Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015236.1 Kokia drynarioides strain JFW-HI SEQ_130281, 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: 162947
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 348 characters in sequence are not A, C, G, or T
Found at i:3270 original size:30 final size:30
Alignment explanation
Indices: 3230--3290 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3220 CCCTGCCGTA
*
3230 CGCGCGTGGTCGCCACGAGCCACCGATCGT
1 CGCGCATGGTCGCCACGAGCCACCGATCGT
* * * *
3260 CGCGCATGGTCGTCGCGAGCCATCGTTCGT
1 CGCGCATGGTCGCCACGAGCCACCGATCGT
3290 C
1 C
3291 AACGCGTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.11, C:0.38, G:0.33, T:0.18
Consensus pattern (30 bp):
CGCGCATGGTCGCCACGAGCCACCGATCGT
Found at i:4433 original size:34 final size:33
Alignment explanation
Indices: 4390--4475 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
4380 TTTGGATTTT
4390 CAAAGTTTAAATTTAAATTAAATCCAAACTCAAAA
1 CAAA-TTTAAATTTAAATTAAATCCAAA-TCAAAA
* * **
4425 CAAATTTAAATTTAAAGTAAATTCAAATTTAAA
1 CAAATTTAAATTTAAATTAAATCCAAATCAAAA
* *
4458 TAAATTTATATTTAAATT
1 CAAATTTAAATTTAAATT
4476 TTAAAAAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 19 0.43
34 21 0.48
35 4 0.09
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.37
Consensus pattern (33 bp):
CAAATTTAAATTTAAATTAAATCCAAATCAAAA
Found at i:4435 original size:6 final size:6
Alignment explanation
Indices: 4426--4476 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
4416 AACTCAAAAC
* * *
4426 AAATTT AAATTT AAA-GT AAATTC AAATTT AAA--T AAATTT ATATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
4471 AAATTT
1 AAATTT
4477 TAAAAAATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 28 0.78
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:4446 original size:17 final size:16
Alignment explanation
Indices: 4426--4474 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
4416 AACTCAAAAC
4426 AAATTTAAATTTAAAGT
1 AAATTTAAATTTAAA-T
*
4443 AAATTCAAATTTAAAT
1 AAATTTAAATTTAAAT
*
4459 AAATTTATATTTAAAT
1 AAATTTAAATTTAAAT
4475 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATTTAAATTTAAAT
Found at i:8628 original size:35 final size:35
Alignment explanation
Indices: 8582--8656 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
8572 CTCTATTCTT
* *
8582 AAAAAA-G-GCGAATTGCATTTCAACCCTCTATTA
1 AAAAAATGAGCGAATTACATTTCAACCCTCAATTA
* * *
8615 GAAAAATGAGCGAATTACATTTCATCCTTCAATTA
1 AAAAAATGAGCGAATTACATTTCAACCCTCAATTA
8650 AAAAAAT
1 AAAAAAT
8657 AAGTAAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 5 0.15
34 1 0.03
35 28 0.82
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (35 bp):
AAAAAATGAGCGAATTACATTTCAACCCTCAATTA
Found at i:18444 original size:1 final size:1
Alignment explanation
Indices: 18438--18464 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
18428 NNNNNNNNNN
18438 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
18465 GCATAATACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31471 original size:14 final size:14
Alignment explanation
Indices: 31452--31483 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31442 CGATCTGCCC
31452 ATATTAATATTTTT
1 ATATTAATATTTTT
*
31466 ATATTATTATTTTT
1 ATATTAATATTTTT
31480 ATAT
1 ATAT
31484 AAAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTAATATTTTT
Found at i:33970 original size:20 final size:21
Alignment explanation
Indices: 33945--33999 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
33935 GTGAAAACTC
33945 AAAATTCCTTTAAAATAT-AA
1 AAAATTCCTTTAAAATATCAA
* *
33965 AAAATT-CATT-AAATTTCAA
1 AAAATTCCTTTAAAATATCAA
*
33984 AAATTTCCTTTAAAAT
1 AAAATTCCTTTAAAAT
34000 TTCATGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 5 0.18
19 10 0.36
20 9 0.32
21 4 0.14
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTCCTTTAAAATATCAA
Found at i:34373 original size:29 final size:28
Alignment explanation
Indices: 34323--34381 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
34313 AAGATTACGG
34323 AATAAAAGTATAGGAGTCAAATTAATAAA
1 AATAAAAGTATAGGAGTCAAATTAA-AAA
* *
34352 AATAAAAGTAT-CGAGATTAAATTAAAAA
1 AATAAAAGTATAGGAG-TCAAATTAAAAA
34380 AA
1 AA
34382 GATCGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (28 bp):
AATAAAAGTATAGGAGTCAAATTAAAAA
Found at i:35977 original size:34 final size:30
Alignment explanation
Indices: 35907--35983 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 30
35897 CACTGGTTAA
*
35907 ATTTAAATAAAAAAATTTAACTATCTAATG
1 ATTTAAATAAAAAAATTTAAATATCTAATG
* *
35937 ACTTAAATAAACGAAAATTTTAAATGATTTAATG
1 ATTTAAATAAA--AAAA-TTTAAAT-ATCTAATG
35971 ATTTAAATAAAAA
1 ATTTAAATAAAAA
35984 TTTTTGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 10 0.26
32 6 0.15
33 6 0.15
34 17 0.44
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (30 bp):
ATTTAAATAAAAAAATTTAAATATCTAATG
Found at i:37603 original size:6 final size:6
Alignment explanation
Indices: 37588--37628 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
37578 GAAATGGGTA
*
37588 GGTGGT GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGG
