAGATTCAATAGCT
Found at i:761348 original size:28 final size:27
Alignment explanation
Indices: 761308--761360 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
761298 ATAATTTTAA
* *
761308 TTTTTTTATATAATTTTTACATTATTC
1 TTTTTTTAAATAATTATTACATTATTC
*
761335 TTTTTTTAAAATAATTATTACTTTAT
1 TTTTTTT-AAATAATTATTACATTAT
761361 ACTTGAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTTTTAAATAATTATTACATTATTC
Found at i:764202 original size:13 final size:13
Alignment explanation
Indices: 764173--764207 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
764163 ATAACTAATA
*
764173 ATATTAAAT-ATT
1 ATATTAAATAAAT
764185 ATATTAAATAAAT
1 ATATTAAATAAAT
764198 ATATTAAATA
1 ATATTAAATA
764208 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:767211 original size:8 final size:8
Alignment explanation
Indices: 767198--767238 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
767188 CTCATTTTCA
767198 GAGAATTT
1 GAGAATTT
767206 GAGAATTT
1 GAGAATTT
*
767214 -AGAGTTT
1 GAGAATTT
*
767221 GGGAATTT
1 GAGAATTT
767229 GAGAATTT
1 GAGAATTT
767237 GA
1 GA
767239 AAGATTGTGA
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:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:767531 original size:126 final size:126
Alignment explanation
Indices: 767306--767909 Score: 1147
Period size: 126 Copynumber: 4.8 Consensus size: 126
767296 CTATAATCGG
767306 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
767371 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
767432 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
767497 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACAGTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
767558 TTCACTATTCACGTGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
767623 TCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
767683 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
767748 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
767809 TTCATTATTCACGTGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
767874 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
767910 ATAACTTAAA
Statistics
Matches: 470, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
125 123 0.26
126 347 0.74
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:767750 original size:251 final size:251
Alignment explanation
Indices: 767306--767907 Score: 1141
Period size: 251 Copynumber: 2.4 Consensus size: 251
767296 CTATAATCGG
767306 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
767371 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTCA
767436 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
130 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
* *
767501 TGCCCTATTATGTCATTCATGTCCCTCGGGGACAGTAGATATATCAGTACCTATTAT
195 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
767558 TTCACTATTCACGTGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
767623 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGACACTAGATATATCAGTACCTATTATTTCAC
767688 TATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
131 TATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
767753 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
767809 TTCATTATTCACGTGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
767874 TCATTGCCCTATTATGTCACTCATGTCCCTCGGG
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGG
767908 GAATAACTTA
Statistics
Matches: 343, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
251 249 0.73
252 94 0.27
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (251 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGACACTAGATATATCAGTACCTATTATTTCAC
TATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:768358 original size:33 final size:34
Alignment explanation
Indices: 768297--768390 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 34
768287 AAATTTAATG
*
768297 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
768331 TTAAATTT-GAAT-A-AT-A-TTAT-TTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
768358 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
768391 AACATTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 5 0.10
30 3 0.06
31 3 0.06
32 3 0.06
33 8 0.16
34 9 0.18
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:768360 original size:27 final size:28
Alignment explanation
Indices: 768297--768390 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
768287 AAATTTAATG
*
768297 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATA--AT-A-TTAT-TTTT-ATT
768331 TTAAATTT-GAATAATATTATTTTTATT
1 TTAAATTTCGAATAATATTATTTTTATT
* *
768358 TTAAATTTCGAATAATATAATTTGTATT
1 TTAAATTTCGAATAATATTATTTTTATT
768386 TTAAA
1 TTAAA
768391 AACATTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 10 0.18
28 26 0.46
29 4 0.07
30 1 0.02
31 2 0.04
33 5 0.09
34 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (28 bp):
