Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 148 of 182
Found at i:45540698 original size:11 final size:12
Alignment explanation
Indices: 45540661--45540702 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
45540651 TTTTTTTTAA
45540661 TTTT-GATTTTG
1 TTTTGGATTTTG
45540672 ATTTT-GATTTTG
1 -TTTTGGATTTTG
45540684 TTTTGGATTTT-
1 TTTTGGATTTTG
45540695 TTTTGGAT
1 TTTTGGAT
45540703 CTGCACTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.41
12 17 0.59
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (12 bp):
TTTTGGATTTTG
Found at i:45545909 original size:45 final size:45
Alignment explanation
Indices: 45545845--45545935 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
45545835 CCTTAGCACT
* *
45545845 CTGCACCGTTTCATGCTACATCGATCGACGGTGGCTTTCCGGATC
1 CTGCACCATTTCATGCTACATCGATCGACGATGGCTTTCCGGATC
*
45545890 CTGCACCATTTTATGCTACATCGATCGACGATGGCTTTCCGGATC
1 CTGCACCATTTCATGCTACATCGATCGACGATGGCTTTCCGGATC
45545935 C
1 C
45545936 CGTGCACGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.30
Consensus pattern (45 bp):
CTGCACCATTTCATGCTACATCGATCGACGATGGCTTTCCGGATC
Found at i:45548822 original size:12 final size:12
Alignment explanation
Indices: 45548805--45548829 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45548795 CTTCTTTAAC
45548805 GATGCATGTTTA
1 GATGCATGTTTA
45548817 GATGCATGTTTA
1 GATGCATGTTTA
45548829 G
1 G
45548830 TCATTGTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GATGCATGTTTA
Found at i:45552401 original size:21 final size:21
Alignment explanation
Indices: 45552359--45552414 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
45552349 ACTATTGTTG
*
45552359 AGAAGAAAGTTG-TGCTGTAGA
1 AGAAG-AAGTTGCTGCTGAAGA
*
45552380 AGAGGAAGTTGCTGCTGAAGA
1 AGAAGAAGTTGCTGCTGAAGA
45552401 AGAAGAAGTTGCTG
1 AGAAGAAGTTGCTG
45552415 AAAAAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (21 bp):
AGAAGAAGTTGCTGCTGAAGA
Found at i:45552421 original size:21 final size:21
Alignment explanation
Indices: 45552377--45552421 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45552367 GTTGTGCTGT
* ***
45552377 AGAAGAGGAAGTTGCTGCTGA
1 AGAAGAAGAAGTTGCTGAAAA
45552398 AGAAGAAGAAGTTGCTGAAAA
1 AGAAGAAGAAGTTGCTGAAAA
45552419 AGA
1 AGA
45552422 TAAAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.33, T:0.16
Consensus pattern (21 bp):
AGAAGAAGAAGTTGCTGAAAA
Found at i:45552888 original size:17 final size:18
Alignment explanation
Indices: 45552851--45552886 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
45552841 ATAAGTATAC
45552851 ATTGTCATTACATTTTTTT
1 ATTGTCATTACA-TTTTTT
45552870 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
45552887 ATCTTAGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTGTCATTACATTTTTT
Found at i:45557721 original size:23 final size:23
Alignment explanation
Indices: 45557676--45557719 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
45557666 TGATAAAGCA
45557676 AATTATTTTAATTTAAAATTATT
1 AATTATTTTAATTTAAAATTATT
45557699 AATT-TTTT-ATTTAAAA-TATT
1 AATTATTTTAATTTAAAATTATT
45557719 A
1 A
45557720 TTCTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 4 0.19
23 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTATTTTAATTTAAAATTATT
Found at i:45564235 original size:23 final size:23
Alignment explanation
Indices: 45564209--45564252 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45564199 TCTGTAGGAT
** *
45564209 GCCCTTGTGGCGTATTTTGTTTG
1 GCCCTTGCAGCGTACTTTGTTTG
45564232 GCCCTTGCAGCGTACTTTGTT
1 GCCCTTGCAGCGTACTTTGTT
45564253 AAATTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.27, T:0.43
Consensus pattern (23 bp):
GCCCTTGCAGCGTACTTTGTTTG
Found at i:45571987 original size:35 final size:35
Alignment explanation
Indices: 45571938--45572010 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
45571928 TCTTCCAACA
* * *
45571938 TTGTAGACATCATAT-TGGGTTTCTTATTGCATTAT
1 TTGTAAACACCATATAT-GGTTTCTTATTGCATCAT
*
45571973 TTGTAAACACCATATATGGTTTCTTTTTGCATCAT
1 TTGTAAACACCATATATGGTTTCTTATTGCATCAT
45572008 TTG
1 TTG
45572011 GTTGTTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (35 bp):
TTGTAAACACCATATATGGTTTCTTATTGCATCAT
Found at i:45577475 original size:16 final size:17
Alignment explanation
Indices: 45577447--45577480 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
45577437 CTTAAATGTT
45577447 ATGTGATTATATGTTTA
1 ATGTGATTATATGTTTA
45577464 ATGTGA-TATATGTTTA
1 ATGTGATTATATGTTTA
45577480 A
1 A
45577481 AAGTGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (17 bp):
ATGTGATTATATGTTTA
Found at i:45577486 original size:17 final size:17
Alignment explanation
Indices: 45577449--45577486 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
45577439 TAAATGTTAT
*
45577449 GTGATTATATGTTTAAT
1 GTGATTATATGTTTAAA
45577466 GTGA-TATATGTTTAAAA
1 GTGATTATATGTTT-AAA
45577483 GTGA
1 GTGA
45577487 ATGTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
GTGATTATATGTTTAAA
Found at i:45583648 original size:85 final size:85
Alignment explanation
Indices: 45583505--45583766 Score: 454
Period size: 85 Copynumber: 3.1 Consensus size: 85
45583495 AAGCGTATTG
*
45583505 CTGAGTGTTTAGAATAGTTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
1 CTGAGTGTTTAGAATAGCTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
45583570 CTAAACCCCTACTCTAAATT
66 CTAAACCCCTACTCTAAATT
45583590 CTGAGTGTTTAGAATAGCTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
1 CTGAGTGTTTAGAATAGCTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
45583655 CTAAACCCCTACTCTAAATT
66 CTAAACCCCTACTCTAAATT
* * * * *
45583675 CCGAGTGTTTAGAATAGCTGCTTGTTGTCACGATTTAATGTGTTAATTGGTAA-TCAGTAGTAGC
1 CTGAGTGTTTAGAATAGCTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
*
45583739 TTAAACCCCTACTCTAAATT
66 CTAAACCCCTACTCTAAATT
45583759 CTGAGTGT
1 CTGAGTGT
45583767 AAGTTTTCTC
Statistics
Matches: 169, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 36 0.21
85 133 0.79
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (85 bp):
CTGAGTGTTTAGAATAGCTGCTTGTGGACACGATTCAATGTGTTAATTGGTAATTTAGTAGTAGC
CTAAACCCCTACTCTAAATT
Found at i:45584316 original size:39 final size:40
Alignment explanation
Indices: 45584252--45584330 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
45584242 TAAATATGTT
* * * * *
45584252 TATGAGTATTGTGATATATGTTTAAATGT-TATGTGATTA
1 TATGAGTAATGTGATATAGGCTTAAAAGTGAATGTGATTA
*
45584291 TATGTGTAATGTGATATAGGCTTAAAAGTGAATGTGATTA
1 TATGAGTAATGTGATATAGGCTTAAAAGTGAATGTGATTA
45584331 CCATGTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (40 bp):
TATGAGTAATGTGATATAGGCTTAAAAGTGAATGTGATTA
Found at i:45590954 original size:40 final size:39
Alignment explanation
Indices: 45590908--45591045 Score: 177
Period size: 40 Copynumber: 3.5 Consensus size: 39
45590898 AGAGTTTGGA
*
45590908 TAAAAAATGCCGCTATAGATTGAGCATTAGCGGCACTTTT
1 TAAAAAATGCCGCTATAGATCGAGCATTAGCGGC-CTTTT
* * * * *
45590948 TGAAAAATGCCGCTATAGATCGAACAGTAGAGGCGTTTT
1 TAAAAAATGCCGCTATAGATCGAGCATTAGCGGCCTTTT
*
45590987 TCAAAAAATGCTGCTATAGATCGAGCATTAGCGGCGCTTTT
1 T-AAAAAATGCCGCTATAGATCGAGCATTAGCGGC-CTTTT
*
45591028 TAAAAAATCCCGCTATAG
1 TAAAAAATGCCGCTATAG
45591046 GTTGACCAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 5 0.06
40 72 0.88
41 5 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (39 bp):
TAAAAAATGCCGCTATAGATCGAGCATTAGCGGCCTTTT
Found at i:45591503 original size:14 final size:14
Alignment explanation
Indices: 45591481--45591677 Score: 80
Period size: 14 Copynumber: 13.8 Consensus size: 14
45591471 TTAATTATCA
*
45591481 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
45591495 TTATGGTTTAAGGT
1 TTATGGTTTAGGGT
*
45591509 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
*
45591524 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
45591538 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* *
45591553 TTAGGGATTATGGG-
1 TTATGGTTTA-GGGT
*
45591567 TTATGGTTTAAGGT
1 TTATGGTTTAGGGT
* *
45591581 TTAAGGGTT-GGAGT
1 TTATGGTTTAGG-GT
* *
45591595 TTAAGGTTTAGGGA
1 TTATGGTTTAGGGT
*
45591609 TTA-GAGGTTAGGGGT
1 TTATG-GTTTA-GGGT
* * *
45591624 TTATGATTTATGTT
1 TTATGGTTTAGGGT
* *
45591638 TTATGATTCAGGGT
1 TTATGGTTTAGGGT
* * *
45591652 TTAAGGGATAAGGGT
1 TT-ATGGTTTAGGGT
*
45591667 TTAGGGTTTAG
1 TTATGGTTTAG
45591678 ATTAATTAGT
Statistics
Matches: 138, Mismatches: 32, Indels: 26
0.70 0.16 0.13
Matches are distributed among these distances:
12 3 0.02
13 4 0.03
14 83 0.60
15 45 0.33
16 1 0.01
17 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.43
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:45591555 original size:15 final size:15
Alignment explanation
Indices: 45591535--45591572 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
45591525 ACTATTTTAA
45591535 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
