Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 382 of 427
Found at i:111130628 original size:60 final size:58
Alignment explanation
Indices: 111130519--111130641 Score: 201
Period size: 60 Copynumber: 2.1 Consensus size: 58
111130509 CTAAAAATAT
* * *
111130519 TGTTTTAATTATTTTAAAATTAATTGTTAGTAATTTAGGATTATGTTATAAATTGTTG
1 TGTTTTAATTATTTTAAAATTAATTATTAATAATTTAGGATTATGTTATAAATTGTTA
111130577 TGTTTGTAATTATTTTAAAATTAATTTATTAATAATTTAGGATTATGTTATAAATTGTTA
1 TGTTT-TAATTATTTTAAAATTAA-TTATTAATAATTTAGGATTATGTTATAAATTGTTA
111130637 TGTTT
1 TGTTT
111130642 AGTTTAGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 5 0.08
59 18 0.30
60 37 0.62
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (58 bp):
TGTTTTAATTATTTTAAAATTAATTATTAATAATTTAGGATTATGTTATAAATTGTTA
Found at i:111131305 original size:25 final size:26
Alignment explanation
Indices: 111131270--111131319 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
111131260 AAAAAAAGAC
* *
111131270 AAAAAATAATATTTTATTTTAAAAAT
1 AAAAAATAATATTTTAATATAAAAAT
111131296 AAAAAA-AATATTTTAATATAAAAA
1 AAAAAATAATATTTTAATATAAAAA
111131320 AAGTTTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAAATAATATTTTAATATAAAAAT
Found at i:111131316 original size:19 final size:20
Alignment explanation
Indices: 111131284--111131321 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
111131274 AATAATATTT
111131284 TATTTTAAAAATAAAAAAAA
1 TATTTTAAAAATAAAAAAAA
*
111131304 TATTTT-AATATAAAAAAA
1 TATTTTAAAAATAAAAAAA
111131322 GTTTTGCGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TATTTTAAAAATAAAAAAAA
Found at i:111131585 original size:14 final size:14
Alignment explanation
Indices: 111131566--111131595 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111131556 ACGTGACTTC
*
111131566 AATTGAAATGATAA
1 AATTGAAATAATAA
111131580 AATTGAAATAATAA
1 AATTGAAATAATAA
111131594 AA
1 AA
111131596 ATCATGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AATTGAAATAATAA
Found at i:111135129 original size:19 final size:19
Alignment explanation
Indices: 111135105--111135141 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111135095 TATTATTAGT
*
111135105 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
111135124 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
111135142 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:111135239 original size:20 final size:21
Alignment explanation
Indices: 111135210--111135250 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
111135200 ATTAAAATTG
*
111135210 AAATATTAAATAAT-TTATTA
1 AAATAGTAAATAATATTATTA
*
111135230 AAATAGTAAATTATATTATTA
1 AAATAGTAAATAATATTATTA
111135251 TATGACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATAGTAAATAATATTATTA
Found at i:111135510 original size:19 final size:19
Alignment explanation
Indices: 111135474--111135510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111135464 AAAAATAAAT
* *
111135474 TATTTTCTGTTAATCAAAC
1 TATTTTCTGTAAAACAAAC
111135493 TATTTTCTGTAAAACAAA
1 TATTTTCTGTAAAACAAA
111135511 TATAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (19 bp):
TATTTTCTGTAAAACAAAC
Found at i:111135922 original size:26 final size:26
Alignment explanation
Indices: 111135893--111135962 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
111135883 AAAAATTAGT
*
111135893 TTAATTATT-AATTTAATTAATTTATA
1 TTAATT-TTGAATTCAATTAATTTATA
* *
111135919 TTAATTTTGAATTCAATTGATTTAAAGA
1 TTAATTTTGAATTCAATTAATTT--ATA
111135947 TTAATTTTGAATTCAA
1 TTAATTTTGAATTCAA
111135963 CCAATGTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.05
26 18 0.47
28 18 0.47
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (26 bp):
TTAATTTTGAATTCAATTAATTTATA
Found at i:111147374 original size:7 final size:7
Alignment explanation
Indices: 111147362--111147394 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
111147352 TCCAAATAGT
111147362 TTTTTTC
1 TTTTTTC
111147369 TTTTTTC
1 TTTTTTC
111147376 TTTTTTC
1 TTTTTTC
111147383 TTTTTT-
1 TTTTTTC
111147389 TTTTTT
1 TTTTTT
111147395 GCGTTATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:111149888 original size:30 final size:30
Alignment explanation
Indices: 111149818--111149888 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
111149808 TTTAATGAAC
* *
111149818 TTATATTTTTATCATTTTTAAAGGATTCAA
1 TTATAATTTTATCATTTTTAAAGGAGTCAA
* *
111149848 TTA-AAGTTTTATTA-TTTTGAAGGAGTCAA
1 TTATAA-TTTTATCATTTTTAAAGGAGTCAA
111149877 TGTATAATTTTA
1 T-TATAATTTTA
111149889 CCTTTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 15 0.44
30 17 0.50
31 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (30 bp):
TTATAATTTTATCATTTTTAAAGGAGTCAA
Found at i:111157482 original size:2 final size:2
Alignment explanation
Indices: 111157469--111157500 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
111157459 TTAATTTAAA
*
111157469 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111157501 GTAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:111167653 original size:5 final size:5
Alignment explanation
Indices: 111167643--111167672 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
111167633 ACCCATCCCT
111167643 ACCCC ACCCC ACCCC ACCCC ACCCC ACCCC
1 ACCCC ACCCC ACCCC ACCCC ACCCC ACCCC
111167673 TCACTTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.80, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCC
Found at i:111168745 original size:19 final size:19
Alignment explanation
Indices: 111168717--111168776 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
111168707 AAGGTATTAG
*
111168717 AATTCTTAAATAAATA-AAA
1 AATT-TTAAAGAAATATAAA
*
111168736 AATTTGTAAAGAATTATAAA
1 AATTT-TAAAGAAATATAAA
*
111168756 AATTTT-AA-AAATATTAA
1 AATTTTAAAGAAATATAAA
111168773 AATT
1 AATT
111168777 GATATAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 11 0.31
18 3 0.09
19 13 0.37
20 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (19 bp):
AATTTTAAAGAAATATAAA
Found at i:111168758 original size:20 final size:17
Alignment explanation
Indices: 111168728--111168776 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
111168718 ATTCTTAAAT
111168728 AAATA-AAAAATTTGTAA
1 AAATATAAAAATTT-TAA
111168745 AGAATTATAAAAATTTTAA
1 A-AA-TATAAAAATTTTAA
*
111168764 AAATATTAAAATT
1 AAATATAAAAATT
111168777 GATATAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 6 0.21
20 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
AAATATAAAAATTTTAA
Found at i:111169290 original size:19 final size:18
Alignment explanation
Indices: 111169241--111169338 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
111169231 GTTTATATCA
*
111169241 ATTTTAATACTTTTTATA-
1 ATTTTAA-ATTTTTTATAG
*
111169259 ATTTTATGA-TTTTTATAGG
1 ATTTTA-AATTTTTTATA-G
*
111169278 ATTTTAAATTTTTTTATAAA
1 ATTTTAAA-TTTTTTAT-AG
* *
111169298 AATTTAAATGTTTTATTA-
1 ATTTTAAATTTTTTA-TAG
111169316 ATTTTATAATTTTTTATAG
1 ATTTTA-AATTTTTTATAG
111169335 -TTTT
1 ATTTT
111169339 TTTATATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
17 8 0.12
18 19 0.30
19 21 0.33
20 15 0.23
21 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTAAATTTTTTATAG
Found at i:111169361 original size:11 final size:11
Alignment explanation
Indices: 111169325--111169354 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
111169315 AATTTTATAA
111169325 TTTTTTATAGT
1 TTTTTTATAGT
*
111169336 TTTTTTATATT
1 TTTTTTATAGT
111169347 TTTTTTAT
1 TTTTTTAT
111169355 CATTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTTATAGT
