Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008100.1 Hibiscus syriacus cultivar Beakdansim tig00110630_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: 1372717
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 5 of 7
Found at i:830280 original size:30 final size:30
Alignment explanation
Indices: 830246--830431 Score: 87
Period size: 30 Copynumber: 6.1 Consensus size: 30
830236 TTAAATTAAG
830246 ATCTTAAAATTTAAAATATATTTTATTTTT
1 ATCTTAAAATTTAAAATATATTTTATTTTT
* * * *
830276 ATCTT-AACTTATTAAATATTTTTTAATTTT
1 ATCTTAAAATT-TAAAATATATTTTATTTTT
** * **
830306 AAGTTAAAAATATAAACATAT-TCAATATATTTT
1 ATCTT-AAAATTTAAA-ATATAT-TTTAT-TTTT
* * * *
830339 ATTCTTATTTTAATTTAAAAAATATTTTAGTCTT
1 A-TCTTA---AAATTTAAAATATATTTTATTTTT
*
830373 AT-TT--AACTTAAGAA-ATATTTTATTTTT
1 ATCTTAAAATTTAA-AATATATTTTATTTTT
* * *
830400 ATCTTAACATATGAAATATATTTTATTTTT
1 ATCTTAAAATTTAAAATATATTTTATTTTT
830430 AT
1 AT
830432 TTTTATTTAA
Statistics
Matches: 112, Mismatches: 28, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
27 19 0.17
28 4 0.04
29 6 0.05
30 42 0.38
31 4 0.04
32 11 0.10
33 7 0.06
34 6 0.05
35 5 0.04
36 8 0.07
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
ATCTTAAAATTTAAAATATATTTTATTTTT
Found at i:830388 original size:27 final size:27
Alignment explanation
Indices: 830332--830451 Score: 105
Period size: 28 Copynumber: 4.3 Consensus size: 27
830322 CATATTCAAT
* *
830332 ATATTTTATTCTTATTTTAATTTAAAAA
1 ATATTTTATTCTTA-TTTAACTTAAGAA
*
830360 ATATTTTAGTCTTATTTAACTTAAGAA
1 ATATTTTATTCTTATTTAACTTAAGAA
* * *
830387 ATATTTTATTTTTATCTTAACATATGAAA
1 ATATTTTATTCTTAT-TTAACTTAAG-AA
* * * *
830416 TATATTTTATTTTTATTTTTATTTAAGAT
1 -ATATTTTATTCTTA-TTTAACTTAAGAA
830445 ATATTTT
1 ATATTTT
830452 TAAAAGTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
27 24 0.32
28 28 0.37
29 3 0.04
30 20 0.26
31 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATTTTATTCTTATTTAACTTAAGAA
Found at i:830448 original size:28 final size:28
Alignment explanation
Indices: 830330--830451 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 28
830320 AACATATTCA
*
830330 ATATATTTTATTCTTATTTTAATTTAAA
1 ATATATTTTATTCTTATTTTAATTTAAG
* * *
830358 AAATATTTTAGTCTTA-TTTAACTTAAG
1 ATATATTTTATTCTTATTTTAATTTAAG
* * * *
830385 AAATATTTTATTTTTATCTTAACATATGAA-
1 ATATATTTTATTCTTAT-TTTA-AT-TTAAG
* *
830415 ATATATTTTATTTTTATTTTTATTTAAG
1 ATATATTTTATTCTTATTTTAATTTAAG
830443 ATATATTTT
1 ATATATTTT
830452 TAAAAGTTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 26 0.34
28 25 0.33
29 5 0.07
30 17 0.22
31 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (28 bp):
ATATATTTTATTCTTATTTTAATTTAAG
Found at i:830477 original size:31 final size:29
Alignment explanation
Indices: 830439--830511 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
830429 TATTTTTATT
*
830439 TAAGATATATTTTTAAAAGTTAATATAACAA
1 TAAGATATATTTTT--AAGTTAAAATAACAA
* *
830470 TAAGATATA-TTTTAAGTTAAAATAATAT
1 TAAGATATATTTTTAAGTTAAAATAACAA
*
830498 TAAAATATATTTTT
1 TAAGATATATTTTT
830512 TCAAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 20 0.54
29 4 0.11
30 4 0.11
31 9 0.24
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (29 bp):
TAAGATATATTTTTAAGTTAAAATAACAA
Found at i:830505 original size:28 final size:28
Alignment explanation
Indices: 830455--830568 Score: 108
Period size: 28 Copynumber: 4.1 Consensus size: 28
830445 ATATTTTTAA
* * *
830455 AAGTTAATATAACAATAAGATATATTTT
1 AAGTTAAAATAAAAATAAAATATATTTT
* *
830483 AAGTTAAAATAATATTAAAATATATTTT
1 AAGTTAAAATAAAAATAAAATATATTTT
*
830511 ---TTCAAATAAAAATAAAAATATATTTAAT
1 AAGTTAAAATAAAAAT-AAAATATATTT--T
* *
830539 AAGTTAAGATAAAAATAAAATATTTTTT
1 AAGTTAAAATAAAAATAAAATATATTTT
830567 AA
1 AA
830569 TTTTAAGATG
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
25 10 0.14
26 11 0.16
28 28 0.40
30 10 0.14
31 11 0.16
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (28 bp):
AAGTTAAAATAAAAATAAAATATATTTT
Found at i:831805 original size:18 final size:18
Alignment explanation
Indices: 831782--831846 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
831772 ATGATAAACA
831782 ATATCATACATAGTAGTC
1 ATATCATACATAGTAGTC
* **
831800 ATATCAAAGTCAT-GATAAAC
1 ATATCATA--CATAG-TAGTC
*
831820 AATATCATACATAATAGTC
1 -ATATCATACATAGTAGTC
831839 ATATCATA
1 ATATCATA
831847 TTATTTTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 6 0.17
21 7 0.20
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (18 bp):
ATATCATACATAGTAGTC
Found at i:831805 original size:39 final size:39
Alignment explanation
Indices: 831762--831844 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
831752 CTCATGATTT
*
831762 TATCAAAACCATGATAAACAATATCATACATAGTAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
**
831801 TATCAAAGTCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
831840 TATCA
1 TATCA
831845 TATTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATACATAATAGTCA
Found at i:832011 original size:19 final size:18
Alignment explanation
Indices: 831979--832025 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
831969 TTCCAGACTC
*
831979 AACTTATTTCAGATTCAT
1 AACTTATTTTAGATTCAT
831997 AACTTAATTTTAGATTCAT
1 AACTT-ATTTTAGATTCAT
*
832016 AGCTTATTTT
1 AACTTATTTT
832026 CAAGTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (18 bp):
AACTTATTTTAGATTCAT
Found at i:832865 original size:83 final size:83
Alignment explanation
Indices: 832726--832889 Score: 256
Period size: 83 Copynumber: 2.0 Consensus size: 83
832716 AAAGTTGACT
* * * * *
832726 TACAGAAGCAGTTTTGAGCATAATCTATTGCACTGTTTTCTGACCTATCCTCGATTAAAACTTCA
1 TACAGAAGCAGTATTGAGCAGAATCTACTGCACTATTTTCTGACCTATCATCGATTAAAACTTCA
832791 TATCTTTTTGTATACTTC
66 TATCTTTTTGTATACTTC
* * *
832809 TACAGAAGCTGTATTGAGCAGAATCTACTGCCCTATTTTCTGACCTATCATTGATTAAAACTTCA
1 TACAGAAGCAGTATTGAGCAGAATCTACTGCACTATTTTCTGACCTATCATCGATTAAAACTTCA
832874 TATCTTTTTGTATACT
66 TATCTTTTTGTATACT
832890 CCTTGAAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (83 bp):
TACAGAAGCAGTATTGAGCAGAATCTACTGCACTATTTTCTGACCTATCATCGATTAAAACTTCA
TATCTTTTTGTATACTTC
Found at i:836846 original size:22 final size:22
Alignment explanation
Indices: 836821--836862 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
836811 ATATGAAATT
836821 TGTCCCAAAGGACCTATGTATA
1 TGTCCCAAAGGACCTATGTATA
**
836843 TGTCCTGAAGGACCTATGTA
1 TGTCCCAAAGGACCTATGTA
836863 ACACTCGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (22 bp):
TGTCCCAAAGGACCTATGTATA
Found at i:837551 original size:15 final size:15
Alignment explanation
Indices: 837531--837560 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
837521 ATACCTCCCT
*
837531 TATGGTATCGGTACC
1 TATGGTATCAGTACC
837546 TATGGTATCAGTACC
1 TATGGTATCAGTACC
837561 ACTTCCAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
TATGGTATCAGTACC
Found at i:837698 original size:20 final size:21
Alignment explanation
Indices: 837679--837717 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
837669 ACCCTAAAAT
837679 TACTTCAT-TC-TAACTCAAA
1 TACTTCATATCTTAACTCAAA
*
837698 TCCTTCATATCTTAACTCAA
1 TACTTCATATCTTAACTCAA
837718 GGATACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.38
Consensus pattern (21 bp):
TACTTCATATCTTAACTCAAA
Found at i:841525 original size:22 final size:22
Alignment explanation
Indices: 841497--841538 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
841487 CATGTGAATT
841497 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAATGACCTATGTATA
841519 TGTCCCGAATGACCTATGTA
1 TGTCCCGAATGACCTATGTA
841539 ACCCTCGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (22 bp):
TGTCCCGAATGACCTATGTATA
Found at i:849014 original size:34 final size:34
Alignment explanation
Indices: 848930--849016 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 34
848920 TGTGAATATG
* * *
848930 TGTGGACAAGTTGAGTTATCAGGTTGTCCTTATA
1 TGTGGACGAGTAGAGTTATCACGTTGTCCTTATA
* * * *
848964 TGTGGATGAGTGGAGTTATCTCGTTGTCCTTATG
1 TGTGGACGAGTAGAGTTATCACGTTGTCCTTATA
**
848998 TGTTTACGAGTAGAGTTAT
1 TGTGGACGAGTAGAGTTAT
849017 TTCTCTGTCT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (34 bp):
TGTGGACGAGTAGAGTTATCACGTTGTCCTTATA
Found at i:850335 original size:21 final size:21
Alignment explanation
Indices: 850268--850342 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
850258 ATTTTTCATA
* * *
850268 AAAAGGATCGATCACTTGCTC
1 AAAAGGATCGATCATTTACCC
* **
850289 AAAAGGATCGATCCCTTTAGGC
1 AAAAGGATCGAT-CATTTACCC
*
850311 -AAAGGATCGATCATTTTCCC
1 AAAAGGATCGATCATTTACCC
850331 AAAA-GATCGATC
1 AAAAGGATCGATC
850343 CCACACTCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 13 0.30
21 26 0.60
22 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (21 bp):
AAAAGGATCGATCATTTACCC
Found at i:853834 original size:23 final size:23
Alignment explanation
Indices: 853808--853852 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
853798 CACCACAGCT
*
853808 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
853831 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
853853 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:861285 original size:23 final size:23
Alignment explanation
Indices: 861259--861303 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
861249 CACCACAGCT
*
861259 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
861282 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
861304 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:862847 original size:26 final size:26
Alignment explanation
Indices: 862811--862862 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
862801 GGAGGATGTT
862811 ACATTGGTCCTCTATATATAAATTGC
1 ACATTGGTCCTCTATATATAAATTGC
862837 ACATTGGTCCTCTATATATAAATTGC
1 ACATTGGTCCTCTATATATAAATTGC
862863 CCAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (26 bp):
ACATTGGTCCTCTATATATAAATTGC
Found at i:865047 original size:17 final size:17
Alignment explanation
Indices: 865021--865064 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
865011 AACCAGTTTT
*
865021 TGTATGTATTCTGGAAA
1 TGTATATATTCTGGAAA
865038 TGTATATATTCTGGAAA
1 TGTATATATTCTGGAAA
865055 TGTATATATT