45591550 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
45591565 GG-TTATGG
1 GGTTTATGG
45591573 TTTAAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:45591672 original size:7 final size:7
Alignment explanation
Indices: 45591486--45591677 Score: 63
Period size: 7 Copynumber: 26.9 Consensus size: 7
45591476 TATCATTATA
45591486 GTTTAGG
1 GTTTAGG
*
45591493 GTTTATG
1 GTTTAGG
*
45591500 GTTTAAG
1 GTTTAGG
*
45591507 GTTTAAG
1 GTTTAGG
45591514 GTTTAGG
1 GTTTAGG
45591521 AGTTACTA--
1 -GTT--TAGG
* *
45591529 TTTTAAG
1 GTTTAGG
*
45591536 GTTTATG
1 GTTTAGG
*
45591543 GATTATGG
1 GTTTA-GG
45591551 GTTTAGG
1 GTTTAGG
*
45591558 GATTATGG
1 GTTTA-GG
*
45591566 G-TTATG
1 GTTTAGG
*
45591572 GTTTAAG
1 GTTTAGG
45591579 GTTTAAGG
1 GTTT-AGG
45591587 G-TT-GG
1 GTTTAGG
*
45591592 AGTTTAAG
1 -GTTTAGG
45591600 GTTTAGG
1 GTTTAGG
*
45591607 GATTAGAG
1 GTTTAG-G
45591615 G-TTAGGG
1 GTTTA-GG
*
45591622 GTTTATG
1 GTTTAGG
* *
45591629 ATTTATG
1 GTTTAGG
* *
45591636 TTTTATG
1 GTTTAGG
* *
45591643 ATTCAGG
1 GTTTAGG
45591650 GTTTAAGG
1 GTTT-AGG
* *
45591658 GATAAGG
1 GTTTAGG
45591665 GTTTAGG
1 GTTTAGG
45591672 GTTTAG
1 GTTTAG
45591678 ATTAATTAGT
Statistics
Matches: 141, Mismatches: 28, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.03
6 3 0.02
7 106 0.75
8 26 0.18
10 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:45596504 original size:43 final size:43
Alignment explanation
Indices: 45596420--45596578 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
45596410 GCGGCATTTG
*
45596420 TGATAAAAGCGCCGCTAAAGGTCA-GATCTTTAGTGGCGTTTA
1 TGATAAAAGCGCCGCTAAATGTCATGATCTTTAGTGGCGTTTA
*
45596462 TGATAAAAGCGTCGCTAAATGTCATGATCTTTAGTGGCGTTTA
1 TGATAAAAGCGCCGCTAAATGTCATGATCTTTAGTGGCGTTTA
* **
45596505 AGATAAAA-CTGCCGCTAAATGTCATGATCTTTAACGGCGTTTA
1 TGATAAAAGC-GCCGCTAAATGTCATGATCTTTAGTGGCGTTTA
* * * *
45596548 TGGGT-AAAGCACCGCTAAAGGTCATGTTCTT
1 T-GATAAAAGCGCCGCTAAATGTCATGATCTT
45596579 AAGCGGTGCT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 23 0.23
43 76 0.75
44 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
TGATAAAAGCGCCGCTAAATGTCATGATCTTTAGTGGCGTTTA
Found at i:45596599 original size:86 final size:83
Alignment explanation
Indices: 45596422--45596602 Score: 184
Period size: 86 Copynumber: 2.1 Consensus size: 83
45596412 GGCATTTGTG
* ** ** *
45596422 ATAAAAGCGCCGCTAAAGGTCAGATCTTTAGTGGCGTTTATGATAAAAGCGTCGCTAAATGTCAT
1 ATAAAAACGCCGCTAAAGGTCAGATCTTTAACGGCGTTTATGATAAAAGCACCGCTAAAGGTCAT
* *
45596487 GATCTTTAGTGGCGTTTA
66 GATCTTAAGCGGCGTTTA
* * *
45596505 AGATAAAACTGCCGCTAAATGTCATGATCTTTAACGGCGTTTATGGGT-AAAGCACCGCTAAAGG
1 ATA-AAAAC-GCCGCTAAAGGTCA-GATCTTTAACGGCGTTTAT-GATAAAAGCACCGCTAAAGG
* * *
45596569 TCATGTTCTTAAGCGGTGCTTTT
62 TCATGATCTTAAGCGGCG-TTTA
45596592 ATAAAAACGCC
1 ATAAAAACGCC
45596603 ATTAATGGTC
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
83 2 0.03
84 4 0.05
85 16 0.21
86 49 0.63
87 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (83 bp):
ATAAAAACGCCGCTAAAGGTCAGATCTTTAACGGCGTTTATGATAAAAGCACCGCTAAAGGTCAT
GATCTTAAGCGGCGTTTA
Found at i:45599213 original size:30 final size:29
Alignment explanation
Indices: 45599153--45599249 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 29
45599143 ACATATAATG
* * *
45599153 TATAAATAAAATATGTAATTATGTACATATA
1 TATATATAAAA-ATGT-ATGATGTATATATA
*
45599184 TATATATAAAAATTTATAGATGTATATATA
1 TATATATAAAAATGTAT-GATGTATATATA
* *
45599214 TAT-TATAAAAATGTATGATGGATATAGA
1 TATATATAAAAATGTATGATGTATATATA
45599242 TATATATA
1 TATATATA
45599250 TATGTATGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 13 0.23
29 18 0.32
30 16 0.28
31 10 0.18
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (29 bp):
TATATATAAAAATGTATGATGTATATATA
Found at i:45601073 original size:49 final size:49
Alignment explanation
Indices: 45601020--45601150 Score: 226
Period size: 49 Copynumber: 2.7 Consensus size: 49
45601010 ATTTAGCTTT
* * *
45601020 AATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAGCCGGTCTTC
*
45601069 AATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAGTCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAGCCGGTCTTC
45601118 AATTTGCTCCACTGCAACTTCAGGGAGATAAAA
1 AATTTGCTCCACTGCAACTTCAGGGAGATAAAA
45601151 ATTATGGCTC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
AATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTAGCCGGTCTTC
Found at i:45612774 original size:5 final size:5
Alignment explanation
Indices: 45612764--45612789 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45612754 AGCAACCATC
45612764 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
45612790 CATAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45613426 original size:32 final size:34
Alignment explanation
Indices: 45613365--45613429 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
45613355 ATTATGTACA
*
45613365 TATATATATAAAAATTTATAGACGAATATATATT
1 TATATATATAAAAATGTATAGACGAATATATATT
* *
45613399 TATAT-TATAAAAATGTAT-GATGGATATATAT
1 TATATATATAAAAATGTATAGACGAATATATAT
45613430 ATATGTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.39
33 12 0.43
34 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.42
Consensus pattern (34 bp):
TATATATATAAAAATGTATAGACGAATATATATT
Found at i:45615113 original size:62 final size:63
Alignment explanation
Indices: 45614988--45615113 Score: 166
Period size: 66 Copynumber: 2.0 Consensus size: 63
45614978 AGAATAAGTC
* *
45614988 TTTTTAATATTATTCATTCTTTTATTTATTAATAAATGGAATTATTTATTTATTTTTCTTCGAAT
1 TTTTTAATATTATTCATTCTTTTATTTATTAATAAATGGAA-TA-TTATTTATTTTGCATCGAAT
* * *
45615053 TTTTTAATATTATTCATTCCTTTTATTTGTTAATAAATGTAA-A-TATTTATTTTGGATCGAA
1 TTTTTAATATTATTCATT-CTTTTATTTATTAATAAATGGAATATTATTTATTTTGCATCGAA
45615114 AAATATATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
62 15 0.27
64 1 0.02
65 18 0.33
66 21 0.38
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (63 bp):
TTTTTAATATTATTCATTCTTTTATTTATTAATAAATGGAATATTATTTATTTTGCATCGAAT
Found at i:45615494 original size:10 final size:8
Alignment explanation
Indices: 45615453--45615482 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
45615443 TATAAAAATA
45615453 AAATATTT
1 AAATATTT
45615461 AAATATTT
1 AAATATTT
45615469 AAATATTT
1 AAATATTT
45615477 AAATAT
1 AAATAT
45615483 AATTTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AAATATTT
Found at i:45615516 original size:32 final size:30
Alignment explanation
Indices: 45615477--45615560 Score: 114
Period size: 32 Copynumber: 2.7 Consensus size: 30
45615467 TTAAATATTT
* *
45615477 AAATATAATTTAATATAAAATATTTTATTTCA
1 AAATATAATTTAAAATAAAATATTTTA-AT-A
*
45615509 AAATATAATTTAAAATTAAATATTTTAATA
1 AAATATAATTTAAAATAAAATATTTTAATA
*
45615539 TAATATAATTTAAAATAAAATA
1 AAATATAATTTAAAATAAAATA
45615561 AAAATAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 21 0.45
31 1 0.02
32 25 0.53
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
AAATATAATTTAAAATAAAATATTTTAATA
Found at i:45615550 original size:15 final size:15
Alignment explanation
Indices: 45615478--45615561 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
45615468 TAAATATTTA
45615478 AATATAATTTAATAT
1 AATATAATTTAATAT
* * * *
45615493 AAAATATTTTATTTCAA
1 AATATAATTTA-AT-AT
*
45615510 AATATAATTTAAAATT
1 AATATAATTTAATA-T
*
45615526 AA-ATATTTTAATAT
1 AATATAATTTAATAT
*
45615540 AATATAATTTAAAAT
1 AATATAATTTAATAT
*
45615555 AAAATAA
1 AATATAA
45615562 AAATAATTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
14 3 0.06
15 35 0.69
16 3 0.06
17 10 0.20
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATAATTTAATAT
Found at i:45616780 original size:21 final size:22
Alignment explanation
Indices: 45616741--45616785 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
45616731 AAATGGTTTT
*
45616741 CTATAAAATCCCAA-GTTTTCC
1 CTATAAAATCCCAACTTTTTCC
45616762 CTATAAAA-CCTCAACTTTTTCC
1 CTATAAAATCC-CAACTTTTTCC
45616784 CT
1 CT
45616786 TTTACATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 11 0.52
22 8 0.38
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.36
Consensus pattern (22 bp):
CTATAAAATCCCAACTTTTTCC
Found at i:45616987 original size:22 final size:22
Alignment explanation
Indices: 45616962--45617003 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45616952 TTCAGTAAAA
45616962 AAAAAT-CAAGTTTTTTCCCTAT
1 AAAAATCCAAG-TTTTTCCCTAT
45616984 AAAAATCCAAGTTTTTCCCT
1 AAAAATCCAAGTTTTTCCCT
45617004 TTTACTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAAATCCAAGTTTTTCCCTAT
Found at i:45619436 original size:25 final size:24
Alignment explanation
Indices: 45619408--45619460 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
45619398 TGGGTTAGTA
* *
45619408 ATTTAATATAATTA-TAATTATAATT
1 ATTTAACATAATAATTAA-TATAA-T
45619433 ATTTAACATAATAATTAATATAAT
1 ATTTAACATAATAATTAATATAAT
45619457 ATTT
1 ATTT
