Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2329
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: 113579
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Found at i:2866 original size:2 final size:2
Alignment explanation
Indices: 2859--2885 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2849 TCACACCATG
2859 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2886 GTTGTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5411 original size:19 final size:20
Alignment explanation
Indices: 5377--5416 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5367 TAAATTATAA
5377 AATTATATGTAA-TTTTATT
1 AATTATATGTAATTTTTATT
5396 AATTATA-GTAATTTTTTATT
1 AATTATATGTAA-TTTTTATT
5416 A
1 A
5417 CATATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTATATGTAATTTTTATT
Found at i:6097 original size:19 final size:21
Alignment explanation
Indices: 6060--6098 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6050 CACCAATTAA
*
6060 ATAACTTTTTCAAATAAAATC
1 ATAACTTTTTCAAAAAAAATC
6081 ATAA-TTTTT-AAAAAAAAT
1 ATAACTTTTTCAAAAAAAAT
6099 AATTATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAACTTTTTCAAAAAAAATC
Found at i:10558 original size:20 final size:20
Alignment explanation
Indices: 10534--10589 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
10524 TCAATCACTT
10534 TAAATATATTATTT-AAAAA
1 TAAATATATTATTTAAAAAA
* * *
10553 TAAAATAAAATAATTAAAAAA
1 T-AAATATATTATTTAAAAAA
*
10574 TAAATTTATT-TTTAAA
1 TAAATATATTATTTAAA
10590 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 6 0.21
20 16 0.57
21 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATATTATTTAAAAAA
Found at i:10589 original size:12 final size:12
Alignment explanation
Indices: 10574--10607 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10564 AATTAAAAAA
10574 TAAATTTATTTT
1 TAAATTTATTTT
*
10586 TAAATTTTTTTT
1 TAAATTTATTTT
*
10598 TAAATGTATT
1 TAAATTTATT
10608 AATATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TAAATTTATTTT
Found at i:11221 original size:15 final size:16
Alignment explanation
Indices: 11201--11232 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11191 TAAAAATTTC
11201 AAATAAATT-TTTTAA
1 AAATAAATTATTTTAA
11216 AAATAAATTATTTTAA
1 AAATAAATTATTTTAA
11232 A
1 A
11233 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAAATTATTTTAA
Found at i:12081 original size:59 final size:58
Alignment explanation
Indices: 11989--12104 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 58
11979 TGGTGGATGA
* * *
11989 ATAAATGTAATTTTTTTAAGATTGTGAATAAAAATGAAATATTAAT-AAAAATTATAAATG
1 ATAAATGTAATTTTTTAAAAATTATGAATAAAAAT--AATA-TAATAAAAAATTATAAATG
12049 ATAAATGTAA-TTTTTAAAAATTATGAATAAAAATAATATAATAAAAAATTATAAAT
1 ATAAATGTAATTTTTTAAAAATTATGAATAAAAATAATATAATAAAAAATTATAAAT
12105 CATTGATAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
56 4 0.08
57 17 0.33
59 21 0.40
60 10 0.19
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (58 bp):
ATAAATGTAATTTTTTAAAAATTATGAATAAAAATAATATAATAAAAAATTATAAATG
Found at i:12492 original size:20 final size:20
Alignment explanation
Indices: 12467--12505 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12457 TAAATAATAA
12467 TAAATAAAATTATAATTTTT
1 TAAATAAAATTATAATTTTT
12487 TAAATAAAATTATAATTTT
1 TAAATAAAATTATAATTTT
12506 CTAACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATAAAATTATAATTTTT
Found at i:12630 original size:2 final size:2
Alignment explanation
Indices: 12623--12652 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12613 GACTTTTACA
12623 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
12653 GCCACTTGAC
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:15889 original size:24 final size:23
Alignment explanation
Indices: 15854--15904 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
15844 TACTATTCTA
* *
15854 TATTTTTAAAAAAATAATTAAAT
1 TATTTTGAAAAAAATAATTAAAC
* *
15877 TATTTTGAGAAAAATTATTTAAAC
1 TATTTTGA-AAAAAATAATTAAAC
15901 TATT
1 TATT
15905 GTTAGTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
TATTTTGAAAAAAATAATTAAAC
Found at i:17593 original size:24 final size:22
Alignment explanation
Indices: 17540--17594 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
17530 AATTAATAAA
*
17540 AAATTAAAAATATTTTTATATT
1 AAATTTAAAATATTTTTATATT
*
17562 -AATATTAATATATATTTTATAATT
1 AAAT-TTAAAATAT-TTTTAT-ATT
17586 AAATTTAAA
1 AAATTTAAA
17595 TAGATAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.12
22 7 0.27
23 6 0.23
24 7 0.27
25 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTAAAATATTTTTATATT
Found at i:17894 original size:23 final size:23
Alignment explanation
Indices: 17844--17896 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
17834 ATTTGTTTCT
*
17844 TCAACATTTGGTGTAATATTATG
1 TCAATATTTGGTGTAATATTATG
*
17867 TCAATATTTGGTGTAATTTTATG
1 TCAATATTTGGTGTAATATTATG
17890 TCAATAT
1 TCAATAT
17897 CTTAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (23 bp):
TCAATATTTGGTGTAATATTATG
Found at i:18813 original size:267 final size:266
Alignment explanation
Indices: 18339--18844 Score: 868
Period size: 267 Copynumber: 1.9 Consensus size: 266
18329 AATGATTTAA
* * *
18339 GGTGAAACATCCGCATGTCCAAGAGAAGCTATTCATGGATAATTAAAGGGTTATGGGAGACGGAA
1 GGTGAAACATCCACATGTCCAAGAGAAGCTATTCACGGATAATTAAAGGGCTATGGGAGACGGAA
18404 AGGAAGATCAGGTCAAGCAAGATGATTTGCCCAAGATGCCTAATTATTTGAAGGCAATGATCTTG
66 AGGAAGATCAGGTCAAGCAAGATGATTTGCCCAAGATGCCTAATTATTTGAAGGCAATGATCTTG
*
18469 GGAAGGGTAAGAAGTCACCGTCCTGGGAGTATTTTTGGTGCCCAAGAATGATACCACTAATTTTC
131 GGAAGGGTAAGAAGTCACCGTCCTGGGAGTATTTGTGGTGCCCAAGAATGATACCACTAATTTTC
18534 TGGTAACAGAAATAGGGGTGAGATAAGAAGACTGGGAAAGTGATTCGCAATGCATTACTGTAAAT
196 TGGTAACAGAAATAGGGGTGAGATAAGAAGACTGGGAAAGTGATTCGCAATGCATTACTGTAAAT
18599 AATTAT
261 AATTAT
* * *
18605 GGTGAAACATCCACATGTTCAAGAGAAGCTGTTCACGGATAATTAAAGGGGCTATGGGAGATGGA
1 GGTGAAACATCCACATGTCCAAGAGAAGCTATTCACGGATAATTAAA-GGGCTATGGGAGACGGA
* * *
18670 GAGGAAGATCAGGTCAAGGAGGATGATTTGCCCAAGATGCCTAATTATTTGAAGGCAATGATCTT
65 AAGGAAGATCAGGTCAAGCAAGATGATTTGCCCAAGATGCCTAATTATTTGAAGGCAATGATCTT
* *
18735 GGGAAGGGTAAGAAGTCACCGTCCTGGGGGTATTTGTGGTGCCCAAGAATGATACCATTAATTTT
130 GGGAAGGGTAAGAAGTCACCGTCCTGGGAGTATTTGTGGTGCCCAAGAATGATACCACTAATTTT
* * *
18800 CTGGTAGCAGAAATAGGGGTGGGATTAGAAGACTGGGAAAGTGAT
195 CTGGTAACAGAAATAGGGGTGAGATAAGAAGACTGGGAAAGTGAT
18845 GCACAATGGG
Statistics
Matches: 224, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
266 43 0.19
267 181 0.81
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (266 bp):
GGTGAAACATCCACATGTCCAAGAGAAGCTATTCACGGATAATTAAAGGGCTATGGGAGACGGAA