1 TGTATATATT
865065 AATTGTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (17 bp):
TGTATATATTCTGGAAA
Found at i:870130 original size:22 final size:22
Alignment explanation
Indices: 870102--870155 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
870092 ATCTACATGC
*
870102 TTCAAAGATGATAGATTATCTT
1 TTCAAAGATGAAAGATTATCTT
* *
870124 TTCAAAGATGAAAGATTCTTTT
1 TTCAAAGATGAAAGATTATCTT
870146 TTCAAAGATG
1 TTCAAAGATG
870156 GAAGCTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGAAAGATTATCTT
Found at i:870959 original size:20 final size:20
Alignment explanation
Indices: 870931--871004 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
870921 TCTACAAAAT
* *
870931 TAAAGCCTCTGGGTCATTTG
1 TAAATCCTCTGGGTAATTTG
* *
870951 TAAATCCTCCGGGTAATTTC
1 TAAATCCTCTGGGTAATTTG
*
870971 TAAAACCT-TCGGGTAATTTG
1 TAAATCCTCT-GGGTAATTTG
*
870991 TAAATCCTTTGGGT
1 TAAATCCTCTGGGT
871005 CATCTATCAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.98
21 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (20 bp):
TAAATCCTCTGGGTAATTTG
Found at i:871555 original size:10 final size:10
Alignment explanation
Indices: 871532--871574 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
871522 GAGTGTTATG
871532 TTAT-TATTA
1 TTATATATTA
871541 TTATATATTA
1 TTATATATTA
* *
871551 ATATAAATTA
1 TTATATATTA
871561 TTATATATTA
1 TTATATATTA
871571 TTAT
1 TTAT
871575 TTACAAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 4 0.14
10 25 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATATTA
Found at i:871646 original size:24 final size:24
Alignment explanation
Indices: 871588--871651 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
871578 CAAAGCTCGA
*
871588 AGGCCCGATTACAAAGTAAGGCACAC
1 AGGCCCGATTACAAAGCAA-G-ACAC
* *
871614 ATGCTCGATTACAAAGCAA-ATCAC
1 AGGCCCGATTACAAAGCAAGA-CAC
871638 AGGCCCGATTACAA
1 AGGCCCGATTACAA
871652 CCAAACCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 15 0.47
26 16 0.50
ACGTcount: A:0.39, C:0.27, G:0.19, T:0.16
Consensus pattern (24 bp):
AGGCCCGATTACAAAGCAAGACAC
Found at i:874777 original size:19 final size:20
Alignment explanation
Indices: 874740--874777 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
874730 GTATCGACTT
* *
874740 TATTTATGATTTTTTAAATC
1 TATTTATGAATTTTAAAATC
874760 TATTTAT-AATTTTAAAAT
1 TATTTATGAATTTTAAAAT
874778 TTTTTATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTATGAATTTTAAAATC
Found at i:877851 original size:8 final size:8
Alignment explanation
Indices: 877838--877905 Score: 82
Period size: 8 Copynumber: 8.0 Consensus size: 8
877828 TGCTTTATGC
877838 ATGCATGT
1 ATGCATGT
*
877846 ATGCATGG
1 ATGCATGT
877854 ATGCATGT
1 ATGCATGT
877862 ATGCATGCAT
1 ATGCATG--T
877872 GGATGCATGT
1 --ATGCATGT
*
877882 ATGCATGG
1 ATGCATGT
877890 ATGCATGT
1 ATGCATGT
877898 ATGCATGT
1 ATGCATGT
877906 CTGTGGTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
8 43 0.83
10 2 0.04
12 7 0.13
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (8 bp):
ATGCATGT
Found at i:877859 original size:16 final size:16
Alignment explanation
Indices: 877838--877904 Score: 98
Period size: 16 Copynumber: 3.9 Consensus size: 16
877828 TGCTTTATGC
877838 ATGCATGTATGCATGG
1 ATGCATGTATGCATGG
877854 ATGCATGTATGCATGCATGG
1 ATGCATG--T--ATGCATGG
877874 ATGCATGTATGCATGG
1 ATGCATGTATGCATGG
877890 ATGCATGTATGCATG
1 ATGCATGTATGCATG
877905 TCTGTGGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
16 30 0.64
18 2 0.04
20 15 0.32
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.31
Consensus pattern (16 bp):
ATGCATGTATGCATGG
Found at i:877859 original size:20 final size:20
Alignment explanation
Indices: 877834--877904 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
877824 ACATTGCTTT
*
877834 ATGCATGCATGTATGCATGG
1 ATGCATGCATGCATGCATGG
*
877854 ATGCATGTATGCATGCATGG
1 ATGCATGCATGCATGCATGG
* * *
877874 ATGCATGTATGCATGGATGC
1 ATGCATGCATGCATGCATGG
*
877894 ATGTATGCATG
1 ATGCATGCATG
877905 TCTGTGGTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (20 bp):
ATGCATGCATGCATGCATGG
Found at i:889845 original size:18 final size:18
Alignment explanation
Indices: 889806--889849 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
889796 GGAAATATTC
*
889806 TTTTACTTTATTCCTTTA
1 TTTTACTTTATTCCATTA
*
889824 TTTTA-TTTATTTCATTA
1 TTTTACTTTATTCCATTA
889841 TTTTTACTT
1 -TTTTACTT
889850 GTCTCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 10 0.45
19 2 0.09
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTACTTTATTCCATTA
Found at i:891085 original size:13 final size:13
Alignment explanation
Indices: 891049--891101 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
891039 ACCCGTGAAT
*
891049 AGTGAACAATAAC
1 AGTGAACAGTAAC
* * *
891062 AATGTATAGTAAC
1 AGTGAACAGTAAC
*
891075 AGTGAACAGTACC
1 AGTGAACAGTAAC
*
891088 TGTGAACAGTAAC
1 AGTGAACAGTAAC
891101 A
1 A
891102 TGCCACTAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (13 bp):
AGTGAACAGTAAC
Found at i:891445 original size:47 final size:45
Alignment explanation
Indices: 891375--891500 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
891365 TATAAAATCT
*
891375 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
891420 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
891467 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
891501 GCATGGTTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 38 0.52
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:891665 original size:40 final size:40
Alignment explanation
Indices: 891604--891723 Score: 197
Period size: 40 Copynumber: 3.0 Consensus size: 40
891594 ACCGTAGTGC
* *
891604 TACACATAAGGTCGTGT-CCACCATATACATCGAATTGTAT
1 TACACATAAGGTCGT-TCCCACCATATACACCGAAGTGTAT
891644 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
*
891684 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
891724 ATAAACCTGC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
Found at i:895980 original size:150 final size:140
Alignment explanation
Indices: 895691--895980 Score: 490
Period size: 140 Copynumber: 2.0 Consensus size: 140
895681 GGAGTGGCAA
895691 GCTAGGTGTCCGAGAGGAGCTAGCAAGCTAAGGGAGTCGTGGCGTCGAGGAGAGCTCGGTTTCGC
1 GCTAGGTGTCCGAGAGGAGCTAGCAAGCTAAGGGAGTCGTGGCGTCGAGGAGAGCTCGGTTTCGC
895756 GACGAAGGATTCTTCTCCCTCCCCTTTTCTGTTTTTTCATTGATATTGGGTGCTGTAATGAATGG
66 GACGAAGGATTCTTCTCCCTCCCCTTTTCTGTTTTTTCATTGATATTGGGTGCTGTAATGAATGG
895821 ATTTCATGTT
131 ATTTCATGTT
895831 GCTAGGTGTCCGAGAGGAGCTAGCAAGCTAAGGTGAGTCGTGGCGGTCGAGGAGAGCTTCGGCTA
1 GCTAGGTGTCCGAGAGGAGCTAGCAAGCTAAGG-GAGTCGTGGC-GTCGAGGAGAGC-TCGG-T-
895896 TTCGCGACGAAGGATTCTTCTCCCTTCCCCTTTTCTGTTGTTTTTCATTTGATATTGGGTTGCTG
61 TTCGCGACGAAGGATTCTTCTCCC-TCCCCTTTTCTG-T-TTTTTCA-TTGATATTGGG-TGCTG
895961 TAATGAATGGATTTCATGTT
121 TAATGAATGGATTTCATGTT
895981 TTTTATGGAT
Statistics
Matches: 140, Mismatches: 0, Indels: 10
0.93 0.00 0.07
Matches are distributed among these distances:
140 33 0.24
141 10 0.07
142 12 0.09
143 4 0.03
144 1 0.01
145 24 0.17
146 12 0.09
147 1 0.01
148 7 0.05
149 11 0.08
150 25 0.18
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (140 bp):
GCTAGGTGTCCGAGAGGAGCTAGCAAGCTAAGGGAGTCGTGGCGTCGAGGAGAGCTCGGTTTCGC
GACGAAGGATTCTTCTCCCTCCCCTTTTCTGTTTTTTCATTGATATTGGGTGCTGTAATGAATGG
ATTTCATGTT
Found at i:897945 original size:26 final size:26
Alignment explanation
Indices: 897878--897954 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
897868 TTAATTGAAC
* * *
897878 TAAAAGAGCTAATAAATCTATTATAA
1 TAAAAGAGCAAATAAATCTCTTTTAA
*
897904 TAAAATAGCAAATAAATCTCTTTTAA
1 TAAAAGAGCAAATAAATCTCTTTTAA
*
897930 TAAAAGATG-AATTAAATCTCTTTTA
1 TAAAAGA-GCAAATAAATCTCTTTTA
897955 TATTTATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (26 bp):
TAAAAGAGCAAATAAATCTCTTTTAA
Found at i:903155 original size:26 final size:26
Alignment explanation
Indices: 903091--903157 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
903081 TAAAATAGCT
* **
903091 AATAAATCTCTTCTAATAAAAGAGGA
1 AATAAATCTCTTTTAATAAAAGAAAA
903117 AATAAATCTCTTTTAATAAAAGAAAA
1 AATAAATCTCTTTTAATAAAAGAAAA
903143 AATAAATCTCTTTTA
1 AATAAATCTCTTTTA
903158 TATTTATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (26 bp):
AATAAATCTCTTTTAATAAAAGAAAA
Found at i:906589 original size:19 final size:20
Alignment explanation
Indices: 906557--906594 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
906547 GTGTTACGGC
*
906557 ACACAAATCTATGCAAGTAT
1 ACACAAATCGATGCAAGTAT
*
906577 ACAC-AATCGATGCGAGTA
1 ACACAAATCGATGCAAGTA
906595 ATATAGTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (20 bp):
ACACAAATCGATGCAAGTAT
Found at i:924098 original size:20 final size:19
Alignment explanation
Indices: 924071--924108 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
924061 TTGATACTAA
924071 ACCTTTGGTATCGATACCT
1 ACCTTTGGTATCGATACCT
924090 ACCTGTTGGTATCGATACC
1 ACCT-TTGGTATCGATACC
924109 CCCTGACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (19 bp):
ACCTTTGGTATCGATACCT
Found at i:924192 original size:22 final size:22
Alignment explanation
Indices: 924161--924216 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
924151 CCTATTATGA
*
924161 GTATCGATACTTTGATATTGGG
1 GTATCGATACTTTGATACTGGG
* *
924183 GTATCAATACTTTGGTACTGGG
1 GTATCGATACTTTGATACTGGG
924205 GTATCGATACTT
1 GTATCGATACTT
924217 GACTGAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (22 bp):
GTATCGATACTTTGATACTGGG
Found at i:925017 original size:21 final size:22
Alignment explanation
Indices: 924970--925022 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
924960 TAGCTTTCTC
*
924970 AAGAAGAAGATGAAGAGTTTGG
1 AAGAAGAAGATCAAGAGTTTGG
*
924992 GAGAAGAAGA-CAAGAGTTAT-G
1 AAGAAGAAGATCAAGAGTT-TGG
*
925013 AAGAAAAAGA
1 AAGAAGAAGA
925023 GGGATATGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.32, T:0.13
Consensus pattern (22 bp):
AAGAAGAAGATCAAGAGTTTGG
Found at i:926285 original size:23 final size:23
Alignment explanation
Indices: 926259--926324 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
926249 GGGGAGAGTA
926259 AAAGCAGAAAGGTGAAGGGGGAG
1 AAAGCAGAAAGGTGAAGGGGGAG
* **
926282 AAAG-A-AGA-G-G-A--GGGTC