45619461 TTATAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 17 0.68
26 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAACATAATAATTAATATAAT
Found at i:45628605 original size:35 final size:35
Alignment explanation
Indices: 45628566--45628662 Score: 131
Period size: 35 Copynumber: 2.8 Consensus size: 35
45628556 CTAGATTTTT
* * * **
45628566 ATAAGAGCCAATCGAACCATAACATGTTAATGCTC
1 ATAAGAGCTAATCCAACCATAACACGCCAATGCTC
*
45628601 ATAAGAGCTAATCCAACCGTAACACGCCAATGCTC
1 ATAAGAGCTAATCCAACCATAACACGCCAATGCTC
*
45628636 ATAAGAGCTAATCCAACCAAAACACGC
1 ATAAGAGCTAATCCAACCATAACACGC
45628663 TAAATAGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.41, C:0.28, G:0.13, T:0.18
Consensus pattern (35 bp):
ATAAGAGCTAATCCAACCATAACACGCCAATGCTC
Found at i:45629640 original size:106 final size:106
Alignment explanation
Indices: 45629503--45629712 Score: 312
Period size: 106 Copynumber: 2.0 Consensus size: 106
45629493 GAGCTTACCA
** * ** * * *
45629503 TGCAAGGATTTAAGCATAGTCGAACCTTGAATATACTTCTTTGGAGGTTTAGTGAAGAACAAAAT
1 TGCAAGGATTTAAGCATAACCGAACCATGAATATACTTCCATAGAGGTTCAGTGAAGAACAAAAC
*
45629568 AAAAATGGTGAAGAAACATTATGCTTTCATATTTTTAATCT
66 AAAAATGGAGAAGAAACATTATGCTTTCATATTTTTAATCT
* *
45629609 TGCAAGGATTTAGGCATAACCGAACCATGAATATACTTCCATAGAGGTTCGGTGAAGAACAAAAC
1 TGCAAGGATTTAAGCATAACCGAACCATGAATATACTTCCATAGAGGTTCAGTGAAGAACAAAAC
*
45629674 AAAAATGGAGAAGAAACATTATGTTTTCATATTTTTAAT
66 AAAAATGGAGAAGAAACATTATGCTTTCATATTTTTAAT
45629713 ATTTTCTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (106 bp):
TGCAAGGATTTAAGCATAACCGAACCATGAATATACTTCCATAGAGGTTCAGTGAAGAACAAAAC
AAAAATGGAGAAGAAACATTATGCTTTCATATTTTTAATCT
Found at i:45631318 original size:24 final size:23
Alignment explanation
Indices: 45631277--45631322 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
45631267 CACAGTAATC
* *
45631277 ATATTCATGCACATATATACATAT
1 ATATTCACGCACACATAT-CATAT
*
45631301 ATATTCACGCATACATATCATA
1 ATATTCACGCACACATATCATA
45631323 ACATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATTCACGCACACATATCATAT
Found at i:45631762 original size:24 final size:24
Alignment explanation
Indices: 45631706--45631752 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45631696 AATTTATAGA
* *
45631706 TAAGAATTGTCGCATGGCTGTGAT
1 TAAGAACTGTCACATGGCTGTGAT
45631730 TAAGAACTGTCACATGGCTGTGA
1 TAAGAACTGTCACATGGCTGTGA
45631753 CTTTACACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (24 bp):
TAAGAACTGTCACATGGCTGTGAT
Found at i:45633163 original size:31 final size:32
Alignment explanation
Indices: 45633100--45633163 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
45633090 AACCTGTCTA
* *
45633100 AAATGAATCTGGACAAAATGTTGTCCAGGTTC
1 AAATGAATCTGGACAAAATATTGTCCAAGTTC
* *
45633132 AAATGTATTTGGAC-AAATATTGTCCAAGTTC
1 AAATGAATCTGGACAAAATATTGTCCAAGTTC
45633163 A
1 A
45633164 TTATAGTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (32 bp):
AAATGAATCTGGACAAAATATTGTCCAAGTTC
Found at i:45637921 original size:23 final size:21
Alignment explanation
Indices: 45637895--45637943 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
45637885 ATAAACTGTT
*
45637895 GAAAAATTCTTGTGCTAAAGGAA
1 GAAAAATTCTGGTGC--AAGGAA
* *
45637918 GAAAATTTGTGGTGCAAGGAA
1 GAAAAATTCTGGTGCAAGGAA
45637939 GAAAA
1 GAAAA
45637944 TTTGAGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.48
23 12 0.52
ACGTcount: A:0.45, C:0.06, G:0.27, T:0.22
Consensus pattern (21 bp):
GAAAAATTCTGGTGCAAGGAA
Found at i:45639883 original size:34 final size:34
Alignment explanation
Indices: 45639837--45639909 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
45639827 GTTGAAGCAA
*
45639837 CATTGTAAACATCATATTTGGTTTCAGATTGCAT
1 CATTGTAAACATCATATCTGGTTTCAGATTGCAT
* ***
45639871 CATTGTAGACATCATATCTGGTTTCTTTTTGCAT
1 CATTGTAAACATCATATCTGGTTTCAGATTGCAT
45639905 CATTG
1 CATTG
45639910 GTTTTGTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (34 bp):
CATTGTAAACATCATATCTGGTTTCAGATTGCAT
Found at i:45641955 original size:23 final size:23
Alignment explanation
Indices: 45641922--45641972 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
45641912 TATTAGAGGT
*
45641922 GTTCATTGGTTGGAACGAGTCGA
1 GTTCATGGGTTGGAACGAGTCGA
*
45641945 GTTCATGGGTTGGATCGAGTCGA
1 GTTCATGGGTTGGAACGAGTCGA
45641968 GTTCA
1 GTTCA
45641973 GGTTGAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.31
Consensus pattern (23 bp):
GTTCATGGGTTGGAACGAGTCGA
Found at i:45647499 original size:54 final size:54
Alignment explanation
Indices: 45647423--45647546 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
45647413 CACACGATTG
* *
45647423 TGTCACAGGCCGTGTGCCAGACCGTGTAACTCTTTGACTTG-TGACACACGACCA
1 TGTCACAGGCCGTGTGCCAGACCGTATAACTCATTGACTTGATG-CACACGACCA
* * * *
45647477 TGTCGCAGGCCGTGTGCTAGACCGTATAACTCATTGACTTGATGCACATGGCCA
1 TGTCACAGGCCGTGTGCCAGACCGTATAACTCATTGACTTGATGCACACGACCA
**
45647531 TGTCTTAGGCCGTGTG
1 TGTCACAGGCCGTGTG
45647547 AAATATACAC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (54 bp):
TGTCACAGGCCGTGTGCCAGACCGTATAACTCATTGACTTGATGCACACGACCA
Found at i:45653776 original size:27 final size:26
Alignment explanation
Indices: 45653720--45653870 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 26
45653710 AAATTGTACA
* * *
45653720 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAAAT-GACTATG-T
*
45653747 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAAATGACTATG-T
* * *
45653774 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAAATGACTATG-T
*
45653801 GCACTAAGTGTGCGAGATGGACTATGT
1 GCACTAAGTGTGCGAAAT-GACTATGT
** * *
45653828 GGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAAATGACTATGT
*
45653855 GGCACTAAATGTGCGA
1 -GCACTAAGTGTGCGA
45653871 GTTGATTATA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 78 0.76
28 24 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGAAATGACTATGT
Found at i:45653780 original size:54 final size:54
Alignment explanation
Indices: 45653720--45653845 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
45653710 AAATTGTACA
* ** **
45653720 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAAT-GAATATGAT-
1 GCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCGAAATGGAATATG-TG
* *
45653774 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
45653829 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
45653846 TGATTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 39 0.63
55 23 0.37
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
Found at i:45653843 original size:55 final size:54
Alignment explanation
Indices: 45653747--45653896 Score: 160
Period size: 55 Copynumber: 2.8 Consensus size: 54
45653737 CTACTTTGTT
* *
45653747 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
* * ** *
45653801 GCACTAAGTGTGCGAGATGGACTATG-TGGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGAT-GAATATGAT-GCACTAAGTGTGCGAATTGACCACGCG
* * * *
45653856 GCACTAAATGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGATGAATATGAT-GCACTAAGTGTGCG
45653897 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 37 0.46
55 44 0.54
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
Found at i:45653860 original size:82 final size:81
Alignment explanation
Indices: 45653720--45653875 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 81
45653710 AAATTGTACA
* * * * * *
45653720 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
45653785 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
45653801 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
45653865 GTGCGAGTTGA
64 GTGCGAATTGA
45653876 TTATATAGCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:45653875 original size:27 final size:27
Alignment explanation
Indices: 45653747--45653896 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
45653737 CTACTTTGTT
** * *
45653747 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAGTTGATTACG-TG
* ** * *
45653774 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* * *
45653801 GCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGAG-TTGATTACGTG
*
45653829 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* ** *
45653856 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTACGTG
*
45653883 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45653897 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTACGTG
Found at i:45661067 original size:13 final size:13
Alignment explanation
Indices: 45661049--45661075 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45661039 GTAATGGTAT
45661049 ATTGAATCCATGA
1 ATTGAATCCATGA
45661062 ATTGAATCCATGA
1 ATTGAATCCATGA
45661075 A
1 A
45661076 AATTTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATTGAATCCATGA
Found at i:45661653 original size:27 final size:27
Alignment explanation
Indices: 45661622--45661799 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45661612 TAAATTGTAC