Found at i:111169401 original size:10 final size:10
Alignment explanation
Indices: 111169376--111169408 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
111169366 ATTCATATCA
*
111169376 ATTTTCATAT
1 ATTTTCAAAT
111169386 -TTTTCAAAT
1 ATTTTCAAAT
111169395 ATTTTCAAAT
1 ATTTTCAAAT
111169405 ATTT
1 ATTT
111169409 AACATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTCAAAT
Found at i:111169432 original size:33 final size:33
Alignment explanation
Indices: 111169393--111169459 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
111169383 TATTTTTCAA
111169393 ATATTTTCA-AATATTTAACATTTATTATTTTTT
1 ATATTTT-ATAATATTTAACATTTATTATTTTTT
* ** *
111169426 ATATTTTATAATTTTTCTCATTTTTTATTTTTT
1 ATATTTTATAATATTTAACATTTATTATTTTTT
111169459 A
1 A
111169460 ATGATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (33 bp):
ATATTTTATAATATTTAACATTTATTATTTTTT
Found at i:111174900 original size:3 final size:3
Alignment explanation
Indices: 111174894--111174929 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
111174884 CTTAATGGGT
*
111174894 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA AGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
111174930 ACAACCTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:111180194 original size:114 final size:114
Alignment explanation
Indices: 111179994--111180228 Score: 364
Period size: 114 Copynumber: 2.1 Consensus size: 114
111179984 CCCCCGCCCG
* * *
111179994 CTAAAAATGATAAAAATTTAATTTAATCTTTTAAAAATCATAAAGAGATAGATATTAAAATGGTG
1 CTAAAAATGATAAAAATTTAATTTAAACCTTTAAAAATCATAAAAAGATAGATATTAAAATGGTG
* * *
111180059 AAATTGCATTTTTACTATCGTAAGAATATACAATTTAATAT-TGGCCCCC
66 AAAATGCATTTTTACTATCGTAAAAATATACAATTTAAT-TCCGGCCCCC
* * * *
111180108 CTAAAAATGATAAAATTTTGATTTAAACCTTTAAAAATTATAAAAATATAGATATTAAAATGGTG
1 CTAAAAATGATAAAAATTTAATTTAAACCTTTAAAAATCATAAAAAGATAGATATTAAAATGGTG
111180173 AAAATGCATTTTTACTATCGTAAAAATATACAATTTAATTCCGGCCCCC
66 AAAATGCATTTTTACTATCGTAAAAATATACAATTTAATTCCGGCCCCC
111180222 CTAAAAA
1 CTAAAAA
111180229 AGTTTCTAGC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 1 0.01
114 109 0.99
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (114 bp):
CTAAAAATGATAAAAATTTAATTTAAACCTTTAAAAATCATAAAAAGATAGATATTAAAATGGTG
AAAATGCATTTTTACTATCGTAAAAATATACAATTTAATTCCGGCCCCC
Found at i:111190132 original size:21 final size:22
Alignment explanation
Indices: 111190104--111190169 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
111190094 CCTGATCAGT
111190104 ATATGACACATAAAGTGCCTAA
1 ATATGACACATAAAGTGCCTAA
** *
111190126 A-ATGACACACGAGGTGCCTGAA
1 ATATGACACATAAAGTGCCT-AA
*
111190148 ATACGACACATAAAGTGCCTAA
1 ATATGACACATAAAGTGCCTAA
111190170 TCGGTAAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.43
22 6 0.17
23 14 0.40
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (22 bp):
ATATGACACATAAAGTGCCTAA
Found at i:111190165 original size:23 final size:21
Alignment explanation
Indices: 111190108--111190169 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
111190098 ATCAGTATAT
*
111190108 GACACATAAAGTGCCTAAAAT
1 GACACATAAAGTGCCTAAAAC
** *
111190129 GACACACGAGGTGCCTGAAATAC
1 GACACATAAAGTGCCT-AAA-AC
111190152 GACACATAAAGTGCCTAA
1 GACACATAAAGTGCCTAA
111190170 TCGGTAAAGC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 13 0.41
22 5 0.16
23 14 0.44
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (21 bp):
GACACATAAAGTGCCTAAAAC
Found at i:111190777 original size:21 final size:23
Alignment explanation
Indices: 111190741--111190786 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
111190731 TGTTCGAATG
111190741 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
*
111190764 CTTT-TGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
111190785 CT
1 CT
111190787 ATTTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 4 0.18
23 4 0.18
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:111193601 original size:14 final size:13
Alignment explanation
Indices: 111193582--111193611 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
111193572 TCTTTTTATG
111193582 TTTTATTTATTTTA
1 TTTTATTTA-TTTA
111193596 TTTTATTTATTTA
1 TTTTATTTATTTA
111193609 TTT
1 TTT
111193612 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:111194476 original size:2 final size:2
Alignment explanation
Indices: 111194469--111194504 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
111194459 CATCATATGC
111194469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111194505 TTAAGCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111195027 original size:20 final size:20
Alignment explanation
Indices: 111194988--111195027 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
111194978 TACCAACTTG
* *
111194988 CAACATACCATTATCTTTCA
1 CAACATACCATGATCATTCA
*
111195008 CAACATGCCATGATCATTCA
1 CAACATACCATGATCATTCA
111195028 TAACTTTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (20 bp):
CAACATACCATGATCATTCA
Found at i:111195236 original size:42 final size:42
Alignment explanation
Indices: 111195109--111195238 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
111195099 ACACATAGAA
* * * * **
111195109 TCATACCAATGTCATATCCCAGGTATGGTTTTACATGGGATC
1 TCATATCAATGTCATATCCCAGATATGGTATTACACGAAATC
* * * * *
111195151 TTATATCAATGCCAATAGCCCAGCTATGGTCTTACACGAAATC
1 TCATATCAATGTC-ATATCCCAGATATGGTATTACACGAAATC
* * *
111195194 TCATATCGATGTCATATCCCAGATATGGTATTATACGTAATC
1 TCATATCAATGTCATATCCCAGATATGGTATTACACGAAATC
111195236 TCA
1 TCA
111195239 ACTAACCTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 37 0.53
43 33 0.47
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
TCATATCAATGTCATATCCCAGATATGGTATTACACGAAATC
Found at i:111200041 original size:25 final size:27
Alignment explanation
Indices: 111200002--111200051 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
111199992 TGTAAATTGG
* *
111200002 TCTTCAAATTTTTAA-ATTA-ATTATA
1 TCTTCAAACTATTAATATTATATTATA
111200027 TCTTCAAACTATTAATATTATATTA
1 TCTTCAAACTATTAATATTATATTA
111200052 ATAAAGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 4 0.19
27 4 0.19
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (27 bp):
TCTTCAAACTATTAATATTATATTATA
Found at i:111201308 original size:21 final size:21
Alignment explanation
Indices: 111201267--111201308 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
111201257 TTAAATACGA
* *
111201267 TAAACATTAAATGATATTTTT
1 TAAACAATAAATGATAATTTT
*
111201288 TAAACAATAAATGTTAATTTT
1 TAAACAATAAATGATAATTTT
111201309 ATTCAGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAACAATAAATGATAATTTT
Found at i:111205303 original size:6 final size:6
Alignment explanation
Indices: 111205292--111205321 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
111205282 ACTGTAGTGC
111205292 AGATGA AGATGA AGATGA AGATGA AGATGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA
111205322 TGAAATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
AGATGA
Found at i:111205325 original size:21 final size:21
Alignment explanation
Indices: 111205292--111205338 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
111205282 ACTGTAGTGC
*
111205292 AGATGAAGATGA--AGAT-GA
1 AGATGAAGATGATGAAATCGA
111205310 AGATGAAGATGATGAAATCGA
1 AGATGAAGATGATGAAATCGA
*
111205331 AGCTGAAG
1 AGATGAAG
111205339 TCGAGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.50
20 3 0.12
21 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.32, T:0.17