1 AAAGCAGAAAGGTGAAGGGGGAG
926298 AAAGCAGAAAGGTGAAGGGGGAG
1 AAAGCAGAAAGGTGAAGGGGGAG
926321 AAAG
1 AAAG
926325 AAGAGGAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 3 0.10
19 2 0.07
20 2 0.07
21 3 0.10
22 1 0.03
23 11 0.37
ACGTcount: A:0.45, C:0.05, G:0.45, T:0.05
Consensus pattern (23 bp):
AAAGCAGAAAGGTGAAGGGGGAG
Found at i:926313 original size:39 final size:39
Alignment explanation
Indices: 926259--926348 Score: 180
Period size: 39 Copynumber: 2.3 Consensus size: 39
926249 GGGGAGAGTA
926259 AAAGCAGAAAGGTGAAGGGGGAGAAAGAAGAGGAGGGTC
1 AAAGCAGAAAGGTGAAGGGGGAGAAAGAAGAGGAGGGTC
926298 AAAGCAGAAAGGTGAAGGGGGAGAAAGAAGAGGAGGGTC
1 AAAGCAGAAAGGTGAAGGGGGAGAAAGAAGAGGAGGGTC
926337 AAAGCAGAAAGG
1 AAAGCAGAAAGG
926349 CCGGGGGAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.46, C:0.06, G:0.44, T:0.04
Consensus pattern (39 bp):
AAAGCAGAAAGGTGAAGGGGGAGAAAGAAGAGGAGGGTC
Found at i:932830 original size:2 final size:2
Alignment explanation
Indices: 932823--932848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
932813 TCTTTAAAAC
932823 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
932849 CATTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:936381 original size:31 final size:33
Alignment explanation
Indices: 936308--936386 Score: 108
Period size: 31 Copynumber: 2.4 Consensus size: 33
936298 TATTAATATA
*
936308 TAATTAAAATAAAAAATAAATTTGAAAATTAGAG
1 TAATT-AAATTAAAAATAAATTTGAAAATTAGAG
* *
936342 CAATTAAATTAAAAAT-AATTTGAAAGTTA-AG
1 TAATTAAATTAAAAATAAATTTGAAAATTAGAG
936373 TAATTAAATTAAAA
1 TAATTAAATTAAAA
936387 TTTTACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 15 0.37
32 12 0.29
33 10 0.24
34 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (33 bp):
TAATTAAATTAAAAATAAATTTGAAAATTAGAG
Found at i:936662 original size:7 final size:7
Alignment explanation
Indices: 936651--936715 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
936641 CCTCTACATC
*
936651 AAATCCC
1 AAATCCT
*
936658 AAATCAT
1 AAATCCT
*
936665 AAATGCT
1 AAATCCT
936672 AAATCCT
1 AAATCCT
936679 AAATCCT
1 AAATCCT
936686 AAAT-CT
1 AAATCCT
936692 CAAA-CCTT
1 -AAATCC-T
936700 AAA-CCAT
1 AAATCC-T
936707 AAATCCT
1 AAATCCT
936714 AA
1 AA
936716 CCCTAAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 2 0.04
7 43 0.90
8 3 0.06
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.25
Consensus pattern (7 bp):
AAATCCT
Found at i:936675 original size:14 final size:14
Alignment explanation
Indices: 936651--936715 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
936641 CCTCTACATC
*
936651 AAATCCCAAATCAT
1 AAATCCTAAATCAT
* *
936665 AAATGCTAAATCCT
1 AAATCCTAAATCAT
936679 AAATCCTAAATC-T
1 AAATCCTAAATCAT
*
936692 CAAA-CCTTAAACCAT
1 -AAATCC-TAAATCAT
936707 AAATCCTAA
1 AAATCCTAA
936716 CCCTAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.07
14 36 0.86
15 3 0.07
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATCCTAAATCAT
Found at i:937772 original size:23 final size:21
Alignment explanation
Indices: 937744--937787 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
937734 TGATTACAAG
937744 ATTATATATGTAAAGGAAAAA
1 ATTATATATGTAAAGGAAAAA
937765 ATTATATATGTAAAGGAAAAA
1 ATTATATATGTAAAGGAAAAA
937786 AT
1 AT
937788 CCTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (21 bp):
ATTATATATGTAAAGGAAAAA
Found at i:947091 original size:2 final size:2
Alignment explanation
Indices: 947084--947152 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
947074 GTCTTTAAAC
947084 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
947126 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 T
947153 TGGGCTTTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:947765 original size:18 final size:19
Alignment explanation
Indices: 947730--947766 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
947720 CACGGAATGT
947730 AAGATTATCACTGGGAATAA
1 AAGATTATCAC-GGGAATAA
947750 AAGATTATCA-GGGAATA
1 AAGATTATCACGGGAATA
947767 TGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (19 bp):
AAGATTATCACGGGAATAA
Found at i:947988 original size:37 final size:37
Alignment explanation
Indices: 947915--947989 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
947905 AGTTGAAAAT
* *
947915 ATTTATATATTTTCTTTAAAAAATTTAAACTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
947952 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
947989 A
1 A
947990 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:948415 original size:177 final size:178
Alignment explanation
Indices: 948119--948454 Score: 665
Period size: 177 Copynumber: 1.9 Consensus size: 178
948109 TCGTAAAATT
948119 TTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGAATTTTTTTAAGGATATTTTAGTCCAA
1 TTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGAATTTTTTTAAGGATATTTTAGTCCAA
948184 AACGTCGGTAATCCAACAATATCTAAGGAAAGAGATGTAATGACATTCCCGGTAATATAAAATCC
66 AACGTCGGTAATCCAACAATATCTAAGGAAAGAGATGTAATGACATTCCCGGTAATATAAAATCC
948249 ACTATTAGTAATGTAAGATTA-CGGGAATGACGGCCAACCAACGGGAG
131 ACTATTAGTAATGTAAGATTACCGGGAATGACGGCCAACCAACGGGAG
948296 TTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGAATTTTTTTAAGGATATTTTAGTCCAA
1 TTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGAATTTTTTTAAGGATATTTTAGTCCAA
948361 AACGTCGGTAATCCAACAATATCTAAGGAAAGAGATGTAATGACATTCCCGGTAATATAAAATCC
66 AACGTCGGTAATCCAACAATATCTAAGGAAAGAGATGTAATGACATTCCCGGTAATATAAAATCC
948426 ACTATTAGTAATGTAAGATTACCGGGAAT
131 ACTATTAGTAATGTAAGATTACCGGGAAT
948455 ATTCCCGGCC
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
177 151 0.96
178 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (178 bp):
TTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGAATTTTTTTAAGGATATTTTAGTCCAA
AACGTCGGTAATCCAACAATATCTAAGGAAAGAGATGTAATGACATTCCCGGTAATATAAAATCC
ACTATTAGTAATGTAAGATTACCGGGAATGACGGCCAACCAACGGGAG
Found at i:949027 original size:14 final size:15
Alignment explanation
Indices: 948986--949030 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
948976 AATTACTAGA
948986 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
949001 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
949016 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
949030 A
1 A
949031 TATTTCTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:949245 original size:22 final size:22
Alignment explanation
Indices: 949220--949281 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
949210 ATCATAAAAC
949220 TTAATATTATTATTTTAAAATA
1 TTAATATTATTATTTTAAAATA
* * *
949242 TTAAAATAATTTATTTATTAAATA
1 TTAATATTA-TTATTT-TAAAATA
*
949266 TT-AT-TTATAATTTTAA
1 TTAATATTATTATTTTAA
949282 TAAAATAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 9 0.29
23 7 0.23
24 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATATTATTATTTTAAAATA
Found at i:949271 original size:18 final size:17
Alignment explanation
Indices: 949240--949273 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
949230 TATTTTAAAA
949240 TATTAAAATAATTTATT
1 TATTAAAATAATTTATT
*
949257 TATTAAATATTATTTAT
1 TATTAAA-ATAATTTAT
949274 AATTTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAAAATAATTTATT
Found at i:949417 original size:11 final size:11
Alignment explanation
Indices: 949366--949433 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
949356 TATATTATAT
949366 TTAAAATATTAA
1 TTAAAATATT-A
*
949378 TT-AGATATT-
1 TTAAAATATTA
*
949387 TTAAATATCTTTA
1 TTAAA-AT-ATTA
949400 TTAAAATATTA
1 TTAAAATATTA
*
949411 TTTAAATA-TA
1 TTAAAATATTA
*
949421 TAAAAATATTA
1 TTAAAATATTA
949432 TT
1 TT
949434 CATTATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
9 2 0.05
10 9 0.21
11 21 0.49
12 6 0.14
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TTAAAATATTA
Found at i:949448 original size:19 final size:19
Alignment explanation
Indices: 949397--949448 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
949387 TTAAATATCT
949397 TTATTAAAATATTATTTAAA
1 TTATTAAAATATTATTT-AA
* *
949417 TATATAAAAATATTA-TTCA
1 T-TATTAAAATATTATTTAA
949436 TTATTAAATATAT
1 TTATTAAA-ATAT
949449 AAATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.22
19 6 0.22
20 3 0.11
21 12 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATTAAAATATTATTTAA
Found at i:949538 original size:5 final size:5
Alignment explanation
Indices: 949508--949595 Score: 79
Period size: 5 Copynumber: 17.0 Consensus size: 5
949498 AATATAATTG
* * ** *
949508 ATTAT TTTAT ATAAT ATTA- AAAAT ATTAT ATTAT ATTATT ATAAAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T AT-TAT ATTAT
*
949559 ATTAT ATTATT ATAAAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTA-T AT-TAT ATTAT ATTAT ATTAT ATTAT
949596 TATAAATATT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
4 2 0.03
5 50 0.76
6 12 0.18
7 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:949540 original size:44 final size:41
Alignment explanation
Indices: 949492--949599 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 41
949482 ATATCTATAT
*
949492 TATTATAATATAATTGATTATTTTATATAATATTAAAAATATTA
1 TATTATAATATAATT-ATTATATTATAT--TATTAAAAATATTA
* *
949536 TATTATATTATTATAAATATTATATTATATTATTATAAATATTA
1 TATTATA--A-TATAATTATTATATTATATTATTAAAAATATTA
*
949580 TATTATATTAT-ATTATTATA
1 TATTATAATATAATTATTATA
949600 AATATTAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
40 8 0.14
41 3 0.05
44 27 0.48
46 12 0.21
47 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (41 bp):
TATTATAATATAATTATTATATTATATTATTAAAAATATTA
Found at i:949566 original size:27 final size:27
Alignment explanation
Indices: 949530--949606 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
949520 AATATTAAAA
949530 ATATTATATTATATTATTAT--A-A--
1 ATATTATATTATATTATTATAAATATT
949552 ATATTATATTATATTATTATAAATATT
1 ATATTATATTATATTATTATAAATATT
949579 ATATTATATTATATTATTATAAATATT
1 ATATTATATTATATTATTATAAATATT
949606 A
1 A
949607 ATAAATAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.40
24 1 0.02
25 1 0.02
27 28 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATATTATATTATTATAAATATT
Found at i:949606 original size:22 final size:22
Alignment explanation