AGGAAGATCAGGTCAAGCAAGATGATTTGCCCAAGATGCCTAATTATTTGAAGGCAATGATCTTG
GGAAGGGTAAGAAGTCACCGTCCTGGGAGTATTTGTGGTGCCCAAGAATGATACCACTAATTTTC
TGGTAACAGAAATAGGGGTGAGATAAGAAGACTGGGAAAGTGATTCGCAATGCATTACTGTAAAT
AATTAT
Found at i:22724 original size:20 final size:20
Alignment explanation
Indices: 22699--22737 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22689 TAAATCATAA
22699 TAAATAAAAGTATAATTTTT
1 TAAATAAAAGTATAATTTTT
*
22719 TAAATAAAATTATAATTTT
1 TAAATAAAAGTATAATTTT
22738 CTAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAATAAAAGTATAATTTTT
Found at i:25617 original size:18 final size:19
Alignment explanation
Indices: 25580--25618 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25570 TCTCCTTGAC
*
25580 CTAGTAACTGCAAGTGGTT
1 CTAGTAACTCCAAGTGGTT
*
25599 CTAGTATCTCCAA-TGGTT
1 CTAGTAACTCCAAGTGGTT
25617 CT
1 CT
25619 TGGGTGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (19 bp):
CTAGTAACTCCAAGTGGTT
Found at i:27344 original size:24 final size:24
Alignment explanation
Indices: 27293--27393 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 24
27283 AAAATTAGTC
* * * **
27293 ACCAATTTTGACAAATAATAAGCC
1 ACCATTTTTGACAAACAAAAAGGA
27317 ACCATTTTTGACAAACAAAAAGGA
1 ACCATTTTTGACAAACAAAAAGGA
* *
27341 ACCACTATTTTTGATAAACACAAAAGAA
1 A-C-C-ATTTTTGACAAACA-AAAAGGA
*
27369 CTACCATTTTTGACAAACACAAAGG
1 --ACCATTTTTGACAAACAAAAAGG
27394 GTGGCTTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
24 20 0.33
25 1 0.02
26 5 0.08
27 26 0.43
28 7 0.11
29 1 0.02
30 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.24
Consensus pattern (24 bp):
ACCATTTTTGACAAACAAAAAGGA
Found at i:27353 original size:27 final size:27
Alignment explanation
Indices: 27315--27393 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
27305 AAATAATAAG
27315 CCACCATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* *
27342 CCACTATTTTTGATAAACACAAAA-GAA
1 CCACCATTTTTGACAAACA-AAAAGGAA
* *
27369 CTACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACAAAAAGG
27394 GTGGCTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.07
27 37 0.84
28 4 0.09
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:28838 original size:21 final size:22
Alignment explanation
Indices: 28820--28870 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
28810 ATTCTAATTA
28820 TATTTTGAAATAAAATAATTAAAT
1 TATTTTGAAA-AAAATAATT-AAT
*
28844 TATTTTGAAAAAAATATTTAAT
1 TATTTTGAAAAAAATAATTAAT
28866 CTATT
1 -TATT
28871 GTTAGTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 12 0.48
24 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
TATTTTGAAAAAAATAATTAAT
Found at i:28870 original size:23 final size:24
Alignment explanation
Indices: 28820--28864 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
28810 ATTCTAATTA
28820 TATTTTGAAATAAAATAATTAAAT
1 TATTTTGAAATAAAATAATTAAAT
*
28844 TATTTTGAAA-AAAATATTTAA
1 TATTTTGAAATAAAATAATTAA
28865 TCTATTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
TATTTTGAAATAAAATAATTAAAT
Found at i:30460 original size:7 final size:7
Alignment explanation
Indices: 30448--30474 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30438 AGTTAGATAG
30448 AAAATTC
1 AAAATTC
30455 AAAATTC
1 AAAATTC
30462 AAAATTC
1 AAAATTC
30469 AAAATT
1 AAAATT
30475 TGAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTC
Found at i:32784 original size:29 final size:28
Alignment explanation
Indices: 32749--32887 Score: 116
Period size: 29 Copynumber: 4.8 Consensus size: 28
32739 GGCCATTTTG
32749 AGGTCAAAGTGTAATTTTAAAAAGTTTA
1 AGGTCAAAGTGTAATTTTAAAAAGTTTA
** * * *
32777 ACCATCAAAATCTAATTTTGAAAAGTTTA
1 A-GGTCAAAGTGTAATTTTAAAAAGTTTA
* * *
32806 GAGGTCATAGAGTAATTTAAAAAAGTTTAA
1 -AGGTCAAAGTGTAATTTTAAAAAGTTT-A
* * *
32836 AGGTTAAAGTGTGATTTTGAAAAGTTTA
1 AGGTCAAAGTGTAATTTTAAAAAGTTTA
* * *
32864 AGGGCCAATGTGTAATTTTGAAAA
1 A-GGTCAAAGTGTAATTTTAAAAA
32888 TTCTAGGAAC
Statistics
Matches: 84, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
28 3 0.04
29 79 0.94
30 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (28 bp):
AGGTCAAAGTGTAATTTTAAAAAGTTTA
Found at i:33411 original size:155 final size:151
Alignment explanation
Indices: 33072--33506 Score: 421
Period size: 156 Copynumber: 2.8 Consensus size: 151
33062 GTTATCACTG
* *
33072 GGTCATTTTTATGCAAAAAGTGTGCATTTAGGATAGGTTAATCCTTTTCCTTATCTTTTCTATAT
1 GGTCATTTTTATGCAAAGA-TGTGCATTTAGGATAGGTTAAT-CTTTTTCTTATCTTTTC-ATAT
* * * ** * *
33137 CCTTTAAGTTTACTAGGATACTTTCATGTCGAAAGCGTACTCTAAAGGCATTTTGATAATTTCTT
63 CCTTTAAGGTTAC-AAGATATTTTCATGTCGAAAGTATA-TCTAAGGGCATTTTGATAATTTCTC
*
33202 TAGAACCGTATCTTAGGTCATCGTCA
126 TAGAACCGTATCTTAGGTCATCATCA
* * * *
33228 GGTCACTTTTATGTCAAAGATATGCATTTAGGATAGGTTAGTCATTTTTCTTATCTTTTTCATCT
1 GGTCATTTTTATG-CAAAGATGTGCATTTAGGATAGGTTAATC-TTTTTCTTATC-TTTTCATAT
* * * **
33293 CCTTTAAGGTTACAAAAATATTTTTACGTCGAAAGTATATCCGAGGGCATTTTGATAATTTCTCT
63 CCTTTAAGGTTAC-AAGATATTTTCATGTCGAAAGTATATCTAAGGGCATTTTGATAATTTCTCT
* *
33358 ATAA-C-TAAGTCTTAGGTCCTCATC-
127 AGAACCGT-A-TCTTAGGTCATCATCA
* * * * *
33382 GTGTTATTTTTATGCCAAAGATGTACATTTAGAATAGG-TACATCTTTTTATTATCTTTTCATGT
1 G-GTCATTTTTATG-CAAAGATGTGCATTTAGGATAGGTTA-ATCTTTTTCTTATCTTTTCATAT
** * *
33446 TTTTTAAAGTTATCAAGATATTTTCATGTC-AAATATATATCTAAGGGCATTTTGATAATTT
63 CCTTTAAGGTTA-CAAGATATTTTCATGTCGAAA-GTATATCTAAGGGCATTTTGATAATTT
33507 TTTTAAAACA
Statistics
Matches: 230, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
152 3 0.01
153 55 0.24
154 16 0.07
155 71 0.31
156 75 0.33
157 10 0.04
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (151 bp):
GGTCATTTTTATGCAAAGATGTGCATTTAGGATAGGTTAATCTTTTTCTTATCTTTTCATATCCT
TTAAGGTTACAAGATATTTTCATGTCGAAAGTATATCTAAGGGCATTTTGATAATTTCTCTAGAA
CCGTATCTTAGGTCATCATCA
Found at i:35414 original size:20 final size:20
Alignment explanation
Indices: 35391--35457 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
35381 AGTTTAACTT
*
35391 AATTTAAAATATATATTTTA
1 AATTTAAAATAAATATTTTA
* ** *
35411 AATTTTATTTAAATTTTTTA
1 AATTTAAAATAAATATTTTA
* *
35431 TATTTATAAATAAATAATTTA
1 AATTTA-AAATAAATATTTTA
35452 AATTTA
1 AATTTA
35458 TTTAGATCAA
Statistics
Matches: 34, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTAAAATAAATATTTTA
Found at i:35472 original size:41 final size:40
Alignment explanation
Indices: 35392--35475 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
35382 GTTTAACTTA
* * **
35392 ATTTAAAATATATATTTTAAATTTTATTTAAATTTTTTAT
1 ATTTAAAATAAATAATTTAAATTTTATTTAAATAATTTAT
*
35432 ATTTATAAATAAATAATTTAAA-TTTATTTAGATCAATTTAT
1 ATTTA-AAATAAATAATTTAAATTTTATTTAAAT-AATTTAT
35473 ATT
1 ATT
35476 ATATTTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (40 bp):