45661622 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45661649 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45661675 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45661703 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45661731 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45661758 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45661785 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45661800 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45661736 original size:82 final size:81
Alignment explanation
Indices: 45661623--45661778 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45661613 AAATTGTACA
* *
45661623 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45661687 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45661704 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45661769 TGCGAGTTGA
65 TGCGAATTGA
45661779 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45661790 original size:82 final size:81
Alignment explanation
Indices: 45661619--45661799 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45661609 GATTAAATTG
* *
45661619 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45661684 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45661700 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45661764 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45661782 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45661800 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45661810 original size:27 final size:27
Alignment explanation
Indices: 45661704--45661810 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
45661694 TGACCATGCG
* * * *
45661704 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
45661732 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
45661759 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
45661786 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
45661811 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:45668265 original size:25 final size:25
Alignment explanation
Indices: 45668236--45668295 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
45668226 TTCTATTTGG
45668236 CCTTTGTGGCGTA-TTCTGTATGTTA
1 CCTTTGTGGCGTACTT-TGTATGTTA
* *
45668261 CCTTTGTGGTGTACTTTGTATGTTG
1 CCTTTGTGGCGTACTTTGTATGTTA
45668286 CCTTTGTGGC
1 CCTTTGTGGC
45668296 ATAATCTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.48
Consensus pattern (25 bp):
CCTTTGTGGCGTACTTTGTATGTTA
Found at i:45686037 original size:29 final size:29
Alignment explanation
Indices: 45686002--45686189 Score: 234
Period size: 29 Copynumber: 6.4 Consensus size: 29
45685992 ATCGATTAAA
45686002 GAAAAGGGATGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
45686031 GAAAAGGGATGGTGATGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
45686060 AAAAAGGGATGGTGACAACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * * *
45686089 GAAAAGGGATGGTAACAACCATTGAAAAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
45686118 AAAAAGGGATGGAT-TCGACCATCGAATAT
1 GAAAAGGGATGG-TGACGACCATCGAATAT
** * *
45686147 GAAAAGGGATGGTTTCGACCATCGATTAAA
1 GAAAAGGGATGGTGACGACCATCGAAT-AT
45686177 GAAAAGGGATGGT
1 GAAAAGGGATGGT
45686190 TTCAACCATC
Statistics
Matches: 140, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
28 1 0.01
29 124 0.89
30 15 0.11
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCGAATAT
Found at i:45686152 original size:87 final size:87
Alignment explanation
Indices: 45685990--45686200 Score: 255
Period size: 87 Copynumber: 2.4 Consensus size: 87
45685980 GTATCGACGC
* * * * *
45685990 CCATCGATTAAAGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGATGACCATCG
1 CCATCGAATAAAGAAAAGGGATGGTAACAACCATCGAAAATAAAAAGGGATGGT-ATGACCATCG
45686055 AATATAAAAAGGGATGGTGACAA
65 AATATAAAAAGGGATGGTGACAA
* *
45686078 CCATCGAAT-ATGAAAAGGGATGGTAACAACCATTGAAAATAAAAAGGGATGG-ATTCGACCATC
1 CCATCGAATAAAGAAAAGGGATGGTAACAACCATCGAAAATAAAAAGGGATGGTA-T-GACCATC
* ** *
45686141 GAATATGAAAAGGGATGGTTTCGA
64 GAATATAAAAAGGGATGGTGACAA
* **
45686165 CCATCGATTAAAGAAAAGGGATGGTTTCAACCATCG
1 CCATCGAATAAAGAAAAGGGATGGTAACAACCATCG
45686201 TTTAGCACGC
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
85 1 0.01
86 1 0.01
87 72 0.69
88 30 0.29
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (87 bp):
CCATCGAATAAAGAAAAGGGATGGTAACAACCATCGAAAATAAAAAGGGATGGTATGACCATCGA
ATATAAAAAGGGATGGTGACAA
Found at i:45695748 original size:56 final size:56
Alignment explanation
Indices: 45695662--45695773 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
45695652 ACGTGTTGAG
45695662 GGTTAAGTAGATACATCACTACGGAGTTTGTAAAAATAGAGTGAAATAGGAAAGAT
1 GGTTAAGTAGATACATCACTACGGAGTTTGTAAAAATAGAGTGAAATAGGAAAGAT
*
45695718 GGTTAAGTAGATACATCACTGCGGAGTTTGTAAAAATAGAGTGAAATAGGAAAGAT
1 GGTTAAGTAGATACATCACTACGGAGTTTGTAAAAATAGAGTGAAATAGGAAAGAT
45695774 TTGTGTGATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (56 bp):
GGTTAAGTAGATACATCACTACGGAGTTTGTAAAAATAGAGTGAAATAGGAAAGAT
Found at i:45698619 original size:2 final size:2
Alignment explanation
Indices: 45698612--45698636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45698602 TACATGTTTG
45698612 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 T
45698637 TACTCGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45701060 original size:16 final size:16
Alignment explanation
Indices: 45701039--45701071 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45701029 CACCAGCTTT
45701039 CGGATTCAAACCCGTA
1 CGGATTCAAACCCGTA
45701055 CGGATTCAAACCCGTA
1 CGGATTCAAACCCGTA
45701071 C
1 C
45701072 TTACATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (16 bp):
CGGATTCAAACCCGTA
Found at i:45703493 original size:14 final size:13
Alignment explanation
Indices: 45703474--45703513 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
45703464 GCGGATCTTC
45703474 TTCTTTTTCTTTTT
1 TTCTTTTT-TTTTT
45703488 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
45703501 TT-TTTTTTATTTT
1 TTCTTTTTT-TTTT
45703514 AAGCATGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 11 0.44
14 8 0.32
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:45703506 original size:17 final size:17
Alignment explanation
Indices: 45703471--45703504 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
45703461 CATGCGGATC
45703471 TTCTTCTTTTTCTTTTT
1 TTCTTCTTTTTCTTTTT
45703488 TTCTT-TTTTT-TTTTT
1 TTCTTCTTTTTCTTTTT
45703503 TT
1 TT
45703505 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTCTTCTTTTTCTTTTT
Found at i:45703513 original size:8 final size:8
Alignment explanation
Indices: 45703471--45703508 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
45703461 CATGCGGATC
45703471 TTCTTCTTT
1 TTCTT-TTT
45703480 TTCTTTTT
1 TTCTTTTT
45703488 TTCTTTTT
1 TTCTTTTT
45703496 TT-TTTTT
1 TTCTTTTT
45703503 TT-TTTT
1 TTCTTTT
45703509 ATTTTAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 11 0.38
8 13 0.45
9 5 0.17
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTCTTTTT
Found at i:45705016 original size:76 final size:76
Alignment explanation
Indices: 45704890--45705196 Score: 587
Period size: 76 Copynumber: 4.0 Consensus size: 76
45704880 TGAGGAACAA
* *
45704890 TTATATGGATATGATATTGTTGAATATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
1 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
45704955 AGTTAACATAT
66 AGTTAACATAT
45704966 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
1 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
45705031 AGTTAACATAT
66 AGTTAACATAT
45705042 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
1 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
45705107 AGTTAACATAT
66 AGTTAACATAT
45705118 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
1 TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
*
45705183 AGTTACCATAT
66 AGTTAACATAT
45705194 TTA
1 TTA
45705197 AGGAGATCTA
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 228 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (76 bp):
TTATATGGACATGATATTGTTGAGTATCATTCAATGATTTTATTTGAAGAATTTATGTGTGATCA
AGTTAACATAT
Found at i:45711701 original size:12 final size:12
Alignment explanation
Indices: 45711684--45711714 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45711674 TTTTGTTTTA
45711684 TTTTCTTCTTCT
1 TTTTCTTCTTCT
45711696 TTTTCTTCTTCT
1 TTTTCTTCTTCT
*
45711708 TCTTCTT
1 TTTTCTT
45711715 GAATCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTTCTTCT
Found at i:45714132 original size:23 final size:23
Alignment explanation
Indices: 45714102--45714149 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
45714092 AATCACGTAC
45714102 CTTCGGGATTTAACCGGATATAG
1 CTTCGGGATTTAACCGGATATAG
45714125 CTTCGGGATTTAACCGGATATAG
1 CTTCGGGATTTAACCGGATATAG
45714148 CT