Indices: 949542--949590 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
949532 ATTATATTAT
949542 ATTATTATAAATATTATATTAT
1 ATTATTATAAATATTATATTAT
949564 ATTATTATAAATATTATATTAT
1 ATTATTATAAATATTATATTAT
949586 ATTAT
1 ATTAT
949591 ATTATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTATAAATATTATATTAT
Found at i:949813 original size:42 final size:42
Alignment explanation
Indices: 949755--949871 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 42
949745 ATGAATTACA
* * * *
949755 TTCTGGAAAACCAATTACGTTAAACAAACATGGGAAAACATT
1 TTCTGGAAAACAAATTACGTGAAACAAACACGGAAAAACATT
*
949797 TTCTGAAAAACAAATTACGTGAAACAAACACGGAAAAACATT
1 TTCTGGAAAACAAATTACGTGAAACAAACACGGAAAAACATT
* *
949839 TT-TCGGAAAATAAATTACGTGAAACAAATACGG
1 TTCT-GGAAAACAAATTACGTGAAACAAACACGG
949872 GAATTCGGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (42 bp):
TTCTGGAAAACAAATTACGTGAAACAAACACGGAAAAACATT
Found at i:952527 original size:27 final size:24
Alignment explanation
Indices: 952479--952531 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
952469 TCATATTGTT
**
952479 TTAAAAATAATTATAATTTTATGAA
1 TTAAAAATAATTATAAAGTTAT-AA
952504 TTAAAAGATTAATTATAAAGTTATAA
1 TTAAAA-A-TAATTATAAAGTTATAA
952530 TT
1 TT
952532 TTTAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
TTAAAAATAATTATAAAGTTATAA
Found at i:956271 original size:2 final size:2
Alignment explanation
Indices: 956253--956307 Score: 64
Period size: 2 Copynumber: 29.0 Consensus size: 2
956243 AGACTTTATT
*
956253 TA TA T- TA TA TA -A AA TA TA TGA TA -A TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
956292 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
956308 GTTTTCTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
1 4 0.09
2 41 0.87
3 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:956284 original size:21 final size:21
Alignment explanation
Indices: 956253--956305 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
956243 AGACTTTATT
956253 TATAT-TATATAAAATATATGA
1 TATATATATATAAAATATAT-A
*
956274 TA-ATATATATAATATATATA
1 TATATATATATAAAATATATA
956294 TATATATATATA
1 TATATATATATA
956306 TAGTTTTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATATATATATAAAATATATA
Found at i:962824 original size:15 final size:15
Alignment explanation
Indices: 962801--962843 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
962791 CCTTGAAGGT
*
962801 AGTATCGATACCAAG
1 AGTACCGATACCAAG
962816 AGTACCGATACCAAG
1 AGTACCGATACCAAG
962831 AGTACCGATACCA
1 AGTACCGATACCA
962844 TAAGGTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.16
Consensus pattern (15 bp):
AGTACCGATACCAAG
Found at i:962943 original size:23 final size:23
Alignment explanation
Indices: 962917--962993 Score: 145
Period size: 23 Copynumber: 3.3 Consensus size: 23
962907 CCCAAGCATG
962917 GTATCGATATCATAGTTAGAGAA
1 GTATCGATATCATAGTTAGAGAA
*
962940 GTATCGATATCATAGTTAAAGAA
1 GTATCGATATCATAGTTAGAGAA
962963 GTATCGATATCATAGTTAGAGAA
1 GTATCGATATCATAGTTAGAGAA
962986 GTATCGAT
1 GTATCGAT
962994 CCCCTACAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (23 bp):
GTATCGATATCATAGTTAGAGAA
Found at i:965212 original size:68 final size:70
Alignment explanation
Indices: 965085--965222 Score: 262
Period size: 68 Copynumber: 2.0 Consensus size: 70
965075 GGGGATTCAT
965085 CAAGTTCTGCACCACCTAAGAGATGTAGGGATTCTGGTTTTTGATCTCAGATGAGGTCTGAGTTA
1 CAAGTTCTGCACCACCTAAGAGATGTAGGGATTCTGGTTTTTGATCTCAGATGAGGTCTGAGTTA
965150 GTGGC
66 GTGGC
965155 CAAGTT-TGCACCACCTAAGAGATGTAGGGATT-TGGTTTTTGATCTCAGATGAGGTCTGAGTTA
1 CAAGTTCTGCACCACCTAAGAGATGTAGGGATTCTGGTTTTTGATCTCAGATGAGGTCTGAGTTA
965218 GTGGC
66 GTGGC
965223 ATCCTCTGCT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 36 0.53
69 26 0.38
70 6 0.09
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (70 bp):
CAAGTTCTGCACCACCTAAGAGATGTAGGGATTCTGGTTTTTGATCTCAGATGAGGTCTGAGTTA
GTGGC
Found at i:974848 original size:20 final size:20
Alignment explanation
Indices: 974819--974879 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
974809 ATTGTTGCAA
*
974819 CAAAGGGATCGATCTTTTTT
1 CAAAGGGATCGATCTTTTGT
* * *
974839 CAAGGGGATCAATCATTTGGT
1 CAAAGGGATCGATC-TTTTGT
974860 CAAAGGGATCGATCCTTTTG
1 CAAAGGGATCGAT-CTTTTG
974880 CTAAAGGATC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 12 0.38
21 19 0.59
22 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (20 bp):
CAAAGGGATCGATCTTTTGT
Found at i:974885 original size:21 final size:21
Alignment explanation
Indices: 974820--974886 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
974810 TTGTTGCAAC
* *
974820 AAAGGGATCGATCTTTTTTC-
1 AAAGGGATCGATCCTTTTGCT
* * * *
974840 AAGGGGATCAAT-CATTTGGT
1 AAAGGGATCGATCCTTTTGCT
974860 CAAAGGGATCGATCCTTTTGCT
1 -AAAGGGATCGATCCTTTTGCT
974882 AAAGG
1 AAAGG
974887 ATCAATTCTT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 15 0.44
22 6 0.18
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (21 bp):
AAAGGGATCGATCCTTTTGCT
Found at i:978182 original size:36 final size:36
Alignment explanation
Indices: 978150--978506 Score: 333
Period size: 36 Copynumber: 9.8 Consensus size: 36
978140 ACCCAAACAC
* *
978150 GTTTTCTAAA-ATATATTATATATATTTTCCAAAAAC
1 GTTTTCAAAACATATATTATATATATTTT-CAAAAAT
* * *
978186 GTCTT-AAAAC-TATTATTATACATATTTTGAAAAAT
1 GTTTTCAAAACATA-TATTATATATATTTTCAAAAAT
* *
978221 GATTTCAAAACTATATATTATATATATATTTTCAAAAAC
1 GTTTTCAAAAC-ATATA-T-TATATATATTTTCAAAAAT
* * *
978260 ATTTTTAAACCATATATTATAT-T-TTTT--AAAAT
1 GTTTTCAAAACATATATTATATATATTTTCAAAAAT
*
978292 GTTTTCAAAACTATATATTATATAT-TTTT-TAAAAT
1 GTTTTCAAAAC-ATATATTATATATATTTTCAAAAAT
* *
978327 -TTTTCAAAATTATATATTATATATATTTTCAAAAAAA
1 GTTTTCAAAA-CATATATTATATATATTTTC-AAAAAT
*
978364 GTTTTCAAAATTATATATTATATATATTTT-AAAAAT
1 GTTTTCAAAA-CATATATTATATATATTTTCAAAAAT
*
978400 GTTTTCAAAAC-TACGTATTATATATATTTTCGAACAAT
1 GTTTTCAAAACATA--TATTATATATATTTTC-AAAAAT
978438 GTTTTCAAAACTATATACTATATATATATATTTTCAAAAAT
1 GTTTTCAAAAC---ATA-TAT-TATATATATTTTCAAAAAT
978479 GTTTTCAAAACCATATATTATATATATT
1 GTTTTCAAAA-CATATATTATATATATT
978507 ATGTATATAT
Statistics
Matches: 270, Mismatches: 26, Indels: 49
0.78 0.08 0.14
Matches are distributed among these distances:
32 12 0.04
33 11 0.04
34 33 0.12
35 23 0.09
36 58 0.21
37 17 0.06
38 56 0.21
39 26 0.10
41 18 0.07
42 16 0.06
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (36 bp):
GTTTTCAAAACATATATTATATATATTTTCAAAAAT
Found at i:978314 original size:38 final size:37
Alignment explanation
Indices: 978160--978506 Score: 365
Period size: 38 Copynumber: 9.4 Consensus size: 37
978150 GTTTTCTAAA
* * *
978160 ATATATTATATATATTTTCCAAAAACGTCTT-AAAACT
1 ATATATTATATATATTTT-TAAAAATGTTTTCAAAACT
* * *
978197 AT-TATTATACATATTTTGAAAAATGATTTCAAAACT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
** * *
978233 ATATATTATATATATATTTTCAAAAACATTTT-TAAACC
1 ATATATTATATATAT-TTTT-AAAAATGTTTTCAAAACT
978271 ATATA-T-TATAT-TTTTT-AAAATGTTTTCAAAACT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
*
978304 ATATATTATATAT-TTTTT-AAAAT-TTTTCAAAATT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
* * *
978338 ATATATTATATATATTTTCAAAAAAAGTTTTCAAAATT
1 ATATATTATATATATTTT-TAAAAATGTTTTCAAAACT
978376 ATATATTATATATA-TTTTAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
** * *
978412 ACGTATTATATATATTTTCGAACAATGTTTTCAAAACT
1 ATATATTATATATATTTT-TAAAAATGTTTTCAAAACT
*
978450 ATATACTATATATATATATTTTCAAAAATGTTTTCAAAACC
1 ATATA-T-TATATATAT-TTTT-AAAAATGTTTTCAAAACT
978491 ATATATTATATATATT
1 ATATATTATATATATT
978507 ATGTATATAT
Statistics
Matches: 262, Mismatches: 31, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
32 8 0.03
33 9 0.03
34 28 0.11
35 28 0.11
36 55 0.21
37 24 0.09
38 58 0.22
39 18 0.07
40 10 0.04
41 24 0.09
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATATTATATATATTTTTAAAAATGTTTTCAAAACT
Found at i:983467 original size:27 final size:27
Alignment explanation
Indices: 983424--983494 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
983414 TATTTCTAAG
*
983424 TAAATAAATAAT-TATTTA-TAAAAATC
1 TAAA-AAATAATATATTTATTAAAAATA
983450 TAAAAAATATATATATTTATTAAAAATA
1 TAAAAAATA-ATATATTTATTAAAAATA
*
983478 TAAAAATTAATATATTT
1 TAAAAAATAATATATTT
983495 TCTTGGAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.12
26 6 0.15
27 14 0.35
28 15 0.38
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAAAATAATATATTTATTAAAAATA
Found at i:993130 original size:15 final size:15
Alignment explanation
Indices: 993110--993141 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
993100 TTTTGCACCA
993110 ATAATATGGCGGAAC
1 ATAATATGGCGGAAC
993125 ATAATATGGCGGAAC
1 ATAATATGGCGGAAC
993140 AT
1 AT
993142 GAAGCTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (15 bp):
ATAATATGGCGGAAC
Found at i:996061 original size:22 final size:20
Alignment explanation
Indices: 996013--996052 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
996003 TCTACATCTA
996013 CAAAGATGATAGACTCTCTT
1 CAAAGATGATAGACTCTCTT
*
996033 CAAAGATGATAGATTCTCTT
1 CAAAGATGATAGACTCTCTT
996053 TTCAAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
CAAAGATGATAGACTCTCTT
Found at i:996659 original size:123 final size:123
Alignment explanation
Indices: 996454--996768 Score: 461
Period size: 123 Copynumber: 2.6 Consensus size: 123
996444 ATTGTCAGGT
*
996454 AGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
996519 TAACCTTTTACTCGATTCTATCATAGAAGGAGATAGATCAACACCAACATCGCCATAA
66 CAACCTTTTACTCGATTCTATCACAGAAGGAGATACATCAACACCAACATCGCCAGAA
* * * *
996577 AGAGTTCATAATGAGAAGAACTCGTCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTATT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** **
996642 CAACCTTTTGA-TCGATTCTATCACAGAAGGAGATACATCGACACCAGTATTTCCAGAA
66 CAACCTTTT-ACTCGATTCTATCACAGAAGGAGATACATCAACACCAACATCGCCAGAA
* * *
996700 GGAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
996765 CAAC
66 CAAC
996769 TTTAACTTGA
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
123 169 0.99
124 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (123 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTACTCGATTCTATCACAGAAGGAGATACATCAACACCAACATCGCCAGAA