TTAAATTTCGAATAATATTATTTTTATT
Found at i:768998 original size:21 final size:21
Alignment explanation
Indices: 768910--769003 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
768900 TATGGTATAA
*
768910 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
768931 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
768952 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
768973 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
768994 AACCCTGCGG
1 AACCCTGCGG
769004 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:769033 original size:21 final size:21
Alignment explanation
Indices: 769007--769054 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
768997 CCTGCGGAGA
*
769007 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
769028 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
769049 GGGCAT
1 TGGCAT
769055 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:770815 original size:34 final size:31
Alignment explanation
Indices: 770770--770857 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
770760 TTAATAATTC
*
770770 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
770804 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
770835 TATAAAAATAATAACTATTTAAA
1 TAAAAAAATAATAATTATATAAA
770858 AAAATACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 22 0.48
33 2 0.04
34 22 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:770847 original size:31 final size:33
Alignment explanation
Indices: 770770--770848 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
770760 TTAATAATTC
* *
770770 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
770804 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
770835 TATAAAAATAATAA
1 TAAAAAAATAATAA
770849 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 16 0.40
33 2 0.05
34 22 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:770873 original size:33 final size:34
Alignment explanation
Indices: 770803--770878 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
770793 TATTATTTTA
* * *
770803 ATAAAAA-AATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
770836 ATAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAATAATAA-TATTTACATAAAAATACTAAC
770869 ATAAAAATAA
1 ATAAAAATAA
770879 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 26 0.68
34 6 0.16
35 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:773972 original size:22 final size:24
Alignment explanation
Indices: 773930--773977 Score: 73
Period size: 22 Copynumber: 2.0 Consensus size: 24
773920 AACTTTAATT
773930 ATTGAAATGTTGTATTATAATTATA
1 ATTGAAA-GTTGTATTATAATTATA
773955 ATTGAAA-TTGTATT-TAATTATA
1 ATTGAAAGTTGTATTATAATTATA
773977 A
1 A
773978 GTAACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.39
23 7 0.30
25 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTGAAAGTTGTATTATAATTATA
Found at i:777437 original size:34 final size:33
Alignment explanation
Indices: 777392--777457 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 33
777382 AATAGAAATT
777392 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATG
1 ACAACTTCTCTCTGA--TAA-AAGGAGAAAACAATG
777427 ACAA-TTCTCTCTTGATAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAGGAGAAAACAA
777458 CTCTCAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
33 13 0.45
34 10 0.34
35 4 0.14
36 2 0.07
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (33 bp):
ACAACTTCTCTCTGATAAAAGGAGAAAACAATG
Found at i:778492 original size:37 final size:37
Alignment explanation
Indices: 778462--778532 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
778452 GGCAGTAGAG
778462 CATTTGGGAGAGGAAGAGTGATCGAGAGGCAGCAATA
1 CATTTGGGAGAGGAAGAGTGATCGAGAGGCAGCAATA
* *
778499 CATTTGGGAGAGGAAGAGTGATCGAAAGGTAGCA
1 CATTTGGGAGAGGAAGAGTGATCGAGAGGCAGCA
778533 CGACAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.38, T:0.17
Consensus pattern (37 bp):
CATTTGGGAGAGGAAGAGTGATCGAGAGGCAGCAATA
Found at i:779887 original size:5 final size:5
Alignment explanation
Indices: 779877--779913 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
779867 TATTATGTTA
779877 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
779914 TTATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:781254 original size:20 final size:20
Alignment explanation
Indices: 781224--781268 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
781214 AAAGTTACCT
* *
781224 CTTCTTTCTTTATTTTTTTC
1 CTTCTTCCTTTACTTTTTTC
* *
781244 TTTCTTCCTTTCCTTTTTTC
1 CTTCTTCCTTTACTTTTTTC
781264 CTTCT
1 CTTCT
781269 CTGCTTGAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (20 bp):
CTTCTTCCTTTACTTTTTTC
Found at i:783729 original size:66 final size:66
Alignment explanation
Indices: 783576--783961 Score: 255
Period size: 66 Copynumber: 6.0 Consensus size: 66
783566 CGACCAACGA
* * * * * **