ATTTAAAATAAATAATTTAAATTTTATTTAAATAATTTAT
Found at i:35689 original size:18 final size:18
Alignment explanation
Indices: 35666--35789 Score: 55
Period size: 19 Copynumber: 6.8 Consensus size: 18
35656 TCTGATTTAT
35666 TTTTTAATAAATTTTAAA
1 TTTTTAATAAATTTTAAA
*
35684 TTTTTATTTAAA-TTT--A
1 TTTTTA-ATAAATTTTAAA
35700 TTTTT--TAAA-TTTAATA
1 TTTTTAATAAATTTTAA-A
*
35716 TTTTTATTTAAATTTTTTAAAA
1 TTTTTA-ATAAA--TTTT-AAA
* *
35738 TATTAAATAAATTTTTAAA
1 TTTTTAATAAA-TTTTAAA
* * *
35757 -TTTAAAGAAATATTTTAAT
1 TTTTTAA-TAA-ATTTTAAA
35776 TTTTTAATAAATTT
1 TTTTTAATAAATTT
35790 ATTTTAATGA
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
13 7 0.08
16 12 0.14
18 18 0.22
19 21 0.25
20 11 0.13
21 4 0.05
22 8 0.10
23 2 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTTTAATAAATTTTAAA
Found at i:35695 original size:19 final size:18
Alignment explanation
Indices: 35673--35730 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
35663 TATTTTTTAA
35673 TAAATTTTAAATTTTTATT
1 TAAA-TTTAAATTTTTATT
35692 TAAATTT--A--TTT-TT
1 TAAATTTAAATTTTTATT
35705 TAAATTTAATATTTTTATT
1 TAAATTTAA-ATTTTTATT
35724 TAAATTT
1 TAAATTT
35731 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
16 2 0.06
18 6 0.18
19 13 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAAATTTAAATTTTTATT
Found at i:35732 original size:12 final size:13
Alignment explanation
Indices: 35678--35718 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35668 TTTAATAAAT
35678 TTTAAATTT-TTA
1 TTTAAATTTATTA
*
35690 TTTAAATTTATTT
1 TTTAAATTTATTA
*
35703 TTTAAATTTAATA
1 TTTAAATTTATTA
35716 TTT
1 TTT
35719 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAAATTTATTA
Found at i:37300 original size:17 final size:17
Alignment explanation
Indices: 37255--37293 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
37245 TTTGTTAGTT
37255 GTAAA-TTATTTAGTAA
1 GTAAATTTATTTAGTAA
*
37271 TTAAATTTATTTAGTAA
1 GTAAATTTATTTAGTAA
37288 GTAAAT
1 GTAAAT
37294 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (17 bp):
GTAAATTTATTTAGTAA
Found at i:38703 original size:23 final size:23
Alignment explanation
Indices: 38677--38726 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38667 GCATTTAGAG
38677 ATATCAAAGAACTGGTTTAATTA
1 ATATCAAAGAACTGGTTTAATTA
* * *
38700 ATATTAATGAGCTGGTTTAATTA
1 ATATCAAAGAACTGGTTTAATTA
38723 ATAT
1 ATAT
38727 TAATGAGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (23 bp):
ATATCAAAGAACTGGTTTAATTA
Found at i:38727 original size:23 final size:23
Alignment explanation
Indices: 38688--38737 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
38678 TATCAAAGAA
38688 CTGGTTTAATTAATATTAATGAG
1 CTGGTTTAATTAATATTAATGAG
38711 CTGGTTTAATTAATATTAATGAG
1 CTGGTTTAATTAATATTAATGAG
38734 CTGG
1 CTGG
38738 AGCATCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (23 bp):
CTGGTTTAATTAATATTAATGAG
Found at i:39490 original size:18 final size:18
Alignment explanation
Indices: 39467--39501 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39457 ATAGTCTTTG
39467 TTATTTT-ATTTCTCCATT
1 TTATTTTAATTT-TCCATT
39485 TTATTTTAATTTTCCAT
1 TTATTTTAATTTTCCAT
39502 GAATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTTAATTTTCCATT
Found at i:39621 original size:18 final size:18
Alignment explanation
Indices: 39598--39641 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
39588 AACACAAAAA
* *
39598 TTATATAAAATTAGTTTG
1 TTATATAAAATCAATTTG
39616 TTATATAAAATCAATTTG
1 TTATATAAAATCAATTTG
*
39634 TTAAATAA
1 TTATATAA
39642 TTGAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (18 bp):
TTATATAAAATCAATTTG
Found at i:40156 original size:69 final size:69
Alignment explanation
Indices: 40082--40310 Score: 222
Period size: 69 Copynumber: 3.3 Consensus size: 69
40072 TTTTAATAAT
* *
40082 AAATTTAGATTATTATAAGTTTATGATCATATTATTTTGCACGTAAGATATTTTGATTTTGATCA
1 AAATTTAAATTATTATAAGTTTATGATCATATTATTTTGCAAGTAAGATATTTTGATTTTGATCA
40147 TCTA
66 TCTA
* * * * *
40151 AAATTTAAATTATTTTGAGTTTAT-A--ATAGTTATTTAATTACAATTCAA-TTATTCTT-ATTT
1 AAATTTAAATTATTATAAGTTTATGATCATA-TTA-TT--TTGCAAGT-AAGATATT-TTGATTT
* *
40211 T--TAAT-AA
60 TGATCATCTA
* *
40218 TAAATTTAGATTATTATAAGTTTATGATCATATTATTTTGCATGTAAGATATTTTGATTTTGATC
1 -AAATTTAAATTATTATAAGTTTATGATCATATTATTTTGCAAGTAAGATATTTTGATTTTGATC
40283 ATCTA
65 ATCTA
* *
40288 AAATTTAAATTATTTTGAGTTTA
1 AAATTTAAATTATTATAAGTTTA
40311 AGTTAATTCA
Statistics
Matches: 124, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
66 7 0.06
67 18 0.15
68 27 0.22
69 47 0.38
70 18 0.15
71 7 0.06
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.50
Consensus pattern (69 bp):
AAATTTAAATTATTATAAGTTTATGATCATATTATTTTGCAAGTAAGATATTTTGATTTTGATCA
TCTA
Found at i:40186 original size:137 final size:136
Alignment explanation
Indices: 40034--40311 Score: 538
Period size: 137 Copynumber: 2.0 Consensus size: 136
40024 AAATTTTTAT
40034 TTTAAATAGTTATTTAATTACAATTCAATTATTCTTATTTTTAATAATAAATTTAGATTATTATA
1 TTTAAATAGTTATTTAATTACAATTCAATTATTCTTATTTTTAATAATAAATTTAGATTATTATA
40099 AGTTTATGATCATATTATTTTGCACGTAAGATATTTTGATTTTGATCATCTAAAATTTAAATTAT
66 AGTTTATGATCATATTATTTTGCACGTAAGATATTTTGATTTTGATCATCTAAAATTTAAATTAT
40164 TTTGAG
131 TTTGAG
40170 TTTATAATAGTTATTTAATTACAATTCAATTATTCTTATTTTTAATAATAAATTTAGATTATTAT
1 TTTA-AATAGTTATTTAATTACAATTCAATTATTCTTATTTTTAATAATAAATTTAGATTATTAT
*
40235 AAGTTTATGATCATATTATTTTGCATGTAAGATATTTTGATTTTGATCATCTAAAATTTAAATTA
65 AAGTTTATGATCATATTATTTTGCACGTAAGATATTTTGATTTTGATCATCTAAAATTTAAATTA
40300 TTTTGAG
130 TTTTGAG
40307 TTTAA
1 TTTAA
40312 GTTAATTCAA
Statistics
Matches: 140, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
136 5 0.04
137 135 0.96
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (136 bp):
TTTAAATAGTTATTTAATTACAATTCAATTATTCTTATTTTTAATAATAAATTTAGATTATTATA
AGTTTATGATCATATTATTTTGCACGTAAGATATTTTGATTTTGATCATCTAAAATTTAAATTAT
TTTGAG
Found at i:43743 original size:235 final size:230
Alignment explanation
Indices: 43368--44027 Score: 690
Period size: 232 Copynumber: 2.8 Consensus size: 230
43358 AAGGGCAATC
* * * * * *
43368 TTATCTATTATTTAT-ATTGTTGAGAAAAAATAAGAAAACAGCT-AAAAAAAGGAAGAAAGAGAA
1 TTATCTATCATTT-TCATTGCTGAGAAAATATGAGAAAACA-ATGAAAAAAAAGAAGAAAGAGAA
* * * *
43431 GACACTGATATGTTGTTAGTAATTATACTATTAGTATAAGAAAAATCCAACTAAAATGATAGAAA
64 GACACTGATATATTGCTAGTAATTATACTATTA-TATGAGAAAAATCTAACTAAAATGATAGAAA
* *
43496 TAGCTTGAGCTTTTCTCAACCATAAAAAAAACAATCAAGACTTGACATAAATGACTCAATATTAG
128 TAGCTAGAGCTTTTCTCAACCATAAAAAAAA-AATCAAGACTTGACATAAATAACTCAATATTAG
* * ***
43561 CCAATGAGATGAGGCTAATAAGA-AAATTTTGAGGGTAAGG
192 CCAACGAGATGAGGCCAATAAGATAAA-TTTGAAAATAA-G
