Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1919
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: 196150
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Found at i:6570 original size:18 final size:19
Alignment explanation
Indices: 6547--6585 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6537 AAATAATGGG
*
6547 AATGAATAGCAA-AAAAAA
1 AATGAACAGCAATAAAAAA
*
6565 AATGAACATCAATAAAAAA
1 AATGAACAGCAATAAAAAA
6584 AA
1 AA
6586 AGAGTGGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (19 bp):
AATGAACAGCAATAAAAAA
Found at i:10849 original size:20 final size:20
Alignment explanation
Indices: 10820--10894 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
10810 AAAAAGACAT
*
10820 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
10840 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
10860 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
10880 AATGTATCGATACAT
1 AATGTATCGATACAT
10895 CATGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:10888 original size:40 final size:39
Alignment explanation
Indices: 10817--10894 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
10807 GGTAAAAAGA
* *
10817 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
10856 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
10895 CATGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:12907 original size:16 final size:16
Alignment explanation
Indices: 12888--12939 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
12878 TCTAAATTTG
12888 AAAAAGTTTAAACTTA
1 AAAAAGTTTAAACTTA
* *
12904 AAAATGATTTAAACATA
1 AAAAAG-TTTAAACTTA
* * *
12921 AAAAAATTCAAACTCA
1 AAAAAGTTTAAACTTA
12937 AAA
1 AAA
12940 TAATCTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.25
Consensus pattern (16 bp):
AAAAAGTTTAAACTTA
Found at i:13203 original size:14 final size:16
Alignment explanation
Indices: 13173--13206 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
13163 AAAAATTAAA
13173 AAATCATTTTTAGATT
1 AAATCATTTTTAGATT
13189 AAAT-ATTTTTA-ATT
1 AAATCATTTTTAGATT
13203 AAAT
1 AAAT
13207 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 7 0.39
16 4 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
AAATCATTTTTAGATT
Found at i:14549 original size:26 final size:25
Alignment explanation
Indices: 14509--14573 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 25
14499 TTAATAAAAA
*
14509 TAAATTTAATTTTTATACTTAATTT
1 TAAATTTAATTTTTATACTTAAATT
*
14534 TAAATTTAATTATTTATATTTAAATT
1 TAAATTTAATT-TTTATACTTAAATT
*
14560 TAAATTAAATTTTT
1 TAAATTTAATTTTT
14574 TAATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 14 0.39
26 22 0.61
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TAAATTTAATTTTTATACTTAAATT
Found at i:14575 original size:20 final size:19
Alignment explanation
Indices: 14530--14576 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
14520 TTTATACTTA
*
14530 ATTTTAAATTTAATTATTT
1 ATTTTAAATTTAATTAATT
14549 ATATTTAAATTTAAATTAAATT
1 AT-TTTAAATTT-AATT-AATT
14571 -TTTTAA
1 ATTTTAA
14577 TAATAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 5 0.21
22 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTAAATTTAATTAATT
Found at i:15435 original size:71 final size:71
Alignment explanation
Indices: 15319--15470 Score: 304
Period size: 71 Copynumber: 2.1 Consensus size: 71
15309 AAACTACTAG
15319 TGAGGTAATGCGAGAAGGATTGAAGATTTAATGATGTCTATGCAAATTCTAGGTACTACTACAGG
1 TGAGGTAATGCGAGAAGGATTGAAGATTTAATGATGTCTATGCAAATTCTAGGTACTACTACAGG
15384 GACACC
66 GACACC
15390 TGAGGTAATGCGAGAAGGATTGAAGATTTAATGATGTCTATGCAAATTCTAGGTACTACTACAGG
1 TGAGGTAATGCGAGAAGGATTGAAGATTTAATGATGTCTATGCAAATTCTAGGTACTACTACAGG
15455 GACACC
66 GACACC
15461 TGAGGTAATG
1 TGAGGTAATG
15471 GGCCCAATTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 81 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (71 bp):
TGAGGTAATGCGAGAAGGATTGAAGATTTAATGATGTCTATGCAAATTCTAGGTACTACTACAGG
GACACC
Found at i:16689 original size:33 final size:33
Alignment explanation
Indices: 16650--16713 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
16640 TTGGATAACA
16650 TTAAAATTTAAATTTTAGATAACAATTTTAATT
1 TTAAAATTTAAATTTTAGATAACAATTTTAATT
16683 TTAAAATTTAAATTTTAGATAACAATTTTAA
1 TTAAAATTTAAATTTTAGATAACAATTTTAA
16714 AATTTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (33 bp):
TTAAAATTTAAATTTTAGATAACAATTTTAATT
Found at i:16709 original size:27 final size:28
Alignment explanation
Indices: 16650--16742 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 28
16640 TTGGATAACA
16650 TTAAAATTTAAATTTTAGATAACAATTTTAATT
1 TTAAAATTTAAATTTTAGATAAC-----TAATT
16683 TTAAAATTTAAATTTTAGATAAC-AATT
1 TTAAAATTTAAATTTTAGATAACTAATT
* *
16710 TTAAAATTTAGA--TTGGATAACTAATT
1 TTAAAATTTAAATTTTAGATAACTAATT
*
16736 TTTAAAT
1 TTAAAAT
16743 CCAAACAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
25 8 0.14
26 10 0.18
27 15 0.27
33 23 0.41
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (28 bp):
TTAAAATTTAAATTTTAGATAACTAATT
Found at i:16712 original size:20 final size:20
Alignment explanation
Indices: 16656--16722 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
16646 AACATTAAAA
16656 TTTAAATTTTAGATAACAAT
1 TTTAAATTTTAGATAACAAT
16676 TTT-AA-TTT---TAA-AA-
1 TTTAAATTTTAGATAACAAT
16689 TTTAAATTTTAGATAACAAT
1 TTTAAATTTTAGATAACAAT
*
16709 TTTAAAATTTAGAT
1 TTTAAATTTTAGAT
16723 TGGATAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.08
14 4 0.10
15 6 0.15
18 6 0.15
19 4 0.10
20 16 0.41
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTAAATTTTAGATAACAAT
Found at i:17750 original size:12 final size:12
Alignment explanation
Indices: 17735--17776 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
17725 ATTTAAAGTT
17735 TATTTTAATATA
1 TATTTTAATATA
17747 TATTTTAATATA
1 TATTTTAATATA
*
17759 TATTATAAT-TA
1 TATTTTAATATA
*
17770 TAATTTA
1 TATTTTA
17777 TTGTAACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTTTAATATA
Found at i:18242 original size:14 final size:13
Alignment explanation
Indices: 18213--18252 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
18203 GCATCTCTCC
18213 CTTGTATCCCTCT
1 CTTGTATCCCTCT
18226 CTTGTATCCCTTCT
1 CTTGTATCCC-TCT
18240 CTTGTAT-CCTCT
1 CTTGTATCCCTCT
18252 C
1 C
18253 CAATTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.15
13 12 0.46
14 10 0.38
ACGTcount: A:0.07, C:0.38, G:0.07, T:0.47
Consensus pattern (13 bp):
CTTGTATCCCTCT
Found at i:20707 original size:21 final size:22
Alignment explanation
Indices: 20678--20723 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
20668 TGTTCAGACA
** *
20678 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
20700 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
20721 AGT