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGG
37629 AGGAGGACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.12, G:0.68, T:0.20
Consensus pattern (6 bp):
GGTGGC
Found at i:38092 original size:18 final size:18
Alignment explanation
Indices: 38069--38107 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38059 GCACGTGCCC
38069 ATGTTTACTATTTTTATA
1 ATGTTTACTATTTTTATA
38087 ATGTTTACTATTTTTATA
1 ATGTTTACTATTTTTATA
38105 ATG
1 ATG
38108 GTAAACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (18 bp):
ATGTTTACTATTTTTATA
Found at i:50010 original size:27 final size:27
Alignment explanation
Indices: 49980--50032 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49970 CTTTTTATAT
*
49980 ATATATTTTAA-TGTTTAAATTTTTTGA
1 ATATATTTTAACTG-TTAAATTATTTGA
*
50007 ATATTTTTTAACTGTTAAATTATTTG
1 ATATATTTTAACTGTTAAATTATTTG
50033 TTGATGTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (27 bp):
ATATATTTTAACTGTTAAATTATTTGA
Found at i:53809 original size:25 final size:26
Alignment explanation
Indices: 53762--53815 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
53752 TTATATTTGA
*
53762 AAAATTTTAAAATATTTTAACAAAAT
1 AAAATTTTAAAATATTATAACAAAAT
*
53788 AAAA-TTTAAAATA-TATATACAAATT
1 AAAATTTTAAAATATTATA-ACAAAAT
53813 AAA
1 AAA
53816 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAATTTTAAAATATTATAACAAAAT
Found at i:54770 original size:14 final size:13
Alignment explanation
Indices: 54732--54770 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
54722 TCATTAATTT
54732 TATTTATAAAATA
1 TATTTATAAAATA
54745 TATTT-TAAAAATA
1 TATTTAT-AAAATA
54758 CTATTTATAAAAT
1 -TATTTATAAAAT
54771 CTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 10 0.43
15 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTATAAAATA
Found at i:64286 original size:50 final size:51
Alignment explanation
Indices: 64229--64341 Score: 174
Period size: 50 Copynumber: 2.2 Consensus size: 51
64219 TTTAAGTCAC
* *
64229 GTTAAATTTATACATGTATTATCTATTGAAGTTTAATTTTTAAATC-AAAT
1 GTTAAATTTAAACATGTATTATCTATTGAAATTTAATTTTTAAATCAAAAT
*
64279 GTTAAATTTAAATATGTATTATCTATTGAAATTTAATTTTTAAATCAAAAT
1 GTTAAATTTAAACATGTATTATCTATTGAAATTTAATTTTTAAATCAAAAT
* *
64330 ATTAAATATAAA
1 GTTAAATTTAAA
64342 ATATCACGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 43 0.75
51 14 0.25
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (51 bp):
GTTAAATTTAAACATGTATTATCTATTGAAATTTAATTTTTAAATCAAAAT
Found at i:79291 original size:123 final size:122
Alignment explanation
Indices: 79094--79341 Score: 417
Period size: 123 Copynumber: 2.0 Consensus size: 122
79084 TTTTCTTTTC
* *
79094 TTATTGTTTTGCGATTTTTCTATTGCCATTATCAATGTTAGTTTTAACACAAATTAAAATTTTAA
1 TTATTGTTTTGCGATATTTCTATTGCCATTATCAACGTTAGTTTTAACACAAATTAAAATTTTAA
* *
79159 AATAGTTAATATTAATTACTTATAATTATTTAAAATTTATATTTCATATATTAAAATA
66 AATAATTAATATTAATTACTTATAATTATAT-AAATTTATATTTCATATATTAAAATA
* *
79217 TTATTGTTTTGCGATATTTCTATTGTCATTATCGACGTTAGTTTTAACACAAATT-AAATTTTAA
1 TTATTGTTTTGCGATATTTCTATTGCCATTATCAACGTTAGTTTTAACACAAATTAAAATTTT-A
79281 AAATAATTAATATTAATTACTTATAATTATATAAATTTATATTTCATATATTAAAATA
65 AAATAATTAATATTAATTACTTATAATTATATAAATTTATATTTCATATATTAAAATA
79339 TTA
1 TTA
79342 ATAACGAGTT
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
122 36 0.31
123 82 0.69
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (122 bp):
TTATTGTTTTGCGATATTTCTATTGCCATTATCAACGTTAGTTTTAACACAAATTAAAATTTTAA
AATAATTAATATTAATTACTTATAATTATATAAATTTATATTTCATATATTAAAATA
Found at i:79505 original size:13 final size:15
Alignment explanation
Indices: 79480--79511 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
79470 AACATTTAAG
79480 TTTTAAAATAATAT-
1 TTTTAAAATAATATC
79494 TTTTAAAA-AATATC
1 TTTTAAAATAATATC
79508 TTTT
1 TTTT
79512 CACCCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAATAATATC
Found at i:80132 original size:30 final size:30
Alignment explanation
Indices: 80093--80153 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
80083 TAACAACCTG
* *
80093 ATGACTTAAAT-AAAATTTTTTGAATAGTTC
1 ATGACTTAAATGAAAA-CTTTTAAATAGTTC
*
80123 ATGATTTAAATGAAAACTTTTAAATAGTTC
1 ATGACTTAAATGAAAACTTTTAAATAGTTC
80153 A
1 A
80154 ACGATCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.41
Consensus pattern (30 bp):
ATGACTTAAATGAAAACTTTTAAATAGTTC
Found at i:80789 original size:17 final size:14
Alignment explanation
Indices: 80746--80779 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
80736 TAATGTATGA
*
80746 AATAATT-TTTTAT
1 AATAATTATTTTTT
80759 AATAATTATTTTTT
1 AATAATTATTTTTT
80773 AATAATT
1 AATAATT
80780 TATATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATAATTATTTTTT
Found at i:82842 original size:24 final size:24
Alignment explanation
Indices: 82812--82860 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
82802 TAAATTAGAG
82812 AATAAAGATTAAAATTATAAACTT
1 AATAAAGATTAAAATTATAAACTT
82836 AATAAAGATTAAAATTATAAACTT
1 AATAAAGATTAAAATTATAAACTT
82860 A
1 A
82861 CACATGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AATAAAGATTAAAATTATAAACTT