** *
43601 TTATCTATCATTTGT-ATTGCTGA-AGAAATATGAGAAAGTAGCTGAAAAAAAAGAAAAGAAAGA
1 TTATCTATCATTT-TCATTGCTGAGA-AAATATGAGAAAACA-ATGAAAAAAAAG--AAGAAAGA
*
43664 GAAGACACTGATATATTGCTAGTAATTAAACTATTATATGAGAAAAATCTAACTAAAATGATAGA
61 GAAGACACTGATATATTGCTAGTAATTATACTATTATATGAGAAAAATCTAACTAAAATGATAGA
* * * *
43729 AATAGCTCGAGCTTTTCTTAACCAT--AAAAAAAATCAAGACTTAACATAAATTACTCAATATTA
126 AATAGCTAGAGCTTTTCTCAACCATAAAAAAAAAATCAAGACTTGACATAAATAACTCAATATTA
*
43792 GCCAACGAGATTAGGCCAATAAGATAAATTTGAAAATAAG
191 GCCAACGAGATGAGGCCAATAAGATAAATTTGAAAATAAG
* * * * **
43832 TTATCTATTATTTTCATTGCTGAGAAAATATGAGAAAACAATTAAAAAATAGAGGTGAGAGAAGA
1 TTATCTATCATTTTCATTGCTGAGAAAATATGAGAAAACAATGAAAAAAAAGAAGAAAGAGAAGA
* * * * * * * *
43897 CATTGACATATTGCCCAATAATTGTACTATTAATAAGAGAAAAATCGT-ACTAATAA-GAAAGCA
66 CACTGATATATTG-CTAGTAATTATACTATT-ATATGAGAAAAATC-TAACTAA-AATGATAGAA
* * * *
43960 ATTGCTAGAGCTTTTCTCAACCATAAAAAAAAAAAACCTAAGACTTTGACATAATTAACTCAAAA
127 ATAGCTAGAGCTTTTCTCAACCAT--AAAAAAAAAATC-AAGAC-TTGACATAAATAACTCAATA
44025 TTA
188 TTA
44028 TAAATTCAAT
Statistics
Matches: 361, Mismatches: 49, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
228 21 0.06
229 13 0.04
230 54 0.15
231 37 0.10
232 61 0.17
233 43 0.12
234 17 0.05
235 55 0.15
236 60 0.17
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (230 bp):
TTATCTATCATTTTCATTGCTGAGAAAATATGAGAAAACAATGAAAAAAAAGAAGAAAGAGAAGA
CACTGATATATTGCTAGTAATTATACTATTATATGAGAAAAATCTAACTAAAATGATAGAAATAG
CTAGAGCTTTTCTCAACCATAAAAAAAAAATCAAGACTTGACATAAATAACTCAATATTAGCCAA
CGAGATGAGGCCAATAAGATAAATTTGAAAATAAG
Found at i:44074 original size:14 final size:16
Alignment explanation
Indices: 44043--44074 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44033 TCAATAATTT
44043 TAAAATATTTTTACAA
1 TAAAATATTTTTACAA
44059 TAAAAT-TTTTTA-AA
1 TAAAATATTTTTACAA
44073 TA
1 TA
44075 TTTGAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATATTTTTACAA
Found at i:45879 original size:231 final size:230
Alignment explanation
Indices: 45481--47969 Score: 3159
Period size: 231 Copynumber: 10.8 Consensus size: 230
45471 AGATGAGGCC
* * * *
45481 AGATAAATTTGA-GATCAATCTTATCTATTATTTGTATTGTTGAAAAAATATGAGAAAGTAG-T-
1 AGATAAATTTGAGGA-CAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCTA
* * * * * * *
45543 ---TAAAAA-AAAGAGAAGACACTGATATATTGCTAATAATTAAATTATTAATATGAGAAAATTT
65 AAAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
* * * * *
45604 TAATTAAAATGATAAAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGATTTGATATA
130 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACATA
* * * *
45669 AATGAATCAATATTAGCCAATAATATGAGGTCAATA
195 AATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * * * *
45705 AGATAAATTTGAGAATAATCTTATCTATCATTTGTATTATTGAGAAAATATGATAAAGTAGCTGA
1 AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCT-A
*
45770 AAAAAAAAAGAAAGAAAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
65 AAAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
*
45835 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAATCATAAAAAAAAATCAAGACTTGACATA
130 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACATA
* *
45900 AATTACTCAATATGT-GCCAATGACATGAGGCCAATA
195 AATGACTCAATAT-TAGCCAATGAGATGAGGCCAATA
* *
45936 AGATAAATTTCAGGACAATCTTATCTATCATTTGTATT-TCTGAGAAAATATGAAAAAACAGCTA
1 AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGT-TGAGAAAATATGAAAAAGCAGCTA
*
46000 AAAAAAAGGAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAATTATTAGTATGAGAAAAA
65 AAAAAAA--AAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAA
* *
46065 TCCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTCAACAAT-AAAAAAAATCAAGACTTGACA
128 TCCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACA
* * *
46129 TAAATAACTTAATATTAGCCAATGAGATGAGACCAATA
193 TAAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * *
46167 AGATAAATTTGA-GATCAATCTTATCTATCATTTGTATTATTGAGAAAATATGATAAAGTAGCTG
1 AGATAAATTTGAGGA-CAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCT-
*
46231 AAAAAAAAAA-AGAAGAGAAGACATTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAA
64 AAAAAAAAAAGA-AAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAA
* *
46295 TCCAACTAAAATAATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAATATCAAGACTTGACA
128 TCCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACA
* *
46360 TAAATGACTCAATATTTGCCAATGACATGAGGCCAATA
193 TAAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* ** * *
46398 AGATAAATTCGAGGGTAATCTTATCTACCATTTGTATT-TCTGAGAAACTATGAAAAAGCAGCTA
1 AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGT-TGAGAAAATATGAAAAAGCAGCTA
* * *
46462 AAAAAAGGAAGAAAGAGAAGACACTGACATACTGCTAGTAATTAAACAATTAGTATGAGAAAAAT
65 AAAAAA-AAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAAT
* *
46527 CCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTCAACAATAAAAAAAAAATCAAGACTTGACA
129 CCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCAT-AAAAAAAAATCAAGACTTGACA
*
46592 TAAATGACTTAATATTAGCCAATGAGATGAGGCCAATA
193 TAAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * * * *
46630 AGCTAAATTTGA-GATCGATCTTATCTATCATTTGTATTATTGAGAAAATATGATAAAGTAGC--
1 AGATAAATTTGAGGA-CAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCTA
* *
46692 CAAAAAAAA-AAAGAGAAGACACTGACATATTGCTAGTAATTAAATTATTAGTATGAGAAAAATC
65 AAAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
*
46756 CAACT-AAATGATAGAAATAGCTCAAGCTTTTCTTAACCAT-AAAAAAAATCAAGACTTGACATA
130 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACATA
* * * *
46819 AATGATTCAATATTTGCCAATG-GCATTAGGCCAAGA
195 AATGACTCAATATTAGCCAATGAG-ATGAGGCCAATA
* * * *
46855 AGATAAATTTGAGGGCAATCTTATTTATCATTTGTATT-TCTGAGAAAATATGAAAAAACAACTA
1 AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGT-TGAGAAAATATGAAAAAGCAGCTA
**
46919 AAAAAGGAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
65 AAAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
* * * * *
46984 CAATTAAAATGATAAAAATAGCTCGAGCTTTTCTTAGCAATAAACAAAAAATCAAGAGTTGACAT
130 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAA-AAAAAATCAAGACTTGACAT
47049 AAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
194 AAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * * * *
47086 AAATAAATTTGAGGGCAACCTTATCTATCATTTGTATTGCTGAGAAAATATGAAAAAGTAGCTGA
1 AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCT-A
* *
47151 AAAAAAAAAGAAAGAGAAGACATTGACATATTGCTAGTAATTAAACTACTAGTATGAGAAAAATC
65 AAAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATC
* *
47216 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTCAACTAT-AAAAAAAATCAAGACTTGACATA