Found at i:997011 original size:137 final size:138
Alignment explanation
Indices: 996686--997047 Score: 432
Period size: 139 Copynumber: 2.6 Consensus size: 138
996676 ACATCGACAC
* * *
996686 CAGTATTTCCAGAAGGAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAGAAGAAGTTCATAAT
1 CAGTATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * *
996751 GAGAAGAACTTGTTCAACTTTAACTTGATTAAACACTTATAAGGATGAATGAAAGAAGAACCTCA
66 GAGAAGAACTTGTTCAACCTTAACTTAATTAAACACTTATAA-GATGAATGAAACAAGAACCTCA
996816 TTTGCAGAT
130 TTTGCAGAT
** * * * *
996825 CAACATTT-TCAG-AGAAAGTTCATAATGAGAAAAACTCACCTGAAAAGGAAGAAGAAGTTCATA
1 CAGTATTTCT-AGAAG-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * * *
996888 ATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCA-TATATGAA-ATTGAAT-CAACAA-CAC
64 ATGAGAAGAACTTGTTCAACCTTAACTTAATTAAACACT-TAT-AAGA-TGAATGAAACAAGAAC
*
996949 CTCTTTTG-AGGAT
126 CTCATTTGCA-GAT
*
996962 CAGTATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAAT
1 CAGTATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
997027 GAGAAGAACTTGTTCAACCTT
66 GAGAAGAACTTGTTCAACCTT
997048 TTGCTAGATT
Statistics
Matches: 189, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
136 1 0.01
137 86 0.46
138 11 0.06
139 89 0.47
140 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (138 bp):
CAGTATTTCTAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTAACTTAATTAAACACTTATAAGATGAATGAAACAAGAACCTCAT
TTGCAGAT
Found at i:997122 original size:20 final size:20
Alignment explanation
Indices: 997097--997161 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
997087 CCAGTGGAAA
997097 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * **
997117 AGTTCAGAGTG-GAAGAAGA
1 AGTTCATAATGAGAAGAACT
997136 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
997156 TGTTCA
1 AGTTCA
997162 ATGTTGTCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.25
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:998567 original size:2 final size:2
Alignment explanation
Indices: 998560--998589 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
998550 TTAGTCATAA
998560 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
998590 TAAAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:999689 original size:28 final size:28
Alignment explanation
Indices: 999633--999689 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
999623 TCATTATTCT
* * * *
999633 TTTATTCAACAGTGTTTTACTGTTCATC
1 TTTACTCAACAATGTTTAACCGTTCATC
*
999661 TTTACTCAACAATGTTTAACCGTTTATC
1 TTTACTCAACAATGTTTAACCGTTCATC
999689 T
1 T
999690 AACTGGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (28 bp):
TTTACTCAACAATGTTTAACCGTTCATC
Found at i:999845 original size:78 final size:81
Alignment explanation
Indices: 999676--999866 Score: 262
Period size: 78 Copynumber: 2.4 Consensus size: 81
999666 TCAACAATGT
* * * * **
999676 TTAACCGTTTATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCATTATTC
1 TTAACCATTCATCTAACTGGCATAATTGACACATTTATATCAAATGCACAACTAGGCCATTATTC
999741 TTTTACTCAACGGTAC
66 TTTTACTCAACGGTAC
* * * *
999757 TTGATCATTCATGTAACT-GCATAATTGACACATTTGTATCAAATGCACAACTA-GCCATTATT-
1 TTAACCATTCATCTAACTGGCATAATTGACACATTTATATCAAATGCACAACTAGGCCATTATTC
999819 TTTTACTCAACGGTAC
66 TTTTACTCAACGGTAC
*
999835 TTAACCATTCATCTAATTGGCATAATTGACAC
1 TTAACCATTCATCTAACTGGCATAATTGACAC
999867 CTTTCTGTCA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 30 0.32
79 22 0.23
80 30 0.32
81 13 0.14
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TTAACCATTCATCTAACTGGCATAATTGACACATTTATATCAAATGCACAACTAGGCCATTATTC
TTTTACTCAACGGTAC
Found at i:999883 original size:79 final size:81
Alignment explanation
Indices: 999676--999883 Score: 278
Period size: 79 Copynumber: 2.6 Consensus size: 81
999666 TCAACAATGT
* * **
999676 TTAACCGTTTATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCATTATTC
1 TTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCCATTATTC
999741 TTTTACTCAACGGTAC
66 TTTTACTCAACGGTAC
* * * * * *
999757 TTGATCATTCATGTAACT-GCATAATTGACACATTTGTATCAAATGCACAACTA-GCCATTATT-
1 TTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCCATTATTC
999819 TTTTACTCAACGGTAC
66 TTTTACTCAACGGTAC
* * *
999835 TTAACCATTCATCTAATTGGCATAATTGACACCTTTCTGTCAACTGCAC
1 TTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCAC
999884 TGCCAGGCCT
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 30 0.28
79 35 0.32
80 30 0.28
81 13 0.12
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (81 bp):
TTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCCATTATTC
TTTTACTCAACGGTAC
Found at i:999914 original size:68 final size:68
Alignment explanation
Indices: 999824--1000138 Score: 389
Period size: 68 Copynumber: 4.6 Consensus size: 68
999814 TTATTTTTTA
* * * * * * * **
999824 CTCAACGGTACTTAACCATTCATCTAATTGGCATAATTGACACCTTTCTGTCA-ACTGCACTGCC
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATA-TGCACAGTT
999888 AGGC
65 AGGC
* ** * *
999892 CTCAAAGGCACTTAGCTTTTCATCTAACTAACATAAATGACACCTTTCCGTCATATGAACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTA
999957 GGC
66 GGC
* * * * * *
999960 CTCAAAGGCTCGTAGCCTTTCATATAACTGGCATAAATGACACATTTCTATCACATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTA
1000025 GGC
66 GGC
* * *
1000028 CTCAAAGTCAATTAGCCTTTCATCTAACTGGCATAAATGACACTTTTCTGTCATATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTA
1000093 GGC
66 GGC
* *
1000096 CTCAAAGGCAGTTAGCCTTTTATCTAACTGGCATAAATGACAC
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACAC
1000139 ATTTAGGACT
Statistics
Matches: 210, Mismatches: 36, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
68 209 1.00
69 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTA
GGC
Found at i:1000233 original size:119 final size:119
Alignment explanation
Indices: 1000039--1000257 Score: 357
Period size: 119 Copynumber: 1.8 Consensus size: 119
1000029 TCAAAGTCAA
* * *
1000039 TTAGCCTTTCATCTAACTGGCATAAATGACACTTTTCTGTCATATGCACAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTCAAAGA
* * *
1000104 CAGTTAGCCTTTTATCTAACTGGCATAAATGACACATTTAGGACTCAAAAACAC
66 CACTTAGCCTTTCATCTAACTAGCATAAATGACACATTTAGGACTCAAAAACAC
*
1000158 TTAGCTTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTCAAAGA
1 TTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTCAAAGA
* *
1000223 TACTTAGCCTTTCATTTAACTAGCATAAATGACAC
66 CACTTAGCCTTTCATCTAACTAGCATAAATGACAC
1000258 CTTTCTGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 91 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (119 bp):
TTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTCAAAGA
CACTTAGCCTTTCATCTAACTAGCATAAATGACACATTTAGGACTCAAAAACAC
Found at i:1000250 original size:68 final size:68
Alignment explanation
Indices: 1000136--1000356 Score: 352
Period size: 68 Copynumber: 3.2 Consensus size: 68
1000126 GCATAAATGA
* * * * *
1000136 CACATTTAGGACTCAAAAACACTTAGCTTTTCATCTAACTGGCATAAATGACACCTTTATGTCAT
1 CACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAT
1000201 ATG
66 ATG
* * *
1000204 CACAGTTAGGCCTCAAAGATACTTAGCCTTTCATTTAACTAGCATAAATGACACCTTTCTGTCAT
1 CACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAT
1000269 ATG
66 ATG
* *
1000272 CACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATATATGACACCTTTCTGTCAT
1 CACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAT
1000337 ATG
66 ATG
1000340 CACAGTTAGGCCTCAAA
1 CACAGTTAGGCCTCAAA
1000357 ACTTTTAACT
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 140 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (68 bp):
CACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAT
ATG
Found at i:1000300 original size:187 final size:187
Alignment explanation
Indices: 999972--1000325 Score: 575
Period size: 187 Copynumber: 1.9 Consensus size: 187
999962 CAAAGGCTCG
*
999972 TAGCCTTTCATATAACTGGCATAAATGACACATTTCTATCACATGCACAGTTAGGCCTCAAAGTC
1 TAGCCTTTCATATAACTGGCATAAATGACACATTTATATCACATGCACAGTTAGGCCTCAAAGTC
* *
1000037 AATTAGCCTTTCATCTAACTGGCATAAATGACACTTTTCTGTCATATGCACAGTTAGGCCTCAAA
66 AATTAGCCTTTCATCTAACTAGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
* *
1000102 GGCAGTTAGCCTTTTATCTAACTGGCATAAATGACACATTTAGGACTCAAAAACACT
131 GGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTAGGACTCAAAAACACT
* * * * *
1000159 TAGCTTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTCAAAGAT
1 TAGCCTTTCATATAACTGGCATAAATGACACATTTATATCACATGCACAGTTAGGCCTCAAAG-T
* *
1000224 -ACTTAGCCTTTCATTTAACTAGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAA
65 CAATTAGCCTTTCATCTAACTAGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAA
*
1000288 AGGCACTTAGCCTTTCATCTAACTGGCATATATGACAC
130 AGGCACTTAGCCTTTCATCTAACTGGCATAAATGACAC
1000326 CTTTCTGTCA
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
187 152 0.99
188 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (187 bp):
TAGCCTTTCATATAACTGGCATAAATGACACATTTATATCACATGCACAGTTAGGCCTCAAAGTC
AATTAGCCTTTCATCTAACTAGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
GGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTAGGACTCAAAAACACT
Found at i:1000637 original size:59 final size:58
Alignment explanation
Indices: 1000573--1000778 Score: 261
Period size: 59 Copynumber: 3.5 Consensus size: 58
1000563 TTTCATACAA
* * * * * * * *
1000573 AAATTCTTACACTTAATATGCATTTCTTATCATTTTATCACACAAGGTGGCCAATACGT
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAA-GTGCCCTATACGG
** *
1000632 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGCACCCTATATGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC-AAGTGCCCTATACGG
* *
1000691 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATGAAGTGCCCTATAGGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACA-CAAGTGCCCTATACGG
1000750 AAATTCATACACTTAGTATG-ATTTCTTAA
1 AAATTCATACACTTAGTATGAATTTCTTAA
1000779 TTTTGCGCAC
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
58 9 0.07
59 119 0.92
60 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAGTGCCCTATACGG
Found at i:1005066 original size:2 final size:2
Alignment explanation
Indices: 1005061--1005085 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1005051 ATATATGCAT