1 AGT
20724 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:22642 original size:27 final size:27
Alignment explanation
Indices: 22611--22683 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
22601 AGCCACCATT
22611 TGTTTGTCAAAAATGGTGGTTACTTTG
1 TGTTTGTCAAAAATGGTGGTTACTTTG
* * *
22638 TGTTTGTAAAAAATGGTGGTTTCTTTT
1 TGTTTGTCAAAAATGGTGGTTACTTTG
*
22665 TATTTGTCAAAAATGGTGG
1 TGTTTGTCAAAAATGGTGG
22684 CATGTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTACTTTG
Found at i:22694 original size:24 final size:25
Alignment explanation
Indices: 22609--22700 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 25
22599 AAAGCCACCA
*
22609 TTTGTTTGTCAAAAATGGTGGTTACT
1 TTTGTTTGTCAAAAATGGTGGTCA-T
* *
22635 TTGTGTTTGTAAAAAATGGTGGTTTCTT
1 TT-TGTTTGTCAAAAATGGTGG--TCAT
*
22663 TTTATTTGTCAAAAATGGTGG-CAT
1 TTTGTTTGTCAAAAATGGTGGTCAT
*
22687 GTTGTTTGTCAAAA
1 TTTGTTTGTCAAAA
22701 TTTGTGGCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
24 14 0.25
26 2 0.04
27 35 0.64
28 3 0.05
29 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (25 bp):
TTTGTTTGTCAAAAATGGTGGTCAT
Found at i:25335 original size:27 final size:27
Alignment explanation
Indices: 25299--25365 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
25289 TTCAATAAGG
*
25299 GGGAGTAAAGAAAATTTCCCAACAAGA
1 GGGAGCAAAGAAAATTTCCCAACAAGA
**
25326 GGGAGCAAAGAAGGTTTCCCAACAAGA
1 GGGAGCAAAGAAAATTTCCCAACAAGA
25353 GGGAGCAAAGAAA
1 GGGAGCAAAGAAA
25366 GATCAAGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.28, T:0.10
Consensus pattern (27 bp):
GGGAGCAAAGAAAATTTCCCAACAAGA
Found at i:31873 original size:7 final size:7
Alignment explanation
Indices: 31861--31891 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31851 TTTTTTCATA
31861 TTTAAAT
1 TTTAAAT
31868 TTTAAAT
1 TTTAAAT
*
31875 TTTGAAT
1 TTTAAAT
31882 TTTAAAT
1 TTTAAAT
31889 TTT
1 TTT
31892 TTACATGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (7 bp):
TTTAAAT
Found at i:32259 original size:24 final size:24
Alignment explanation
Indices: 32231--32276 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32221 AATAAAAATT
32231 AGCCACCAATTTTAACAAACAACA
1 AGCCACCAATTTTAACAAACAACA
* * *
32255 AGCCACTATTTTTTACAAACAA
1 AGCCACCAATTTTAACAAACAA
32277 AAATATCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTAACAAACAACA
Found at i:36836 original size:24 final size:24
Alignment explanation
Indices: 36808--36853 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36798 AATAAAAATT
36808 AGCCACCAATTTTAACAAACAACA
1 AGCCACCAATTTTAACAAACAACA
* * *
36832 AGCCATCATTTTTTACAAACAA
1 AGCCACCAATTTTAACAAACAA
36854 AAATATCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTAACAAACAACA
Found at i:37958 original size:30 final size:30
Alignment explanation
Indices: 37924--37982 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
37914 AAATAAACTA
* * * *
37924 TAAATAAGTTGAGTTTAAATTTTATATTTT
1 TAAATAAATTGAGCTCAAATTTTAAATTTT
37954 TAAATAAATTGAGCTCAAATTTTAAATTT
1 TAAATAAATTGAGCTCAAATTTTAAATTT
37983 AACTCATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (30 bp):
TAAATAAATTGAGCTCAAATTTTAAATTTT
Found at i:38186 original size:31 final size:31
Alignment explanation
Indices: 38145--38237 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 31
38135 AACTTACCGA
*
38145 TTATTCATAATTTTTTATTAATATATTATTT
1 TTATTTATAATTTTTTATTAATATATTATTT
38176 TTATTTATAA-TTTTTA--AA-A-ATTATATT
1 TTATTTATAATTTTTTATTAATATATTAT-TT
* * *
38203 TTATCTATAATTTTTTATTACTATTTTATTT
1 TTATTTATAATTTTTTATTAATATATTATTT
38234 TTAT
1 TTAT
38238 CCATAACCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 5 0.10
27 12 0.23
28 8 0.15
30 7 0.13
31 16 0.31
32 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (31 bp):
TTATTTATAATTTTTTATTAATATATTATTT
Found at i:38251 original size:58 final size:59
Alignment explanation
Indices: 38151--38262 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 59
38141 CCGATTATTC
** ** *
38151 ATAATTTTTTATTAATATATTATTTTTATTTATAA-TTTTTAAAAATTATATTTTATCT
1 ATAATTTTTTATTAATATATTATTTTTATCCATAACCCTTAAAAAATTATATTTTATCT
* *
38209 ATAATTTTTTATTACTATTTTATTTTTATCCATAACCCTTAAAAAATTATATTT
1 ATAATTTTTTATTAATATATTATTTTTATCCATAACCCTTAAAAAATTATATTT
38263 ATTTATCTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 31 0.67
59 15 0.33
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (59 bp):
ATAATTTTTTATTAATATATTATTTTTATCCATAACCCTTAAAAAATTATATTTTATCT
Found at i:38746 original size:14 final size:13
Alignment explanation
Indices: 38709--38747 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
38699 TTTAAAATTT
38709 TTATTAATTTAAAA
1 TTATT-ATTTAAAA
38723 TTATATATTTAAAA
1 TTAT-TATTTAAAA
38737 TTATTGATTTA
1 TTATT-ATTTA
38748 TATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
TTATTATTTAAAA
Found at i:39463 original size:33 final size:33
Alignment explanation
Indices: 39426--39495 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
39416 TAAAATTTAC
*
39426 TTTATTAATTATTTTTATTTATTTTA-AATATAT
1 TTTATTAATTATTTTGATTTATTTTATAATAT-T
39459 TTTATTAATTATTTTGATTTATTTTATAATATT
1 TTTATTAATTATTTTGATTTATTTTATAATATT
39492 TTTA
1 TTTA
39496 AAAAAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (33 bp):
TTTATTAATTATTTTGATTTATTTTATAATATT
Found at i:40242 original size:2 final size:2
Alignment explanation
Indices: 40230--40273 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
40220 AATTGCATCT
* *
40230 TA TA TA CA TA TA TA CA 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
40272 TA
1 TA
40274 CCCGTTTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:45513 original size:13 final size:13
Alignment explanation
Indices: 45482--45515 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45472 AGGGATAAAA
*
45482 GAGAGAGATGCTT
1 GAGAGGGATGCTT
45495 GAGAGGGATGCTT
1 GAGAGGGATGCTT
45508 GAGAGGGA
1 GAGAGGGA
45516 GGAGGGAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.47, T:0.18
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:45670 original size:26 final size:27
Alignment explanation
Indices: 45600--45671 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
45590 ATAAGCCATA
* *
45600 ATTTTTGACAAACAAAAAGGAACCACC
1 ATTTGTGACAAACACAAAGGAACCACC
* * * *
45627 ATTTTTTACAAATACAAAGTAACCACC
1 ATTTGTGACAAACACAAAGGAACCACC
45654 A-TTGTGACAAACACAAAG
1 ATTTGTGACAAACACAAAG
45672 AGTGGCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22
Consensus pattern (27 bp):
ATTTGTGACAAACACAAAGGAACCACC
Found at i:45842 original size:20 final size:20
Alignment explanation
Indices: 45817--45856 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45807 AAACATAGTT
45817 GGAACTTGGTCGCAGTCACA
1 GGAACTTGGTCGCAGTCACA
45837 GGAACTTGGTCGCAGTCACA