Consensus pattern (21 bp):
AGATGAAGATGATGAAATCGA
Found at i:111208376 original size:14 final size:14
Alignment explanation
Indices: 111208330--111208377 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
111208320 TAAAATATTC
*
111208330 ATATCTTATTATAAA
1 ATAT-TTATTATTAA
* * *
111208345 ACATTTATTACTAT
1 ATATTTATTATTAA
111208359 ATATTTATTATTAA
1 ATATTTATTATTAA
111208373 ATATT
1 ATATT
111208378 AATATAAAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTTATTATTAA
Found at i:111233422 original size:52 final size:52
Alignment explanation
Indices: 111233303--111233457 Score: 161
Period size: 52 Copynumber: 3.0 Consensus size: 52
111233293 TCACATAAAC
* * *
111233303 TACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATTA
1 TACCGATGACATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATTA
* * * * *
111233356 CACCGA-CACTATAGCCCATCTATGGTCTTATACGGGAACACGTATCACATTG
1 TACCGATGAC-ATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTA
* * **
111233408 TACCGATGTCATAGCCCAGCTATGGTCTTATATGGGTGCACATATCACAT
1 TACCGATGACATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
111233458 CTCTTCCGTC
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
52 50 0.60
53 29 0.35
54 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (52 bp):
TACCGATGACATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTA
Found at i:111236863 original size:3 final size:3
Alignment explanation
Indices: 111236855--111236900 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
111236845 AGATATTTAC
111236855 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
111236901 ATTTTATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:111237336 original size:21 final size:22
Alignment explanation
Indices: 111237297--111237343 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
111237287 GTTGAACTAA
111237297 TGATGAAATTATGAGTTT-AAT
1 TGATGAAATTATGAGTTTAAAT
*
111237318 TGATAGAAATTTTGA-TTTAAAT
1 TGAT-GAAATTATGAGTTTAAAT
111237340 TGAT
1 TGAT
111237344 TAAAGGATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (22 bp):
TGATGAAATTATGAGTTTAAAT
Found at i:111238287 original size:26 final size:26
Alignment explanation
Indices: 111238257--111238325 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 26
111238247 AGAAAAATAA
* *
111238257 AATGAAATTGATAAATTGA-ATTATTG
1 AATGAAA-TGAGAAAGTGATATTATTG
*
111238283 AATGAAATGAGAAAGTGATATTATTATA
1 AATGAAATGAGAAAGTGATATTA-T-TG
111238311 AGATGAAATGAGAAA
1 A-ATGAAATGAGAAA
111238326 TACAATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.25
26 11 0.31
27 1 0.03
28 2 0.06
29 13 0.36
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (26 bp):
AATGAAATGAGAAAGTGATATTATTG
Found at i:111239759 original size:19 final size:20
Alignment explanation
Indices: 111239735--111239772 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
111239725 GGTACCACCA
111239735 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
111239754 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
111239773 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:111244238 original size:19 final size:20
Alignment explanation
Indices: 111244214--111244251 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
111244204 GGTACCACCA
111244214 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
111244233 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
111244252 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:111244594 original size:47 final size:47
Alignment explanation
Indices: 111244480--111244649 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
111244470 GCCCCTAAGT
* * * *
111244480 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
111244526 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
111244573 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
111244618 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
111244650 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:111244649 original size:92 final size:93
Alignment explanation
Indices: 111244480--111244649 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
111244470 GCCCCTAAGT
* *
111244480 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
111244545 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
111244573 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
111244637 CGAGTTCGGATGC
66 CGAGTTCGGATGC
111244650 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:111257755 original size:3 final size:3
Alignment explanation
Indices: 111257747--111257792 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
111257737 AGTAGATTAA
111257747 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
111257793 AATAAATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:111258035 original size:23 final size:24
Alignment explanation
Indices: 111258009--111258067 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
111257999 ATACTGACAA
*
111258009 TTGTAATAAAA-ATAT-TGGTACAT
1 TTGTAATAAAAGATATAT-GTACAC
111258032 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
111258057 TTGTTATAAAA
1 TTGTAATAAAA
111258068 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 18 0.58
26 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:111258292 original size:2 final size:2
Alignment explanation
Indices: 111258285--111258328 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
111258275 TAAAATAAAG
111258285 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
111258327 TA
1 TA
111258329 AGGTTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111260168 original size:17 final size:18
Alignment explanation
Indices: 111260146--111260179 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111260136 TTATTGAGAG
111260146 ACTAATG-TTACTGAATA
1 ACTAATGATTACTGAATA
111260163 ACTAATGATTACTGAAT
1 ACTAATGATTACTGAAT
111260180 GATTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
ACTAATGATTACTGAATA
Found at i:111260301 original size:16 final size:16
Alignment explanation
Indices: 111260276--111260308 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
111260266 TAGAAATGAA
111260276 ATTTATGAAATA-ATG
1 ATTTATGAAATACATG
111260291 ATTTAATGAAATACATG
1 ATTT-ATGAAATACATG
111260308 A
1 A
111260309 AATGGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (16 bp):
ATTTATGAAATACATG
Found at i:111261427 original size:12 final size:12
Alignment explanation
Indices: 111261410--111261435 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111261400 AATGTCACAC
111261410 TTGACTCATTTA
1 TTGACTCATTTA
111261422 TTGACTCATTTA
1 TTGACTCATTTA
111261434 TT
1 TT
111261436 ATAATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (12 bp):
TTGACTCATTTA
Found at i:111261757 original size:13 final size:14
Alignment explanation
Indices: 111261739--111261767 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
111261729 ACATTAAAGT
111261739 TAACATATAT-ATA
1 TAACATATATAATA
111261752 TAACATATATAATA
1 TAACATATATAATA
111261766 TA
1 TA
111261768 TATACATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TAACATATATAATA
Found at i:111263364 original size:20 final size:21
Alignment explanation
Indices: 111263317--111263366 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
111263307 ATGCTACATC
111263317 AGTATTCTTATCCTGAATTTCA
1 AGTATT-TTATCCTGAATTTCA
*
111263339 AG-ATTTTATCCTGAATTT-T
1 AGTATTTTATCCTGAATTTCA
111263358 AGTATTTTA
1 AGTATTTTA