130 CAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACATA
*
47280 AATGACTCAATATTAGCCAATGAGATGAGACCAATA
195 AATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * * *
47316 AGATAAATTTGA-GAGCAACCTTATCTATCATTTGTATTGCTGAGAAAATTTGAGAAAGCAGCTG
1 AGATAAATTTGAGGA-CAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCT-
*
47380 AAAAAAAAAGGAAGAAAGAGAAGATACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAA
64 -AAAAAAAA--AAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAA
** *
47445 AATCTTACTAAAATGACAGAAATAGCTCGAGCTTTTCTTAACCATAAGGAAAAAAAAATCAAGA-
126 AATCCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCAT----AAAAAAAAATCAAGAC
* *
47509 TTTAGCATAAATGACTCAATATTAGCCAATGAGATAAGGCCAATA
187 TTGA-CATAAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* * * *
47554 AGATAAATTTGAGGGCAA-CTTTATCTATCATTTGTATTGCTGAGAAAATTTGAGAAAGCAGCTA
1 AGATAAATTTGAGGACAATC-TTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCT-
* *
47618 AAAAAAAAGGAAGAAAGAGAAGATATTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAA
64 AAAAAAAA--AAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAA
** * *
47683 ATCTTATTAAAATGATAGAAATAGCTCAAGCTTTTCTTAACCATAAGAAAAAAAATCAAGACTT-
127 ATCCAACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCAT-A-AAAAAAAATCAAGACTTG
* *
47747 AGCATAAATGACTTAATATTAGCCAATGAGATGAGACCAATA
190 A-CATAAATGACTCAATATTAGCCAATGAGATGAGGCCAATA
* *** **
47789 TGATAAATTTGAAGG-CAAGT-TTATCTATCATTT-TCATCACTGAGAAAATATGAAAAAATAAT
1 AGATAAATTTG-AGGACAA-TCTTATCTATCATTTGT-ATTGTTGAGAAAATATG-AAAAAGCA-
* * * * * * ** * * *
47851 TG-TAAAAAAATGGAGGAGAGAGAAGATACTGACATATTGCCCAATAATTGTACTATTAATAAGG
61 -GCTAAAAAAA--AAAGAAAGAGAAGACACTGACATATTG-CTAGTAATTAAACTATTAGTATGA
** * * * *
47915 GAAAAATCGTACTAATAA-GAAAAAAATAGCTAGAGCTTTTCTCAACCATAAAAAA
122 GAAAAATCCAACTAA-AATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAA
47970 GGAAATAAAG
Statistics
Matches: 2017, Mismatches: 186, Indels: 113
0.87 0.08 0.05
Matches are distributed among these distances:
224 55 0.03
225 104 0.05
226 1 0.00
227 38 0.02
228 115 0.06
229 35 0.02
230 235 0.12
231 610 0.30
232 310 0.15
233 92 0.05
234 2 0.00
235 98 0.05
236 41 0.02
237 167 0.08
238 113 0.06
239 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (230 bp):
AGATAAATTTGAGGACAATCTTATCTATCATTTGTATTGTTGAGAAAATATGAAAAAGCAGCTAA
AAAAAAAAGAAAGAGAAGACACTGACATATTGCTAGTAATTAAACTATTAGTATGAGAAAAATCC
AACTAAAATGATAGAAATAGCTCGAGCTTTTCTTAACCATAAAAAAAAATCAAGACTTGACATAA
ATGACTCAATATTAGCCAATGAGATGAGGCCAATA
Found at i:49635 original size:16 final size:16
Alignment explanation
Indices: 49616--49650 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49606 TATATTTAAT
49616 TTAAA-ATATAATATAA
1 TTAAACATA-AATATAA
49632 TTAAACATAAATATAA
1 TTAAACATAAATATAA
49648 TTA
1 TTA
49651 TGATAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAACATAAATATAA
Found at i:49843 original size:15 final size:15
Alignment explanation
Indices: 49795--49912 Score: 68
Period size: 15 Copynumber: 7.8 Consensus size: 15
49785 TCAATAGATT
*
49795 TTTATTTATATTT-A
1 TTTATTTAAATTTAA
* *
49809 TTTATGT-ATTTTAAA
1 TTTATTTAAATTT-AA
*
49824 TTTTATTTGAATTTAA
1 -TTTATTTAAATTTAA
49840 TTTATATT---TTTAAAA
1 TTTAT-TTAAATTT-A-A
49855 TTTTATTTAAATTTAA
1 TT-TATTTAAATTTAA
*
49871 TTTATTTAAAATTAA
1 TTTATTTAAATTTAA
**
49886 TTATATTTAGGTTT-A
1 TT-TATTTAAATTTAA
49901 TTTATTTAAATT
1 TTTATTTAAATT
49913 AAATAAATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
13 6 0.07
14 15 0.19
15 28 0.35
16 24 0.30
17 5 0.06
18 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTATTTAAATTTAA
Found at i:49843 original size:31 final size:30
Alignment explanation
Indices: 49794--49875 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
49784 ATCAATAGAT
*
49794 TTTTATTTATATTT-ATTTATGTATTTT-AAA
1 TTTTATTTA-ATTTAATTTATAT-TTTTAAAA
49824 TTTTATTTGAATTTAATTTATATTTTTAAAA
1 TTTTATTT-AATTTAATTTATATTTTTAAAA
49855 TTTTATTTAAATTTAATTTAT
1 TTTTATTT-AATTTAATTTAT
49876 TTAAAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
30 16 0.34
31 31 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTTATTTAATTTAATTTATATTTTTAAAA
Found at i:49848 original size:11 final size:11
Alignment explanation
Indices: 49818--49874 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49808 ATTTATGTAT
*
49818 TTTAAATTTTA
1 TTTAAATTTAA
*
49829 TTTGAATTTAA
1 TTTAAATTTAA
*
49840 TTTATATTT--
1 TTTAAATTTAA
* *
49849 TTAAAATTTTA
1 TTTAAATTTAA
49860 TTTAAATTTAA
1 TTTAAATTTAA
49871 TTTA
1 TTTA
49875 TTTAAAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 7 0.19
11 29 0.81
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:49935 original size:10 final size:10
Alignment explanation
Indices: 49922--49974 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
49912 TAAATAAATT
49922 TATTTAAAAA
1 TATTTAAAAA
*
49932 TATTAAAAAA
1 TATTTAAAAA
*
49942 TATAATTAAATA
1 TAT--TTAAAAA
*
49954 TATTTATAAA
1 TATTTAAAAA
*
49964 TAATTAAAAA
1 TATTTAAAAA
49974 T
1 T
49975 TTATTTATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 26 0.76
12 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:49950 original size:22 final size:22
Alignment explanation
Indices: 49910--49974 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
49900 ATTTATTTAA
* *
49910 ATTAAATAAATTTATTTAAAAAT
1 ATTAAA-AAATATAATTAAAAAT
*
49933 ATTAAAAAATATAATTAAATAT
1 ATTAAAAAATATAATTAAAAAT
* *
49955 ATT-TATAA-ATAATTAAAAAT
1 ATTAAAAAATATAATTAAAAAT
49975 TTATTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 11 0.31
21 3 0.08
22 16 0.44
23 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTAAAAAATATAATTAAAAAT
Found at i:49958 original size:32 final size:32
Alignment explanation
Indices: 49908--49973 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
49898 TTATTTATTT
*
49908 AAATTAAATAAATTTATTTAAAAAT-ATTAAA
1 AAATTAAATAAATATATTTAAAAATAATTAAA
* *
49939 AAATATAATTAAATATATTTATAAATAATTAAA
1 AAAT-TAAATAAATATATTTAAAAATAATTAAA
49972 AA
1 AA
49974 TTTATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 4 0.13
32 18 0.60
33 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATTAAATAAATATATTTAAAAATAATTAAA
Found at i:49979 original size:22 final size:22
Alignment explanation
Indices: 49949--49991 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49939 AAATATAATT
49949 AAATATATTTATAAATAATTAA
1 AAATATATTTATAAATAATTAA
* *
49971 AAATTTATTTATAAATTATTA
1 AAATATATTTATAAATAATTA
49992 TCAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATATTTATAAATAATTAA
Found at i:50018 original size:17 final size:17
Alignment explanation
Indices: 49996--50048 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