1 GGAACTTGGTCGCAGTCACA
45857 ACTTTTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (20 bp):
GGAACTTGGTCGCAGTCACA
Found at i:50219 original size:27 final size:27
Alignment explanation
Indices: 50184--50255 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
50174 ATAAGCTATA
50184 ATTTTTGACAAACA-AAAAGGAACCACC
1 ATTTTTGACAAACACAAAA-GAACCACC
* *
50211 ATTTTTGACAAATACAAAATAACCACC
1 ATTTTTGACAAACACAAAAGAACCACC
* *
50238 ATTGTTGACCAACACAAA
1 ATTTTTGACAAACACAAA
50256 TGGTGGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (27 bp):
ATTTTTGACAAACACAAAAGAACCACC
Found at i:54123 original size:154 final size:152
Alignment explanation
Indices: 53876--54335 Score: 556
Period size: 150 Copynumber: 3.0 Consensus size: 152
53866 AGAAAATAAG
* * * * * * *
53876 ATGAAAGGAGAGAAAATAAGAGTTACAGGAAAGATGACTAGG-CAGTAAGCAATCAACGAAGCTA
1 ATGAAATGAGAAAAAATAAGGGTTACAGGAAGGATGACGAGGACAGTGAGCAATCAACGAGGCTA
* * * *
53940 GTTGGTTGTCTAAGGAAAGAATGGCGGAGAGAAATGGAAAAGAAAGAGAAAAAAATGAACGGATG
66 GTTGGATGGCTAAGAAAAGAGTGG-GGAGAGAAATGGAAAAGAAA-AGAAAAAAATGAA-GGATG
54005 TGGAGAGGACACTTGGCCTCCTTCA
128 TGGAGAGGACACTTGGCCTCCTTCA
* * * *
54030 ATGAAATGAGAAAAAATAAGGGTTATAGGAAGGATGACGAGGACAGCGAGCGATTAACGAGGCTA
1 ATGAAATGAGAAAAAATAAGGGTTACAGGAAGGATGACGAGGACAGTGAGCAATCAACGAGGCTA
*
54095 GTTGGATGGCTAAGAAAAGAGTGGGGAGAGAAATGGAAAAG-AAAG--AAAAATGAAGGGATGAG
66 GTTGGATGGCTAAGAAAAGAGTGGGGAGAGAAATGGAAAAGAAAAGAAAAAAATGAA-GGATGTG
* *
54157 GAGAGGACACTCGGCCTCCTTCG
130 GAGAGGACACTTGGCCTCCTTCA
* * * *
54180 ATGAAATAAGAAAAAACAAGGGTTACAGGAAGTATGACTG-GGACAGTGACCAATCAACGAGGCT
1 ATGAAATGAGAAAAAATAAGGGTTACAGGAAGGATGAC-GAGGACAGTGAGCAATCAACGAGGCT
* *
54244 AGTTGGCTGGCTAA-AGAAAGAGTGGGGGAGAGAAAAGGAAAAGAAAAAGAAAAAAAATGAAGAG
65 AGTTGGATGGCTAAGA-AAAGAGT-GGGGAGAGAAATGGAAAAG-AAAAG-AAAAAAATGAAG-G
*
54308 ATGTGAAG-GGACACTTGGCCTCCTTCA
125 ATGTGGAGAGGACACTTGGCCTCCTTCA
54335 A
1 A
54336 CAATGATAGG
Statistics
Matches: 263, Mismatches: 33, Indels: 19
0.83 0.10 0.06
Matches are distributed among these distances:
149 1 0.00
150 110 0.42
151 19 0.07
152 2 0.01
153 6 0.02
154 53 0.20
155 56 0.21
156 16 0.06
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (152 bp):
ATGAAATGAGAAAAAATAAGGGTTACAGGAAGGATGACGAGGACAGTGAGCAATCAACGAGGCTA
GTTGGATGGCTAAGAAAAGAGTGGGGAGAGAAATGGAAAAGAAAAGAAAAAAATGAAGGATGTGG
AGAGGACACTTGGCCTCCTTCA
Found at i:55963 original size:27 final size:27
Alignment explanation
Indices: 55927--55999 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
55917 AACCACCCTT
55927 TGTTTGTCAAAAATGGTGGTTACTTTG
1 TGTTTGTCAAAAATGGTGGTTACTTTG
* * * *
55954 TGTTTATCAAAAATAGTGGTTTCTTTT
1 TGTTTGTCAAAAATGGTGGTTACTTTG
*
55981 TATTTGTCAAAAATGGTGG
1 TGTTTGTCAAAAATGGTGG
56000 CATGTTGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTACTTTG
Found at i:58888 original size:27 final size:27
Alignment explanation
Indices: 58850--58917 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
58840 ACAAGTCATA
58850 ATTTTTGACAAACAAAAAGGAACCACT
1 ATTTTTGACAAACAAAAAGGAACCACT
* * *
58877 ATTTTTGACAAATACAAAGTAACCACT
1 ATTTTTGACAAACAAAAAGGAACCACT
*
58904 ATTGTTGACAAACA
1 ATTTTTGACAAACA
58918 CATGGTGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACT
Found at i:58936 original size:24 final size:25
Alignment explanation
Indices: 58905--58962 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
58895 GTAACCACTA
*
58905 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
58929 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
58955 TTGTTGAC
1 TTGTTGAC
58963 TAGCCACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:60864 original size:21 final size:22
Alignment explanation
Indices: 60826--60871 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
60816 ATCTGTTGAA
* **
60826 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
60847 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
60869 ACT
1 ACT
60872 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:63230 original size:207 final size:207
Alignment explanation
Indices: 62875--63295 Score: 824
Period size: 207 Copynumber: 2.0 Consensus size: 207
62865 TTCTTCTCTT
62875 CAATAGCAGTGTCTAGACCTTGTTGAAATAGCGCATCTAGAACTTCACTCTGCCACATGCCAAAA
1 CAATAGCAGTGTCTAGACCTTGTTGAAATAGCGCATCTAGAACTTCACTCTGCCACATGCCAAAA
62940 TGACCCGTGCCATCAAAAATCTCCACAGCTAATTTCCCATTTGTCACAGCAGTTCTAGCCCAAAT
66 TGACCCGTGCCATCAAAAATCTCCACAGCTAATTTCCCATTTGTCACAGCAGTTCTAGCCCAAAT
63005 GGGTGCTGATGAAGATGTTGATACAGCTGATGTCAAACTCATTTTGGAATCACAAATTCTCCAAT
131 GGGTGCTGATGAAGATGTTGATACAGCTGATGTCAAACTCATTTTGGAATCACAAATTCTCCAAT
63070 AGCTTGCTAATA
196 AGCTTGCTAATA
*
63082 CAATAGCAGTGTCTAGACCTTGTTGAAATAGCGCATCTAGAACTTTACTCTGCCACATGCCAAAA
1 CAATAGCAGTGTCTAGACCTTGTTGAAATAGCGCATCTAGAACTTCACTCTGCCACATGCCAAAA
*
63147 TGACCCGTGCCATCAAAAATCTGCACAGCTAATTTCCCATTTGTCACAGCAGTTCTAGCCCAAAT
66 TGACCCGTGCCATCAAAAATCTCCACAGCTAATTTCCCATTTGTCACAGCAGTTCTAGCCCAAAT
63212 GGGTGCTGATGAAGATGTTGATACAGCTGATGTCAAACTCATTTTGGAATCACAAATTCTCCAAT
131 GGGTGCTGATGAAGATGTTGATACAGCTGATGTCAAACTCATTTTGGAATCACAAATTCTCCAAT
63277 AGCTTGCTAATA
196 AGCTTGCTAATA
63289 CAATAGC
1 CAATAGC
63296 CCAATGATAT
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 212 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (207 bp):
CAATAGCAGTGTCTAGACCTTGTTGAAATAGCGCATCTAGAACTTCACTCTGCCACATGCCAAAA
TGACCCGTGCCATCAAAAATCTCCACAGCTAATTTCCCATTTGTCACAGCAGTTCTAGCCCAAAT
GGGTGCTGATGAAGATGTTGATACAGCTGATGTCAAACTCATTTTGGAATCACAAATTCTCCAAT
AGCTTGCTAATA
Found at i:63691 original size:27 final size:27
Alignment explanation
Indices: 63653--63720 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
63643 ACAAGTCATA
63653 ATTTTTGACAAACAAAAAGGAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
* * *
63680 ATTTTTGACAAATACAAAGTAACCACC
1 ATTTTTGACAAACAAAAAGGAACCACC
*
63707 ATTGTTGACAAACA
1 ATTTTTGACAAACA
63721 CATGGTGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGGAACCACC
Found at i:63739 original size:24 final size:25
Alignment explanation
Indices: 63708--63765 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
63698 GTAACCACCA
* *
63708 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGACTT
63732 TTGTTGACAAACACAAAGGGTGACTT
1 TTGTTGACAAACAC-AAGGGTGACTT
63758 TTGTTGAC
1 TTGTTGAC
63766 TAGCCACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGACTT
Found at i:67059 original size:48 final size:47
Alignment explanation
Indices: 67006--67097 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 47
66996 CTAATCTCAC
67006 TTTAATTTTAATTTTATTTTATAATATTTAATTGCTATTTAATTTGAG
1 TTTAATTTTAATTTTATTTTATAATATTTAATTGCTA-TTAATTTGAG
*
67054 TTTAATTTTAATTTTATTTTATAATATTTAGTTGCTATTAATTT
1 TTTAATTTTAATTTTATTTTATAATATTTAATTGCTATTAATTT