Found at i:83568 original size:18 final size:18
Alignment explanation
Indices: 83524--83570 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
83514 ATCGATTTAA
* * *
83524 TAATTTTTTTTTAATTTT
1 TAATTTTTTATGAATATT
83542 TAGA-TTTTTATGAATATT
1 TA-ATTTTTTATGAATATT
83560 TAATTTTTTAT
1 TAATTTTTTAT
83571 TTGACAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TAATTTTTTATGAATATT
Found at i:86475 original size:14 final size:14
Alignment explanation
Indices: 86450--86476 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86440 GTACATACGA
86450 ATATATACATATAC
1 ATATATACATATAC
86464 ATATATACATATA
1 ATATATACATATA
86477 TGTTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATATACATATAC
Found at i:86527 original size:2 final size:2
Alignment explanation
Indices: 86516--86563 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
86506 AAAATCAATC
86516 TA TA TA -A 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
86557 TA TA TA T
1 TA TA TA T
86564 TTCCATATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88664 original size:32 final size:32
Alignment explanation
Indices: 88599--88664 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
88589 AAAATTATAT
* * **
88599 ATGATCCTTTGCATTTTCTGTGAGATATTATA
1 ATGATCCTTTGCATTTTCTATGAAATACCATA
88631 ATGATCCTTTGCATTTTCTATGAAATACCATA
1 ATGATCCTTTGCATTTTCTATGAAATACCATA
88663 AT
1 AT
88665 AATATTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (32 bp):
ATGATCCTTTGCATTTTCTATGAAATACCATA
Found at i:92675 original size:18 final size:18
Alignment explanation
Indices: 92624--92676 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
92614 CCAAAGAGAA
92624 AAAAGAAAACAAAAAGAAGG
1 AAAAG-AAACAAAAA-AAGG
*
92644 AAAA-AACCATAAAAAAGG
1 AAAAGAAACA-AAAAAAGG
92662 AAAAGAAACAAAAAA
1 AAAAGAAACAAAAAA
92677 GAGAGGCCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 17 0.59
19 8 0.28
20 4 0.14
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.02
Consensus pattern (18 bp):
AAAAGAAACAAAAAAAGG
Found at i:93625 original size:99 final size:99
Alignment explanation
Indices: 93522--93734 Score: 236
Period size: 99 Copynumber: 2.2 Consensus size: 99
93512 CCGTAACGAT
* * * * *
93522 GAACCTGATACCTTAAAGG-ATGTTATGGGAAAGATTGAGGTCGTAACGATGAAT-TCGATACCA
1 GAACCTGATACCTTAAAGGTATG--AAGGGAAAGATTGAGGCCGCAACGACGAATCT-AATACCA
* * * *
93585 TGAAGATATG-ATGGGAAAGGTTGAGGCCACAACGGC
63 TGAAGATATGAAAGGAAAAGGATGAGGCCACAAAGGC
* * *
93621 GAACCCGATACCATGAAGGTATGAAGGGAAAGATTGAGGCCGCAACGACGAATCTAATACCATGA
1 GAACCTGATACCTTAAAGGTATGAAGGGAAAGATTGAGGCCGCAACGACGAATCTAATACCATGA
* *
93686 AGATATGAAAGGAAAAGGATGGGGCCTCAAAGGC
66 AGATATGAAAGGAAAAGGATGAGGCCACAAAGGC
93720 GAACCT-AGTACCTTA
1 GAACCTGA-TACCTTA
93735 GAAACATGAT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
98 43 0.46
99 47 0.51
100 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (99 bp):
GAACCTGATACCTTAAAGGTATGAAGGGAAAGATTGAGGCCGCAACGACGAATCTAATACCATGA
AGATATGAAAGGAAAAGGATGAGGCCACAAAGGC
Found at i:93630 original size:49 final size:49
Alignment explanation
Indices: 93486--93700 Score: 182
Period size: 49 Copynumber: 4.4 Consensus size: 49
93476 ACGGAGGAAA
* ** * *
93486 CATGAAG--ATGAAGGGAAAAATTGAGGCCGTAACGATGAACCTGATAC
1 CATGAAGATATGAAGGGAAAGATTGAGGCCACAACGACGAACCCGATAC
* * * * * * ** * **
93533 CTTAAAGGATGTTATGGGAAAGATTGAGGTCGTAACGATGAATTCGATAC
1 CATGAA-GATATGAAGGGAAAGATTGAGGCCACAACGACGAACCCGATAC
* * *
93583 CATGAAGATATGATGGGAAAGGTTGAGGCCACAACGGCGAACCCGATAC
1 CATGAAGATATGAAGGGAAAGATTGAGGCCACAACGACGAACCCGATAC
* * * **
93632 CATGAAGGTATGAAGGGAAAGATTGAGGCCGCAACGACGAATCTAATAC
1 CATGAAGATATGAAGGGAAAGATTGAGGCCACAACGACGAACCCGATAC
*
93681 CATGAAGATATGAAAGGAAA
1 CATGAAGATATGAAGGGAAA
93701 AGGATGGGGC
Statistics
Matches: 133, Mismatches: 32, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
47 4 0.03
48 1 0.01
49 92 0.69
50 36 0.27
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (49 bp):
CATGAAGATATGAAGGGAAAGATTGAGGCCACAACGACGAACCCGATAC
Found at i:94029 original size:41 final size:41
Alignment explanation
Indices: 93925--94250 Score: 339
Period size: 41 Copynumber: 7.9 Consensus size: 41
93915 ATCGTTATCT
* * *
93925 AATCATTTACCCCTAATCAAGAGGGACAGATTGAAGCCATTCC
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAG--ATTCC
** * * *
93968 AAATCTTTTACCTTTAATCAAGAGGGGCAAATTGAAGATTCT
1 -AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
* * *
94010 AATCTTTTTCCCTTGATCAAGAAGGGCAGATTGAAGATTCC
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
* * *
94051 AATATTTTACCTCTGATTAAGAGGGGCAGATTGAAGATTCC
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
* *
94092 AGTCTTTTACCCCTGATCAAGAGAGGCAGATTGAAGATTCC
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
* * * ** *
94133 AGTCTTTTATCTCTGATCAAGAAAGACAGATTGAAGAATT-C
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAG-ATTCC
* * * *
94174 AATCTTTTACCCCTAATCAAGAGGGACAGATTAAAGATTTC
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
* * * *
94215 AATCTTCTACCCCTAATCAATAGGGGTAGATTGAAG
1 AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAG
94251 CCACCCAATT
Statistics
Matches: 241, Mismatches: 39, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
40 3 0.01
41 200 0.83
42 7 0.03
44 31 0.13
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
AATCTTTTACCCCTGATCAAGAGGGGCAGATTGAAGATTCC
Found at i:94152 original size:123 final size:123
Alignment explanation
Indices: 93930--94250 Score: 394
Period size: 123 Copynumber: 2.6 Consensus size: 123
93920 TATCTAATCA
**
93930 TTTACCCCTAATCAAGAGGGACAGATTGAAGCCATTCCAAATCTTTTACCTTTAATCAAGAGGGG
1 TTTACCCCTAATCAAGAGGGACAGATTGAAG--ATTCC-AATCTTTTACCCCTAATCAAGAGGGG
* * * *
93995 CAAATTGAAGATTCTAATCTTTTTCCCTTGATCAAGAAGGGCAGATTGAAG-ATTCCAATAT
63 CAGATTGAAGATTCCAATCTTTTTCCCTTGATCAAGAAAGACAGATTGAAGAATT-CAATAT
* * * * * * *
94056 TTTACCTCTGATTAAGAGGGGCAGATTGAAGATTCCAGTCTTTTACCCCTGATCAAGAGAGGCAG
1 TTTACCCCTAATCAAGAGGGACAGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGCAG
* * *
94121 ATTGAAGATTCCAGTCTTTTATCTC-TGATCAAGAAAGACAGATTGAAGAATTCAATCT
66 ATTGAAGATTCCAATCTTTT-TCCCTTGATCAAGAAAGACAGATTGAAGAATTCAATAT
* * * * *
94179 TTTACCCCTAATCAAGAGGGACAGATTAAAGATTTCAATCTTCTACCCCTAATCAATAGGGGTAG
1 TTTACCCCTAATCAAGAGGGACAGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGCAG
94244 ATTGAAG
66 ATTGAAG
94251 CCACCCAATT
Statistics
Matches: 165, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
123 127 0.77
124 11 0.07
126 27 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (123 bp):
TTTACCCCTAATCAAGAGGGACAGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGCAG
ATTGAAGATTCCAATCTTTTTCCCTTGATCAAGAAAGACAGATTGAAGAATTCAATAT
Found at i:98044 original size:21 final size:20
Alignment explanation
Indices: 98005--98044 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97995 ATAAATAGAT
*
98005 TTAATTAAGGTTAAAAATGG
1 TTAATTAAGCTTAAAAATGG
*
98025 TTAATTAAAGCTTAATAATG
1 TTAATT-AAGCTTAAAAATG
98045 AAGTCTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
TTAATTAAGCTTAAAAATGG
Found at i:106177 original size:40 final size:40
Alignment explanation
Indices: 106133--106267 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
106123 AGTCTAGTGA
* *
106133 TGTTTATAATGTCACAGCTAGTTCAGTAATAATATTG-ATG
1 TGTTTATAGTGTCACAGCTAGTTCAGTAATAATATCGCA-G
* *
106173 TGTTTACAGTGTCACTGCTAGTTCAGTAATAATATCGCAG
1 TGTTTATAGTGTCACAGCTAGTTCAGTAATAATATCGCAG
* * * * * *
106213 TGTTTATAGTGTCACTGCCAATTCATTAATATTATCACAG
1 TGTTTATAGTGTCACAGCTAGTTCAGTAATAATATCGCAG
*
106253 TGTTTACAGTGTCAC
1 TGTTTATAGTGTCAC
106268 TGCCAATTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
40 82 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (40 bp):
TGTTTATAGTGTCACAGCTAGTTCAGTAATAATATCGCAG
Found at i:106268 original size:40 final size:40
Alignment explanation
Indices: 106154--106275 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
106144 TCACAGCTAG
* * * *
106154 TTCAGTAATAATATTGA-TGTGTTTACAGTGTCACTGCTAG
1 TTCAGTAATAATA-TCACAGTGTTTACAGTGTCACTGCCAA
* *
106194 TTCAGTAATAATATCGCAGTGTTTATAGTGTCACTGCCAA
1 TTCAGTAATAATATCACAGTGTTTACAGTGTCACTGCCAA
* *
106234 TTCATTAATATTATCACAGTGTTTACAGTGTCACTGCCAA
1 TTCAGTAATAATATCACAGTGTTTACAGTGTCACTGCCAA
106274 TT
1 TT
106276 ATAAACAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (40 bp):
TTCAGTAATAATATCACAGTGTTTACAGTGTCACTGCCAA
Found at i:124963 original size:37 final size:37
Alignment explanation
Indices: 124920--125032 Score: 226
Period size: 37 Copynumber: 3.1 Consensus size: 37
124910 AATGTATTAT
124920 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
1 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
124957 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
1 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
124994 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
1 TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
125031 TA
1 TA
125033 CCAAATATTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (37 bp):
TAGATTTGATAGGGCTCTAGAGAGAGTTTCTTATTCA
Found at i:128552 original size:4 final size:4
Alignment explanation
Indices: 128543--128567 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
128533 TGGGAACCCA
128543 TCAC TCAC TCAC TCAC TCAC TCAC T
1 TCAC TCAC TCAC TCAC TCAC TCAC T
128568 AAGTCCCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCAC
Found at i:129751 original size:21 final size:21
Alignment explanation
Indices: 129726--129776 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
129716 AGATTATATA
129726 ATTTGAATTTATAAACTTTAT
1 ATTTGAATTTATAAACTTTAT
* * *
129747 GTTTGGATTTCTAAACTTTAT
1 ATTTGAATTTATAAACTTTAT
129768 ATTTGAATT
1 ATTTGAATT
129777 ATGCTATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTTGAATTTATAAACTTTAT
Found at i:131406 original size:96 final size:96
Alignment explanation
Indices: 131222--131413 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
131212 TTTTTACGAA
** *
131222 AAGGATATTCGATTATCTCGATTCGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
*
131287 AAACCGAAGATAAGGAAACATTGCCTCGATT
66 AAACCGAAGATAAAGAAACATTGCCTCGATT
* * * * *
131318 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATTTTT
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATA-TTTC
* *
131382 GAAACTCGAA-ATATAAG-AATATTGCCTCGATT
65 AAAAC-CGAAGATA-AAGAAACATTGCCTCGATT
131414 TTAAAGTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 75 0.91
97 6 0.07
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
AAACCGAAGATAAAGAAACATTGCCTCGATT
Found at i:131838 original size:29 final size:29
Alignment explanation
Indices: 131792--132086 Score: 282
Period size: 29 Copynumber: 10.1 Consensus size: 29
131782 GGACATCCGG
131792 GGGT-AAAATGGTAATTTTT-GAAGTTTCA
1 GGGTAAAAATGG-AATTTTTGGAAGTTTCA
* * *
131820 AGGTCAAAAATGGGATTTTTGGAAG-TTCG
1 GGGT-AAAAATGGAATTTTTGGAAGTTTCA
* *
131849 GGAGTAAAAACGAAATTTTTGGAAGTTTCA
1 GG-GTAAAAATGGAATTTTTGGAAGTTTCA
* *
131879 AGGTCAAAAATGGGATTTTTGGAAG-TTCAA
1 GGGT-AAAAATGGAATTTTTGGAAGTTTC-A
* *
131909 AGGTAAAAATGGAATTTTTGGAAGTTTCG
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
*
131938 GGGTTAAAAATGGGATTTTTGGAAGTTT-A
1 GGG-TAAAAATGGAATTTTTGGAAGTTTCA
*
131967 GGGGTAAAAATGGAATTTTTGGAAGTTTCG
1 -GGGTAAAAATGGAATTTTTGGAAGTTTCA
* * * *
131997 GGGTCAAAATGGGATTTTAGGAAG-TTCGG
1 GGGTAAAAATGGAATTTTTGGAAGTTTC-A
*
132026 GGGTAAAATTGGAATTTTTGGAAGTTT-A
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
**
132054 GGGGTAAAAATATAATTTTTGGATAGTTT-A
1 -GGGTAAAAATGGAATTTTTGGA-AGTTTCA
132084 GGG
1 GGG
132087 ACCTCCGGTG
Statistics
Matches: 222, Mismatches: 30, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
28 6 0.03
29 140 0.63
30 76 0.34
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTCA
Found at i:131890 original size:59 final size:59
Alignment explanation
Indices: 131796--132052 Score: 342
Period size: 59 Copynumber: 4.4 Consensus size: 59
131786 ATCCGGGGGT
131796 AAAATGGTAATTTTT-GAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGGGAGTA
1 AAAATGG-AATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGGGAGTA
* * **
131855 AAAACGAAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTC-AAAGGTA
1 AAAATGGAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGGGA-GTA
** * *
131914 AAAATGGAATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTAGGG-GTA
1 AAAATGGAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAG-TTCGGGAGTA
** * *
131973 AAAATGGAATTTTTGGAAGTTTCGGGGTC-AAAATGGGATTTTAGGAAGTTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGGGAGTA
*
132031 AAATTGGAATTTTTGGAAGTTT
1 AAAATGGAATTTTTGGAAGTTT
132053 AGGGGTAAAA
Statistics
Matches: 177, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
57 5 0.03
58 50 0.28
59 120 0.68
60 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGGAAGTTCGGGAGTA
Found at i:133176 original size:17 final size:16
Alignment explanation
Indices: 133127--133172 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
133117 TTCATTACTG
*
133127 TTATAATTAATAATA-
1 TTATTATTAATAATAT
*
133142 TTATTATTAAAAAATAT
1 TTATTATT-AATAATAT
133159 TTATTATTAATAAT
1 TTATTATTAATAAT
133173 TATTAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATTAATAATAT
Found at i:133617 original size:15 final size:15
Alignment explanation
Indices: 133597--133632 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
133587 GTCTCAAAAA
*
133597 TGCAGTGGCTGTTGG
1 TGCAGTGGCGGTTGG
133612 TGCAGTGGCGGTTGG
1 TGCAGTGGCGGTTGG
133627 TGCAGT
1 TGCAGT
133633 CCAAGTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.14, G:0.47, T:0.31
Consensus pattern (15 bp):
TGCAGTGGCGGTTGG
Found at i:133882 original size:17 final size:17
Alignment explanation
Indices: 133857--133938 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
133847 GACTTTTTAA
* **
133857 TTAAGTTTTAAATCCAT
1 TTAAATTTTAAATAAAT
*
133874 TTAAATTTTAATTAAAT
1 TTAAATTTTAAATAAAT
*
133891 TTAAA-TTTAAAGCAAAT
1 TTAAATTTTAAA-TAAAT
*
133908 TTAAATTTAAAAGATAAAT
1 TTAAATTT-TAA-ATAAAT
133927 TTAAA-TTTAAAT
1 TTAAATTTTAAAT
133939 TTTAAAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.13
17 29 0.56
18 4 0.08
19 11 0.21
20 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
TTAAATTTTAAATAAAT
Found at i:133890 original size:11 final size:11
Alignment explanation
Indices: 133874--133966 Score: 55
Period size: 11 Copynumber: 8.0 Consensus size: 11
133864 TTAAATCCAT
*
133874 TTAAATTTTAA
1 TTAAATTTAAA
133885 TTAAATTTAAA
1 TTAAATTTAAA
**
133896 TTTAAA-GCAAA
1 -TTAAATTTAAA
133907 TTTAAATTTAAAA
1 -TTAAATTT-AAA
*
133920 GATAAATTTAAA
1 -TTAAATTTAAA
133932 TTTAAATTTTAAAA
1 -TTAAA-TTT-AAA
* *
133946 ATAAATTTGAA
1 TTAAATTTAAA
133957 -TAAATTTAAA
1 TTAAATTTAAA
133967 CCCAATAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
10 9 0.14
11 21 0.32
12 15 0.23
13 17 0.26
14 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:133927 original size:13 final size:12
Alignment explanation
Indices: 133909--133966 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
133899 AAAGCAAATT
133909 TAAATTTAAAAGA
1 TAAATTTAAAA-A
**
133922 TAAATTTAAATT
1 TAAATTTAAAAA
133934 TAAATTTTAAAAA
1 TAAA-TTTAAAAA
*
133947 TAAATTT--GAA
1 TAAATTTAAAAA
133957 TAAATTTAAA
1 TAAATTTAAA
133967 CCCAATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