1005061 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1005086 TATATATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1005404 original size:81 final size:80
Alignment explanation
Indices: 1005262--1005660 Score: 469
Period size: 81 Copynumber: 4.9 Consensus size: 80
1005252 TTACAGTTCA
** ** * * *
1005262 TCTTTTACTCAACAATGTTTAACCATTCATCTAACTGGCATAATTGACACCTTTATCTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1005327 ACATATAGGCCATTAT
66 ACA-ATAGGCCATTAT
* ** * * *
1005343 TCTTTTACTCAACGGTACATAATTATTCATCTAACTTGAATAGTTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
* *
1005408 ATAGCTAGGCCATTAT
66 ACA-ATAGGCCATTAT
* * * **
1005424 TCTTTTACTCAACGGTACTTAACCGTTCATCT-AGTAAGCATAATTGAAATTTTTCTGTCAAATG
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACT-AGCATAATTGACACCTTTCTGTCAAATG
* *
1005488 CATAGCTAGGCCATTAT
65 CACA-ATAGGCCATTAT
* * *
1005505 TTTTTTACTCAACGGTACTTAACCGTTCATCTAACT-GCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1005569 ACAACTAGGCCATTAT
66 ACAA-TAGGCCATTAT
** * *
1005585 TCTTTTACTCAACAATATTTAACCATTCATTTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1005650 ACAACTAGGCC
66 ACAA-TAGGCC
1005661 TCAAAGGCAC
Statistics
Matches: 273, Mismatches: 41, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 69 0.25
81 202 0.74
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAACGGTACTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
ACAATAGGCCATTAT
Found at i:1005631 original size:161 final size:162
Alignment explanation
Indices: 1005262--1005660 Score: 534
Period size: 161 Copynumber: 2.5 Consensus size: 162
1005252 TTACAGTTCA
* * * *
1005262 TCTTTTACTCAACAATGTTTAACCATTCATCTAACTGGCATAATTGACACCTTTATCTCAAATGC
1 TCTTTTACTCAACAATATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
** *
1005327 ACATA-TAGGCCATTATTCTTTTACTCAACGGTACATAATTATTCATCTAACTTGAATAGTTGAC
66 ACA-ACTAGGCCATTATTCTTTTACTCAACGGTACATAACCATTCATCTAACTTGAATAATTGAC
* * *
1005391 ACCTTTCTGTCAAATGCATAGCTAGGCCATTAT
130 ACCTTTCTATCAAATGCACAACTAGGCCATTAT
** * * * * **
1005424 TCTTTTACTCAACGGTACTTAACCGTTCATCT-AGTAAGCATAATTGAAATTTTTCTGTCAAATG
1 TCTTTTACTCAACAATATTTAACCATTCATCTAACT-AGCATAATTGACACCTTTCTGTCAAATG
* * * * * *
1005488 CATAGCTAGGCCATTATTTTTTTACTCAACGGTACTTAACCGTTCATCTAAC-TGCATAATTGAC
65 CACAACTAGGCCATTATTCTTTTACTCAACGGTACATAACCATTCATCTAACTTGAATAATTGAC
1005552 ACCTTTCTATCAAATGCACAACTAGGCCATTAT
130 ACCTTTCTATCAAATGCACAACTAGGCCATTAT
*
1005585 TCTTTTACTCAACAATATTTAACCATTCATTTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACAATATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1005650 ACAACTAGGCC
66 ACAACTAGGCC
1005661 TCAAAGGCAC
Statistics
Matches: 199, Mismatches: 35, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
161 104 0.52
162 95 0.48
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (162 bp):
TCTTTTACTCAACAATATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTATTCTTTTACTCAACGGTACATAACCATTCATCTAACTTGAATAATTGACA
CCTTTCTATCAAATGCACAACTAGGCCATTAT
Found at i:1005701 original size:68 final size:68
Alignment explanation
Indices: 1005610--1006006 Score: 623
Period size: 68 Copynumber: 5.8 Consensus size: 68
1005600 TATTTAACCA
* * * * **
1005610 TTCATTTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
*
1005675 TCT
66 CCT
* *
1005678 TTCATATAACTGGCATAAATGACACCTTTCTGTCATATGCACATTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
*
1005743 CAT
66 CCT
* * * * *
1005746 TTCATCTAACTGGTATAAATGACACTTTTCTGTCAGATGCACAGTTAGGCCTTAAAGGCATTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
1005811 CCT
66 CCT
* *
1005814 TTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGGCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
1005879 CCT
66 CCT
*
1005882 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
1005947 CCT
66 CCT
*
1005950 TTCATCTAACTGGCATAAATGACACCTTTCTATCATATGCACAGTTAGGCCTCAAAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAG
1006007 CTTTTAACTT
Statistics
Matches: 301, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 301 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1006345 original size:59 final size:59
Alignment explanation
Indices: 1006224--1006489 Score: 320
Period size: 59 Copynumber: 4.5 Consensus size: 59
1006214 TCTTATATAA
* * * * * * *
1006224 AAATTCTTACTCTTATTATGAATTTATTATCATTTTAGCACAC-AATGTGCTCAATATGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCTATATGG
* * * * * *
1006283 AAATCCATACACTTAGTATAAATTTCTTAACATTTTAGCATATGAAGCGCCCTATATAG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGG
** * *
1006342 AAATTCATACAAAGT-GTATGAATTTCTTAACATTTTAGCACACGAAGTGCCTTATACGG
1 AAATTCATAC-ACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGG
* * *
1006401 AAATTCATACACTTAGTATGAGTTTCTTAACATTTTAGCACACGAAGTACCCTATAGGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGG
1006460 AAATTCATACACTTAGTATGAATTTCTTAA
1 AAATTCATACACTTAGTATGAATTTCTTAA
1006490 TTTTGCGCAC
Statistics
Matches: 174, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
58 2 0.01
59 168 0.97
60 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGG
Found at i:1006955 original size:95 final size:95
Alignment explanation
Indices: 1006803--1007013 Score: 219
Period size: 95 Copynumber: 2.2 Consensus size: 95
1006793 TCGATACTAC
* * * * * *
1006803 TACCCTGGTACCGATACTTCTATACTATAGTATCGATACCGCCTTACGATATTGATACAAAATTT
1 TACCATGGTATCGATACTACCATACTATAGTACCGATACCGCCTTACGATATCGATACAAAATTT
* * *
1006868 ATG-TTTGAAGTTTCCTAGTATATATACCCT
66 A-GATTCGAAGTTGCCTAGTATAGATACCCT
* * * * * *
1006898 TACTATGGTATCGATACTACCATACTATGGTACCGATATCC-CCTTCCGGTATCGATACCAATTT
1 TACCATGGTATCGATACTACCATACTATAGTACCGATA-CCGCCTTACGATATCGATACAAAATT
* * * *
1006962 TAGATTCGATGTTGCTTGGTATCGATACCCT
65 TAGATTCGAAGTTGCCTAGTATAGATACCCT
1006993 TACCATGGTATCGATACTACC
1 TACCATGGTATCGATACTACC
1007014 TCGTTGGTAT
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
94 1 0.01
95 91 0.97
96 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (95 bp):
TACCATGGTATCGATACTACCATACTATAGTACCGATACCGCCTTACGATATCGATACAAAATTT
AGATTCGAAGTTGCCTAGTATAGATACCCT
Found at i:1025564 original size:14 final size:14
Alignment explanation
Indices: 1025545--1025577 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
1025535 ATATGTTCTA
1025545 GCGCGTGACTCCAC
1 GCGCGTGACTCCAC
1025559 GCGCGTGACTCCAC
1 GCGCGTGACTCCAC
1025573 GCGCG
1 GCGCG
1025578 CTCCTGTGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.42, G:0.33, T:0.12
Consensus pattern (14 bp):
GCGCGTGACTCCAC
Found at i:1025857 original size:37 final size:37
Alignment explanation
Indices: 1025805--1026040 Score: 273
Period size: 37 Copynumber: 6.4 Consensus size: 37
1025795 GTTTTCTAAA
*
1025805 ATATATTATATATATTTCCCAAAAACGTTTT-AAAACT
1 ATATATTATATATATTT-CCAAAAATGTTTTCAAAACT
* * *
1025842 ATATATTATACATATTTTCAAAAAATGATTTCAAAACT
1 ATATATTATATATA-TTTCCAAAAATGTTTTCAAAACT
** *
1025880 ATATATTATATAT-TTT-TTAAAATGTTTTCAAAATT
1 ATATATTATATATATTTCCAAAAATGTTTTCAAAACT
* *
1025915 ATATATTATATATATTTTCAAAAATGTTTTCAAAATT
1 ATATATTATATATATTTCCAAAAATGTTTTCAAAACT
*
1025952 ATATATTATATATATTT-TAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTCCAAAAATGTTTTCAAAACT
* * * * *
1025988 ACATATTGTATATATTTTCGAACAATGTTTTCTAAACT
1 ATATATTATATATA-TTTCCAAAAATGTTTTCAAAACT
*
1026026 ATATACTATATATAT
1 ATATATTATATATAT
1026041 ATATATATAT
Statistics
Matches: 172, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
35 28 0.16
36 35 0.20
37 61 0.35
38 48 0.28
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATATTATATATATTTCCAAAAATGTTTTCAAAACT
Found at i:1025892 original size:73 final size:72
Alignment explanation
Indices: 1025805--1026038 Score: 299
Period size: 73 Copynumber: 3.2 Consensus size: 72
1025795 GTTTTCTAAA
* * *
1025805 ATATATTATATATATTTCCCAAAAACGTTTT-AAAACTATATATTATACATATTTTCAAAAAATG
1 ATATATTATATAT-TTT--TAAAAATGTTTTCAAAACTATATATTATATATATTTTC-AAAAATG
*
1025869 ATTTCAAAACT
62 TTTTCAAAACT
* *
1025880 ATATATTATATATTTTTTAAAATGTTTTCAAAATTATATATTATATATATTTTCAAAAATGTTTT
1 ATATATTATATATTTTTAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTT
*
1025945 CAAAATT
66 CAAAACT
* * *
1025952 ATATATTATATATATTTTAAAAATGTTTTCAAAACTACATATTGTATATATTTTCGAACAATGTT
1 ATATATTATATAT-TTTTAAAAATGTTTTCAAAACTATATATTATATATATTTTC-AAAAATGTT
*
1026017 TTCTAAACT
64 TTCAAAACT
*
1026026 ATATACTATATAT
1 ATATATTATATAT
1026039 ATATATATAT
Statistics
Matches: 141, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
72 38 0.27
73 60 0.43
74 30 0.21
75 13 0.09
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (72 bp):
ATATATTATATATTTTTAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTT
CAAAACT
Found at i:1026037 original size:2 final size:2
Alignment explanation
Indices: 1026025--1026081 Score: 105
Period size: 2 Copynumber: 28.0 Consensus size: 2
1026015 TTTTCTAAAC
1026025 TA TA TA CTA 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
1026068 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1026082 CTCAAAAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 52 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1027987 original size:27 final size:28
Alignment explanation
Indices: 1027948--1028020 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
1027938 ACTAAAAATT
1027948 TTATGAAATTATAAAAATTAGG-GCCCTAA
1 TTAT-AAA-TATAAAAATTAGGAGCCCTAA
* *
1027977 TTATAAATATAAAAAATTAGGAGTCCTAG
1 TTATAAATAT-AAAAATTAGGAGCCCTAA
*
1028006 TTATAAATACAAAAA
1 TTATAAATATAAAAA
1028021 ATTTGGGGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.08
28 18 0.46
29 18 0.46
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (28 bp):
TTATAAATATAAAAATTAGGAGCCCTAA
Found at i:1027991 original size:28 final size:29
Alignment explanation
Indices: 1027960--1028023 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1027950 ATGAAATTAT
*
1027960 AAAAATTAGG-GCCCTAATTATAAATATA
1 AAAAATTAGGAGCCCTAATTATAAATACA
* *
1027988 AAAAATTAGGAGTCCTAGTTATAAATACA
1 AAAAATTAGGAGCCCTAATTATAAATACA
1028017 AAAAATT
1 AAAAATT
1028024 TGGGGGCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (29 bp):