67098 TAGTAGTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 7 0.16
48 36 0.84
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (47 bp):
TTTAATTTTAATTTTATTTTATAATATTTAATTGCTATTAATTTGAG
Found at i:67984 original size:2 final size:2
Alignment explanation
Indices: 67979--68018 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
67969 TGTGTGTGTG
*
67979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68019 CATAATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68679 original size:2 final size:2
Alignment explanation
Indices: 68672--68728 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
68662 CTATACATAC
68672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68714 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
68729 GAAGTTAGAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69420 original size:2 final size:2
Alignment explanation
Indices: 69413--69449 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
69403 TAATGCAATG
69413 TA TA TA 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
69450 TTCAATGAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77496 original size:21 final size:22
Alignment explanation
Indices: 77448--77529 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 22
77438 TAACTGTCAA
* *
77448 TTTTAATAAACAATAAATTATCAT
1 TTTTGATAAA-AA-AAATTATTAT
77472 TTTTGATAAAAAAAA-TATTATT
1 TTTTGATAAAAAAAATTATTA-T
*
77494 TTTAATAAATATAAAAAAATTATTAT
1 TTT--T-GATA-AAAAAAATTATTAT
77520 TTTTGATAAA
1 TTTTGATAAA
77530 TATAAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
21 4 0.08
22 9 0.19
23 5 0.10
24 11 0.23
25 3 0.06
26 11 0.23
27 5 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTTGATAAAAAAAATTATTAT
Found at i:77509 original size:26 final size:27
Alignment explanation
Indices: 77477--77538 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
77467 ATCATTTTTG
*
77477 ATAAAAAAAATATTATTTTTAATAAAT
1 ATAAAAAAATTATTATTTTTAATAAAT
*
77504 ATAAAAAAATTATTATTTTTGATAAAT
1 ATAAAAAAATTATTATTTTTAATAAAT
77531 ATAAAAAA
1 ATAAAAAA
77539 TGATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATAAAAAAATTATTATTTTTAATAAAT
Found at i:81146 original size:63 final size:66
Alignment explanation
Indices: 81068--81191 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
81058 AACATTTCCC
* * *
81068 AAATGAGAGATTGTGA-TTTTCTCC-AAGTTGGG-AAAAGCAACCTGCATAATTATTAAAAAAGT
1 AAATGAGAGATTGTGATTTTTCTCCAAAGTTGGGAAAAAGCAACCTACAAAATGATTAAAAAAGT
81130 T
66 T
*
81131 AAATGGGAGATTGTGATTTTTCTCCAAAGTTGGGAAAAAGCAACCTACAAAATGATTAAAA
1 AAATGAGAGATTGTGATTTTTCTCCAAAGTTGGGAAAAAGCAACCTACAAAATGATTAAAA
81192 GAATTAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
63 15 0.28
64 8 0.15
65 8 0.15
66 23 0.43
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.28
Consensus pattern (66 bp):
AAATGAGAGATTGTGATTTTTCTCCAAAGTTGGGAAAAAGCAACCTACAAAATGATTAAAAAAGT
T
Found at i:82736 original size:29 final size:29
Alignment explanation
Indices: 82703--82762 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
82693 TCTAAACTCA
*
82703 AAGTTAAAT-GCAAAATTCAATCAAAACTT
1 AAGTTAAATAGCAAAATTCAAT-AAAAATT
* *
82732 AAGTTAAGTAGCAAAATTTAATAAAAATT
1 AAGTTAAATAGCAAAATTCAATAAAAATT
82761 AA
1 AA
82763 CATTTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (29 bp):
AAGTTAAATAGCAAAATTCAATAAAAATT
Found at i:87028 original size:8 final size:8
Alignment explanation
Indices: 87015--87045 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
87005 AATTTCCATT
87015 TTTTTTTC
1 TTTTTTTC
87023 TTTTTTTC
1 TTTTTTTC
87031 TTTTTTT-
1 TTTTTTTC
87038 TTTTTTTC
1 TTTTTTTC
87046 AACAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:87036 original size:15 final size:15
Alignment explanation
Indices: 87016--87045 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87006 ATTTCCATTT
87016 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
*
87031 TTTTTTTTTTTTTTC
1 TTTTTTCTTTTTTTC
87046 AACAAAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:89804 original size:17 final size:17
Alignment explanation
Indices: 89784--89824 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
89774 TCAATAATCA
89784 ATTATTTAATAAT-TGAT
1 ATTATTTAATAATAT-AT
*
89801 ATTATATAATAATATAT
1 ATTATTTAATAATATAT
89818 ATTATTT
1 ATTATTT
89825 TTATATTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTATTTAATAATATAT
Found at i:90225 original size:21 final size:22
Alignment explanation
Indices: 90187--90227 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90177 TAAAAAATTA
90187 TTTTATATTAATATTTATAAAT
1 TTTTATATTAATATTTATAAAT
90209 TTTTATAATTAA-A-TTATAA
1 TTTTAT-ATTAATATTTATAA
90228 TAATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATATTAATATTTATAAAT
Found at i:90504 original size:28 final size:28
Alignment explanation
Indices: 90443--90521 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
90433 CAAATGCCAC
90443 CTTTTGTATTTGTCAAATATGGTGGTTT
1 CTTTTGTATTTGTCAAATATGGTGGTTT
*
90471 CCTTTGTATTTGTCAAATATGGTGGTTAT
1 CTTTTGTATTTGTCAAATATGGTGGTT-T
* *
90500 -TTTTG--TTTGTAAAAAATGGTGG
1 CTTTTGTATTTGTCAAATATGGTGG
90522 CTTGTTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.33
28 30 0.65
29 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (28 bp):
CTTTTGTATTTGTCAAATATGGTGGTTT
Found at i:90538 original size:24 final size:24
Alignment explanation
Indices: 90479--90547 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
90469 TTCCTTTGTA
* * *
90479 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
90505 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
90529 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
90548 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:95105 original size:28 final size:28
Alignment explanation
Indices: 95015--95097 Score: 166
Period size: 28 Copynumber: 3.0 Consensus size: 28
95005 CAAATGCCAC
95015 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
95043 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
95071 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
95098 ATTTTTGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:95133 original size:56 final size:55
Alignment explanation
Indices: 95015--95121 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 55
95005 CAAATGCCAC
* *
95015 CCTTTGTATTTGTCAAATATGGTGGTTTCCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT-CTTTGTATTTGTAAAAAATGGTGGTTT
*
95071 CCTTTGTATTTGTCAAATATGGTGGTTAT-TTT-TGTTTGTAAAAAATGGTGG
1 CCTTTGTATTTGTCAAATATGGTGGTT-TCTTTGTATTTGTAAAAAATGGTGG
95122 CTTGTTGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 16 0.34
55 3 0.06
56 27 0.57
57 1 0.02
ACGTcount: A:0.21, C:0.08, G:0.22, T:0.49
Consensus pattern (55 bp):