10 9 0.25
12 7 0.19
13 20 0.56
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:133928 original size:19 final size:18
Alignment explanation
Indices: 133872--133937 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
133862 TTTTAAATCC
* *
133872 ATTTAAATTT-TAATTAA
1 ATTTAAATTTAAAAGTAA
*
133889 ATTTAAATTT-AAAGCAA
1 ATTTAAATTTAAAAGTAA
133906 ATTTAAATTTAAAAGATAA
1 ATTTAAATTTAAAAG-TAA
133925 ATTTAAATTTAAA
1 ATTTAAATTTAAA
133938 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 24 0.56
18 4 0.09
19 15 0.35
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTAAATTTAAAAGTAA
Found at i:133942 original size:7 final size:6
Alignment explanation
Indices: 133872--133966 Score: 72
Period size: 6 Copynumber: 16.2 Consensus size: 6
133862 TTTTAAATCC
* **
133872 ATTTAA ATTTTA A-TTAA ATTTAA ATTTAA A-GCAA ATTTAA ATTTAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA
** ** *
133919 AGATAA ATTTAA ATTTAA ATTTTAA AAATAA ATTTGA A--TAA ATTTAA
1 ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA ATTTAA ATTTAA ATTTAA
133966 A
1 A
133967 CCCAATAAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
4 3 0.04
5 7 0.10
6 47 0.70
7 10 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:134874 original size:186 final size:187
Alignment explanation
Indices: 134560--134934 Score: 601
Period size: 186 Copynumber: 2.0 Consensus size: 187
134550 TCAATCCACT
*
134560 TCTCTGTATCTTATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCG
1 TCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCG
* *
134625 TTTATTGCTTCGACCTACTTCTCGGTGTCTCATCAAGAAGCTGGGATTCGAAGATTTTGCTCGCT
66 TTCATTGCTTCGACCTACTTCTCGGAGTCTCATCAAGAAGCTGGGATTCGAAGATTTTGCTCGCT
* *
134690 TTGAGCTG-G-GTTTGATTTGGTCTTCTTCTCAATATCTCATCAAGAAGATGACCGCA
131 CTGAG-TGTGAGTTTGATTTGATCTTCTTCTCAATATCTCATCAAGAAGATGACCGCA
** *
134746 TCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTTGAAGCTAACTG
1 TCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCG
* * * *
134811 TTCATTGCTTCGACCTGCTTCTCGGAGTCTCATCAGGAAGTTGGGGTTCGAAGATTTTGCTCGCT
66 TTCATTGCTTCGACCTACTTCTCGGAGTCTCATCAAGAAGCTGGGATTCGAAGATTTTGCTCGCT
* *
134876 CTGAGTGTGAGTTTGATTTGATCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCA
131 CTGAGTGTGAGTTTGATTTGATCTTCTTCTCAATATCTCATCAAGAAGATGACCGCA
134933 TC
1 TC
134935 ACTTGTTTCA
Statistics
Matches: 173, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
185 2 0.01
186 125 0.72
187 46 0.27
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (187 bp):
TCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCG
TTCATTGCTTCGACCTACTTCTCGGAGTCTCATCAAGAAGCTGGGATTCGAAGATTTTGCTCGCT
CTGAGTGTGAGTTTGATTTGATCTTCTTCTCAATATCTCATCAAGAAGATGACCGCA
Found at i:135100 original size:206 final size:206
Alignment explanation
Indices: 134741--135131 Score: 656
Period size: 206 Copynumber: 1.9 Consensus size: 206
134731 AAGAAGATGA
**
134741 CCGCATCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTTGAAGCT
1 CCGCATCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCT
** * *
134806 AACTGTTCATTGCTTCGACCTGCTTCTCGGAGTCTCATCAGGAAGTTGGGGTTCGAAGATTTTGC
66 AACCATTCATTGCTTCGACCTGCTTCTCGGAGTCTCATCAGGAAGCTGAGGTTCGAAGATTTTGC
134871 TCGCTCTGAGTGTGAGTTTGATTTGATCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
131 TCGCTCTGAGTGTGAGTTTGATTTGATCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
134936 CTTGTTTCAAT
196 CTTGTTTCAAT
*
134947 CCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCT
1 CCGCATCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCT
* * *
135012 AACCATTTATTGCTTCGACCTGCTTCTCGGTGTCTCATCAGGAAGCTGAGGTTTGAAGATTTTGC
66 AACCATTCATTGCTTCGACCTGCTTCTCGGAGTCTCATCAGGAAGCTGAGGTTCGAAGATTTTGC
* * * *
135077 TCGCTTTGAGTGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGAT
131 TCGCTCTGAGTGTGAGTTTGATTTGATCTTCTTCTCAGTATCTCATCAGGAAGAT
135132 TATCGCGTCG
Statistics
Matches: 171, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 171 1.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (206 bp):
CCGCATCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCT
AACCATTCATTGCTTCGACCTGCTTCTCGGAGTCTCATCAGGAAGCTGAGGTTCGAAGATTTTGC
TCGCTCTGAGTGTGAGTTTGATTTGATCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
CTTGTTTCAAT
Found at i:135663 original size:27 final size:27
Alignment explanation
Indices: 135633--135692 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
135623 TCAAGAATTC
*
135633 TATTAAAAAGAGGATCGAAGGAAAA-AA
1 TATTAAAAAGAGGATC-AAAGAAAACAA
*
135660 TATTAAAAAGTGGATCAAAGAAAACAA
1 TATTAAAAAGAGGATCAAAGAAAACAA
135687 TCATTA
1 T-ATTA
135693 GTTGAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 18 0.62
28 4 0.14
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (27 bp):
TATTAAAAAGAGGATCAAAGAAAACAA
Found at i:146638 original size:96 final size:96
Alignment explanation
Indices: 146450--146641 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
146440 TTTTTACGAA
** *
146450 AAGGATATTCGATTATCTCGATTCGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
* * *
146515 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 AAATCGAAGATAAAGAAACATTACCTCGATT