1 CT
45714150 CCTCGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (23 bp):
CTTCGGGATTTAACCGGATATAG
Found at i:45714202 original size:39 final size:40
Alignment explanation
Indices: 45714157--45714328 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
45714147 GCTCCTCGTT
* * *
45714157 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
45714197 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
45714236 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
45714276 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTAGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
45714316 CAAATGCCTTCGG
1 CAAATGCCTTCGG
45714329 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:45714257 original size:40 final size:39
Alignment explanation
Indices: 45714159--45714381 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
45714149 TCCTCGTTCA
* * * *
45714159 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
45714198 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
45714237 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
45714277 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTAGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
45714317 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
45714358 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45714382 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 104 0.66
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:45714341 original size:80 final size:79
Alignment explanation
Indices: 45714157--45714381 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
45714147 GCTCCTCGTT
* * * * *
45714157 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
45714221 ATTTAATAACTCGCA
65 ATTTAATAACTAGCA
* * *
45714236 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
45714301 AATTT-GTATCTAGCA
64 AATTTAATAACTAGCA
* * * * *
45714316 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
45714380 GA
63 GA
45714382 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTAGCA
Found at i:45714390 original size:41 final size:41
Alignment explanation
Indices: 45714311--45714390 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
45714301 AATTTGTATC
* * *
45714311 TAGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACT
1 TAGCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACT
45714352 TAGCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 TAGCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
45714391 ATTAATCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (41 bp):
TAGCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACT
Found at i:45722148 original size:40 final size:40
Alignment explanation
Indices: 45722112--45722260 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
45722102 GATATAGCTC
* *
45722112 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
45722152 TTCGTACAAATGCCTTCGGGACTTAACCCGGATT-TAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA
* * *
45722192 CTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAT
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAA
*
45722231 CTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGG
45722261 AAATGCCTTC
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
39 44 0.45
40 51 0.53
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:45722235 original size:39 final size:40
Alignment explanation
Indices: 45722118--45722262 Score: 190
Period size: 39 Copynumber: 3.7 Consensus size: 40
45722108 GCTCCTCGTT
* * *
45722118 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
45722158 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45722198 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45722237 CAAATGCCTTCGGG-CTTAGCCCGGAA
1 CAAATGCCTTCGGGACTTAGCCCGGAA
45722263 ATGCCTTCGG
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 49 0.51
40 45 0.47
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:45722268 original size:23 final size:22
Alignment explanation
Indices: 45722238--45722286 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 22
45722228 TATCTCGCAC
45722238 AAATGCCTTCGGGCTTAGCCCGG
1 AAATGCCTTCGGGCTTAGCCC-G
45722261 AAATGCCTTCGGGCTTAGCCCG
1 AAATGCCTTCGGGCTTAGCCCG
45722283 AAAT
1 AAAT
45722287 TAGTATCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (22 bp):
AAATGCCTTCGGGCTTAGCCCG
Found at i:45743613 original size:43 final size:44
Alignment explanation
Indices: 45743565--45743682 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
45743555 AATCTGCCTA
* *
45743565 AAAAAGAGAAGAAGATAATCTTGGGTTGTTG-AAAACAGAA-TTT
1 AAAAAGAG-AGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
* *
45743608 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAAGAATTTT
1 AAAAAGA-GAGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
* * *
45743653 AAAAAAAGAGAAGATAAACTTCGGTTGTTG
1 AAAAAGAGAGAAGATAATCTTAGGTTGTTG
45743683 GATTTTCCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 26 0.41
44 28 0.44
45 9 0.14
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAAAGAGAGAAGATAATCTTAGGTTGTTGAAAAAAAGAATTTT
Found at i:45743650 original size:44 final size:44
Alignment explanation
Indices: 45743565--45743669 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 44
45743555 AATCTGCCTA
* * ** *
45743565 AAAAAGAGAAGAAGATAATCTTGGGTTGTTGAAAACAGAA-TTT
1 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAGAATTTT
45743608 AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAAGAATTTT
1 AAAAAGAGGAGAAGATAATCCTAAGTTGTTG-AAAAAAGAATTTT
*
45743653 AAAAA-AAGAGAAGATAA
1 AAAAAGAGGAGAAGATAA
45743670 ACTTCGGTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
43 27 0.50
44 19 0.35
45 8 0.15
ACGTcount: A:0.53, C:0.04, G:0.21, T:0.22
Consensus pattern (44 bp):
AAAAAGAGGAGAAGATAATCCTAAGTTGTTGAAAAAAGAATTTT
Found at i:45744155 original size:12 final size:12
Alignment explanation
Indices: 45744138--45744165 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45744128 ACACACGACA
45744138 GTGTCCCAGCCC
1 GTGTCCCAGCCC
45744150 GTGTCCCAGCCC
1 GTGTCCCAGCCC
45744162 GTGT
1 GTGT
45744166 AACTCTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.29, T:0.21
Consensus pattern (12 bp):
GTGTCCCAGCCC
Found at i:45750194 original size:9 final size:9
Alignment explanation
Indices: 45750180--45750204 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45750170 CATTTCAAAA
45750180 TCATTCAAT
1 TCATTCAAT
45750189 TCATTCAAT
1 TCATTCAAT
45750198 TCATTCA
1 TCATTCA
45750205 TCCATTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATTCAAT
Found at i:45760949 original size:59 final size:59
Alignment explanation
Indices: 45760857--45760974 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
45760847 AAATTACTAA
* *
45760857 GAATTTTTATTTCTGGGGCAGCATTTCCTGCACTGTATTTGTAAAATAAGCTTATAAAG
1 GAATTTTTATTTCTAGGGCAACATTTCCTGCACTGTATTTGTAAAATAAGCTTATAAAG
*
45760916 GAATTTTTATTTCTAGGGCAACATTTCCTGCACTGTATTTGTTAAATAAGCTTATAAAG
1 GAATTTTTATTTCTAGGGCAACATTTCCTGCACTGTATTTGTAAAATAAGCTTATAAAG
45760975 TTTAACAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (59 bp):
GAATTTTTATTTCTAGGGCAACATTTCCTGCACTGTATTTGTAAAATAAGCTTATAAAG
Found at i:45764370 original size:22 final size:22
Alignment explanation
Indices: 45764253--45764363 Score: 102
Period size: 22 Copynumber: 5.0 Consensus size: 22
45764243 ACTCTGCATA
45764253 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
* *
45764275 -CTATGCGAGCTTATACGTTAGT
1 AC-ATGCGAGCCTATATGTTAGT
* *** *
45764297 ACATGCAAGCCTATCCATTA-C
1 ACATGCGAGCCTATATGTTAGT
*
45764318 ATCAT-CTGAACCTATATGTTAGT
1 A-CATGC-GAGCCTATATGTTAGT
45764341 ACATGCGAGCCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGT
45764363 A
1 A
45764364 TGTGCGAACC
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
21 3 0.04
22 63 0.91
23 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (22 bp):
ACATGCGAGCCTATATGTTAGT
Found at i:45764373 original size:44 final size:44
Alignment explanation
Indices: 45764253--45764373 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
45764243 ACTCTGCATA
* * *
45764253 ACATGCGAGCCTATATGTTAGTCTATGCGAGCTTATACGTTAGT
1 ACATGCGAGCCTATATGTTAGTATATGCGAACCTATACGTTAGT
* *** * *
45764297 ACATGCAAGCCTATCCATTA-CATCAT-CTGAACCTATATGTTAGT
1 ACATGCGAGCCTATATGTTAGTAT-ATGC-GAACCTATACGTTAGT
*
45764341 ACATGCGAGCCTATATGTTAGTATGTGCGAACC
1 ACATGCGAGCCTATATGTTAGTATATGCGAACC
45764374 CCTAAGGTAA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
43 2 0.03
44 53 0.91
45 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACATGCGAGCCTATATGTTAGTATATGCGAACCTATACGTTAGT
Found at i:45764420 original size:17 final size:15
Alignment explanation
Indices: 45764370--45764409 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
45764360 AGTATGTGCG
*
45764370 AACCCCTAAGG-TAA
1 AACCCCTAAGGTTCA