783576 GACTAATGAATACATAAAATGTTACCTACT-TTTCAAATTGAACTGAACCTGCAT-AACT-CAAG
1 GACTAATGAATAGATAAAATGTTACCCA-TATTTCAAGTTGAGCTAAACCTAAATAAACTCCAA-
*
783638 CCC
64 CCT
* * * * **
783641 GACCAATGAATATACAAAATGTTACCCATATTTCAGGTTGAGCTAAACC-AGAATAAACTTGAAC
1 GACTAATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTA-AATAAACTCCAAC
783705 CT
65 CT
*
783707 GACTAATGAATAGATAAAATGTTACCCATATTTCAAG-T----TAAACCTAAATAAACT-CAA-A
1 GACTAATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTAAATAAACTCCAACC
783765 T
66 T
** * * * *
783766 -ACAATCAACAAATAGATAAAATGTTACCCATATTTCAAATTAATCTAAACCTAAATAAACTCGA
1 GAC--T-AATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTAAATAAACTCCA
*
783830 ACCC
63 ACCT
* * * * ** * *
783834 GACCAACGAATAGATAAAATGTTGCCTATA-TTCAAGTAAAGTTGAACCTAAATAAACTCCAACC
1 GACTAATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTAAATAAACTCCAACC
783898 T
66 T
* * * * * * * *
783899 AAAC-AATGAATA-A-AAAATATTATCCATATTTCAGGTTGAGCTGAACTTGAATAAACTCGAAC
1 -GACTAATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTAAATAAACTCCAAC
783961 C
65 C
783962 CGACAATAAC
Statistics
Matches: 255, Mismatches: 48, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
58 2 0.01
59 1 0.00
60 3 0.01
61 44 0.17
62 2 0.01
63 11 0.04
64 29 0.11
65 77 0.30
66 80 0.31
67 4 0.02
69 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (66 bp):
GACTAATGAATAGATAAAATGTTACCCATATTTCAAGTTGAGCTAAACCTAAATAAACTCCAACC
T
Found at i:783890 original size:192 final size:190
Alignment explanation
Indices: 783584--783931 Score: 402
Period size: 192 Copynumber: 1.8 Consensus size: 190
783574 GAGACTAATG
* * ** *
783584 AATACATAAAATGTTACCTACTTTTCAAATTGAACTGAACCTGCATAACTCAAGCCCGACCAATG
1 AATACATAAAATGTTACCCACTTTTCAAATTGAACTAAACCTAAATAACTCAAGCCCGACCAACG
* * ** ** *
783649 AATATACAAAATGTTACCCATATTTCAGGTTGAGCTAAACCAGAATAAACTTGAACCT-GACTAA
66 AATAGACAAAATGTTACCCATATTTCAAGTAAAGCTAAACCAGAATAAACTCCAACCTAAAC-AA
*
783713 TGAATAGATAAAATGTTACCCATATTTCAAGTTAAACCTAAATAAACTCAAATACAATCAACA
130 TGAATA-A-AAAATATTACCCATATTTCAAGTTAAACCTAAATAAACTCAAATACAATCAACA
*
783776 AATAGATAAAATGTTACCCA-TATTTCAAATT-AATCTAAACCTAAATAAACTCGAA-CCCGACC
1 AATACATAAAATGTTACCCACT-TTTCAAATTGAA-CTAAACCTAAAT-AACTC-AAGCCCGACC
* * * * *
783838 AACGAATAGATAAAATGTTGCCTATA-TTCAAGTAAAGTTGAACCTA-AATAAACTCCAACCTAA
62 AACGAATAGACAAAATGTTACCCATATTTCAAGTAAAGCTAAACC-AGAATAAACTCCAACCTAA
*
783901 ACAATGAATAAAAAATATTATCCATATTTCA
126 ACAATGAATAAAAAATATTACCCATATTTCA
783932 GGTTGAGCTG
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
190 18 0.14
191 4 0.03
192 70 0.54
193 36 0.28
194 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.27
Consensus pattern (190 bp):
AATACATAAAATGTTACCCACTTTTCAAATTGAACTAAACCTAAATAACTCAAGCCCGACCAACG
AATAGACAAAATGTTACCCATATTTCAAGTAAAGCTAAACCAGAATAAACTCCAACCTAAACAAT
GAATAAAAAATATTACCCATATTTCAAGTTAAACCTAAATAAACTCAAATACAATCAACA
Found at i:783912 original size:127 final size:128
Alignment explanation
Indices: 783656--783965 Score: 328
Period size: 127 Copynumber: 2.4 Consensus size: 128
783646 ATGAATATAC
* * * *
783656 AAAATGTTACCCATATTTCAGGTTGAGCTAAACC-AGAATAAACTTGAACCTGACTAATGAATAG
1 AAAATGTTACCCATATTTCAGGTTGAGCTAAACCTA-AATAAACTCGAACCCGACCAACGAATAG
* *
783720 ATAAAATGTTACCCATATTTCAAGTTAAACCTAAATAAACTCAAATACAATCAACAAATAGAT-
65 ATAAAATGTTACCCATATTTAAAGTTAAACCTAAATAAACTCAAATACAATAAACAAATAGATA
** * *
783783 AAAATGTTACCCATATTTCAAATTAATCTAAACCTAAATAAACTCGAACCCGACCAACGAATAGA
1 AAAATGTTACCCATATTTCAGGTTGAGCTAAACCTAAATAAACTCGAACCCGACCAACGAATAGA
* * * * *
783848 TAAAATGTTGCCTATATTCAAGTAAAGTTGAACCTAAATAAACTC-CA-AC-CTAAAC-AAT-GA
66 TAAAATGTTACCCATATT----TAAAGTTAAACCTAAATAAACTCAAATACAATAAACAAATAG-
783908 ATAA
126 AT-A
* * * * *
783912 AAAATATTATCCATATTTCAGGTTGAGCTGAACTTGAATAAACTCGAACCCGAC
1 AAAATGTTACCCATATTTCAGGTTGAGCTAAACCTAAATAAACTCGAACCCGAC
783966 AATAACGACC
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
126 1 0.01
127 76 0.50
128 5 0.03
129 47 0.31
130 1 0.01
131 21 0.14
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (128 bp):
AAAATGTTACCCATATTTCAGGTTGAGCTAAACCTAAATAAACTCGAACCCGACCAACGAATAGA
TAAAATGTTACCCATATTTAAAGTTAAACCTAAATAAACTCAAATACAATAAACAAATAGATA
Found at i:785406 original size:36 final size:36
Alignment explanation
Indices: 785359--785431 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
785349 CTATTACAAC
785359 ACTGACAATTTTCTTTACCAACTGTGAAAACACATT
1 ACTGACAATTTTCTTTACCAACTGTGAAAACACATT
785395 ACTGACAATTTTCTTTACCAACTGTGAAAACACATT
1 ACTGACAATTTTCTTTACCAACTGTGAAAACACATT
785431 A
1 A
785432 GAACAAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (36 bp):
ACTGACAATTTTCTTTACCAACTGTGAAAACACATT
Found at i:793638 original size:29 final size:29
Alignment explanation
Indices: 793603--793684 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
793593 AAACTAAATT
*
793603 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