CCTTTGTATTTGTCAAATATGGTGGTTTCTTTGTATTTGTAAAAAATGGTGGTTT
Found at i:95138 original size:24 final size:24
Alignment explanation
Indices: 95079--95147 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
95069 TTCCTTTGTA
* * *
95079 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
95105 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
95129 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
95148 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:95991 original size:17 final size:18
Alignment explanation
Indices: 95965--96002 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
95955 TACCATCATC
*
95965 AATTTTAAAAT-TAAAAA
1 AATTTAAAAATGTAAAAA
95982 AATTTAAAAATGTAAAAA
1 AATTTAAAAATGTAAAAA
96000 AAT
1 AAT
96003 CAGACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AATTTAAAAATGTAAAAA
Found at i:97056 original size:7 final size:7
Alignment explanation
Indices: 97044--97068 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
97034 TAAATATTGA
97044 AAAATAT
1 AAAATAT
97051 AAAATAT
1 AAAATAT
97058 AAAATAT
1 AAAATAT
97065 AAAA
1 AAAA
97069 AATTCCACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:98926 original size:28 final size:29
Alignment explanation
Indices: 98895--98963 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 29
98885 ACAAGCCATA
*
98895 ATTTTTGACAAACA-AAAAAGGATCCACC
1 ATTTTTGACAAACATAAAAAGGAACCACC
* *
98923 ATTTTTGA-AAA-ATACAAAGTAACCACC
1 ATTTTTGACAAACATAAAAAGGAACCACC
*
98950 ATTTTTTACAAACA
1 ATTTTTGACAAACA
98964 CAAAGGGTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.03
27 21 0.62
28 11 0.32
29 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (29 bp):
ATTTTTGACAAACATAAAAAGGAACCACC
Found at i:103464 original size:23 final size:25
Alignment explanation
Indices: 103430--103475 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
103420 AATAAAAATT
103430 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
103454 AGCCA-CAATTTTTGACAAACAA
1 AGCCACCAATTTTTGACAAACAA
103476 AAAAAGATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:103966 original size:19 final size:19
Alignment explanation
Indices: 103921--103968 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
103911 ACAAATATTA
** *
103921 GATTAAAAAAATGAGTTTG
1 GATTAAAAAAATGAGACTC
* *
103940 GATAAAAAAAATTAGACTC
1 GATTAAAAAAATGAGACTC
103959 GATTAAAAAA
1 GATTAAAAAA
103969 TAGGTTGAGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (19 bp):
GATTAAAAAAATGAGACTC
Found at i:107559 original size:6 final size:6
Alignment explanation
Indices: 107550--107583 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
107540 ATTTTAAATT
107550 TATAAA TATAAA TAT-AA TATAAA TATTAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TA-TAAA TATA
107584 TTCCAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TATAAA
Found at i:107570 original size:17 final size:18
Alignment explanation
Indices: 107550--107583 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
107540 ATTTTAAATT
107550 TATAAATA-TAAATATAA
1 TATAAATATTAAATATAA
107567 TATAAATATTAAATATA
1 TATAAATATTAAATATA
107584 TTCCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAATATTAAATATAA
Found at i:107599 original size:43 final size:42
Alignment explanation
Indices: 107507--107599 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
107497 GTATAAGTTG
*
107507 TTTAAATATAAATACAAAAAAAGATAATTAAATATTTTAAAT
1 TTTAAATATAAATACAAAAAAAGATAATTAAATATTTCAAAT
* * *
107549 TTATAAATATAAATATAATATAA-AT-ATTAAATATATTCCAAAT
1 TT-TAAATATAAATACAAAAAAAGATAATTAAATAT-TT-CAAAT
107592 TATTAAAT
1 T-TTAAAT
107600 TTACATTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
41 9 0.21
42 6 0.14
43 27 0.63
44 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (42 bp):
TTTAAATATAAATACAAAAAAAGATAATTAAATATTTCAAAT
Found at i:111247 original size:13 final size:12
Alignment explanation
Indices: 111197--111248 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
111187 AACCTTCACT
111197 ATTTCAAATTGA
1 ATTTCAAATTGA
*
111209 ATTTCATAATTTA
1 ATTTCA-AATTGA
*
111222 CTGTTTCAAATTGA
1 --ATTTCAAATTGA
111236 ATTTCAAAATTGA
1 ATTTC-AAATTGA
111249 CGGCACAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 10 0.31
13 12 0.38
14 5 0.16
15 5 0.16
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (12 bp):
ATTTCAAATTGA
Found at i:111336 original size:37 final size:36
Alignment explanation
Indices: 111286--111388 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 36
111276 ACGAAGGCTG
111286 CGCCACCCCAATTTTCTTTCTTTCTTTCACATGGGGC
1 CGCC-CCCCAATTTTCTTTCTTTCTTTCACATGGGGC
111323 CGCCCCCCTAATTTTCTTTCTTTCTTTCACATGGGGC
1 CGCCCCCC-AATTTTCTTTCTTTCTTTCACATGGGGC
*
111360 CGTCACCCCAATTTTCTTTCTTTCTTTCA
1 CG-CCCCCCAATTTTCTTTCTTTCTTTCA
111389 TGGGGCTGGA
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
36 4 0.06
37 54 0.86
38 5 0.08
ACGTcount: A:0.13, C:0.35, G:0.11, T:0.42
Consensus pattern (36 bp):
CGCCCCCCAATTTTCTTTCTTTCTTTCACATGGGGC
Found at i:116200 original size:37 final size:37
Alignment explanation
Indices: 116105--116206 Score: 179
Period size: 36 Copynumber: 2.8 Consensus size: 37
116095 AAAAAAGCTG
*
116105 CGCCACCCCAATTTTCCTTCTTTCTTTCACATGGGGC
1 CGCCACCCCAATTTTCTTTCTTTCTTTCACATGGGGC
*
116142 CGCC-CCCTAATTTTCTTTCTTTCTTTCACATGGGGC
1 CGCCACCCCAATTTTCTTTCTTTCTTTCACATGGGGC
116178 CGCCACCCCAATTTTCTTTCTTTCTTTCA
1 CGCCACCCCAATTTTCTTTCTTTCTTTCA
116207 TGGGGCTAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.56
37 27 0.44
ACGTcount: A:0.13, C:0.36, G:0.11, T:0.40
Consensus pattern (37 bp):
CGCCACCCCAATTTTCTTTCTTTCTTTCACATGGGGC
Found at i:118498 original size:23 final size:19
Alignment explanation
Indices: 118464--118507 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 19
118454 TCTCTCTACC
118464 CTCTAAAATTCTCTAACTTCT
1 CTCTAAAATTCTC-AA-TTCT
118485 CTCTAAAAGTTTCTCAATTCT
1 CTCTAAAA--TTCTCAATTCT
118506 CT
1 CT
118508 TATTTCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.43
Consensus pattern (19 bp):
CTCTAAAATTCTCAATTCT
Found at i:118565 original size:15 final size:14
Alignment explanation
Indices: 118540--118586 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
118530 TATAAGGTAA
118540 TTTAATATTTATTTT
1 TTTAAT-TTTATTTT
*
118555 TTTATTTTTTAATTTT
1 TTTA-ATTTT-ATTTT
118571 TTTAATTTTATTTT
1 TTTAATTTTATTTT
118585 TT
1 TT
118587 AATATGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 7 0.25
15 11 0.39
16 10 0.36
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTAATTTTATTTT
Found at i:124266 original size:32 final size:32
Alignment explanation
Indices: 124230--124300 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
124220 CGCTAAAGGG
*
124230 CTCAGCGCATCCAACGTGAATGCGCTGGGCCA
1 CTCAGCGCATCCAACGTGAATGCGCTAGGCCA