45764384 ACACCCCTAAGGTTCA
1 A-ACCCCTAAGGTTCA
45764400 AACCCCTAAG
1 AACCCCTAAG
45764410 TTTGCGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (15 bp):
AACCCCTAAGGTTCA
Found at i:45769871 original size:22 final size:22
Alignment explanation
Indices: 45769845--45769900 Score: 58
Period size: 28 Copynumber: 2.3 Consensus size: 22
45769835 TCAGAAATAG
45769845 TACAGTGTGGGCCTTAGCCCAA
1 TACAGTGTGGGCCTTAGCCCAA
45769867 TACAGTAACAATGTGGGCCTTAGCCCAA
1 TACAG------TGTGGGCCTTAGCCCAA
45769895 TACAGT
1 TACAGT
45769901 ATCGATACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
22 6 0.21
28 22 0.79
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (22 bp):
TACAGTGTGGGCCTTAGCCCAA
Found at i:45770038 original size:26 final size:26
Alignment explanation
Indices: 45770009--45770063 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
45769999 AAGACACCAA
*
45770009 TATCGCAGCAAAGCTACCAATAATAG
1 TATCGCAGCAAAGCTACCAATAACAG
* * *
45770035 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
45770061 TAT
1 TAT
45770064 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAATAACAG
Found at i:45772855 original size:10 final size:10
Alignment explanation
Indices: 45772840--45772864 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45772830 ATGCCATCAC
45772840 ACATATATAT
1 ACATATATAT
45772850 ACATATATAT
1 ACATATATAT
45772860 ACATA
1 ACATA
45772865 AGATTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (10 bp):
ACATATATAT
Found at i:45775247 original size:20 final size:20
Alignment explanation
Indices: 45775205--45775245 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
45775195 TGTTTAGTTA
45775205 TTATTTTAAATATTTATTAT
1 TTATTTTAAATATTTATTAT
* *
45775225 TTATTTTTAA-ATTTCTTAT
1 TTATTTTAAATATTTATTAT
45775244 TT
1 TT
45775246 TAGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTTAAATATTTATTAT
Found at i:45775812 original size:18 final size:18
Alignment explanation
Indices: 45775789--45775826 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45775779 TGGAACTTAC
45775789 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
45775807 TTCCTTTGGAGTCGAGTT
1 TTCCTTTGGAGTCGAGTT
45775825 TT
1 TT
45775827 GTTAAAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (18 bp):
TTCCTTTGGAGTCGAGTT
Found at i:45784985 original size:7 final size:7
Alignment explanation
Indices: 45784973--45785011 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
45784963 CAAATCTAAG
45784973 TTTTCTC
1 TTTTCTC
45784980 TTTTCTC
1 TTTTCTC
45784987 TTTTCTC
1 TTTTCTC
45784994 TTTTCTC
1 TTTTCTC
45785001 TTTTCTC
1 TTTTCTC
45785008 TTTT
1 TTTT
45785012 GACTCAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCTC
Found at i:45785456 original size:12 final size:11
Alignment explanation
Indices: 45785438--45785471 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
45785428 GATTTCATTG
45785438 TTTGTTTATTT
1 TTTGTTTATTT
45785449 TATTGTTTATTT
1 T-TTGTTTATTT
*
45785461 TTTATTTATTT
1 TTTGTTTATTT
45785472 AATTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTGTTTATTT
Found at i:45801986 original size:44 final size:44
Alignment explanation
Indices: 45801914--45802036 Score: 102
Period size: 44 Copynumber: 2.8 Consensus size: 44
45801904 ATTCCAACCC
* * * * * ***
45801914 ACTACAACTTCAGGGGTATAGGAATTGTAGCTTTAATTTGATCA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
45801958 ACTATAAATTTAGGGATATAAGATTTGTAACTTCAACCCGATCC
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
* * * *
45802002 ACTACCACTTTAGGGATATAGGATTCGTAGCTTTA
1 ACTACAAATTTAGGGATATAAGATTTGTAGCTTTA
45802037 TCTTCTTCCA
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (44 bp):
ACTACAAATTTAGGGATATAAGATTTGTAGCTTTAACCCGATCA
Found at i:45802072 original size:44 final size:44
Alignment explanation
Indices: 45802023--45802166 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
45802013 AGGGATATAG
*
45802023 GATTCGTAGCTTTATCTTCTTCCACTGCAACTTCAAGGAGATAA
1 GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAGGAGATAA
* * * *
45802067 GATTCGCTATCATTGTTTCATTCCAATCAACTGCAACTTCAAGG-GTATAG
1 GATTCG-TAGC-TT-TATC-TTCC--TCCACTGCAACTTCAAGGAG-ATAA
* * * *
45802117 GATTTGTAGCTTCATATTGCTCCACTGCAACTTC-AGAGAGATAA
1 GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAG-GAGATAA
45802161 GATTCG
1 GATTCG
45802167 CCATTGTAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
43 2 0.03
44 28 0.36
45 4 0.05
46 5 0.06
47 4 0.05
48 5 0.06
49 4 0.05
50 25 0.32
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
GATTCGTAGCTTTATCTTCCTCCACTGCAACTTCAAGGAGATAA
Found at i:45802143 original size:94 final size:93
Alignment explanation
Indices: 45802008--45802264 Score: 302
Period size: 94 Copynumber: 2.7 Consensus size: 93
45801998 ATCCACTACC
* * *
45802008 ACTTTAGGGATATAGGATTCGTAGCTTTATCTT-CTTCCACTGCAACTTCAAGGAGATAAGATTC
1 ACTTCAGGG-TATAGGATTTGTAGCTTCATCTTGC-TCCACTGCAACTTCAAGGAGATAAGATTC
** *
45802072 GCTATCATTGTTTCATTCCAATCAACTGCA
64 GCTATCATAATTTCATTCCAACCAACTGCA
*
45802102 ACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCAACTTC-AGAGAGATAAGATTC
1 ACTTC-AGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGATAAGATTC
* ** *
45802166 GCCATTGTAATTTCATTCCAACCCACTGCA
64 GCTATCATAATTTCATTCCAACCAACTGCA
* * * * * *
45802196 ACTTCAGGAGTATAGCAATTGTAGCTTCATCTTGCTCTACTGTAACTTCAGGGAGATAAGATCCG
1 ACTTCAGG-GTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCG
45802261 CTAT
65 CTAT
45802265 GGCAGATTCA
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
93 5 0.04
94 128 0.92
95 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (93 bp):
ACTTCAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCGC
TATCATAATTTCATTCCAACCAACTGCA
Found at i:45802303 original size:94 final size:93
Alignment explanation
Indices: 45802000--45802308 Score: 243
Period size: 94 Copynumber: 3.3 Consensus size: 93
45801990 TCAACCCGAT
* * * * * *
45802000 CCACTACCACTTTAGGGATATAGGATTCGTAGCTTTATCTT-CTTCCACTGCAACTTCA-AGGAG
1 CCACTACAACTTCAGGGGTATAGAATT-GTAGCTTCATATTGC-TCCACTGCAACTTCAGA-GAG
* * * * *
45802063 ATAAGATTCGCTAT--CATTGTTTCATTCCAAT
63 ATAAGATCCGCCATGGCA--ATTTCAATCCAAC
* * * *
45802094 CAACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
1 CCACTACAACTTCAGGGGTATA-GAATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
* * * *
45802159 AAGATTCGCCATTGTAATTTCATTCCAAC
65 AAGATCCGCCATGGCAATTTCAATCCAAC
* * * * * *
45802188 CCACTGCAACTTCAGGAGTATAGCAATTGTAGCTTCATCTTGCTCTACTGTAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGGTATAG-AATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGAT
* *
45802253 AAGATCCGCTATGGCAGA-TTCAATCCGAC
65 AAGATCCGCCATGGCA-ATTTCAATCCAAC
*
45802282 CCACTA-ACACTTTAGGGGTATAGAATT
1 CCACTACA-ACTTCAGGGGTATAGAATT
45802309 TGTGGTTTCA
Statistics
Matches: 176, Mismatches: 31, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
93 6 0.03
94 163 0.93
95 6 0.03
96 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (93 bp):
CCACTACAACTTCAGGGGTATAGAATTGTAGCTTCATATTGCTCCACTGCAACTTCAGAGAGATA
AGATCCGCCATGGCAATTTCAATCCAAC
Found at i:45808262 original size:28 final size:28
Alignment explanation
Indices: 45808229--45808299 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
45808219 TAATGAGATT
* **
45808229 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAAGGGTAA
45808256 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTATAAGGGTAA
45808285 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45808300 TACTTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAAGGGTAA
Found at i:45809278 original size:25 final size:24
Alignment explanation
Indices: 45809245--45809423 Score: 144
Period size: 25 Copynumber: 7.6 Consensus size: 24
45809235 TTAACGCATA
*
45809245 ATGCTGTCCAATTTTGAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
*
45809269 GATGTTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
45809292 ATGCTGTCCAATTTTAAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
*
45809316 GATGCTGT-CTATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
*
45809339 ATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTAAGTATA-TT
* * * *
45809364 AAGCTGTCTAATTTGATGTATA--
1 ATGCTGTCCAATTTTAAGTATATT
45809386 ATGCTGTCC-A-TTTAGAGTATATT
1 ATGCTGTCCAATTTTA-AGTATATT
*
45809409 ATTGCTATCCAATTT
1 A-TGCTGTCCAATTT
45809424 GATGAATAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 31
0.72 0.09 0.18
Matches are distributed among these distances:
20 3 0.02
21 6 0.05
22 32 0.26
23 15 0.12
24 21 0.17
25 43 0.35
26 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTATATT
Found at i:45809303 original size:47 final size:47
Alignment explanation
Indices: 45809232--45809443 Score: 257
Period size: 47 Copynumber: 4.5 Consensus size: 47
45809222 TTGTATTATA
* * *
45809232 AATTTAACGCATAATGCTGTCCAATTTTGAGTATATTGATGTTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * *
45809279 ATTTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * * *
45809326 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
* * *
45809373 AATTTGATGTATAATGCTGTCC-ATTTAGAGTATATT-ATTGCTATCC
1 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCC
* *
45809419 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
45809444 AACAGGGTTG
Statistics
Matches: 146, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 31 0.21
47 113 0.77
48 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (47 bp):
AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC
Found at i:45821567 original size:3 final size:3
Alignment explanation
Indices: 45821559--45821596 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45821549 CTTTTTATCT
*
45821559 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
45821597 ACTCCAGCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:45827563 original size:3 final size:3
Alignment explanation
Indices: 45827555--45827588 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
45827545 ATGCAATGAT
45827555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45827589 AACATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45838016 original size:1 final size:1
Alignment explanation
Indices: 45838010--45838038 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
45838000 ACTTTCGGTG
45838010 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45838039 GGCGAGAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45849190 original size:3 final size:3
Alignment explanation
Indices: 45849182--45849215 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
45849172 ATTTAATGTT
45849182 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45849216 ATCATTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45855182 original size:3 final size:3
Alignment explanation
Indices: 45855174--45855211 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45855164 CGGCTGGAGT
*
45855174 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
45855212 AGATAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45863089 original size:24 final size:25
Alignment explanation
Indices: 45863043--45863090 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
45863033 TATATTAGGC
* *
45863043 ATTAAAATATTTTTAATAATATTAT
1 ATTAAAATATATTAAATAATATTAT
*
45863068 ATTAAAAT-TATTAAATATTATTA
1 ATTAAAATATATTAAATAATATTA
45863091 ATAATTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTAAAATATATTAAATAATATTAT
Found at i:45875649 original size:18 final size:20
Alignment explanation
Indices: 45875626--45875667 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
45875616 CTTGACCATT
45875626 TACAATAACA-ATAAT-CAG
1 TACAATAACAGATAATACAG
*
45875644 TACAATAACAGATTATACAG
1 TACAATAACAGATAATACAG
45875664 TACA
1 TACA
45875668 CAGGTCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (20 bp):
TACAATAACAGATAATACAG
Found at i:45880637 original size:49 final size:51
Alignment explanation
Indices: 45880584--45880689 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 51
45880574 CCAATATCGG
*
45880584 GAAGCTCCAA-AGAGCCAATTATTAGG-AAGCTC-AGATGAGCCATA-AACGA
1 GAAGCTCCAAGAGAGCC-ATTAATAGGAAAGCTCGAGA-GAGCCATATAACGA
* *
45880633 GAAGCT-CAAGAGAGCCATTAATGGGAAAGCTCGTGAGAGCCATATAACGA
1 GAAGCTCCAAGAGAGCCATTAATAGGAAAGCTCGAGAGAGCCATATAACGA
*
45880683 GATGCTC
1 GAAGCTC
45880690 ATGAGAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
48 10 0.21
49 26 0.54
50 12 0.25
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (51 bp):
GAAGCTCCAAGAGAGCCATTAATAGGAAAGCTCGAGAGAGCCATATAACGA
Found at i:45880694 original size:25 final size:25
Alignment explanation
Indices: 45880521--45880696 Score: 116
Period size: 25 Copynumber: 7.1 Consensus size: 25
45880511 AACCTCTTCC
* **
45880521 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGAGAAGCTCATGA
* *
45880546 GAGCCATTTAACGGGAAGCTCATGCA
1 GAGCCATATAACGAGAAGCTCATG-A
* * *
45880572 -AGCCA-ATATCGGGAAGCTCCA-AA
1 GAGCCATATAACGAGAAGCT-CATGA
*
45880595 GAGCCAATTATTA-G-GAAGCTCA-GA
1 GAGCC-A-TATAACGAGAAGCTCATGA
*
45880619 TGAGCCATA-AACGAGAAGCTCAAGA
1 -GAGCCATATAACGAGAAGCTCATGA
* * *
45880644 GAGCCAT-TAATGGGAAAGCTCGTGA
1 GAGCCATATAACGAG-AAGCTCATGA
*
45880669 GAGCCATATAACGAGATGCTCATGA
1 GAGCCATATAACGAGAAGCTCATGA
45880694 GAG
1 GAG
45880697 ATAATTAATG
Statistics
Matches: 120, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.01
23 4 0.03
24 38 0.32
25 69 0.57
26 6 0.05
27 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATGA
Found at i:45883568 original size:18 final size:17
Alignment explanation
Indices: 45883535--45883573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45883525 TTTTATAAAT
45883535 TGTGAATTATATTTGAAA
1 TGTGAATTATATTTG-AA
45883553 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
45883570 TGTG
1 TGTG
45883574 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:45883826 original size:23 final size:23
Alignment explanation
Indices: 45883799--45883874 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
45883789 AGTGTTATTG
**
45883799 ATCAGTGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
45883822 TTCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
45883845 ATCAGTGCTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45883868 ATCAGTG
1 ATCAGTG
45883875 TGGCACTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:45890431 original size:18 final size:17
Alignment explanation
Indices: 45890382--45890434 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
45890372 GCAATAAAAA
45890382 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAA-TGAAT
* *
45890400 AACGATTTGTAAATGAAT
1 AATGTTTTG-AAATGAAT
45890418 AATGTTTTTGAAATGAA
1 AATG-TTTTGAAATGAA
45890435 CGGCACGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (17 bp):
AATGTTTTGAAATGAAT
Found at i:45896293 original size:17 final size:19
Alignment explanation
Indices: 45896271--45896307 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45896261 AAGCAAAAGA
45896271 ATTTC-ATATTA-TGAGAT
1 ATTTCAATATTAGTGAGAT
*
45896288 ATTTCAATTTTAGTGAGAT
1 ATTTCAATATTAGTGAGAT
45896307 A
1 A
45896308 GGGGTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (19 bp):
ATTTCAATATTAGTGAGAT
Found at i:45897366 original size:6 final size:6
Alignment explanation
Indices: 45897355--45897383 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45897345 CCCAAACTGG
45897355 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
1 ACTGAT ACTGAT ACTGAT ACTGAT ACTGA
45897384 AAAGGACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
ACTGAT
Found at i:45903253 original size:28 final size:28
Alignment explanation
Indices: 45903222--45903278 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
45903212 TAGCATCTCT
*
45903222 TAAATCATACCTTTCATATTCATGAATA
1 TAAATCATACATTTCATATTCATGAATA
* *
45903250 TAAATCATACATTTCATGTTTATGAATA
1 TAAATCATACATTTCATATTCATGAATA
45903278 T
1 T
45903279 TCATACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (28 bp):
TAAATCATACATTTCATATTCATGAATA
Found at i:45903524 original size:101 final size:101
Alignment explanation
Indices: 45903411--45903609 Score: 308
Period size: 101 Copynumber: 2.0 Consensus size: 101
45903401 CTTACATTCG
* *
45903411 TAGTGTCATAACCCAGTTATGGTTTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
* *
45903476 AAACACTACCATGGTCGAACCATGGTATTACGTCTA
66 AAACACTACCATGGCCCAACCATGGTATTACGTCTA
* * * *
45903512 TAGTGCCATAACCTAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGGTTTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
* *
45903577 AAACACTGCCATGGCCCAACCATGGTCTTACGT
66 AAACACTACCATGGCCCAACCATGGTATTACGT
45903610 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
AAACACTACCATGGCCCAACCATGGTATTACGTCTA
Found at i:45903566 original size:33 final size:33
Alignment explanation
Indices: 45903417--45903577 Score: 83
Period size: 33 Copynumber: 4.8 Consensus size: 33
45903407 TTCGTAGTGT
* * * *
45903417 CATAACCCAGTTATGGTTTTATCAT-CAGAATAC
1 CATAGCCCAGCTATGGTCTTA-CATATAGAATAC
*
45903450 CATAGCCCAGCTATGGTCTTACATATAAACACTAC
1 CATAGCCCAGCTATGGTCTTACATATAGA-A-TAC
* * * * * * * * * * *
45903485 CATGGTCGAACCATGGTATTACGTCTATAGTGC
1 CATAGCCCAGCTATGGTCTTACATATAGAATAC
* * * *
45903518 CATAACCTAGTTATGGTCTTATCAT-TAGAATGC
1 CATAGCCCAGCTATGGTCTTA-CATATAGAATAC
*
45903551 CATAGCCCAGCTATGGTTTTACATATA
1 CATAGCCCAGCTATGGTCTTACATATA
45903578 AACACTGCCA
Statistics
Matches: 92, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
32 6 0.07
33 60 0.65
34 3 0.03
35 23 0.25
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (33 bp):
CATAGCCCAGCTATGGTCTTACATATAGAATAC
Found at i:45910948 original size:73 final size:74
Alignment explanation
Indices: 45910879--45911073 Score: 252
Period size: 73 Copynumber: 2.7 Consensus size: 74