* * * *
146546 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATTTTC
1 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATA-TTTC
*
146610 AAAACTCGAA-ATATAAG-AATATTACCTCGATT
65 AAAA-TCGAAGATA-AAGAAACATTACCTCGATT
146642 TTAAAGTTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 74 0.90
97 7 0.09
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
AAATCGAAGATAAAGAAACATTACCTCGATT
Found at i:146969 original size:29 final size:28
Alignment explanation
Indices: 146876--147247 Score: 217
Period size: 29 Copynumber: 12.8 Consensus size: 28
146866 GGATACCCGA
146876 GGGT-AAAATGGTAA-TTTTGG-ATTCTCG
1 GGGTAAAAATGG-AATTTTTGGAATT-TCG
* * *
146903 GGTGT-GAAATGGTAATTTTTGGAAAATTCAA
1 GG-GTAAAAATGG-AATTTTTGG-AATTTC-G
* * *
146934 GGTTAAAAATGGAATTTTTAGACATTTTG
1 GGGTAAAAATGGAATTTTTGGA-ATTTCG
* *
146963 GGGT-AAAAGGGTAA-TTTTGAGAGTTTCG
1 GGGTAAAAATGG-AATTTTTG-GAATTTCG
* ** *
146991 AGGTCAAAAAT-GAAGTTTTTAAACATTTGG
1 GGGT-AAAAATGGAA-TTTTTGGA-ATTTCG
*
147021 GGGT-AAAATGGTAATTTTTGGAAGTTTTG
1 GGGTAAAAATGG-AATTTTTGGAA-TTTCG
*
147050 GGGTTAAAAATGGGATTTTTGGAAGTTT-G
1 GGG-TAAAAATGGAATTTTTGGAA-TTTCG
* *
147079 TGGGTAAAAAT-GAGATTTTTAGAAGTTTTG
1 -GGGTAAAAATGGA-ATTTTTGGAA-TTTCG
* * *
147109 GCGTCAAAAATGGGATTTTTGGAAATTCG
1 GGGT-AAAAATGGAATTTTTGGAATTTCG
*
147138 GGGATAAAAATGGAATTTTTGAAAGTTTCG
1 GGG-TAAAAATGGAATTTTTGGAA-TTTCG
* * *
147168 AGGTTAAAAATGGGATTTTTGGAAGTTTAG
1 -GGGTAAAAATGGAATTTTTGGAA-TTTCG
*
147198 GGGTAAAAATGGAA-TTTTGGAAGTTCG
1 GGGTAAAAATGGAATTTTTGGAATTTCG
*
147225 AGGGTAAAAATAGAATTTTTGGA
1 -GGGTAAAAATGGAATTTTTGGA
147248 CAGTTTAGGG
Statistics
Matches: 271, Mismatches: 45, Indels: 56
0.73 0.12 0.15
Matches are distributed among these distances:
27 5 0.02
28 58 0.21
29 95 0.35
30 93 0.34
31 20 0.07
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.35
Consensus pattern (28 bp):
GGGTAAAAATGGAATTTTTGGAATTTCG
Found at i:146981 original size:58 final size:59
Alignment explanation
Indices: 146913--147249 Score: 239
Period size: 59 Copynumber: 5.8 Consensus size: 59
146903 GGTGTGAAAT
** *
146913 GGTAATTTTTGGAAAATTCAAGGTTAAAAATGGAATTTTTAGACATTTTGGGGTAAAAG
1 GGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTAGACATTTTGGGGTAAAAG
* * * *
146972 GGTAA-TTTT-GAGAGTTTCGAGGTCAAAAAT-GAAGTTTTTAAACATTTGGGGGTAAAAT
1 GGTAATTTTTGGA-AGTTTCGAGGTTAAAAATGGAA-TTTTTAGACATTTTGGGGTAAAAG
* * * * * *
147030 GGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGA-AGTTTGTGGGTAAAAA
1 GGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTAGACATTTTG-GGGTAAAAG
* * * * * * * * *
147089 TG-AGATTTTTAGAAGTTTTG-GCGTCAAAAATGGGATTTTTGGA-AATTCGGGGATAAAAAT
1 GGTA-ATTTTTGGAAGTTTCGAG-GTTAAAAATGGAATTTTTAGACATTTTGGGG-T-AAAAG
* * * * *
147149 GG-AATTTTTGAAAGTTTCGAGGTTAAAAATGGGATTTTTGGA-AGTTTAGGGGTAAAAAT
1 GGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTAGACA-TTTTGGGGT-AAAAG
* * *
147208 GG-AA-TTTTGGAAG-TTCGAGGGTAAAAATAGAATTTTTGGACA
1 GGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTAGACA
147250 GTTTAGGGAC
Statistics
Matches: 232, Mismatches: 33, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
57 29 0.12
58 62 0.27
59 124 0.53
60 17 0.07
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (59 bp):
GGTAATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTAGACATTTTGGGGTAAAAG
Found at i:147052 original size:30 final size:30
Alignment explanation
Indices: 147016--147253 Score: 222
Period size: 30 Copynumber: 8.1 Consensus size: 30
147006 TTTTTAAACA
147016 TTTGGGGGT-AAAATGGTAATTTTTGGAAGT
1 TTTGGGGGTAAAAATGG-AATTTTTGGAAGT
* *
147046 TTTGGGGTTAAAAATGGGATTTTTGGAAG-
1 TTTGGGGGTAAAAATGGAATTTTTGGAAGT
* *
147075 TTTGTGGGTAAAAAT-GAGATTTTTAGAAGT
1 TTTGGGGGTAAAAATGGA-ATTTTTGGAAGT
* * *
147105 TTT-GGCGTCAAAAATGGGATTTTTGGAA-A
1 TTTGGGGGT-AAAAATGGAATTTTTGGAAGT
* * *
147134 TTCGGGGATAAAAATGGAATTTTTGAAAGT
1 TTTGGGGGTAAAAATGGAATTTTTGGAAGT
* * * *
147164 TTCGAGGTTAAAAATGGGATTTTTGGAAG-
1 TTTGGGGGTAAAAATGGAATTTTTGGAAGT
*
147193 TTTAGGGGTAAAAATGGAA-TTTTGGAAG-
1 TTTGGGGGTAAAAATGGAATTTTTGGAAGT
* * *
147221 TTCGAGGGTAAAAATAGAATTTTTGGACAGT
1 TTTGGGGGTAAAAATGGAATTTTTGGA-AGT
147252 TT
1 TT
147254 AGGGACCTCC
Statistics
Matches: 168, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
28 25 0.15
29 66 0.39
30 67 0.40
31 10 0.06
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (30 bp):
TTTGGGGGTAAAAATGGAATTTTTGGAAGT
Found at i:147161 original size:28 final size:27
Alignment explanation
Indices: 146909--147245 Score: 135
Period size: 30 Copynumber: 11.5 Consensus size: 27
146899 CTCGGGTGTG
* *
146909 AAATGGTAATTTTTGGAAAATTCAAGGTTAA
1 AAATGG-AATTTTT-G-AAATTC-GGGGTAA
* *
146940 AAATGGAATTTTTAGACATTTTGGGGT-A
1 AAATGGAATTTTT-GA-AATTCGGGGTAA
* * *
146968 AAAGGGTAA-TTTTGAGAGTTTCGAGGTCAA
1 AAATGG-AATTTTTGA-A-ATTCGGGGT-AA
* *
146998 AAAT-GAAGTTTTTAAACATTTGGGGGT-A
1 AAATGGAA-TTTTTGAA-A-TTCGGGGTAA
* *
147026 AAATGGTAATTTTTGGAAGTTTTGGGGTTAA
1 AAATGG-AATTTTT-GAA-ATTCGGGG-TAA
* * *
147057 AAATGGGATTTTTGGAAGTTTGTGGGTAA
1 AAATGGAATTTTT-GAAATTCG-GGGTAA
* * *