793632 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
793661 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
793685 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:798271 original size:29 final size:29
Alignment explanation
Indices: 798236--798317 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
798226 AAACTAAATT
*
798236 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
798265 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
798294 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
798318 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:806459 original size:5 final size:6
Alignment explanation
Indices: 806444--806468 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
806434 AAATTTAAAC
806444 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
806469 TAATTATAAT
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):
AAAAAT
Found at i:807906 original size:16 final size:16
Alignment explanation
Indices: 807885--807917 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
807875 TAATAAATAG
807885 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
807901 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
807917 A
1 A
807918 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:807998 original size:10 final size:10
Alignment explanation
Indices: 807983--808057 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
807973 CATTTAATAA
807983 ATAAACGAAC
1 ATAAACGAAC
807993 ATAAACGAAC
1 ATAAACGAAC
808003 ----ACGAAC
1 ATAAACGAAC
808009 ATAAACGAAC
1 ATAAACGAAC
** *
808019 ACGAAC-ATAA
1 ATAAACGA-AC
808029 ATGAACACGAAC
1 AT-AA-ACGAAC
808041 ATAAACGAAC
1 ATAAACGAAC
808051 ATAAACG
1 ATAAACG
808058 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:808008 original size:16 final size:16
Alignment explanation
Indices: 807987--808051 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
807977 TAATAAATAA
807987 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
808003 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
808019 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
808035 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
808051 A
1 A
808052 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:808822 original size:14 final size:14
Alignment explanation
Indices: 808805--808850 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
808795 AATGAACATA
808805 AACGAACATAATCG
1 AACGAACATAATCG
*
808819 AACGAACATAACCG
1 AACGAACATAATCG
808833 AACGAACATAATCG
1 AACGAACATAATCG
808847 AACG
1 AACG
808851 TTCACGAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:808825 original size:24 final size:26
Alignment explanation
Indices: 808785--808850 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
808775 GATTGGGTTA
*
808785 AACATAAAT-GAATGAACAT-A-AACG
1 AACAT-AATCGAACGAACATAACAACG
808809 AACATAATCGAACGAACATAACCGAACG
1 AACATAATCGAACGAACATAA-C-AACG
808837 AACATAATCGAACG
1 AACATAATCGAACG
808851 TTCACGAACG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 3 0.08
24 14 0.39
25 1 0.03
28 18 0.50
ACGTcount: A:0.53, C:0.20, G:0.14, T:0.14
Consensus pattern (26 bp):
AACATAATCGAACGAACATAACAACG
Found at i:809098 original size:15 final size:14
Alignment explanation
Indices: 809064--809095 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
809054 TTTATAGTAA
*
809064 TTTTGAAAAATATT
1 TTTTAAAAAATATT
809078 TTTTAAAAAATATT
1 TTTTAAAAAATATT
809092 TTTT
1 TTTT
809096 TAACTCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:809670 original size:20 final size:20
Alignment explanation
Indices: 809611--809673 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
809601 AATATAAATA
809611 AAATATTTTCATATTTTTAAT
1 AAATATTTTCATATTTTT-AT
*
809632 AAATAATTTCATATGTTTTAT
1 AAATATTTTCATAT-TTTTAT
*
809653 AAATATTTTCAGATTTTTAT
1 AAATATTTTCATATTTTTAT
809673 A
1 A
809674 TTCCTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.18
21 27 0.71
22 4 0.11
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
AAATATTTTCATATTTTTAT
Found at i:810937 original size:33 final size:33
Alignment explanation
Indices: 810886--810950 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
810876 CAACTATCCG
810886 ACATCTACATGTCACTTACAGTCAAACTTTTGA
1 ACATCTACATGTCACTTACAGTCAAACTTTTGA
*
810919 ACATCTAGATCGTC-CTTACAGTCAAACTTTTG
1 ACATCTACAT-GTCACTTACAGTCAAACTTTTG
810951 GATAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (33 bp):
ACATCTACATGTCACTTACAGTCAAACTTTTGA
Found at i:815460 original size:60 final size:60
Alignment explanation
Indices: 815317--815463 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 60
815307 AAATTAGGGT
* * * *
815317 AAAG-TATATAAATGGTCACATGACTATATGGTGTTACTTTGTCAAGTCCTCCAACTATTA
1 AAAGTTATA-AAATGGTCACCTAACTATATGGTGTTACTTTGTCAAATCATCCAACTATTA
* * * ** * * * *
815377 AAAATTACAAAATGATCTTCTAACTATA-GGATGTTGCTTTGTTAAATTATCCGACTATTA