AAAAATTAGGAGCCCTAATTATAAATACA
Found at i:1027992 original size:117 final size:116
Alignment explanation
Indices: 1027755--1027994 Score: 342
Period size: 117 Copynumber: 2.1 Consensus size: 116
1027745 TGAAAAAACC
* * *
1027755 AAAAAAATGATTAAATTTAATTCAAAAATAAATAAATAAATAAGAGAAATGAAAAAAGGTTCAAA
1 AAAAAATTGATTAAATTTAATTCAAAAATAAATAAATAAATAACAAAAATGAAAAAAGGTTCAAA
*
1027820 AACTAAACATTTTATGAAATTATAAAAATTAGGGGCCCTAATTATAAATAT
66 AACTAAAAATTTTATGAAATTATAAAAATTAGGGGCCCTAATTATAAATAT
* * ** * *
1027871 -AAAAATTGGTTAAATTTAATTCAAAATTGGATGAATTAATAACAAAAATGGAAAAAGAGGGTT-
1 AAAAAATTGATTAAATTTAATTCAAAAATAAATAAATAAATAACAAAAAT-GAAAAA-A-GGTTC
1027934 AAAAACTAAAAATTTTATGAAATTATAAAAATTA-GGGCCCTAATTATAAATAT
63 AAAAACTAAAAATTTTATGAAATTATAAAAATTAGGGGCCCTAATTATAAATAT
1027987 AAAAAATT
1 AAAAAATT
1027995 AGGAGTCCTA
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
115 40 0.36
116 25 0.23
117 41 0.37
118 4 0.04
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (116 bp):
AAAAAATTGATTAAATTTAATTCAAAAATAAATAAATAAATAACAAAAATGAAAAAAGGTTCAAA
AACTAAAAATTTTATGAAATTATAAAAATTAGGGGCCCTAATTATAAATAT
Found at i:1028138 original size:15 final size:14
Alignment explanation
Indices: 1028118--1028149 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
1028108 GAAGTTCGGC
1028118 TTTTTTTATTTTTAT
1 TTTTTTTA-TTTTAT
1028133 TTTTTTTATTTTAT
1 TTTTTTTATTTTAT
1028147 TTT
1 TTT
1028150 GCAATAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTATTTTAT
Found at i:1030560 original size:14 final size:16
Alignment explanation
Indices: 1030541--1030572 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1030531 CCCAATGATG
1030541 AATATCA-CAGA-ATA
1 AATATCATCAGAGATA
1030555 AATATCATCAGAGATA
1 AATATCATCAGAGATA
1030571 AA
1 AA
1030573 AGTCTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.22
Consensus pattern (16 bp):
AATATCATCAGAGATA
Found at i:1043728 original size:44 final size:44
Alignment explanation
Indices: 1043665--1043771 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
1043655 TTTTGTGCAC
* * *
1043665 TATGCATCGATACACTATGAAAGTGTATCGATGCATCCCTTGAA
1 TATGCATCAATACACTATGAAAGTGCACCGATGCATCCCTTGAA
* * * *
1043709 TATGCATCAATACATTATGAAGGTGCACCGATGCATTCTTTGAA
1 TATGCATCAATACACTATGAAAGTGCACCGATGCATCCCTTGAA
*
1043753 TGTGCATCAATACACTATG
1 TATGCATCAATACACTATG
1043772 CAATGTACCG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
TATGCATCAATACACTATGAAAGTGCACCGATGCATCCCTTGAA
Found at i:1043735 original size:21 final size:21
Alignment explanation
Indices: 1043711--1043771 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 21
1043701 CCCTTGAATA
1043711 TGCATCAATACATTATGAAGG
1 TGCATCAATACATTATGAAGG
* * * * *
1043732 TGCACCGATGCATTCTTTGAATG
1 TGCATCAATACA-T-TATGAAGG
*
1043755 TGCATCAATACACTATG
1 TGCATCAATACATTATG
1043772 CAATGTACCG
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
21 12 0.43
22 1 0.04
23 15 0.54
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (21 bp):
TGCATCAATACATTATGAAGG
Found at i:1045520 original size:27 final size:28
Alignment explanation
Indices: 1045490--1045573 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
1045480 TTTGTTCAGG
1045490 TCGGGTCGGG-TTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
*
1045517 TCGGATCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
*
1045545 TCAGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1045573 T
1 T
1045574 TGGGCCGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 9 0.17
28 44 0.83
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.46
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:1045792 original size:276 final size:276
Alignment explanation
Indices: 1045278--1045796 Score: 871
Period size: 277 Copynumber: 1.9 Consensus size: 276
1045268 GTCGGATCGA
* *
1045278 GTTTTTTTAAGTGTGATATTCGGGTCGGGTCAGGTTCGGGTTTAGGGTGAAAAAATCGGACCGAC
1 GTTTTTTTAAGTGTGATATTCGGGCCGGGTCAGGTTCGGGTTTAGGGTGAAAAAACCGGACCGAC
1045343 CCGAAAATATATATAATTCAGGTCGAGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATT
66 CCGAAAATATATATAATTCAGGTCGAGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATT
* * * *
1045408 TTTTATTATTTCGGGTCGAGTCGTGTTGGATTTCTAATTCATATATTCTGGTAGGGTCGGATGAA
131 TTTTATTATTTCGGGTCGAGTCGGGTAGAATTTCTAATTCATATATTCGGGTAGGGTCGGATGAA
1045473 ACTTTATTTTGTTCAGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGATCGGGTTTTTTTAAGT
196 ACTTTATTTTGTTCAGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGATCGGGTTTTTTTAAGT
1045538 GTGATATTCAGGTCGG
261 GTGATATTCAGGTCGG
* * *
1045554 GTTTTTTTAAGTGTGATATTTGGGCCGGTTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGA
1 GTTTTTTTAAGTGTGATATTCGGGCCGGGTCAGGTTCGGGTTTAGGGTG-AAAAAACCGGACCGA
* * *
1045619 CCCTAAAATATATATAATTCGGGTC-AGATCGGATTAAGTCATTATTTTTATTAAATAAAAATAA
65 CCCGAAAATATATATAATTCAGGTCGAG-TCGGATTAAGTCACTATTTTTATTAAATAAAAATAA
* *
1045683 TTTTTTATTATTTCGGGTCGGGTCGGGTAGAATTTCTAATTCATATATTCGGGTCGGGTCGGATG
129 TTTTTTATTATTTCGGGTCGAGTCGGGTAGAATTTCTAATTCATATATTCGGGTAGGGTCGGATG
*
1045748 -AACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGG
194 AAACTTTATTTTGTTCAGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGG
1045797 TCGAGTCGAG
Statistics
Matches: 226, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
276 95 0.42
277 131 0.58
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (276 bp):
GTTTTTTTAAGTGTGATATTCGGGCCGGGTCAGGTTCGGGTTTAGGGTGAAAAAACCGGACCGAC
CCGAAAATATATATAATTCAGGTCGAGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATT
TTTTATTATTTCGGGTCGAGTCGGGTAGAATTTCTAATTCATATATTCGGGTAGGGTCGGATGAA
ACTTTATTTTGTTCAGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGATCGGGTTTTTTTAAGT
GTGATATTCAGGTCGG
Found at i:1045816 original size:36 final size:38
Alignment explanation
Indices: 1045765--1045840 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 38
1045755 TTTTGTTCGG
* *
1045765 GTCGGGTCGGGTTTTTT-AAGTGTGATATTC-GGTCGA
1 GTCGAGTCGGATTTTTTCAAGTGTGATATTCGGGTCGA
1045801 GTCGAGTCGGATTTTTTCAAGTGTGATATTCGGGTCGA
1 GTCGAGTCGGATTTTTTCAAGTGTGATATTCGGGTCGA
1045839 GT
1 GT
1045841 TTAGGGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 15 0.42
37 13 0.36
38 8 0.22
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (38 bp):
GTCGAGTCGGATTTTTTCAAGTGTGATATTCGGGTCGA
Found at i:1046452 original size:18 final size:16
Alignment explanation
Indices: 1046416--1046461 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
1046406 TATGGAATTG
1046416 GATTCCAATTCCTACA
1 GATTCCAATTCCTACA
*
1046432 GATTCCAATTCATTCACA
1 GATTCCAATTC-CT-ACA
1046450 GATTCCAATTCC
1 GATTCCAATTCC
1046462 CTCATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (16 bp):
GATTCCAATTCCTACA
Found at i:1047304 original size:13 final size:13
Alignment explanation
Indices: 1047282--1047315 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1047272 GGGAGTAGTA
*
1047282 ATTTTCAAAACTG
1 ATTTTCAAAAATG
1047295 A-TTTCAAAAATG
1 ATTTTCAAAAATG
1047307 ATTTTCAAA
1 ATTTTCAAA
1047316 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:1049961 original size:20 final size:20
Alignment explanation
Indices: 1049919--1049963 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1049909 CGATACTAAG
* *
1049919 CCCTTTAGTATTGATATCGA
1 CCCTTTAGTATTGAAACCGA
*
1049939 CCCTTTAGTATTGAAACCTA
1 CCCTTTAGTATTGAAACCGA
1049959 CCCTT
1 CCCTT
1049964 GGTGTCGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (20 bp):
CCCTTTAGTATTGAAACCGA
Found at i:1050853 original size:20 final size:21
Alignment explanation
Indices: 1050817--1050883 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
1050807 CTAAGACATT
*
1050817 GATACTC-T-CATTGAGTATC
1 GATACTCATACATTTAGTATC
*
1050836 GATAC-CATACATTTAGTATT
1 GATACTCATACATTTAGTATC
* * *
1050856 GATACTCTTTCATATAGTATC
1 GATACTCATACATTTAGTATC
1050877 GATACTC
1 GATACTC
1050884 TCTTGAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 6 0.15
20 14 0.36
21 18 0.46
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (21 bp):
GATACTCATACATTTAGTATC
Found at i:1058773 original size:55 final size:55
Alignment explanation
Indices: 1058689--1058961 Score: 309
Period size: 55 Copynumber: 5.0 Consensus size: 55
1058679 ATTACCAAAT
* *
1058689 GGTACTATTTGTGCAAAACTAAGGAATTCATATTAAGTGTATGAATTTTCGTATG
1 GGTACTATGTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATG
* * *
1058744 GGTACTATGTGTGCAAAACTAAGGAATTCACACAAAGTGTATGAATTTTCTTATG
1 GGTACTATGTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATG
* * * *
1058799 GGCT-CTATATTTGCAAAACTAAGAAATTCATTCTAAGTGTATGAATTTTCGTATG
1 GG-TACTATGTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATG
* * * * **
1058854 AGCACTATGTCTGCAAAACTAAGAAATTCATACTATTTGTATGAATTTTCGTATG
1 GGTACTATGTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATG
* ** * ** *
1058909 GGCACTCGGTGTGC-GAACTAA-GACATTCATACTAAGCATATGAATTTCCGTAT
1 GGTACTATGTGTGCAAAACTAAGGA-ATTCATACTAAGTGTATGAATTTTCGTAT
1058962 AGGAAACAGA
Statistics
Matches: 185, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 30 0.16
55 153 0.83
56 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (55 bp):
GGTACTATGTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATG
Found at i:1059170 original size:17 final size:18
Alignment explanation
Indices: 1059130--1059170 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1059120 TCATTGATAT
*
1059130 TAAAAACTATTATTAAAG
1 TAAAAACTATTACTAAAG
1059148 TAAAAACTATT-CTAAGAG
1 TAAAAACTATTACTAA-AG
1059166 TAAAA
1 TAAAA
1059171 GATAATGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (18 bp):
TAAAAACTATTACTAAAG
Found at i:1059424 original size:81 final size:81
Alignment explanation
Indices: 1059163--1059883 Score: 903
Period size: 81 Copynumber: 8.9 Consensus size: 81
1059153 ACTATTCTAA
* * * *
1059163 GAGTAAAAGAT-AATGACCTAGTTGTGCATTTGGCTA-AAATGTGTCAATTACGCCAGTTAGATG
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGC-AGAAAGGTGTCAATTATGCCAGTTAGATG
* *
1059226 AGCGGTTAAAT-ACTATT
65 AACGGTTAAATAAC-GTT
*
1059243 GAGTAAAAGATAAATGGCCTAGCAGTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1059307 ACGGTTAAATATCGTT
66 ACGGTTAAATAACGTT
* * **