111263367 ATTTGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 3 0.12
22 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (21 bp):
AGTATTTTATCCTGAATTTCA
Found at i:111264125 original size:20 final size:19
Alignment explanation
Indices: 111264087--111264125 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
111264077 AACAGGATTC
* *
111264087 AAACAAATACTTTTTTATA
1 AAACAAATAATTATTTATA
111264106 AAACAAATAATTAATTTATA
1 AAACAAATAATT-ATTTATA
111264126 TTGTTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAACAAATAATTATTTATA
Found at i:111264942 original size:27 final size:28
Alignment explanation
Indices: 111264880--111264942 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
111264870 TTAAAATTAT
* *
111264880 TATTAATGTTATTAAAATAAAATTTTGA
1 TATTAATTTTATTAAAATAAAATGTTGA
*
111264908 TATTAATTTTTTTAAAATAATAA-GTT-A
1 TATTAATTTTATTAAAATAA-AATGTTGA
111264935 TATTAATT
1 TATTAATT
111264943 ATTTATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 9 0.29
28 20 0.65
29 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (28 bp):
TATTAATTTTATTAAAATAAAATGTTGA
Found at i:111272022 original size:16 final size:15
Alignment explanation
Indices: 111271985--111272022 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
111271975 ATTAACCCAA
111271985 TTAA-ATAATATATT
1 TTAATATAATATATT
111271999 TTATATATAATATATTT
1 TTA-ATATAATATA-TT
111272016 TTAATAT
1 TTAATAT
111272023 TAGGAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 12 0.57
17 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATATAATATATT
Found at i:111273800 original size:2 final size:2
Alignment explanation
Indices: 111273788--111273829 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
111273778 CGGCTCTTGC
*
111273788 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111273830 TTGCACGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111274674 original size:79 final size:81
Alignment explanation
Indices: 111274539--111274722 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
111274529 CGAATGATGT
*
111274539 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
111274603 GTGCGAGTTACTA-ATC
66 ATGCGAGTTACTATA-A
* * **
111274619 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
111274681 TATGCGAGTTACTATAA
65 TATGCGAGTTACTATAA
* *
111274698 CCAGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
111274723 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATAA
Found at i:111274729 original size:40 final size:39
Alignment explanation
Indices: 111274539--111274729 Score: 183
Period size: 40 Copynumber: 4.8 Consensus size: 39
111274529 CGAATGATGT
* * * *
111274539 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTA-AA
* * *
111274579 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTAA-A
*
111274619 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
*
111274657 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTA-AA
* * *
111274698 CCAGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
111274730 AGCTATATCC
Statistics
Matches: 130, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
39 36 0.28
40 83 0.64
41 11 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:111274744 original size:79 final size:77
Alignment explanation
Indices: 111274572--111274755 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
111274562 GTGCTAAGTG
* * * *
111274572 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTATGCGAGTTACTAATACCAGGCTAAGCCCGAAGG
**
111274637 CATTTGTGCGAGTT
64 CATTTGAACGAGTT
* *
111274651 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCAGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAA
111274715 GGCATTTGAACGAG-T
62 GGCATTTGAACGAGTT
*
111274730 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
111274756 TACGTGATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 30 0.34
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTATGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCA
TTTGAACGAGTT
Found at i:111276364 original size:3 final size:3
Alignment explanation
Indices: 111276356--111276404 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
111276346 ATGTTACTAG
111276356 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111276404 A
1 A
111276405 AATAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:111276668 original size:13 final size:13
Alignment explanation
Indices: 111276652--111276685 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
111276642 GGGAGAAAGG
111276652 GAGAAAAAGAAAA
1 GAGAAAAAGAAAA
111276665 GAG-AAAAGAAAA
1 GAGAAAAAGAAAA
*
111276677 AAGAAAAAG
1 GAGAAAAAG
111276686 GAAGAATTAG
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAGAAAAAGAAAA
Found at i:111277662 original size:40 final size:41
Alignment explanation
Indices: 111277544--111277662 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 41
111277534 AGCCTTCTCG
*
111277544 AGAAATAAAAGTGAATAGGATTTATTCCTGATTCACTA-AA
1 AGAAATTAAAGTGAATAGGATTTATTCCTGATTCACTATAA
*
111277584 AGAAATTAAAGTGAATTGGATTTATTCCTGATTCACTATAA
1 AGAAATTAAAGTGAATAGGATTTATTCCTGATTCACTATAA
* * * * *
111277625 ATATA-TAAAGTGGATAGGATTTGTTCCTAATTCACTAT
1 AGAAATTAAAGTGAATAGGATTTATTCCTGATTCACTAT
111277663 GGTAACTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 65 0.93
41 5 0.07
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (41 bp):
AGAAATTAAAGTGAATAGGATTTATTCCTGATTCACTATAA
Found at i:111278304 original size:2 final size:2
Alignment explanation
Indices: 111278292--111278327 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
111278282 CTAGCAATGG
*
111278292 TA TA AA 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
111278328 AACATATGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:111278806 original size:33 final size:33
Alignment explanation
Indices: 111278764--111278829 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
111278754 AGGAAACGGT
111278764 GTAAGCATAAGAATTTCATATTATGAGATATTA
1 GTAAGCATAAGAATTTCATATTATGAGATATTA
111278797 GTAAGCATAAGAATTTCATATTATGAGATATTA
1 GTAAGCATAAGAATTTCATATTATGAGATATTA
111278830 AAATTTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (33 bp):
GTAAGCATAAGAATTTCATATTATGAGATATTA
Found at i:111279891 original size:44 final size:42
Alignment explanation
Indices: 111279815--111279963 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
111279805 ATATGTGTTA
* *
111279815 TCGTGTAAGACCACGTCTGGGACGTTAGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACGATAACATCGTA-TT-TGATT
* *
111279858 TACTTGTAAGACCACGTCTGGGATGATAACATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACGATAACATCGTATTTGATT
* * **
111279901 TCGTGTAAGACC-CTATTTGGGAC-AGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACGA-TAACATCG-TATTTGATT
* *
111279944 ACATGTAAGACCACGTCTGG
1 TCGTGTAAGACCACGTCTGG
111279964 AACGTTGGCA
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 22 0.26
43 30 0.35
44 31 0.36
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGATAACATCGTATTTGATT
Found at i:111279973 original size:43 final size:43
Alignment explanation
Indices: 111279818--111279974 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
111279808 TGTGTTATCG
* *
111279818 TGTAAGACCACGTCTGGGACGTTAGCATCGACT-TATGATTTACT
1 TGTAAGACCACGTCTGGGACGTTAGCATCGA-TATTTGA-TTACA
* * * * *
111279862 TGTAAGACCACGTCTGGGATGATAACATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTAGCATCGATATTTGATTACA
* * *
111279904 TGTAAGACC-CTATTTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTAGCATCGATATTTGATTACA
* *
111279947 TGTAAGACCACGTCTGGAACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTAGCAT
111279975 TGTACAAAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 28 0.31
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTAGCATCGATATTTGATTACA
Found at i:111288144 original size:3 final size:3
Alignment explanation
Indices: 111288136--111288182 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
111288126 TAAAAGATGA
111288136 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111288183 ATGTTAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:111289556 original size:45 final size:45
Alignment explanation
Indices: 111289447--111289556 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
111289437 CTACTGTTAC
* *
111289447 TGTTACCGTTACTGTTACCAATTCGACACTTTGTATGTCGAATAT
1 TGTTACTGTTACTGTTACCGATTCGACACTTTGTATGTCGAATAT
* * * *
111289492 TATTACTGTTACCGTTACCGATTC-AGCACTTTGTGTGTTGAATAT
1 TGTTACTGTTACTGTTACCGATTCGA-CACTTTGTATGTCGAATAT
*
111289537 TGTTACTGTTACTGCTACCG
1 TGTTACTGTTACTGTTACCG
111289557 TTACTTATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACCGATTCGACACTTTGTATGTCGAATAT
Found at i:111295601 original size:24 final size:22
Alignment explanation
Indices: 111295546--111295603 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
111295536 AAGTGTAAGG
* *
111295546 TAATAATTAAATACAACTGTAA
1 TAATAAATAAATACAAATGTAA
111295568 TAATGAAAATAAATACAAATGTAAA
1 TAAT--AAATAAATACAAATGT-AA
111295593 TTAATAAATAA
1 -TAATAAATAA
111295604 TTTACTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 4 0.13
24 20 0.67
25 2 0.07
26 4 0.13
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
TAATAAATAAATACAAATGTAA
Found at i:111295893 original size:46 final size:47
Alignment explanation
Indices: 111295801--111295895 Score: 183
Period size: 46 Copynumber: 2.0 Consensus size: 47
111295791 AACATAAAAG
111295801 AAACAAATTGAAAAAGGAAAGAAGAAAAAGTTACAGAGAGCTGACGA
1 AAACAAATTGAAAAAGGAAAGAAGAAAAAGTTACAGAGAGCTGACGA
111295848 AAACAAATTGAAAAAGGAAAGAAG-AAAAGTTACAGAGAGCTGACGA
1 AAACAAATTGAAAAAGGAAAGAAGAAAAAGTTACAGAGAGCTGACGA
111295894 AA
1 AA
111295896 TAGAAAGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 24 0.50
47 24 0.50
ACGTcount: A:0.58, C:0.08, G:0.23, T:0.11
Consensus pattern (47 bp):
AAACAAATTGAAAAAGGAAAGAAGAAAAAGTTACAGAGAGCTGACGA
Found at i:111297225 original size:2 final size:2
Alignment explanation
Indices: 111297218--111297249 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
111297208 AATAAGAATG
111297218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111297250 TCAAATGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111300470 original size:27 final size:27
Alignment explanation
Indices: 111300438--111300512 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
111300428 TAACATCTCA
*
111300438 TCGGACAATTCCGTGTTTAACCTTCTG
1 TCGGACAATTCCGTGTTTAACCTCCTG
* * * *
111300465 TTGGACAATTCCATGCTTAACGTCCTG
1 TCGGACAATTCCGTGTTTAACCTCCTG
* **
111300492 TCGGACTATTAAGTGTTTAAC
1 TCGGACAATTCCGTGTTTAAC
111300513 GTCCCATTGG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (27 bp):
TCGGACAATTCCGTGTTTAACCTCCTG
Found at i:111300526 original size:81 final size:81
Alignment explanation
Indices: 111300425--111300581 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
111300415 ACTATCCTGA
* * * * * ** * *
111300425 GTTTAACATCTCATCGGACAATTCCGTGTTTAACCTTCTGTTGGACAATTCCA-TGCTTAACGTC
1 GTTTAACATCCCATCGGACAATCCCCTGTTGAACCTCCCATT-GAAAAATCCAGTGCTTAACGTC
111300489 CTGTCGGACTATTAAGT
65 CTGTCGGACTATTAAGT
* * * *
111300506 GTTTAACGTCCCATTGGACAATCCCCTGTTGAACGTCCCATTGAAAAATCCAGTGTTTAACGTCC
1 GTTTAACATCCCATCGGACAATCCCCTGTTGAACCTCCCATTGAAAAATCCAGTGCTTAACGTCC
111300571 TGTCGGACTAT
66 TGTCGGACTAT
111300582 CTTTGATGTC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
80 8 0.13
81 54 0.87
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (81 bp):
GTTTAACATCCCATCGGACAATCCCCTGTTGAACCTCCCATTGAAAAATCCAGTGCTTAACGTCC
TGTCGGACTATTAAGT
Found at i:111300535 original size:27 final size:27
Alignment explanation
Indices: 111300505--111300570 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
111300495 GACTATTAAG
* * *
111300505 TGTTTAACGTCCCATTGGACAATCCCC
1 TGTTTAACGTCCCATTGAAAAATCCAC
* *
111300532 TGTTGAACGTCCCATTGAAAAATCCAG
1 TGTTTAACGTCCCATTGAAAAATCCAC
111300559 TGTTTAACGTCC
1 TGTTTAACGTCC
111300571 TGTCGGACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTTTAACGTCCCATTGAAAAATCCAC
Found at i:111309728 original size:18 final size:17
Alignment explanation
Indices: 111309694--111309731 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
111309684 TTTAATCTTT
111309694 TAAAAATTATAAATATA
1 TAAAAATTATAAATATA
111309711 TAAACAATTA-AAAT-TA
1 TAAA-AATTATAAATATA
111309727 TAAAA
1 TAAAA
111309732 TTTTACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 6 0.30
17 8 0.40
18 5 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATTATAAATATA
Found at i:111316847 original size:2 final size:2
Alignment explanation
Indices: 111316840--111316872 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
111316830 TCTGCTTTGA
*
111316840 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
111316873 TTAAAGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:111321775 original size:24 final size:24
Alignment explanation
Indices: 111321730--111321776 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
111321720 CCAAAAACCA
*
111321730 GGACCTCCAAATCCAGGGCCCCAG
1 GGACCTCCAAATCCAGGACCCCAG
** *
111321754 GGACCTCCAGGTCCCGGACCCCA
1 GGACCTCCAAATCCAGGACCCCA
111321777 ACCAGGACCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.26, T:0.09
Consensus pattern (24 bp):
GGACCTCCAAATCCAGGACCCCAG
Found at i:111321872 original size:18 final size:18
Alignment explanation
Indices: 111321849--111321917 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
111321839 CTCCTCCCCA
111321849 TCCTCCCGGTCCACCAGG
1 TCCTCCCGGTCCACCAGG
111321867 TCCTCCCGGTCCACCAGG
1 TCCTCCCGGTCCACCAGG
111321885 TCCTCCCGG--C-CC---
1 TCCTCCCGGTCCACCAGG
111321897 TCCTCCCGGTCCACCAGG
1 TCCTCCCGGTCCACCAGG
111321915 TCC
1 TCC
111321918 CATTTTGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
12 9 0.20
14 1 0.02
15 4 0.09
16 1 0.02
18 30 0.67
ACGTcount: A:0.09, C:0.54, G:0.20, T:0.17
Consensus pattern (18 bp):
TCCTCCCGGTCCACCAGG
Found at i:111336900 original size:41 final size:41
Alignment explanation
Indices: 111336794--111336901 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 41
111336784 GGATAGTTCA
*
111336794 AAGT-AATATAGTGACACCCAGTGTCTCATCAGCCTAGCCG
1 AAGTAAATATAGTGACACCCAGTGTCTCATCAACCTAGCCG
* ** * *
111336834 AAGTAAA-AT-G-G-TACCCAGTACCTCATCAAATCTATCCG
1 AAGTAAATATAGTGACACCCAGTGTCTCATC-AACCTAGCCG
111336872 AAG-AAATATAGTGACACCCAGTGTCTCATC
1 AAGTAAATATAGTGACACCCAGTGTCTCATC
111336902 GACTCGAGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
37 16 0.30
38 13 0.25
39 2 0.04
40 7 0.13
41 15 0.28
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
AAGTAAATATAGTGACACCCAGTGTCTCATCAACCTAGCCG
Found at i:111337255 original size:2 final size:2
Alignment explanation
Indices: 111337250--111337285 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
111337240 ACATTCACAC
*
111337250 AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111337286 ATTCAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111338256 original size:19 final size:21
Alignment explanation