49986 TTATTATCAA
49996 ATTAAATTTAAAGTATT
1 ATTAAATTTAAAGTATT
*
50013 ATTAAATATAAA--ATT
1 ATTAAATTTAAAGTATT
* *
50028 A-TAAAATAAAAGTATT
1 ATTAAATTTAAAGTATT
50044 ATTAA
1 ATTAA
50049 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
16 4 0.14
17 14 0.48
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
ATTAAATTTAAAGTATT
Found at i:50032 original size:25 final size:23
Alignment explanation
Indices: 49979--50032 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
49969 AAAAATTTAT
*
49979 TTATAAATTATTATCAAATTAAA
1 TTATAAAGTATTATCAAATTAAA
*
50002 TT-TAAAGTATTATTAAATATAAAA
1 TTATAAAGTATTATCAAAT-T-AAA
50026 TTATAAA
1 TTATAAA
50033 ATAAAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 14 0.54
23 3 0.12
24 5 0.19
25 4 0.15
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TTATAAAGTATTATCAAATTAAA
Found at i:50808 original size:54 final size:54
Alignment explanation
Indices: 50746--50849 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
50736 GTGGATATAA
* * * *
50746 AATATTTAAT-TTTTATTATTATATAATACATAAATTTAATTTTTTAATCATATC
1 AATATTTAATATATT-TTATTATATAAAACATAAATTTAATATCTTAATCATATC
*
50800 AATATTTAATATATTTTATTATATAAAATATAAATTTAATATCTTAATCA
1 AATATTTAATATATTTTATTATATAAAACATAAATTTAATATCTTAATCA
50850 CATAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 41 0.93
55 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (54 bp):
AATATTTAATATATTTTATTATATAAAACATAAATTTAATATCTTAATCATATC
Found at i:51823 original size:22 final size:22
Alignment explanation
Indices: 51780--51828 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
51770 CTCCATAAGG
* *
51780 AAAAGTTGAAGAATTTTGAGAA
1 AAAAGTTGAAGAACTTGGAGAA
*
51802 GAAAGTTGAA-AACTTGGCAGAA
1 AAAAGTTGAAGAACTTGG-AGAA
51824 AAAAG
1 AAAAG
51829 AGACAGAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (22 bp):
AAAAGTTGAAGAACTTGGAGAA
Found at i:52480 original size:39 final size:39
Alignment explanation
Indices: 52422--52510 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
52412 GATCGGTTGC
52422 GTGCAAGGTTGTGTCCAGGGTTGAATAAAGAAGAGAAGA
1 GTGCAAGGTTGTGTCCAGGGTTGAATAAAGAAGAGAAGA
* *
52461 GTGCAAGGTTGTGTGCAGGGTTGAATGAAGAAGAGAAGA
1 GTGCAAGGTTGTGTCCAGGGTTGAATAAAGAAGAGAAGA
52500 GTGCAAGGTTG
1 GTGCAAGGTTG
52511 AATGAAGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.33, C:0.07, G:0.39, T:0.21
Consensus pattern (39 bp):
GTGCAAGGTTGTGTCCAGGGTTGAATAAAGAAGAGAAGA
Found at i:52511 original size:27 final size:27
Alignment explanation
Indices: 52473--52526 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
52463 GCAAGGTTGT
*
52473 GTGCAGGGTTGAATGAA-GAAGAGAAGA
1 GTGCAAGGTTGAATGAAGGAA-AGAAGA
52500 GTGCAAGGTTGAATGAAGGAAAGAAGA
1 GTGCAAGGTTGAATGAAGGAAAGAAGA
52527 TTCTTCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.39, T:0.15
Consensus pattern (27 bp):
GTGCAAGGTTGAATGAAGGAAAGAAGA
Found at i:62271 original size:2 final size:2
Alignment explanation
Indices: 62264--62306 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
62254 CTCTATCTTT
*
62264 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62305 TA
1 TA
62307 AAAGGGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:63210 original size:17 final size:17
Alignment explanation
Indices: 63188--63221 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63178 ATATATTTGT
63188 TTTAAAGAAAAAGAACA
1 TTTAAAGAAAAAGAACA
* *
63205 TTTAAATAAAAATAACA
1 TTTAAAGAAAAAGAACA
63222 ACTTTTGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
TTTAAAGAAAAAGAACA
Found at i:65065 original size:2 final size:2
Alignment explanation
Indices: 65060--65097 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
65050 CTCACTTTTT
65060 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
65098 AATAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65623 original size:17 final size:20
Alignment explanation
Indices: 65587--65624 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
65577 ACATCTATTT
65587 TGTTGAATTTTGTAATTAAA
1 TGTTGAATTTTGTAATTAAA
65607 TGTT-AATTTT-T-ATTAAA
1 TGTTGAATTTTGTAATTAAA
65624 T
1 T
65625 TTTGCTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 6 0.33
20 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TGTTGAATTTTGTAATTAAA
Found at i:65667 original size:29 final size:29
Alignment explanation
Indices: 65583--65671 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
65573 AATAACATCT
* *
65583 ATTTTG-TTGAATTTTGTAATTAAATGTTA
1 ATTTTGATTGAATTTTGCAATTAACT-TTA
* * * *
65612 ATTTTTATTAAATTTTGCTACTCAACTTTA
1 ATTTTGATTGAATTTTGC-AATTAACTTTA
* *
65642 GTTTTGATTGAATTTTGCATTTAACTTTA
1 ATTTTGATTGAATTTTGCAATTAACTTTA
65671 A
1 A
65672 GTAACTGATT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
29 14 0.30
30 27 0.59
31 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (29 bp):
ATTTTGATTGAATTTTGCAATTAACTTTA
Found at i:66088 original size:20 final size:20
Alignment explanation
Indices: 66065--66107 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
66055 ATTTTTCTAA
* *
66065 TTTTT-TCATGTTGGTATAT
1 TTTTTGTCATATTAGTATAT
*
66084 TTTTTGTCATATTAGTTTAT
1 TTTTTGTCATATTAGTATAT
66104 TTTT
1 TTTT
66108 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTTTGTCATATTAGTATAT
Found at i:66641 original size:23 final size:24
Alignment explanation
Indices: 66602--66650 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
66592 ACACATGTTC
* *
66602 TTTTATTTATAAGTTAT-TTTTTA
1 TTTTATTTATAAATTATATGTTTA
66625 TTTTA-TTATAAAATTATATGTTTA
1 TTTTATTTAT-AAATTATATGTTTA
66649 TT
1 TT
66651 AATTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATTTATAAATTATATGTTTA
Found at i:68793 original size:2 final size:2
Alignment explanation
Indices: 68782--68817 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
68772 ATTTCCCTTT
68782 TA TA -A 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 TA TA TA T
68818 TGTAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76944 original size:155 final size:154
Alignment explanation
Indices: 76759--77066 Score: 343
Period size: 154 Copynumber: 2.0 Consensus size: 154
76749 CATCATCGTT
76759 GAAGGAAGCCAAGGGTCCTCTCCAATTCCCTACATT-TTTCTCCGTTTCTTTTCCACTTCTCTCC
1 GAAGGAAGCCAAGGGTCCTCTCCAATTCCCTACATTGTTTCT--GTTTCTTTTCCACTTCTCTCC
* * * * * *
76823 CCCACTCTTTCCTTAGCCT-ACCAACTAGGCTTGTTGATAGCTCCCTGTCCTAGTCATCCTTTCT
64 CCCACTCTTTCATTAG-CTAACCAACTAGCCTTATTGATAGCTCACTATCCTAGTCATCCTTCCT
* *
76887 GTAACCTTTATTTTCACTCATTTCATC
128 GTAAACTTTATTTTCACTCACTTCATC
* * * * * * * *
76914 GAAGGAGGCCAAGTGTCCTCTCCACA-TCCCTTCATTGTTTCTTTTTCTTTTTCATTTCTTTCCT
1 GAAGGAAGCCAAGGGTCCTCTCCA-ATTCCCTACATTGTTTCTGTTTCTTTTCCACTTCTCTCCC