1 AAAGTTATAAAATGGTCACCTAACTATATGG-TGTTACTTTGTCAAATCATCCAACTATTA
815437 AAAGTTATAAAATGGTCACCTAACTAT
1 AAAGTTATAAAATGGTCACCTAACTAT
815464 TCATTATGTT
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
59 2 0.03
60 62 0.93
61 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (60 bp):
AAAGTTATAAAATGGTCACCTAACTATATGGTGTTACTTTGTCAAATCATCCAACTATTA
Found at i:816696 original size:25 final size:26
Alignment explanation
Indices: 816661--816720 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
816651 AGTTTTCGAG
816661 TCGAGTCGAGTCT-ATTTCAAAGTTT
1 TCGAGTCGAGTCTCATTTCAAAGTTT
* * *
816686 TCGAGTTGAGTTTCATTTCAGAGTTT
1 TCGAGTCGAGTCTCATTTCAAAGTTT
*
816712 TCGAATCGA
1 TCGAGTCGA
816721 ATTGAGCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (26 bp):
TCGAGTCGAGTCTCATTTCAAAGTTT
Found at i:818561 original size:13 final size:13
Alignment explanation
Indices: 818536--818578 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
818526 TTCATACGTA
818536 ATTTAT-TTA-TT
1 ATTTATATTATTT
818547 ATTTATATTATTT
1 ATTTATATTATTT
*
818560 ATTTATATTTTTT
1 ATTTATATTATTT
*
818573 AATTAT
1 ATTTAT
818579 TTACTTACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 19 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTATATTATTT
Found at i:818859 original size:31 final size:31
Alignment explanation
Indices: 818821--818918 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
818811 TTATTTTTAC
* *
818821 TTTAACCTCTGAACTTGT-GATAACATATTAA
1 TTTAACCTCTAAACTT-TAGATAACATATCAA
* *
818852 TTTAACCTTTAAACTTTAGATAATATATCAA
1 TTTAACCTCTAAACTTTAGATAACATATCAA
** *
818883 TTTAA-CTCTTAAAAATTAGATAAAATATCAA
1 TTTAACCTC-TAAACTTTAGATAACATATCAA
818914 TTTAA
1 TTTAA
818919 TCCATAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
30 3 0.05
31 54 0.95
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
TTTAACCTCTAAACTTTAGATAACATATCAA
Found at i:820206 original size:19 final size:19
Alignment explanation
Indices: 820167--820208 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
820157 AAAACCTTAT
* *
820167 TTTTAGGTTGGAAATCTGA
1 TTTTAGGTTGGAAACCAGA
820186 TTTTAGGTTGGAAACCAGA
1 TTTTAGGTTGGAAACCAGA
820205 TTTT
1 TTTT
820209 TTTACGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (19 bp):
TTTTAGGTTGGAAACCAGA
Found at i:820405 original size:68 final size:68
Alignment explanation
Indices: 820299--820586 Score: 253
Period size: 68 Copynumber: 4.2 Consensus size: 68
820289 CAATGTTGGG
* * * * * *
820299 ATTAGAGTGACTAGCACGGAAGCATCTAATCATATTATTCCGGGTGACTCGCACGGGAGTCCCGA
1 ATTAGAATGACTCGCATGGAAGCACCTAATCATATTATTCCGGGTGACTCACACGGAAGTCCCGA
*
820364 GGG
66 GGA
* * *
820367 ATTAGAATGACTCGCATGGAAGCACCTAATCAAATTATTCCGGGTGACTCACATGGAAGTCCAGA
1 ATTAGAATGACTCGCATGGAAGCACCTAATCATATTATTCCGGGTGACTCACACGGAAGTCCCGA
**
820432 TAA
66 GGA
* * * *
820435 ATTAGAGA-GACTCGCA-CGAGAGAACTTAATCATATTATTCCGGGTGACTCGCACGAGAA--CC
1 ATTAGA-ATGACTCGCATGGA-AGCACCTAATCATATTATTCCGGGTGACTCACACG-GAAGTCC
* *
820496 ACAATGA
63 -CGAGGA
* * * * ** *
820503 ATTAGAGTAACTCGTATAGAAGCACCTAATCATATTATTCTAGGTGACTCACATGGAAGTCCCGA
1 ATTAGAATGACTCGCATGGAAGCACCTAATCATATTATTCCGGGTGACTCACACGGAAGTCCCGA
**
820568 TAA
66 GGA
820571 ATTAGAGA-GACTCGCA
1 ATTAGA-ATGACTCGCA
820587 CGAGAACCAC
Statistics
Matches: 175, Mismatches: 36, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
67 7 0.04
68 160 0.91
69 8 0.05
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (68 bp):
ATTAGAATGACTCGCATGGAAGCACCTAATCATATTATTCCGGGTGACTCACACGGAAGTCCCGA
GGA
Found at i:820549 original size:136 final size:136
Alignment explanation
Indices: 820325--820591 Score: 401
Period size: 136 Copynumber: 2.0 Consensus size: 136
820315 CGGAAGCATC
* * * * * *
820325 TAATCATATTATTCCGGGTGACTCGCACGGGAGTCCCGAGGGATTAGAATGACTCGCATGGAAGC
1 TAATCATATTATTCCGGGTGACTCGCACGAGAGACCCAAGGAATTAGAATAACTCGCATAGAAGC
*
820390 ACCTAATCAAATTATTCCGGGTGACTCACATGGAAGTCCAGATAAATTAGAGAGACTCGCACGAG
66 ACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGATAAATTAGAGAGACTCGCACGAG
820455 AGAACT
131 AGAACT
* * *
820461 TAATCATATTATTCCGGGTGACTCGCACGAGA-ACCACAATGAATTAGAGTAACTCGTATAGAAG
1 TAATCATATTATTCCGGGTGACTCGCACGAGAGACC-CAAGGAATTAGAATAACTCGCATAGAAG
* * *
820525 CACCTAATCATATTATTCTAGGTGACTCACATGGAAGTCCCGATAAATTAGAGAGACTCGCACGA
65 CACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGATAAATTAGAGAGACTCGCACGA
820590 GA
130 GA
820592 ACCACAATGA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
135 2 0.02
136 115 0.98
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (136 bp):
TAATCATATTATTCCGGGTGACTCGCACGAGAGACCCAAGGAATTAGAATAACTCGCATAGAAGC
ACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGATAAATTAGAGAGACTCGCACGAG
AGAACT
Found at i:820640 original size:136 final size:133
Alignment explanation
Indices: 820367--820622 Score: 338
Period size: 136 Copynumber: 1.9 Consensus size: 133
820357 GTCCCGAGGG