Indices: 111338234--111338280 Score: 80
Period size: 19 Copynumber: 2.3 Consensus size: 21
111338224 TATAATTATT
111338234 TAATTAATAAATATCT-TT-A
1 TAATTAATAAATATCTATTAA
111338253 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
111338274 TAATTAA
1 TAATTAA
111338281 ATACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.62
20 2 0.08
21 8 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:111344475 original size:40 final size:40
Alignment explanation
Indices: 111344417--111344505 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
111344407 TATAATGTGG
* * * *
111344417 ATAGGATTTGTTCCTGATTCACTATGGTAATTTAAAGTGA
1 ATAGGATTTATTCCTGATTCACTAGGGTAACTTAAAGCGA
* * *
111344457 ATAGGATTTATTCTTGATTCACTAGGGTAACTTAAGGCGG
1 ATAGGATTTATTCCTGATTCACTAGGGTAACTTAAAGCGA
111344497 ATAGGATTT
1 ATAGGATTT
111344506 GACCTGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (40 bp):
ATAGGATTTATTCCTGATTCACTAGGGTAACTTAAAGCGA
Found at i:111344556 original size:79 final size:79
Alignment explanation
Indices: 111344471--111344702 Score: 308
Period size: 79 Copynumber: 2.9 Consensus size: 79
111344461 GATTTATTCT
* * * *
111344471 TGATTCACTAGGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGGTAATCCCGAGTCACTAC
1 TGATTCACTATGGTAACTTAAGGAGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
* *
111344536 GGTTACATGATATA
66 AGTTACATGATACA
* * * * *
111344550 TGATTCATTATGGCAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCACTATGGTAACTTAAGGAGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
111344615 AGTTACATGATACA
66 AGTTACATGATACA
* *
111344629 TGATTC-CTTATGATAACTTAAGGTAGG-TAGGATTTGACCTG-AAAGGGTAATCTTGATTCACT
1 TGATTCAC-TATGGTAACTTAAGG-AGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACT
111344691 ACAGTTACATGA
64 ACAGTTACATGA
111344703 GATGTGACTC
Statistics
Matches: 134, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
78 31 0.23
79 101 0.75
80 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (79 bp):
TGATTCACTATGGTAACTTAAGGAGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCACTAC
AGTTACATGATACA
Found at i:111345349 original size:2 final size:2
Alignment explanation
Indices: 111345342--111345371 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
111345332 CTATATTACA
111345342 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
111345372 GAAGTACATG
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:111345996 original size:24 final size:24
Alignment explanation
Indices: 111345965--111346016 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
111345955 CAGATATGGT
111345965 ATTT-ACAAAATGGTTAACTGAAA
1 ATTTCACAAAATGGTTAACTGAAA
111345988 ATTTCACAAAATGGTTAACTGAAA
1 ATTTCACAAAATGGTTAACTGAAA
111346012 ATTTC
1 ATTTC
111346017 TTCTGAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATTTCACAAAATGGTTAACTGAAA
Found at i:111356816 original size:29 final size:30
Alignment explanation
Indices: 111356759--111356826 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
111356749 CACCCTTAAA
* * * *
111356759 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
111356789 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
111356818 AGTATTTAC
1 A-TATTTAC
111356827 TCCTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:111358133 original size:16 final size:17
Alignment explanation
Indices: 111358102--111358134 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
111358092 TTCATAAGTA
111358102 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
111358119 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
111358135 GCACCATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:111358469 original size:46 final size:46
Alignment explanation
Indices: 111358418--111358618 Score: 287
Period size: 46 Copynumber: 4.4 Consensus size: 46
111358408 TTAACGTTGA
* * ** *
111358418 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCATGT
*
111358464 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGT
**
111358510 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGT
* * *
111358556 TTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGT
111358602 TGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCA
111358619 TGTAATGGCC
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 135 0.97
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCATGT
Found at i:111372161 original size:16 final size:16
Alignment explanation
Indices: 111372137--111372171 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
111372127 GGTTGGGGGG
*
111372137 AATAGAATAAAGTTGT
1 AATAAAATAAAGTTGT
*
111372153 AATAAAATAGAGTTGT
1 AATAAAATAAAGTTGT
111372169 AAT
1 AAT
111372172 CAATAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
AATAAAATAAAGTTGT
Found at i:111374034 original size:19 final size:19
Alignment explanation
Indices: 111374010--111374047 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
111374000 TGAAGCAACT
111374010 AAACAAGTAAAAAAGCTAA
1 AAACAAGTAAAAAAGCTAA
111374029 AAACAAGTAAAAAAGCTAA
1 AAACAAGTAAAAAAGCTAA
111374048 CCTATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.11
Consensus pattern (19 bp):
AAACAAGTAAAAAAGCTAA
Found at i:111378002 original size:10 final size:10
Alignment explanation
Indices: 111377987--111378017 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
111377977 AAATATCTAG
111377987 ATTTCTCTTC
1 ATTTCTCTTC
111377997 ATTTCTCTTC
1 ATTTCTCTTC
111378007 ATTTCTCTTC
1 ATTTCTCTTC
111378017 A
1 A
111378018 ATTCCAGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:111384767 original size:25 final size:25
Alignment explanation
Indices: 111384739--111384786 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
111384729 TTATACCATG
* * *
111384739 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
111384764 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
111384787 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:111384854 original size:20 final size:20
Alignment explanation
Indices: 111384829--111384887 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
111384819 TAAATATGGT
111384829 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
111384849 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
111384869 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
111384888 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:111384869 original size:11 final size:11
Alignment explanation
Indices: 111384833--111384887 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
111384823 TATGGTATGT
111384833 ATGATATGCAC
1 ATGATATGCAC
* *
111384844 ATGAAATG--T
1 ATGATATGCAC
111384853 ATGATATGCAC
1 ATGATATGCAC
*
111384864 ATGATATG--T
1 ATGATATGCAC
111384873 ATGATATGCAC
1 ATGATATGCAC
111384884 ATGA
1 ATGA
111384888 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:111384983 original size:24 final size:23
Alignment explanation
Indices: 111384939--111385030 Score: 134
Period size: 23 Copynumber: 4.0 Consensus size: 23
111384929 AGGAAGTGAA
111384939 AAAGGGCTTATG-CCCAGTTATCG
1 AAAGGGCTTATGCCCCAGTTAT-G
*
111384962 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATG
111384985 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTA-TG
111385009 AAAGGGCTT-TGGCCCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTAT
111385031 TAAAAGAGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
23 35 0.55
24 29 0.45
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATG
Found at i:111385014 original size:47 final size:48
Alignment explanation
Indices: 111384938--111385055 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
111384928 GAGGAAGTGA
111384938 AAAAGGGCTTATG-CCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
111384984 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
111385032 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
111385056 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
46 14 0.22
47 29 0.45
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:111385031 original size:24 final size:24
Alignment explanation
Indices: 111384938--111385055 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
111384928 GAGGAAGTGA
*
111384938 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
111384961 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
111384984 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
111385008 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
111385032 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
111385056 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
23 34 0.41
24 38 0.46
25 11 0.13
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:111385281 original size:31 final size:31
Alignment explanation
Indices: 111385246--111385309 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
111385236 CGTTTACAGT
111385246 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
111385277 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
111385308 AA
1 AA
111385310 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:111385315 original size:38 final size:38
Alignment explanation
Indices: 111385263--111385370 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
111385253 TCGGCCCAGT
111385263 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
111385301 AATATGAAACATGAAAAGGCTTCGGCCTAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
111385339 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
111385371 GCATGATTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 52 0.81
39 12 0.19
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:111393163 original size:20 final size:20
Alignment explanation
Indices: 111393138--111393196 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
111393128 TAAATATGGT
111393138 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
111393158 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
111393178 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
111393197 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:111393178 original size:11 final size:11
Alignment explanation
Indices: 111393142--111393196 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
111393132 TATGGTATGT
111393142 ATGATATGCAC
1 ATGATATGCAC
* *
111393153 ATGAAATG--T
1 ATGATATGCAC
111393162 ATGATATGCAC
1 ATGATATGCAC
*
111393173 ATGATATG--T
1 ATGATATGCAC
111393182 ATGATATGCAC
1 ATGATATGCAC
111393193 ATGA
1 ATGA
111393197 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:111393315 original size:47 final size:48
Alignment explanation
Indices: 111393246--111393364 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
111393236 GAGGAAGTGA
111393246 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
111393293 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
111393341 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
111393365 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:111393340 original size:24 final size:24
Alignment explanation
Indices: 111393246--111393364 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
111393236 GAGGAAGTGA
*
111393246 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
111393270 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
111393293 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
111393317 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
111393341 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
111393365 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:111393597 original size:31 final size:33
Alignment explanation
Indices: 111393559--111393656 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 33
111393549 TACAGTAAAG
*
111393559 GCTTCGGCCCAGTAATATGAAATATGAAA-AT-
1 GCTTCGGCCCAGTATTATGAAATATGAAACATA
111393590 GCTTCGGCCCAGTATTATGAAATATGAAACATGAAAA
1 GCTTCGGCCCAGTATTATGAAATATGAAACAT----A
111393627 GGCTTCGGCCCAGTATTATGAAATATGAAA
1 -GCTTCGGCCCAGTATTATGAAATATGAAA
111393657 TATGAAAAGG
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
31 28 0.47
32 2 0.03
38 29 0.49
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (33 bp):
GCTTCGGCCCAGTATTATGAAATATGAAACATA
Found at i:111393624 original size:38 final size:38
Alignment explanation
Indices: 111393572--111393679 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
111393562 TCGGCCCAGT
*
111393572 AATATGAAATATGAAAATGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
111393610 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
111393648 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
111393680 GCATGATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 52 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:111395030 original size:46 final size:46
Alignment explanation
Indices: 111394619--111395023 Score: 605
Period size: 46 Copynumber: 8.8 Consensus size: 46
111394609 TTTGACATGA
* * * * * *
111394619 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
111394665 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
* *
111394712 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111394758 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111394804 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
111394850 TGCCATGGTATCTTTCAACCATCGTATTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111394896 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111394942 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111394988 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
111395024 TCTATCATAG
Statistics
Matches: 335, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 3 0.01
46 293 0.87
47 39 0.12
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:111397183 original size:11 final size:11
Alignment explanation
Indices: 111397167--111397218 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
111397157 TATACTAAAT
111397167 AAATAATAATA
1 AAATAATAATA
*
111397178 AAATAAT-ATT
1 AAATAATAATA
* *
111397188 AAATATCTCATA
1 AAATA-ATAATA
*
111397200 AAATATTAATA
1 AAATAATAATA
111397211 AAATAATA
1 AAATAATA
111397219 TTGATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:111397911 original size:29 final size:29
Alignment explanation
Indices: 111397879--111397934 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
111397869 ACCGTCTGCT
* *
111397879 ATACATGGTCTGCGACACGGTTGTGTGCC
1 ATACACGGTCTGCGACACGGCTGTGTGCC
111397908 ATACACGGTCTGCGACACGGCTGTGTG
1 ATACACGGTCTGCGACACGGCTGTGTG
111397935 TATCAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (29 bp):
ATACACGGTCTGCGACACGGCTGTGTGCC
Found at i:111401123 original size:6 final size:6
Alignment explanation
Indices: 111401053--111401115 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
111401043 TAATAGTAAA
* * *
111401053 AAAAAT ACAAAAG AAAAA- AAGAA- AAAAAT AGAAAT AGCAAAAT AAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT A--AAAAT AAAAAT
111401102 AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AA