124262 CTCAGCGCATCCAACGTGAATGCGCTAGGCCA
1 CTCAGCGCATCCAACGTGAATGCGCTAGGCCA
124294 CTCAGCG
1 CTCAGCG
124301 TATATAGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (32 bp):
CTCAGCGCATCCAACGTGAATGCGCTAGGCCA
Found at i:124746 original size:20 final size:18
Alignment explanation
Indices: 124721--124767 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
124711 ACAAAAAATT
*
124721 AAAAAAAAATGAAGTGAGAG
1 AAAAAAAAATGAA--AAGAG
*
124741 AAAAAAAGATGAAAAGAG
1 AAAAAAAAATGAAAAGAG
124759 AAAAAAAAA
1 AAAAAAAAA
124768 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAAAAAATGAAAAGAG
Found at i:125061 original size:22 final size:22
Alignment explanation
Indices: 125014--125067 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
125004 GGTCGGTCGA
* * *
125014 AAGAAACAGAGAAATAGAAAAG
1 AAGAAAAAAAGAAAAAGAAAAG
*
125036 AAGACAAAAAGAAAAAGAAATA-
1 AAGAAAAAAAGAAAAAGAAA-AG
125058 AAGAAAAAAA
1 AAGAAAAAAA
125068 TTATTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.04
Consensus pattern (22 bp):
AAGAAAAAAAGAAAAAGAAAAG
Found at i:125088 original size:10 final size:10
Alignment explanation
Indices: 125073--125099 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
125063 AAAAATTATT
125073 TTTTTATTTA
1 TTTTTATTTA
125083 TTTTTATTTA
1 TTTTTATTTA
125093 TTTTTAT
1 TTTTTAT
125100 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:125730 original size:2 final size:2
Alignment explanation
Indices: 125717--125748 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
125707 ATGGATTATG
125717 TA TA TA -A T- 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
125749 GAAGTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125732 original size:12 final size:13
Alignment explanation
Indices: 125711--125748 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
125701 TTTGTGATGG
*
125711 ATTATGTATATA-
1 ATTATATATATAT
125723 ATTATATATATAT
1 ATTATATATATAT
125736 A-TATATATATAT
1 ATTATATATATAT
125748 A
1 A
125749 GAAGTATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 23 0.96
13 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:131259 original size:18 final size:17
Alignment explanation
Indices: 131215--131261 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
131205 GATGATGATT
**
131215 AAAAGTTTTTTTAATAA
1 AAAAGTTTAATTAATAA
*
131232 AAAA-TATAATTAATGAA
1 AAAAGTTTAATTAAT-AA
131249 AAAAGTTTAATTA
1 AAAAGTTTAATTA
131262 TTTTTTGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAAAGTTTAATTAATAA
Found at i:131879 original size:24 final size:23
Alignment explanation
Indices: 131840--131894 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
131830 TTATTGTTCT
*
131840 ATTTTAAATAATTAATAATATTA
1 ATTTTAAATAAATAATAATATTA
131863 ATTTTGAAATAAATAATAATATTTA
1 ATTTT-AAATAAATAATAATA-TTA
131888 TATTTTA
1 -ATTTTA
131895 TTATTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.18
24 14 0.50
25 4 0.14
26 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTTAAATAAATAATAATATTA
Found at i:132039 original size:19 final size:19
Alignment explanation
Indices: 132015--132055 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
132005 TTTTTATGTT
132015 AATTTA-ATAATTGTAAATA
1 AATTTACATAATT-TAAATA
*
132034 AATTTACTTAATTTAAATA
1 AATTTACATAATTTAAATA
132053 AAT
1 AAT
132056 GATTACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AATTTACATAATTTAAATA
Found at i:134005 original size:28 final size:28
Alignment explanation
Indices: 133973--134028 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
133963 AAAAATATAA
133973 CATATGTAAAATACAAAATAATAATTTT
1 CATATGTAAAATACAAAATAATAATTTT
134001 CATATGTAAAATACAAAATAATAATTTT
1 CATATGTAAAATACAAAATAATAATTTT
134029 ACTTTCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (28 bp):
CATATGTAAAATACAAAATAATAATTTT
Found at i:134363 original size:18 final size:18
Alignment explanation
Indices: 134337--134381 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
134327 CAATATTCAA
* * *
134337 TTATTTAATAAATTGATT
1 TTATATAATAAACTAATT
134355 TTATATAATAAACTAATT
1 TTATATAATAAACTAATT
134373 TTATATAAT
1 TTATATAAT
134382 TTTTATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATATAATAAACTAATT
Found at i:134651 original size:18 final size:18
Alignment explanation
Indices: 134628--134665 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
134618 AAAAACAATT
134628 AATGGA-AAATTAAAATAA
1 AATGGAGAAA-TAAAATAA
134646 AATGGAGAAATAAAATAA
1 AATGGAGAAATAAAATAA
134664 AA
1 AA
134666 AAGACAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (18 bp):
AATGGAGAAATAAAATAA
Found at i:137195 original size:2 final size:2
Alignment explanation
Indices: 137188--137224 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
137178 GCTCTTAATT
137188 TA TA TA 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
137225 TATGTTAATT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:139318 original size:33 final size:36
Alignment explanation
Indices: 139257--139324 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 36
139247 AAAAGAATTG
*
139257 TTATTTGTCATTTAAATTAAATAGAATTGTTTGTAA
1 TTATTTGTCATTTAAATTAAATAAAATTGTTTGTAA
139293 TTATTT-T-ATTT-AATTAAATAAAATTGTTTGTA
1 TTATTTGTCATTTAAATTAAATAAAATTGTTTGTA
139325 TCTTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 20 0.65
34 4 0.13
35 1 0.03
36 6 0.19
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (36 bp):
TTATTTGTCATTTAAATTAAATAAAATTGTTTGTAA
Found at i:139330 original size:29 final size:30
Alignment explanation
Indices: 139266--139335 Score: 70
Period size: 33 Copynumber: 2.2 Consensus size: 30
139256 GTTATTTGTC
* *
139266 ATTTAAATTAAATAGAATTGTTTGTAATTATTTT
1 ATTT-AATTAAATAAAATTGTTTG--A-TATCTT
139300 ATTTAATTAAATAAAATTGTTTG-TATCTT
1 ATTTAATTAAATAAAATTGTTTGATATCTT
*
139329 ATATAAT
1 ATTTAAT
139336 ATATTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 11 0.33
33 18 0.55
34 4 0.12
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (30 bp):
ATTTAATTAAATAAAATTGTTTGATATCTT
Found at i:144728 original size:50 final size:50
Alignment explanation
Indices: 144651--144945 Score: 419
Period size: 50 Copynumber: 5.9 Consensus size: 50
144641 TATACTTAGA
* * *
144651 GTCAACAATTATGGCCATCTTTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * * *
144701 GTCAACAATAATGGTCACATCTTTCTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
144751 GTCAACAATTACGGCCACCTCTCTCCATTGTCAAAGGTTGGTGAAAAATC
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
144801 GTCAACAATTATGACCACCTCTCTCTATTGTCAAAAGTTGGTAAAGAATC
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
144851 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* ** *
144901 GTCAATAATTACGGTTACCTCTCTCTATTGTCAAAAGTTGGTGAA