* * *
820367 ATTAGAATGACTCGCATGGAAGCACCTAATCAAATTATTCCGGGTGACTCACATGGAAGTCCAGA
1 ATTAGAATAACTCGCATAGAAGCACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGA
** *
820432 TAAATTAGAGAGACTCGCACGAGAGAACTTAATCATATTATTCCGGGTGACTCGCACGAGAACCA
66 TAAATTAGAGAGACTCGCACGAGAGAACACAATCATATTA---CGAGTGACTCGCACGAGAACCA
820497 CAATGA
128 CAATGA
* * * * *
820503 ATTAGAGTAACTCGTATAGAAGCACCTAATCATATTATTCTAGGTGACTCACATGGAAGTCCCGA
1 ATTAGAATAACTCGCATAGAAGCACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGA
* * *
820568 TAAATTAGAGAGACTCGCACGAGA-ACCACAATGA-ATTA-GAGTGGCTCGCACGAGA
66 TAAATTAGAGAGACTCGCACGAGAGAACACAATCATATTACGAGTGACTCGCACGAGA
820623 GCACCTAATC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
130 15 0.14
134 4 0.04
135 6 0.06
136 81 0.76
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (133 bp):
ATTAGAATAACTCGCATAGAAGCACCTAATCAAATTATTCCAGGTGACTCACATGGAAGTCCAGA
TAAATTAGAGAGACTCGCACGAGAGAACACAATCATATTACGAGTGACTCGCACGAGAACCACAA
TGA
Found at i:827159 original size:10 final size:10
Alignment explanation
Indices: 827144--827184 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
827134 TTTTATCACA
827144 TCAAATTCTC
1 TCAAATTCTC
827154 TCAAATTCTC
1 TCAAATTCTC
827164 T-AAATTTCTC
1 TCAAA-TTCTC
*
827174 TCAAATACTC
1 TCAAATTCTC
827184 T
1 T
827185 ATCTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:827408 original size:111 final size:110
Alignment explanation
Indices: 827282--827606 Score: 495
Period size: 103 Copynumber: 3.0 Consensus size: 110
827272 TGTAAATCAT
* * *
827282 ATATCTCTAAACTTTGTTGATACGATAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACG-TAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
827347 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
827393 ATATCTCGACACTTTGCTGATACGGTAATATTTTAA---TTTAATTT-A---AAA-TATTAGTAA
1 ATATCTCGACACTTTGCTGATAC-GTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
827450 TAATTAGTTTATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
827496 ATATCTCGACACTTTACTAATACTGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATAC-GTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
827561 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
827607 TTTTTATAAT
Statistics
Matches: 195, Mismatches: 10, Indels: 18
0.87 0.04 0.08
Matches are distributed among these distances:
103 85 0.44
104 3 0.02
106 8 0.04
107 2 0.01
108 8 0.04
110 3 0.02
111 85 0.44
112 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (110 bp):
ATATCTCGACACTTTGCTGATACGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
AATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:834097 original size:60 final size:61
Alignment explanation
Indices: 833951--834079 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 61
833941 CAAGATTAGG
** *
833951 GACTAATTTAGAATGTTATTCATAG-TTTGGGTATGAAATTAGAATGTTCAAAAGTTTAAA
1 GACTAATTTAGAATGAAAGTCATAGTTTTGGGTATGAAATTAGAATGTTCAAAAGTTTAAA
* * *
834011 GACTAATTTAGAATGAAAGTCTTAGTTTTGGG-ATGAAATTGGAATGTTTAAAAGTTT-AA
1 GACTAATTTAGAATGAAAGTCATAGTTTTGGGTATGAAATTAGAATGTTCAAAAGTTTAAA
834070 GAACTAATTT
1 G-ACTAATTT
834080 GAAATGAGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 3 0.05
60 52 0.85
61 6 0.10
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (61 bp):
GACTAATTTAGAATGAAAGTCATAGTTTTGGGTATGAAATTAGAATGTTCAAAAGTTTAAA
Found at i:838089 original size:30 final size:31
Alignment explanation
Indices: 838055--838124 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
838045 TAATCGTTAT
* *
838055 AACCGTTATATTTAACAGG-TT-AATTAATCG
1 AACCGTTATATTAAAC-GGTTTCAATTAACCG
*
838085 AACCGTTAATATTAAACGGTTTCGATTAACCG
1 AACCGTT-ATATTAAACGGTTTCAATTAACCG
838117 AACCGTTA
1 AACCGTTA
838125 AAAATGACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 9 0.26
31 11 0.32
32 14 0.41
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (31 bp):
AACCGTTATATTAAACGGTTTCAATTAACCG
Found at i:838501 original size:51 final size:50
Alignment explanation
Indices: 838446--838676 Score: 242
Period size: 51 Copynumber: 4.6 Consensus size: 50
838436 CTTATATCGG
* *
838446 TGTAAGTATGTGTTAAGTGCTACGCTTTTTTATTTTATTTACTTACACCA
1 TGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCA
* *
838496 TTGTAAGTATGTGTTAAGTG-T-TA--TATTT-TTTTATTCACTTACACC-
1 -TGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCA
* * *
838541 GGTATAGTATGTGTTAAGTGCTACACTCTTTTTGTTTTATTCACTTACA-TA
1 TGTA-AGTATGTGTTAAGTGCTACACT-TTTTTATTTTATTCACTTACACCA
* * *
838592 GGTGTAAGTATATGTTAAGTGCTACACTTGTTTATTTTATTCACTTATACCGA
1 --TGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACC-A
* * *
838645 TGTAAGTATGTGTTTAGTGCTATATTTTTTTA
1 TGTAAGTATGTGTTAAGTGCTACACTTTTTTA
838677 GTATGAATTA
Statistics
Matches: 149, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
44 3 0.02
45 15 0.10
46 17 0.11
47 5 0.03
50 5 0.03
51 79 0.53
52 21 0.14
53 4 0.03