111401116 TAAAAATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 8 0.17
6 30 0.62
7 5 0.10
8 5 0.10
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:111401132 original size:21 final size:21
Alignment explanation
Indices: 111401053--111401132 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
111401043 TAATAGTAAA
* *
111401053 AAAAATACAAAAGAAAAAAAGAA
1 AAAAATA-AAAAGAAAAATA-AT
* * **
111401076 AAAAATAGAAATAGCAA-AAT
1 AAAAATAAAAAGAAAAATAAT
*
111401096 AAAAATAAAAATAAAAATAAT
1 AAAAATAAAAAGAAAAATAAT
* *
111401117 AAAAATATATAGAAAA
1 AAAAATAAAAAGAAAA
111401133 TTAAAATTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 15 0.33
21 17 0.38
22 6 0.13
23 7 0.16
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAGAAAAATAAT
Found at i:111401138 original size:33 final size:35
Alignment explanation
Indices: 111401096--111401160 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
111401086 ATAGCAAAAT
111401096 AAAAATAAAA-ATAAAAATA-ATAAAAATATATAG
1 AAAAATAAAATATAAAAATATATAAAAATATATAG
* * *
111401129 AAAATTAAAATTTAAAAATATGTAAAAATATA
1 AAAAATAAAATATAAAAATATATAAAAATATA
111401161 AGTATAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 9 0.33
34 8 0.30
35 10 0.37
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (35 bp):
AAAAATAAAATATAAAAATATATAAAAATATATAG
Found at i:111401229 original size:22 final size:20
Alignment explanation
Indices: 111401194--111401245 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
111401184 AATTAATTAG
* *
111401194 TAAAATAAAGATAAATAAGA
1 TAAAATAAAAATAAATAAAA
111401214 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
111401236 TAAAATAAAA
1 TAAAATAAAA
111401246 TTGGGGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 4 0.14
22 16 0.57
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:111409576 original size:2 final size:2
Alignment explanation
Indices: 111409569--111409597 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111409559 CTTCTTCTCA
111409569 AC AC 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 AC AC A
111409598 AAATAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:111416772 original size:49 final size:47
Alignment explanation
Indices: 111416700--111416845 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 47
111416690 AAAAGAATTG
* *
111416700 TTAAAAATTTTAAAAATCATAATAATCTTAAAAAGAATTATAAAAATTAT
1 TTAAAAATTGTAAAAATCATAATAAT-TTAAAAA-AATT-TAAAAAATAT
*
111416750 TTAAAAATTGTAAAACT-ATAATAATTTAAAAAAATTTAAAAAATAT
1 TTAAAAATTGTAAAAATCATAATAATTTAAAAAAATTTAAAAAATAT
* *
111416796 TAACCAAAATTGTTTAAAAAATTATAATAATTTTAAAAATAATTGTAAAA
1 TTA--AAAATTG--T-AAAAATCATAATAA-TTTAAAAA-AATT-TAAAA
111416846 GGTAGTTACC
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
46 11 0.13
47 4 0.05
48 14 0.17
49 8 0.10
50 16 0.20
51 5 0.06
52 7 0.09
53 8 0.10
54 4 0.05
55 5 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (47 bp):
TTAAAAATTGTAAAAATCATAATAATTTAAAAAAATTTAAAAAATAT
Found at i:111417556 original size:21 final size:20
Alignment explanation
Indices: 111417508--111417560 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
111417498 TGAAATTAAT
111417508 ATTTTTAAAAAAATTGATTA
1 ATTTTTAAAAAAATTGATTA
***
111417528 AAAGTTAATAAAAATTGATTA
1 ATTTTTAA-AAAAATTGATTA
111417549 ATTTTTAAAAAA
1 ATTTTTAAAAAA
111417561 TTAATATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (20 bp):
ATTTTTAAAAAAATTGATTA
Found at i:111419376 original size:2 final size:2
Alignment explanation
Indices: 111419369--111419399 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
111419359 TCTTACCTTT
111419369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111419400 TAATTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111421859 original size:25 final size:27
Alignment explanation
Indices: 111421822--111421874 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
111421812 TCAAACATGC
*
111421822 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
*
111421848 ATTTCGGT-AATTTAACTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
111421874 A
1 A
111421875 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:111423385 original size:26 final size:26
Alignment explanation
Indices: 111423355--111423410 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
111423345 TGAAATTCCC
111423355 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111423381 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111423407 ATCA
1 ATCA
111423411 ATTTTATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:111423430 original size:10 final size:10
Alignment explanation
Indices: 111423406--111423436 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
111423396 CCTAACCCAT
111423406 TATCAATTT-
1 TATCAATTTG
111423415 TATCAATTTG
1 TATCAATTTG
111423425 TATCAATTTG
1 TATCAATTTG
111423435 TA
1 TA
111423437 CCATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (10 bp):
TATCAATTTG
Found at i:111430200 original size:26 final size:26
Alignment explanation
Indices: 111430170--111430225 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
111430160 TGAAATTCCC
111430170 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111430196 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111430222 ATCA
1 ATCA
111430226 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:111430236 original size:10 final size:10
Alignment explanation
Indices: 111430221--111430252 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
111430211 CCTAACCCAT
111430221 TATCAATTTG
1 TATCAATTTG
111430231 TATCAATTTG
1 TATCAATTTG
111430241 TATCAATTTG
1 TATCAATTTG
111430251 TA
1 TA
111430253 CCATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:111431974 original size:43 final size:42
Alignment explanation
Indices: 111431927--111432007 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
111431917 TTATTTAAAA
111431927 AAACGCCGCTAAAAATCATGACT-TTTAGCGGCGCCTTTTTCGC
1 AAACGCCGCTAAAAATCATG-CTCTTTAGCGGCG-CTTTTTCGC
* ** *
111431970 AAACGCTGCTAAAGGTCATGGTCTTTAGCGGCGCTTTT
1 AAACGCCGCTAAAAATCATGCTCTTTAGCGGCGCTTTT
111432008 CCCGCAGTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 6 0.18
43 27 0.82
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (42 bp):
AAACGCCGCTAAAAATCATGCTCTTTAGCGGCGCTTTTTCGC
Found at i:111432049 original size:43 final size:43
Alignment explanation
Indices: 111431950--111432096 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
111431940 AATCATGACT
* * ** ***
111431950 TTTAGCGGCGCCTTTT-TCGCAAACGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCG-CTTTTCCCGCAAACACTGCTAAAGACCATAACC
** * *
111431993 TTTAGCGGCGCTTTTCCCGCAGTC-GTCGCTAAAGACCTTAACC
1 TTTAGCGGCGCTTTTCCCGCAAACACT-GCTAAAGACCATAACC
* * *
111432036 TTTGGCGGTGCTTTTCCCGCAAACACTGCTAAAGACCATGACC
1 TTTAGCGGCGCTTTTCCCGCAAACACTGCTAAAGACCATAACC
111432079 TTTAGCGGCGCTTTTCCC
1 TTTAGCGGCGCTTTTCCC
111432097 AAAACGCCGC
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
42 6 0.07
43 75 0.91
44 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCGCAAACACTGCTAAAGACCATAACC
Found at i:111432409 original size:13 final size:14
Alignment explanation
Indices: 111432381--111432418 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
111432371 ACTTTAAAAC
*
111432381 TAAATTAATGAATT
1 TAAATTTATGAATT
111432395 TAAATTTAT-AATT
1 TAAATTTATGAATT
111432408 TAAATATTATG
1 TAAAT-TTATG
111432419 TTTAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (14 bp):
TAAATTTATGAATT
Done.