1 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAA
144946 TGATAATCAA
Statistics
Matches: 216, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 216 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:148360 original size:24 final size:25
Alignment explanation
Indices: 148326--148380 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 25
148316 TTATTATTCG
148326 ATTTTAAATAATTAATAATA-TTA-
1 ATTTTAAATAATTAATAATATTTAT
148349 ATTTTAACATAATTAATAATATTTAT
1 ATTTTAA-ATAATTAATAATATTTAT
148375 ATTTTA
1 ATTTTA
148381 TTATTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.24
24 13 0.45
25 3 0.10
26 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTTAAATAATTAATAATATTTAT
Found at i:148417 original size:23 final size:23
Alignment explanation
Indices: 148383--148427 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
148373 ATATTTTATT
*
148383 ATTTTATATTTTATAATAATTTA
1 ATTTTATATTTTATAAAAATTTA
*
148406 ATTTTA-ATTTTTTTAAAAATTT
1 ATTTTATA-TTTTATAAAAATTT
148428 TGTTTAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTATATTTTATAAAAATTTA
Found at i:148465 original size:25 final size:24
Alignment explanation
Indices: 148438--148501 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 24
148428 TGTTTAGATT
148438 TTTTTATTATTATTTATAAATAAA
1 TTTTTATTATTATTTATAAATAAA
* *
148462 TTTTTA--ATTATTTATTAATATA
1 TTTTTATTATTATTTATAAATAAA
*
148484 TTTTAATTATATATTTAT
1 TTTTTATTAT-TATTTAT
148502 TTAATGATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 19 0.56
24 8 0.24
25 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTATTATTATTTATAAATAAA
Found at i:148489 original size:21 final size:22
Alignment explanation
Indices: 148446--148498 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
148436 TTTTTTTATT
*
148446 ATTATTTATAAATAAATTTTTA
1 ATTATTTATTAATAAATTTTTA
*
148468 ATTATTTATTAATATA-TTTTA
1 ATTATTTATTAATAAATTTTTA
*
148489 ATTATATATT
1 ATTATTTATT
148499 TATTTAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTTATTAATAAATTTTTA
Found at i:148574 original size:15 final size:16
Alignment explanation
Indices: 148554--148615 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 16
148544 TATATTTAAT
148554 TTTAAATAAA-ATAAA
1 TTTAAATAAATATAAA
*
148569 TTTAAA-AAATTTAAA
1 TTTAAATAAATATAAA
*
148584 TATAAATTAAATATAAA
1 TTTAAA-TAAATATAAA
*
148601 --TAAATAAAAATAAA
1 TTTAAATAAATATAAA
148615 T
1 T
148616 AAAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.31
15 19 0.49
17 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTAAATAAATATAAA
Found at i:148593 original size:11 final size:11
Alignment explanation
Indices: 148579--148622 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
148569 TTTAAAAAAT
148579 TTAAATATAAA
1 TTAAATATAAA
148590 TTAAATATAAA
1 TTAAATATAAA
148601 -TAAATA-AAA
1 TTAAATATAAA
* *
148610 ATAAATAAAAA
1 TTAAATATAAA
148621 TT
1 TT
148623 TATTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 3 0.10
10 12 0.40
11 15 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAATATAAA
Found at i:148606 original size:10 final size:10
Alignment explanation
Indices: 148580--148621 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
148570 TTAAAAAATT
*
148580 TAAATATAAAT
1 TAAATA-AAAA
*
148591 TAAATATAAA
1 TAAATAAAAA
148601 TAAATAAAAA
1 TAAATAAAAA
148611 TAAATAAAAA
1 TAAATAAAAA
148621 T
1 T
148622 TTATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:148613 original size:14 final size:15
Alignment explanation
Indices: 148585--148618 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
148575 AAATTTAAAT
*
148585 ATAAATTAAATATAA
1 ATAAATTAAAAATAA
148600 ATAAA-TAAAAATAA
1 ATAAATTAAAAATAA
148614 ATAAA
1 ATAAA
148619 AATTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAATTAAAAATAA
Found at i:151185 original size:18 final size:18
Alignment explanation
Indices: 151159--151202 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
151149 TAATATTCAA
* * *
151159 TTATTTAACAAATTGATT
1 TTATATAACAAACTAATT
151177 TTATATAACAAACTAATT
1 TTATATAACAAACTAATT
151195 TTATATAA
1 TTATATAA
151203 GTTTTGTGTT
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:0.07, G:0.02, T:0.45
Consensus pattern (18 bp):
TTATATAACAAACTAATT
Found at i:155621 original size:12 final size:12
Alignment explanation
Indices: 155592--155625 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
155582 GTTCTTACTT
155592 TATAAATAAGATA
1 TATAAAT-AGATA
*
155605 CATAAATAGATA
1 TATAAATAGATA
155617 TATAAATAG
1 TATAAATAG
155626 TGTAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (12 bp):
TATAAATAGATA
Found at i:156654 original size:17 final size:18
Alignment explanation
Indices: 156634--156669 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
156624 ATGATTATAA
156634 AATTAAATTTAAT-ATTT
1 AATTAAATTTAATAATTT
156651 AATTAAATTTAATAATTT
1 AATTAAATTTAATAATTT
156669 A
1 A
156670 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAAATTTAATAATTT
Found at i:157819 original size:3 final size:3
Alignment explanation
Indices: 157811--157847 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
157801 AGCAAAATTA
*
157811 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
157848 AGATAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:158030 original size:2 final size:2
Alignment explanation
Indices: 158023--158063 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
158013 ACGGACATGA
158023 AT AT AT AT AT AT AT AT A- 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
158064 GCTCCTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 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):
AT
Found at i:163318 original size:20 final size:20
Alignment explanation
Indices: 163293--163334 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
163283 ATTTAAACAT
* *
163293 AAATTTAAATGTGAATTAAA
1 AAATTTAAATATAAATTAAA
*
163313 AAATTTTAATATAAATTAAA
1 AAATTTAAATATAAATTAAA
163333 AA
1 AA
163335 TAAAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATTTAAATATAAATTAAA
Found at i:163632 original size:14 final size:14
Alignment explanation
Indices: 163613--163641 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
163603 TGAGCAAAAA
163613 AAAAAAAAAAAGCC
1 AAAAAAAAAAAGCC
163627 AAAAAAAAAAAGCC
1 AAAAAAAAAAAGCC
163641 A
1 A
163642 TAGCTGCAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGCC
Found at i:164176 original size:21 final size:20
Alignment explanation
Indices: 164145--164212 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
164135 TTTAAAATTT
164145 ATTATTT-ATTTAATAAAAAA
1 ATTATTTAATTTAAT-AAAAA
*
164165 ATTATTTAATTTTAATTAAAA
1 ATTATTTAA-TTTAATAAAAA
*
164186 A-TATATAAATATTAATTAAAAA
1 ATTAT-TTAAT-TTAA-TAAAAA