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (50 bp):
TGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCA
Found at i:838601 original size:97 final size:100
Alignment explanation
Indices: 838447--838676 Score: 265
Period size: 97 Copynumber: 2.3 Consensus size: 100
838437 TTATATCGGT
* * * *
838447 GTAAGTATGTGTTAAGTGCTACGCTTTTTTATTTTATTTACTTACACCATTGTAAGTATGTGTTA
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCAGTGTAAGTATATGTTA
*
838512 AGTG-T-TA-TATTT-TTTTATTCACTTACACCG-
66 AGTGCTACACTATTTATTTTATTCACTTACACCGA
* *
838542 GTATAGTATGTGTTAAGTGCTACACTCTTTTTGTTTTATTCACTTACA-TAGGTGTAAGTATATG
1 GTA-AGTATGTGTTAAGTGCTACACT-TTTTTATTTTATTCACTTACACCA-GTGTAAGTATATG
* *
838606 TTAAGTGCTACACTTGTTTATTTTATTCACTTATACCGA
63 TTAAGTGCTACAC-TATTTATTTTATTCACTTACACCGA
* * *
838645 TGTAAGTATGTGTTTAGTGCTATATTTTTTTA
1 -GTAAGTATGTGTTAAGTGCTACACTTTTTTA
838677 GTATGAATTA
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
95 3 0.03
96 22 0.20
97 37 0.33
98 1 0.01
99 1 0.01
101 4 0.04
102 22 0.20
103 19 0.17
104 3 0.03
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (100 bp):
GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCAGTGTAAGTATATGTTA
AGTGCTACACTATTTATTTTATTCACTTACACCGA
Found at i:839628 original size:3 final size:3
Alignment explanation
Indices: 839620--839661 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
839610 GGGTTATTTA
*
839620 TAT TAT TAT TATT TAA TATT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
839662 CAAGCCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.79
4 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:839650 original size:23 final size:22
Alignment explanation
Indices: 839614--839656 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
839604 TTGTATGGGT
839614 TATTTATATTATTATTATTTAA
1 TATTTATATTATTATTATTTAA
839636 TATTTATTATTATTATTATTT
1 TATTTA-TATTATTATTATTT
839657 TATTACAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTATATTATTATTATTTAA
Found at i:841844 original size:14 final size:14
Alignment explanation
Indices: 841813--841845 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
841803 TCATTTTTTG
841813 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
841827 TTTTCTTAAAATTAT
1 TTTT-TTAAAATTAT
841842 TTTT
1 TTTT
841846 AAAGGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:844378 original size:21 final size:21
Alignment explanation
Indices: 844350--844390 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
844340 ATTTTAAAGA
844350 AATTTTTAA-TGATTAAAAAT
1 AATTTTTAAGTGATTAAAAAT
*
844370 AATTATTTAAGTTATTAAAAA
1 AATT-TTTAAGTGATTAAAAA
844391 ACTGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
AATTTTTAAGTGATTAAAAAT
Found at i:844856 original size:11 final size:10
Alignment explanation
Indices: 844839--844866 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
844829 TGAGTATGCA
844839 ATTTTTTTTT
1 ATTTTTTTTT
844849 ATTTTTTTTT
1 ATTTTTTTTT
844859 ATTTTTTT
1 ATTTTTTT
844867 CTTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:857044 original size:21 final size:21
Alignment explanation
Indices: 857014--857058 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
857004 ATTCTGTCGT
* *
857014 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
857035 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
857056 TTG
1 TTG
857059 CCCATAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:860040 original size:31 final size:31
Alignment explanation
Indices: 860002--860151 Score: 177
Period size: 31 Copynumber: 5.0 Consensus size: 31
859992 CCCGAAGGAC
*
860002 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAT
* * *
860033 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAT
*
860064 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAT
* *
860095 CAGTCCATATG-TCC--CGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAT
860123 CAGTCCATATG-TCC-AGAGAACATAGGTAA
1 CAGTCCATATGTTCCGA-AGAACATAGGTAA
860152 ACCCTCCACC
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
28 26 0.25
30 15 0.14
31 62 0.60
32 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAT
Found at i:860099 original size:62 final size:59
Alignment explanation
Indices: 860002--860151 Score: 216
Period size: 62 Copynumber: 2.5 Consensus size: 59
859992 CCCGAAGGAC
*
860002 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCG-A--ACATAGGTAAA
*
860064 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAACATAGGTAAA
860123 CAGTCCATATG-TCC-AGAGAACATAGGTAA
1 CAGTCCATATGTTCCGA-AGAACATAGGTAA
860152 ACCCTCCACC
Statistics
Matches: 83, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
57 1 0.01
58 16 0.19
59 21 0.25
61 1 0.01
62 43 0.52
63 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (59 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAACATAGGTAAA
Found at i:860357 original size:23 final size:24
Alignment explanation