* * * * * * *
76978 TCACTCTTTTATTAGCTAACCAACTAGCCTTATTGATCGTTTACTATCTTGGTCATCCTTCCTGT
65 CCACTCTTTCATTAGCTAACCAACTAGCCTTATTGATAGCTCACTATCCTAGTCATCCTTCCTGT
*
77043 AAACTTTATTTTCTCTCACTTCAT
130 AAACTTTATTTTCACTCACTTCAT
77067 TTCCCTTTTT
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
153 2 0.02
154 87 0.69
155 31 0.25
156 6 0.05
ACGTcount: A:0.18, C:0.30, G:0.10, T:0.42
Consensus pattern (154 bp):
GAAGGAAGCCAAGGGTCCTCTCCAATTCCCTACATTGTTTCTGTTTCTTTTCCACTTCTCTCCCC
CACTCTTTCATTAGCTAACCAACTAGCCTTATTGATAGCTCACTATCCTAGTCATCCTTCCTGTA
AACTTTATTTTCACTCACTTCATC
Found at i:79148 original size:34 final size:34
Alignment explanation
Indices: 79086--79301 Score: 301
Period size: 34 Copynumber: 6.4 Consensus size: 34
79076 TGGTGGTTAG
* * *
79086 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
79119 TGTTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
79153 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
79186 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
79220 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
79254 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
79288 TGTTGATTAAATGG
1 TGTTGATTAAATGG
79302 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
33 41 0.25
34 123 0.75
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:79183 original size:67 final size:66
Alignment explanation
Indices: 79086--79303 Score: 310
Period size: 67 Copynumber: 3.2 Consensus size: 66
79076 TGGTGGTTAG
* * *
79086 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTACC
79151 AT
65 AT
* * * *
79153 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTACC
79218 AT
65 AT
* * *
79220 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTAC
79285 CAT
64 CAT
79288 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
79304 GTTTTTACCA
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
67 73 0.54
68 62 0.46
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (66 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTACCA
T
Found at i:79260 original size:101 final size:101
Alignment explanation
Indices: 79086--79303 Score: 359
Period size: 101 Copynumber: 2.2 Consensus size: 101
79076 TGGTGGTTAG
* *
79086 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 TGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
79151 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
*
79186 TGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
1 TGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
* *
79250 CCATTGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
64 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
79288 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
79304 GTTTTTACCA
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
99 1 0.01
100 14 0.13
101 60 0.55
102 33 0.30
103 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
TGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:83776 original size:34 final size:34
Alignment explanation
Indices: 83712--83929 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
83702 AAGTGGGAGA
* * *
83712 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
83745 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
83779 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
83812 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
83846 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
83880 ATTGTTGACTAAATGAGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
83914 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
83930 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 43 0.26
34 121 0.74
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:83820 original size:67 final size:66
Alignment explanation
Indices: 83712--83931 Score: 305
Period size: 67 Copynumber: 3.3 Consensus size: 66
83702 AAGTGGGAGA
* * *
83712 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTA
83777 CC
65 CC
* * * *
83779 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTA
83844 CC
65 CC
* * *
83846 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGAGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTT
*
83911 GCC
64 ACC
83914 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
83932 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTAC
C
Found at i:83858 original size:101 final size:101
Alignment explanation
Indices: 83712--83931 Score: 363
Period size: 101 Copynumber: 2.2 Consensus size: 101
83702 AAGTGGGAGA
* *
83712 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTA
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
83777 CCATTGTTGACTAAATG-GAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
*
83812 ATTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
* *
83876 TACCATTGTTGACTAAATGAGAGATTTGGTAGGTTGCC
64 TACCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
83914 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
83932 GTTTTTACCA
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
99 1 0.01
100 16 0.14
101 61 0.55
102 32 0.29
103 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
Found at i:86145 original size:2 final size:2
Alignment explanation
Indices: 86138--86174 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
86128 TCACTTTTAC
86138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
86175 AAAGTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92326 original size:16 final size:17
Alignment explanation
Indices: 92291--92328 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
92281 ATTTGCATTA
*
92291 AAATGTAAAGCTTATTTT
1 AAATGTAAA-CTTATGTT
92309 AAATGTAAA-TTATGTT
1 AAATGTAAACTTATGTT
92325 AAAT
1 AAAT
92329 TAATAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (17 bp):
AAATGTAAACTTATGTT
Found at i:95708 original size:34 final size:33
Alignment explanation
Indices: 95660--95880 Score: 257
Period size: 34 Copynumber: 6.5 Consensus size: 33
95650 TGGTAAAAAC
*
95660 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
95693 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
95727 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** * *
95761 TTCTCATTTAATCAATAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
95795 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
95829 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
95863 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
95881 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.14
34 133 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:95781 original size:68 final size:67