164208 ATTAT
1 ATTAT
164213 ATTTTAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 11 0.28
21 13 0.33
22 12 0.31
23 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATTTAATTTAATAAAAA
Found at i:164213 original size:21 final size:21
Alignment explanation
Indices: 164154--164213 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
164144 TATTATTTAT
* * *
164154 TTAATAAAAAAATTATTTAATT
1 TTAATTAAAAAATTA-TAAATA
164176 TTAATT-AAAAATATATAAATA
1 TTAATTAAAAAAT-TATAAATA
164197 TTAATTAAAAAATTATA
1 TTAATTAAAAAATTATA
164214 TTTTAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAATTAAAAAATTATAAATA
Found at i:167456 original size:2 final size:2
Alignment explanation
Indices: 167451--167476 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
167441 TATATTTGTG
167451 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
167477 AATTTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:168796 original size:29 final size:30
Alignment explanation
Indices: 168764--168820 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
168754 ACTCCTAACA
*
168764 TTTAATTTATACT-AAATAAATTTTTAAAT
1 TTTAATTTATACTAAAATAAATCTTTAAAT
168793 TTTAATTTATACTAAAATAAATCTTTAA
1 TTTAATTTATACTAAAATAAATCTTTAA
168821 TATCATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTAATTTATACTAAAATAAATCTTTAAAT
Found at i:171309 original size:25 final size:24
Alignment explanation
Indices: 171271--171317 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
171261 TCGAGTTTTT
*
171271 TTTAAAAAAATAAATTTAATTATA
1 TTTAAAAAAATAAATGTAATTATA
171295 TTTAAAATAAATAAATGTAATTA
1 TTTAAAA-AAATAAATGTAATTA
171318 ATAAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTAAAAAAATAAATGTAATTATA
Found at i:171379 original size:24 final size:25
Alignment explanation
Indices: 171341--171396 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
171331 TTAAATTCAG
171341 TAAAAA-AATATATTAAATATAA-TT
1 TAAAAATAATATATTAAATA-AACTT
171365 TAAAAATAATA-ATTAAATAAACTT
1 TAAAAATAATATATTAAATAAACTT
*
171389 TATAAATA
1 TAAAAATA
171397 TTGACTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 23 0.79
25 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAAATAATATATTAAATAAACTT
Found at i:171675 original size:2 final size:2
Alignment explanation
Indices: 171670--171705 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
171660 GATGGAAAAA
171670 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
171706 GAAAATATTA
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:177151 original size:20 final size:21
Alignment explanation
Indices: 177122--177163 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
177112 ATGTACATAA
* *
177122 AAATATAAAATTC-CTAAAAT
1 AAATACAAAAATCACTAAAAT
177142 AAATACAAAAATCACTAAAAT
1 AAATACAAAAATCACTAAAAT
177163 A
1 A
177164 GTAAATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATACAAAAATCACTAAAAT
Found at i:177845 original size:2 final size:2
Alignment explanation
Indices: 177838--177868 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
177828 TCCAGCATAA
177838 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 A
177869 GTTTTAGGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:178278 original size:6 final size:6
Alignment explanation
Indices: 178264--178293 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
178254 TAAAATTTTA
*
178264 AAATTT AAATCT AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT
178294 TCAAACACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
AAATTT
Found at i:179917 original size:58 final size:58
Alignment explanation
Indices: 179827--179971 Score: 204
Period size: 58 Copynumber: 2.5 Consensus size: 58
179817 CTCTCCCAGA
*
179827 TTGGTCATTGGCGCATTTGGGATCGTGTGATGGGATTGGACTAT-GAATTA-ATCAAATG
1 TTGGTCATTGGCGCATTTGGGATCATGTGATGGGATTGGACTATCG-A-TAGATCAAATG
* *
179885 TTGGTCATTGGCGCATTTGGGATCATGTGATGGGATTGGGCTATCGATAGGTCAAATG
1 TTGGTCATTGGCGCATTTGGGATCATGTGATGGGATTGGACTATCGATAGATCAAATG
* *
179943 TTGGTCCATTAGTGCATTTGGGATCATGT
1 TTGGT-CATTGGCGCATTTGGGATCATGT
179972 TTCGGGATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
57 2 0.03
58 55 0.70
59 22 0.28
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (58 bp):
TTGGTCATTGGCGCATTTGGGATCATGTGATGGGATTGGACTATCGATAGATCAAATG
Found at i:181479 original size:2 final size:2
Alignment explanation
Indices: 181472--181512 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
181462 AAATACCGTG
181472 TA TA TA TA TA 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 TA TA T
181513 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:183861 original size:21 final size:21
Alignment explanation
Indices: 183835--183875 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
183825 TAATTTTTTT
183835 ATTAAATAAAT-ATGATAAAAA
1 ATTAAA-AAATAATGATAAAAA
*
183856 ATTAAAAATTAATGATAAAA
1 ATTAAAAAATAATGATAAAA
183876 TTTTCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
ATTAAAAAATAATGATAAAAA
Found at i:184181 original size:2 final size:2
Alignment explanation
Indices: 184174--184201 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
184164 TTACAAGTTC
184174 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
184202 TTTACTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184560 original size:15 final size:15
Alignment explanation
Indices: 184537--184567 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
184527 ATCTGATTAT
*
184537 TATATAATATTAATA
1 TATAAAATATTAATA
184552 TATAAAATATTAATA
1 TATAAAATATTAATA
184567 T
1 T
184568 GTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAAATATTAATA
Found at i:186675 original size:23 final size:23
Alignment explanation
Indices: 186643--186687 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
186633 GGCTTCATGT
186643 ATATACATAGAATGGTAAGTAAC
1 ATATACATAGAATGGTAAGTAAC
* *
186666 ATATAGATAGAATGGTGAGTAA
1 ATATACATAGAATGGTAAGTAA
186688 TATAATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (23 bp):
ATATACATAGAATGGTAAGTAAC
Found at i:190435 original size:79 final size:79
Alignment explanation
Indices: 190304--190464 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
190294 GCTTCAATCA
190304 AACGCATAAAAAAAAGGTTTTATTCCCAATTTTGACCAACTCTAGATAGAACACCTACAATGAGT
1 AACGCATAAAAAAAAGGTTTTATTCCCAATTTTGACCAACTCTAGATAGAACACCTACAATGAGT
190369 CCGCTATTGTAGCC
66 CCGCTATTGTAGCC
190383 AACGCATAAAAAAAAGGTTTTATTCCCAATTTTGACCAACTCTAGATAGAACACCTACAATGAGT
1 AACGCATAAAAAAAAGGTTTTATTCCCAATTTTGACCAACTCTAGATAGAACACCTACAATGAGT
190448 CCGCTATTGTAGCC
66 CCGCTATTGTAGCC
190462 AAC
1 AAC
190465 CGTATTTTGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (79 bp):
AACGCATAAAAAAAAGGTTTTATTCCCAATTTTGACCAACTCTAGATAGAACACCTACAATGAGT
CCGCTATTGTAGCC
Done.