Indices: 860331--860377 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
860321 ATACACTTGT
*
860331 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
860354 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
860378 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:860998 original size:21 final size:21
Alignment explanation
Indices: 860968--861012 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
860958 ATTCTGTCGT
* *
860968 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
860989 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
861010 TTG
1 TTG
861013 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:863991 original size:31 final size:31
Alignment explanation
Indices: 863953--864102 Score: 188
Period size: 31 Copynumber: 5.0 Consensus size: 31
863943 CCCGAAGGAC
* *
863953 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
*
863984 CAGTCCATATG-TCC--CG-ACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
864011 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
864042 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
864073 CAGTCCATATG-TCC-AAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
864102 C
1 C
864103 CCTCCACCCT
Statistics
Matches: 104, Mismatches: 10, Indels: 12
0.83 0.08 0.10
Matches are distributed among these distances:
27 19 0.18
28 4 0.04
29 16 0.15
30 6 0.06
31 58 0.56
32 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:864026 original size:58 final size:60
Alignment explanation
Indices: 863953--864100 Score: 216
Period size: 58 Copynumber: 2.5 Consensus size: 60
863943 CCCGAAGGAC
*
863953 CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCC-G-ACATAGGTAAA
1 CAGTCCATATG-TTCCGAAGAACATAGGTAATCAGTCCATATGTCCCAGAACATAGGTAAA
*
864011 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCC--AGAACATAGGTAAA
864073 CAGTCCATATG-TCC-AAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
864101 ACCCTCCACC
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
58 42 0.51
59 1 0.01
60 14 0.17
61 4 0.05
62 21 0.26
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (60 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCAGAACATAGGTAAA
Found at i:864304 original size:23 final size:24
Alignment explanation
Indices: 864278--864324 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
864268 ATACACTTGT
*
864278 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
864301 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
864325 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:864964 original size:21 final size:20
Alignment explanation
Indices: 864921--864960 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
864911 ATTCTGTCGT
* *
864921 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
864941 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
864961 CTTGCCCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:867986 original size:31 final size:31
Alignment explanation
Indices: 867904--868052 Score: 179
Period size: 31 Copynumber: 5.0 Consensus size: 31
867894 CCCGAAGGAC
* *
867904 CAGTCCATA--TTCCGAAGAACCTAGGT-AT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
867932 CAGTCCATATG-TCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
* *
867962 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
867993 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
868024 CAGTCC--ATG-TCCAGAA-AACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
868052 C
1 C
868053 CTCGACCCCT
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
28 24 0.23
29 20 0.19
30 11 0.10
31 51 0.48
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:868023 original size:62 final size:59
Alignment explanation
Indices: 867904--868050 Score: 210
Period size: 60 Copynumber: 2.5 Consensus size: 59
867894 CCCGAAGGAC
* * *
867904 CAGTCCATATTCCGAAGAACCTAGGT-ATCAGTCCATATGTCCGAAGGACATAGGTAAA
1 CAGTCCATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCGAAGAACATAGGTAAA
867962 CAGTCCGTATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCC--ATGTTCCGAAGAACATAGGTAATCAGTCCATATGT-CCGAAGAACATAGGTAAA
868024 CAGTCCATG-TCCAGAA-AACATAGGTAA
1 CAGTCCATGTTCC-GAAGAACATAGGTAA
868051 ACCTCGACCC
Statistics
Matches: 81, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
58 6 0.07
59 14 0.17
60 24 0.30
61 14 0.17
62 23 0.28
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (59 bp):
CAGTCCATGTTCCGAAGAACATAGGTAATCAGTCCATATGTCCGAAGAACATAGGTAAA
Found at i:868891 original size:21 final size:20
Alignment explanation
Indices: 868861--868904 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
868851 ATTCTGTCGT
* *
868861 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
868881 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
868902 TTG
1 TTG
868905 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Done.