1059323 GAGTAAAAGTTAAATGGCCTAGTTGTGCATTTGGCAGAAATATGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1059388 ATGGTTAAA-AACGATT
66 ACGGTTAAATAACG-TT
* ** *
1059404 GAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAAATGTCAATTATACCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1059469 ACAGTTAAATATCGTT
66 ACGGTTAAATAACGTT
* * * * * * *
1059485 GAGTAAAAGATAAATGGCATAACTGTGCATTTGGCATAAATGTATCAATTATGCTAGTTAGATTA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1059550 ACGGTTAAATACCGTT
66 ACGGTTAAATAACGTT
* * ** * *
1059566 GAGTAAAAGATAAATGTCCTAGCTATGCATTTGGCAGAAAAATGTCAATTATTCCAGTTAGATAA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1059631 ATGGTTAAATACCGTT
66 ACGGTTAAATAACGTT
* * *
1059647 GAGTAAAAGATAAATGGTCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATACCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1059712 ACGGTTAAATACCTTT
66 ACGGTTAAATAACGTT
*
1059728 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAATTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* * *
1059793 ACAGTTAAAGACCGTT
66 ACGGTTAAATAACGTT
* * * * * * * *
1059809 GAGTAAAAGATTAATGGTCTAGCTATACATTTGGTAGAAAAGTGTCAATCATGCAAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1059874 AAGGTTAAAT
66 ACGGTTAAAT
1059884 GCCTTTGGTT
Statistics
Matches: 559, Mismatches: 76, Indels: 11
0.87 0.12 0.02
Matches are distributed among these distances:
80 85 0.15
81 471 0.84
82 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.30
Consensus pattern (81 bp):
GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
ACGGTTAAATAACGTT
Found at i:1063888 original size:20 final size:19
Alignment explanation
Indices: 1063838--1063892 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
1063828 ATCAATTCAA
*
1063838 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCATGAG
1063857 G-GAGTATCGATACCATGAG
1 GTG-GTATCGATACCATGAG
*
1063876 GATGGTATTGATACCAT
1 G-TGGTATCGATACCAT
1063893 TGATCACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 12 0.39
21 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (19 bp):
GTGGTATCGATACCATGAG
Found at i:1063938 original size:19 final size:19
Alignment explanation
Indices: 1063914--1063967 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 19
1063904 TGTAAAAATG
* *
1063914 GTATCGGTACCGTAATAGA
1 GTATCGATACCATAATAGA
1063933 GTATCGATACCATAATATAGTA
1 GTATCGATACCAT-A-ATAG-A
1063955 GTATCGATACCAT
1 GTATCGATACCAT
1063968 GGTGGGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 11 0.37
20 1 0.03
21 4 0.13
22 14 0.47
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:1064357 original size:55 final size:55
Alignment explanation
Indices: 1064290--1064457 Score: 266
Period size: 55 Copynumber: 3.1 Consensus size: 55
1064280 ACCAAATTGA
*
1064290 ACTATATGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTTGTATGGGC
1 ACTATATGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATGGGC
* * *
1064345 ACTATTTGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCATATGGAC
1 ACTATATGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATGGGC
* *
1064400 ACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAA-TTTCGGTATGGGC
1 ACTATATGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTC-GTATGGGC
1064455 ACT
1 ACT
1064458 CAATGTATTA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 4 0.04
55 100 0.96
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (55 bp):
ACTATATGTGCAAAACTAAGGAATTCATACTAAGTGTATGAATTTTCGTATGGGC
Found at i:1064778 original size:81 final size:81
Alignment explanation
Indices: 1064556--1066085 Score: 2136
Period size: 81 Copynumber: 18.9 Consensus size: 81
1064546 ACTATTCTAA
* *
1064556 GAGTAAAAGAT-AATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGG
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1064620 ACGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
* * * *
1064636 GAGTAAAAGATAAATAGTCTACCT-TGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1064700 ACGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
* * *
1064716 GAGTAAAAGAAAAATGGCCTAGCTGTGCATTTGGAAAAAAGGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1064781 ACAGTTAAAGACCGTT
66 ACGGTTAAATACCGTT
* * *
1064797 GAGTAAACGATTAATGGCCTAGCTATGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1064862 ACTG-TAAATACCGTT
66 ACGGTTAAATACCGTT
* * * * ** *
1064877 GAGTATATGATAAATGGCCTAACTATGCATTTGGCTTAAAGATGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1064942 ACGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
* * ** * * *
1064958 GAGTAAAAGATAAATTGACTATATGTGTATTTCGCAGAAAGGTGTCAATTATGCTAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1065023 ACGGTTAAAGACCGTC
66 ACGGTTAAATACCGTT
*
1065039 GAGTAAAAGATAAATGGCCTAGCT-TCGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
1 GAGTAAAAGATAAATGGCCTAGCTGT-GCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
* *
1065103 AACGGTTAAAGACTGTT
65 AACGGTTAAATACCGTT
* * *
1065120 -ATGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
1 GA-GTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
*
1065184 AATGGTTAAATACCGTT
65 AACGGTTAAATACCGTT
* * * *
1065201 GAGTAAAATATAAATGGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTACGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1065266 ACGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
* **
1065282 GAGTAAAAGATAAATGGTCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATATCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1065347 ACAGTTAAATACCATT
66 ACGGTTAAATACCGTT
*
1065363 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGACAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1065428 ACGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
*
1065444 GAGTAAAAGATAAATGGCATAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1065509 ACTGTTAAAGACCGTT
66 ACGGTTAAATACCGTT
* * * *
1065525 GAGTAAAAGATTAATGGTCTAGCTATGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1065590 ACAGTTAAATACCATT
66 ACGGTTAAATACCGTT
* * * * *
1065606 GAGTAAAAGATAAATGGTCTAACTGTGCATTTGGCAGAAAGATGTCAATTAAT-CCAGTTAGGTA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT-ATGCCAGTTAGATG
*
1065670 AACGGTTAAATACAGTT
65 AACGGTTAAATACCGTT
* * * *
1065687 GAGTAAGAGATAAATGGCCTAGATGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGTTGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
1065752 ACGGTTAAAGACCTTT
66 ACGGTTAAATACCGTT
* *
1065768 GAGTAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1065833 ATGGTTAAATACCGTT
66 ACGGTTAAATACCGTT
* * * * * *
1065849 GAGTAAAATATAAATAGCCTAGTTGTGCATTTGGTAGAAATGTGTCAATTATGACAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1065914 ACGGTTAAATACCTTT
66 ACGGTTAAATACCGTT
* * * *
1065930 GAGTAAAAGATAAATGGCCTAGCTGTGTATTTGGCAGAAATGTGTGAATTATCCCAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
* * **
1065995 ACGATTAAAGATTGTT
66 ACGGTTAAATACCGTT
* * * * * **
1066011 GAGTAAAAGATTAATGGCGTAGCTGTGCATTTGGCAGAAAAGTGTAAATCATGTAAGTTAGATGA
1 GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1066076 AAGGTTAAAT
66 ACGGTTAAAT
1066086 GCCTTTGGTT
Statistics
Matches: 1287, Mismatches: 154, Indels: 17
0.88 0.11 0.01
Matches are distributed among these distances:
80 159 0.12
81 1124 0.87
82 4 0.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (81 bp):
GAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
ACGGTTAAATACCGTT
Found at i:1068109 original size:41 final size:41
Alignment explanation
Indices: 1068039--1068140 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 41
1068029 CACAAACGGC
* * *
1068039 ACTAAAGTACGAGT-ATTTAGTATACTTTGTATAAGAACGCA
1 ACTAAAGTACGAGTCA-ATAGTAGACTTTGTATAAAAACGCA
* *
1068080 ACTAAAGTACGAGTCAATAGT-GACGTTTGTATAAAAATGCC
1 ACTAAAGTACGAGTCAATAGTAGAC-TTTGTATAAAAACGCA
* * *
1068121 GCTAAAGTATGAGTCTATAG
1 ACTAAAGTACGAGTCAATAG
1068141 CGGCATTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.04
41 48 0.94
42 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (41 bp):
ACTAAAGTACGAGTCAATAGTAGACTTTGTATAAAAACGCA
Found at i:1068153 original size:28 final size:28
Alignment explanation
Indices: 1068121--1068176 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1068111 TAAAAATGCC
* *
1068121 GCTAAAGTATGAGTCTATAGCGGCATTT
1 GCTAAAGTACGAGTATATAGCGGCATTT
*
1068149 GCTAAAGTACGAGTATTTAGCGGCATTT
1 GCTAAAGTACGAGTATATAGCGGCATTT
1068177 TAAGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
GCTAAAGTACGAGTATATAGCGGCATTT
Found at i:1068587 original size:39 final size:39
Alignment explanation
Indices: 1068544--1068622 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
1068534 TATAATATAT
1068544 ACAGGGGCAGATGCACTATGCCCTAGTAGGAGCAAGTGC
1 ACAGGGGCAGATGCACTATGCCCTAGTAGGAGCAAGTGC
*
1068583 ACAGGGGCGGATGCACTATGCCCTAGTAGGAGCAAGTGC
1 ACAGGGGCAGATGCACTATGCCCTAGTAGGAGCAAGTGC
1068622 A
1 A
1068623 TCATTAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.34, T:0.15
Consensus pattern (39 bp):
ACAGGGGCAGATGCACTATGCCCTAGTAGGAGCAAGTGC
Found at i:1073334 original size:33 final size:32
Alignment explanation
Indices: 1073272--1073334 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
1073262 AATCATATTA
**
1073272 TTTATTTATTTGAAATAATATTATCTTTAACT
1 TTTATTTATTTGAAATAATATTAAATTTAACT
*
1073304 TTTATTTGATTTTAAATAAT-TTAAAATTTAA
1 TTTATTT-ATTTGAAATAATATT-AAATTTAA
1073335 GGTAAACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 9 0.35
33 17 0.65
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTATTTATTTGAAATAATATTAAATTTAACT
Found at i:1073424 original size:15 final size:16
Alignment explanation
Indices: 1073379--1073450 Score: 56
Period size: 19 Copynumber: 4.1 Consensus size: 16
1073369 GTTTTTATAT
1073379 AATATTATTTAAAAATA
1 AATATTATTT-AAAATA
*
1073396 AATTGATAATTTAAAA-A
1 AA-T-ATTATTTAAAATA
1073413 AATATTATTTAAATAATAA
1 AATATTATTT-AA-AAT-A
1073432 TTAATATTATTTAAAATA
1 --AATATTATTTAAAATA
1073450 A
1 A
1073451 TAACTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
15 6 0.13
16 4 0.09
17 7 0.16
18 6 0.13
19 10 0.22
20 2 0.04
21 10 0.22
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (16 bp):
AATATTATTTAAAATA
Done.