45910869 ACAATAAAAA
* * * *
45910879 GAATTATTGTGACAATTTAATTTTGTTACAATTACTTATGATTTTAGTGTA-AAAAATTGGTCAC
1 GAATAATTGTGACCATTTAATTTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGTCAC
45910943 AAATAAATT
66 AAATAAATT
* * * * *
45910952 TAATAATTGTGCCCATTTAA-TTTGTCACAATTACTTACGATTTTAGTGTACAAAACTTGGCCAT
1 GAATAATTGTGACCATTTAATTTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGTCAC
45911016 AAA-AAATT
66 AAATAAATT
* * * *
45911024 GAATAATTGTGACCATTTAATTTCGACATAATTACTTACAATTTTAGTGT
1 GAATAATTGTGACCATTTAATTTTGTCACAATTACTTACGATTTTAGTGT
45911074 TTGACATTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
72 51 0.49
73 54 0.51
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (74 bp):
GAATAATTGTGACCATTTAATTTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGTCAC
AAATAAATT
Found at i:45910994 original size:72 final size:72
Alignment explanation
Indices: 45910879--45911073 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 72
45910869 ACAATAAAAA
* * * * *
45910879 GAATTATTGTGACAATTTAATTTTGTTACAATTACTTATGATTTTAGTGTA-AAAAATTGGTCAC
1 GAATAATTGTGACCATTTAA-TTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCAC
45910943 AAATAAATT
65 AAA-AAATT
* * * *
45910952 TAATAATTGTGCCCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAACTTGGCCATA
1 GAATAATTGTGACCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCACA
45911017 AAAAATT
66 AAAAATT
* * *
45911024 GAATAATTGTGACCATTTAATTTCGACATAATTACTTACAATTTTAGTGT
1 GAATAATTGTGACCATTTAATTT-GTCACAATTACTTACGATTTTAGTGT
45911074 TTGACATTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
72 54 0.51
73 52 0.49
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (72 bp):
GAATAATTGTGACCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCACA
AAAAATT
Found at i:45917413 original size:33 final size:32
Alignment explanation
Indices: 45917376--45917522 Score: 105
Period size: 33 Copynumber: 4.4 Consensus size: 32
45917366 ATAACTCATT
*
45917376 TATGGTCTTATCATCAGAATGCCATAGCCTAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAGC
* * * * * *
45917409 TATGGTCTTACATATAAACACTGCTATGGTCCAAC
1 TATGGTCTTACAT-CAGA-A-TGCCATAGCCCAGC
* * * * * * *
45917444 CATGGTCTTACGTTCATAGTGCCACAACCCAGT
1 TATGGTCTTAC-ATCAGAATGCCATAGCCCAGC
*
45917477 TATGGTATTATCATCAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAGC
45917510 TATGGTCTTACAT
1 TATGGTCTTACAT
45917523 ATAAACACTG
Statistics
Matches: 81, Mismatches: 28, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
32 6 0.07
33 51 0.63
34 2 0.02
35 21 0.26
36 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (32 bp):
TATGGTCTTACATCAGAATGCCATAGCCCAGC
Found at i:45917589 original size:101 final size:101
Alignment explanation
Indices: 45917350--45917589 Score: 356
Period size: 101 Copynumber: 2.4 Consensus size: 101
45917340 AATTCATCCT
* * * * *
45917350 TTACATTCGTAGTGCCATAACTCATTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
45917415 CTTACATATAAACACTGCTATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCTATAGTCCAACCATGGTC
* * *
45917451 TTACGTTCATAGTGCCACAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
45917516 CTTACATATAAACACTG-TCATAGTCTAACCATGGTC
66 CTTACATATAAACACTGCT-ATAGTCCAACCATGGTC
* *
45917552 TTACGTTCATAGTACCATAACCCAATTATGATCTTATC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATC
45917590 CGTCAATTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 1 0.01
101 123 0.99
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCTATAGTCCAACCATGGTC
Found at i:45922476 original size:83 final size:83
Alignment explanation
Indices: 45922296--45922468 Score: 231
Period size: 83 Copynumber: 2.1 Consensus size: 83
45922286 AGCGGACTCA
* * * *
45922296 ACCCCTCAAAAATGAATTTCTTTTTTAATTTAATTCTTTTATAAATAGAGAAATTATGAATTAAT
1 ACCCCTC-AAAAT-AAGTT-TTTTTTAATTTAATTCTCTTATAAATAAAGAAATTATGAATCAAT
*
45922361 ATATAGTAAAATTGTATTTTG
63 ATATAATAAAATTGTATTTTG
* * * *
45922382 ACTCCTCAAAATAAGTTTTTTTTAATTTAGTTCTCTTATAAATAAATAAATTATTAATCAATATA
1 ACCCCTCAAAATAAGTTTTTTTTAATTTAATTCTCTTATAAATAAAGAAATTATGAATCAATATA
45922447 TAATAAAATTGTATTTT-
66 TAATAAAATTGTATTTTG
45922464 ACCCC
1 ACCCC
45922469 CTGAAAATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
82 4 0.05
83 58 0.75
84 4 0.05
85 5 0.06
86 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (83 bp):
ACCCCTCAAAATAAGTTTTTTTTAATTTAATTCTCTTATAAATAAAGAAATTATGAATCAATATA
TAATAAAATTGTATTTTG
Found at i:45927729 original size:13 final size:14
Alignment explanation
Indices: 45927711--45927751 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
45927701 TTTTCAAAGA
45927711 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
45927724 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
45927738 TACGGTTTA-GACT
1 TATGGTTTAGGACT
45927751 T
1 T
45927752 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:45927842 original size:25 final size:26
Alignment explanation
Indices: 45927808--45927859 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
45927798 TTGTTTGTGG
** *
45927808 TTTATGGGTTTAATTTTTATGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
45927834 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
45927859 T
1 T
45927860 GCGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (26 bp):
TTTATGGGTTTAAGATTTACGGTTAA
Found at i:45927965 original size:21 final size:21
Alignment explanation
Indices: 45927925--45927965 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45927915 TTAATTGACG
*
45927925 AGTTTAGGGTTTAAGTTTTAT
1 AGTTTAGGGTTTAAGGTTTAT
* *
45927946 AGTTTGGGGTTTGAGGTTTA
1 AGTTTAGGGTTTAAGGTTTA
45927966 GGGTAAGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
AGTTTAGGGTTTAAGGTTTAT
Found at i:45930071 original size:12 final size:12
Alignment explanation
Indices: 45930054--45930093 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
45930044 TCTAATACTG
45930054 TTTGTTCATAAA
1 TTTGTTCATAAA
* *
45930066 TTTGTTAATAAT
1 TTTGTTCATAAA
*
45930078 TTTGTTCATAAG
1 TTTGTTCATAAA
45930090 TTTG
1 TTTG
45930094 AAACTGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (12 bp):
TTTGTTCATAAA
Found at i:45931277 original size:22 final size:22
Alignment explanation
Indices: 45931247--45931288 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
45931237 CGACGCTGTT
45931247 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
*
45931269 ATATTATACATAACTTACAT
1 ATATAATACATAACTTACAT
45931289 AACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:45931289 original size:9 final size:9
Alignment explanation
Indices: 45931275--45931423 Score: 92
Period size: 9 Copynumber: 17.7 Consensus size: 9
45931265 ATTAATATTA
45931275 TACATAACT
1 TACATAACT
45931284 TACATAACT
1 TACATAACT
45931293 TA-ATTAA-T
1 TACA-TAACT
*
45931301 TA-AT-ATT
1 TACATAACT
45931308 ATACATAACT
1 -TACATAACT
45931318 TACATAACT
1 TACATAACT
*
45931327 T-C-CAACT
1 TACATAACT
*
45931334 TATATAACT
1 TACATAACT
*
45931343 TAC-TTA--
1 TACATAACT
45931349 TA-ATAACT
1 TACATAACT
45931357 TACATAA--
1 TACATAACT
45931364 TACATATAACT
1 TAC--ATAACT
*
45931375 TTCATAACT
1 TACATAACT
*
45931384 TACATTA--
1 TACATAACT
*
45931391 TACACAACT
1 TACATAACT
*
45931400 TATATAACT
1 TACATAACT
45931409 TACATAACT
1 TACATAACT
45931418 TACATA
1 TACATA
45931424 GATTAATTAT
Statistics
Matches: 108, Mismatches: 15, Indels: 34
0.69 0.10 0.22
Matches are distributed among these distances:
6 5 0.05
7 15 0.14
8 12 0.11
9 72 0.67
10 2 0.02
11 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:45931349 original size:13 final size:14
Alignment explanation
Indices: 45931331--45931359 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45931321 ATAACTTCCA
45931331 ACTTAT-ATAACTT
1 ACTTATAATAACTT
45931344 ACTTATAATAACTT
1 ACTTATAATAACTT
45931358 AC
1 AC
45931360 ATAATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (14 bp):
ACTTATAATAACTT
Found at i:45931511 original size:16 final size:15
Alignment explanation
Indices: 45931465--45931625 Score: 89
Period size: 15 Copynumber: 10.1 Consensus size: 15
45931455 CCGTGCGACT
45931465 TACATAACTTATTAA
1 TACATAACTTATTAA
*
45931480 TACA-AACTCAGTTAA
1 TACATAACTTA-TTAA
45931495 TACATAACTTATATAA
1 TACATAACTTAT-TAA
45931511 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
* *
45931529 TATATATA-TATTTTAA
1 TACATA-ACT-TATTAA
* * *
45931545 GATGAT-ACATATCT--
1 TA-CATAACTTAT-TAA
45931559 TACATAACTTATTAA
1 TACATAACTTATTAA
45931574 TACATAACTTATATAA
1 TACATAACTTAT-TAA
* *
45931590 TATATAACTTACATAA
1 TACATAACTTA-TTAA
45931606 TACGACATAACTTATTAA
1 T---ACATAACTTATTAA
45931624 TA
1 TA
45931626 TATTTATGGA
Statistics
Matches: 112, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
13 3 0.03
14 11 0.10
15 34 0.30
16 34 0.30
17 2 0.02
18 8 0.07
19 20 0.18
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (15 bp):
TACATAACTTATTAA
Done.