Alignment explanation
Indices: 95662--95880 Score: 287
Period size: 68 Copynumber: 3.2 Consensus size: 67
95652 GTAAAAACCA
* * *
95662 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
95727 CAC
65 CAC
* * * * *
95730 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAATAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
95795 CTC
65 CAC
* * * *
95798 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
95863 CA-
65 CAC
95865 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
95881 TCTCCCACTT
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
67 17 0.13
68 112 0.86
69 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:95804 original size:102 final size:101
Alignment explanation
Indices: 95660--95880 Score: 343
Period size: 102 Copynumber: 2.2 Consensus size: 101
95650 TGGTAAAAAC
* *
95660 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
95725 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * * *
95761 TTCTCATTTAATCAATAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
95826 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
95863 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
95881 TCTCCCACTT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 15 0.14
102 91 0.86
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:100335 original size:34 final size:33
Alignment explanation
Indices: 100287--100505 Score: 262
Period size: 34 Copynumber: 6.5 Consensus size: 33
100277 TGGTAAAAAC
*
100287 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
100320 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
100354 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
100388 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
100422 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
100456 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
100490 CACCATTTAATCAACA
1 CACCATTTAATCAACA
100506 GTATCAATGC
Statistics
Matches: 160, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 21 0.13
34 133 0.83
35 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:100403 original size:68 final size:67
Alignment explanation
Indices: 100289--100505 Score: 292
Period size: 68 Copynumber: 3.2 Consensus size: 67
100279 GTAAAAACCA
* * *
100289 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
100354 CAC
65 CAC
* * * *
100357 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
100422 CTC
65 CAC
* * * *
100425 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
100490 CA-
65 CAC
100492 CCATTTAATCAACA
1 CCATTTAATCAACA
100506 GTATCAATGC
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
67 15 0.12
68 114 0.88
69 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:100466 original size:102 final size:101
Alignment explanation
Indices: 100287--100505 Score: 348
Period size: 102 Copynumber: 2.2 Consensus size: 101
100277 TGGTAAAAAC
* *
100287 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
100352 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
100388 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
100453 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
100490 CACCATTTAATCAACA
1 CACCATTTAATCAACA
100506 GTATCAATGC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 14 0.13
102 92 0.87
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:101920 original size:2 final size:2
Alignment explanation
Indices: 101915--101943 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
101905 GTGTGTGTAC
101915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101944 AGATGCAATT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102164 original size:17 final size:17
Alignment explanation
Indices: 102139--102179 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
102129 TAAGAACGTG
102139 TATTAAATATAAATATA
1 TATTAAATATAAATATA
*
102156 TATTTAATATAAATATA
1 TATTAAATATAAATATA
102173 T-TTAAAT
1 TATTAAAT
102180 TTTATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATATAAATATA
Found at i:102210 original size:26 final size:25
Alignment explanation
Indices: 102168--102220 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
102158 TTTAATATAA
**
102168 ATATATTTAAATTTTAT-TAATTTTT
1 ATATATTTAAAAATTATAT-ATTTTT
102193 ATATATTTAAAAAATTATATATTTTT
1 ATATATTT-AAAAATTATATATTTTT
102219 AT
1 AT
102221 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 15 0.62
27 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATATTTAAAAATTATATATTTTT
Found at i:104095 original size:26 final size:26
Alignment explanation
Indices: 104053--104104 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
104043 TTTAAATACA
104053 TAATTTAAAATAAAATAAAA-AATTT
1 TAATTTAAAATAAAATAAAATAATTT
104078 TAATTTAAAA-AATTAATAAAATAATTT
1 TAATTTAAAATAA--AATAAAATAATTT
104105 GTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.08
25 10 0.42
26 7 0.29
27 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATTTAAAATAAAATAAAATAATTT
Found at i:105251 original size:29 final size:29
Alignment explanation
Indices: 105215--105270 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
105205 TATAAAAAAT
* *
105215 AAATATAATT-TTTAAAAATTATGAATAG
1 AAATATAATTGATAAAAAATTATGAATAG
105243 AAATAATAATTGATAAAAAATTATGAAT
1 AAAT-ATAATTGATAAAAAATTATGAAT
105271 TATTGGCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 6 0.25
30 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
AAATATAATTGATAAAAAATTATGAATAG
Found at i:106144 original size:11 final size:11
Alignment explanation
Indices: 106128--106172 Score: 58
Period size: 10 Copynumber: 4.2 Consensus size: 11
106118 AATACATATC
*
106128 ATTTAAAATAT
1 ATTTAAAAAAT
106139 ATTT-AAAAAT
1 ATTTAAAAAAT
106149 -TTTAAAAAAT
1 ATTTAAAAAAT
106159 AATTTAAAAAAT
1 -ATTTAAAAAAT
106171 AT
1 AT
106173 GGATAGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 3 0.10
10 11 0.37
11 6 0.20
12 10 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTTAAAAAAT
Found at i:110170 original size:38 final size:38
Alignment explanation
Indices: 110122--110237 Score: 169
Period size: 38 Copynumber: 3.1 Consensus size: 38
110112 CACCAGCCAC
* * **
110122 CAGCCACCGGCCAATTCCAAATTGAATTCTCTAGTCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAACCGT
*
110160 CAGCCGCCGGCCAATTTCAAATCGAATTCTCTAACCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAACCGT
* *
110198 CAGCTGCCAGCCAATTTCAAATTGAATTCTCTAACCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAACCGT
110236 CA
1 CA
110238 ACTAATTCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (38 bp):
CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAACCGT
Done.