147086 AAAT-GAGATTTTTAGAAGTTTTGGCGTCAA
1 AAATGGA-ATTTTT-GAA-ATTCGGGGT-AA
*
147116 AAATGGGATTTTTGGAAATTCGGGGATAA
1 AAATGGAATTTTT-GAAATTCGGGG-TAA
*
147145 AAATGGAATTTTTGAAAGTTTCGAGGTTAA
1 AAATGGAATTTTTGAAA--TTCG-GGGTAA
* * *
147175 AAATGGGATTTTTGGAAGTTTAGGGGTAA
1 AAATGGAATTTTT-GAA-ATTCGGGGTAA
* *
147204 AAATGGAATTTTGGAAGTTCGAGGGTAA
1 AAATGGAATTTTTGAAATTCG-GGGTAA
*
147232 AAATAGAATTTTTG
1 AAATGGAATTTTTG
147246 GACAGTTTAG
Statistics
Matches: 239, Mismatches: 42, Indels: 53
0.72 0.13 0.16
Matches are distributed among these distances:
27 6 0.03
28 50 0.21
29 78 0.33
30 86 0.36
31 19 0.08
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (27 bp):
AAATGGAATTTTTGAAATTCGGGGTAA
Found at i:148394 original size:17 final size:16
Alignment explanation
Indices: 148345--148390 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
148335 TTCATTACTG
*
148345 TTATAATTAATAATA-
1 TTATTATTAATAATAT
*
148360 TTATTATTAAAAAATAT
1 TTATTATT-AATAATAT
148377 TTATTATTAATAAT
1 TTATTATTAATAAT
148391 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATTAATAATAT
Found at i:149080 original size:6 final size:6
Alignment explanation
Indices: 149066--149143 Score: 79
Period size: 6 Copynumber: 13.2 Consensus size: 6
149056 TTTTAAATCT
* * **
149066 ATTTAA ATTTTA A-TTAA AATTAA ATTTAA A-GCAA ATTTAA ATTTAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA
**
149113 AGATAA ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
149144 AATAAATTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.12
6 47 0.81
7 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:149152 original size:18 final size:17
Alignment explanation
Indices: 149066--149143 Score: 84
Period size: 17 Copynumber: 4.4 Consensus size: 17
149056 TTTTAAATCT
*
149066 ATTTAAATTTTAATTAA
1 ATTTAAATTTAAATTAA
* **
149083 AATTAAATTTAAAGCAA
1 ATTTAAATTTAAATTAA
*
149100 ATTTAAATTTAAAAGATAA
1 ATTTAAATTT-AAA-TTAA
149119 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAA-TTAA
149137 ATTTAAA
1 ATTTAAA
149144 AATAAATTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
17 22 0.44
18 16 0.32
19 12 0.24
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAATTAA
Found at i:150408 original size:2 final size:2
Alignment explanation
Indices: 150403--150454 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
150393 ATATTATTTT
*
150403 TA TA TA -A TT 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
150444 TA TA TA TA TA T
1 TA TA TA TA TA T
150455 TACATTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:151701 original size:9 final size:9
Alignment explanation
Indices: 151679--151745 Score: 59
Period size: 9 Copynumber: 7.6 Consensus size: 9
151669 ATATATATTC
151679 AAAATATTTAT
1 AAAA-ATTT-T
151690 AAAAATTTT
1 AAAAATTTT
*
151699 -AAAATTTC
1 AAAAATTTT
151707 AAAAATTTT
1 AAAAATTTT
* *
151716 TAAAATTAT
1 AAAAATTTT
151725 AAAAA--TT
1 AAAAATTTT
*
151732 AAAAATTCT
1 AAAAATTTT
151741 AAAAA
1 AAAAA
151746 AATATAAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
7 6 0.13
8 7 0.15
9 25 0.54
10 4 0.09
11 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:151728 original size:18 final size:18
Alignment explanation
Indices: 151686--151731 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
151676 TTCAAAATAT
151686 TTATAAAAA-TTTTAAAA
1 TTATAAAAATTTTTAAAA
151703 TT-TCAAAAATTTTTAAAA
1 TTAT-AAAAATTTTTAAAA
151721 TTATAAAAATT
1 TTATAAAAATT
151732 AAAAATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.04
17 7 0.27
18 17 0.65
19 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATAAAAATTTTTAAAA
Found at i:151810 original size:66 final size:65
Alignment explanation
Indices: 151733--151860 Score: 204
Period size: 66 Copynumber: 1.9 Consensus size: 65
151723 ATAAAAATTA
*
151733 AAAATTCT-AAAAAAATATAAAAGGGATAATTTTAAAAAAAAATCAAAATTGTTATGAATATTAA
1 AAAATTCTAAAAAAAATATAAAAGGGAT-ATTTT-AAAAAAAATCAAAATTGATATGAATATTAA
151797 AC
64 AC
*
151799 AAAATTCTAAAAAAAAATATAAAAGGGATATTTTAAAAAAATTCAAAATTGATATGAATATT
1 AAAATTCT-AAAAAAAATATAAAAGGGATATTTTAAAAAAAATCAAAATTGATATGAATATT
151861 TTATTAAGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
66 34 0.59
67 5 0.09
68 19 0.33
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.30
Consensus pattern (65 bp):
AAAATTCTAAAAAAAATATAAAAGGGATATTTTAAAAAAAATCAAAATTGATATGAATATTAAAC
Found at i:155778 original size:19 final size:19
Alignment explanation
Indices: 155754--155793 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
155744 TCATTAGAAT
155754 TAGAGTTCTATTTCATTTA
1 TAGAGTTCTATTTCATTTA
155773 TAGAGTTCTATTTCATTTA
1 TAGAGTTCTATTTCATTTA
155792 TA
1 TA
155794 CTTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (19 bp):
TAGAGTTCTATTTCATTTA
Found at i:159366 original size:20 final size:21
Alignment explanation
Indices: 159331--159370 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
159321 GTTTAAATTT
159331 TATTTTTCACAATTTAATATA
1 TATTTTTCACAATTTAATATA
*
159352 TATTTTTC-CATTTTAATAT
1 TATTTTTCACAATTTAATAT
159371 CATGTGTCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTTCACAATTTAATATA
Done.