Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 108 of 143
Found at i:32977709 original size:21 final size:21
Alignment explanation
Indices: 32977684--32977736 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
32977674 CTTGTAGCCT
* * *
32977684 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTACCTCG
*
32977705 CTGCTGCCTCCGCTTACCTTG
1 CTGCTGCCTCCGCTTACCTCG
32977726 CTGCTGCCTCC
1 CTGCTGCCTCC
32977737 ACTTTAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.45, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTACCTCG
Found at i:32977873 original size:66 final size:66
Alignment explanation
Indices: 32977732--32977879 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
32977722 CTTGCTGCTG
* *
32977732 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTACA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTACA
32977797 A
66 A
* * ** *
32977798 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTAC
*
32977862 AG
65 AA
*
32977864 CCTCTTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
32977880 AGCAATTTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 70 0.99
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTACA
A
Found at i:32983408 original size:8 final size:8
Alignment explanation
Indices: 32983395--32983488 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
32983385 CTGTTTTTGT
32983395 TAATTAAA
1 TAATTAAA
32983403 TAATTAAA
1 TAATTAAA
*
32983411 T-ATTTAA
1 TAATTAAA
32983418 T--TTAATA
1 TAATTAA-A
32983425 TAATTAAA
1 TAATTAAA
32983433 TAATTAAA
1 TAATTAAA
* *
32983441 T-CTT--T
1 TAATTAAA
32983446 TCAATTAAA
1 T-AATTAAA
32983455 TAATTAAA
1 TAATTAAA
32983463 TAAGCTTAAA
1 TAA--TTAAA
32983473 TAATTATATA
1 TAATTA-A-A
32983483 TAATTA
1 TAATTA
32983489 TTTACGACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 12 0.17
8 32 0.46
9 6 0.09
10 15 0.22
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATTAAA
Found at i:32983430 original size:22 final size:20
Alignment explanation
Indices: 32983394--32983439 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
32983384 GCTGTTTTTG
*
32983394 TTAATTAAATAATTAAATAT
1 TTAATTAAATAATTAAATAA
32983414 TTAATTTAATATAATTAAATAA
1 TTAA-TTAA-ATAATTAAATAA
32983436 TTAA
1 TTAA
32983440 ATCTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATTAAATAATTAAATAA
Found at i:32983431 original size:30 final size:29
Alignment explanation
Indices: 32983395--32983474 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 29
32983385 CTGTTTTTGT
32983395 TAATTAAATAATTAAATATTT-AATTTAATA
1 TAATTAAATAATTAAATATTTCAA-TTAA-A
*
32983425 TAATTAAATAATTAAATCTTTTCAATTAAA
1 TAATTAAATAATTAAAT-ATTTCAATTAAA
32983455 TAATTAAATAAGCTTAAATA
1 TAATTAAATAA--TTAAATA
32983475 ATTATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 29 0.66
31 7 0.16
32 8 0.18
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
TAATTAAATAATTAAATATTTCAATTAAA
Found at i:32983560 original size:18 final size:18
Alignment explanation
Indices: 32983538--32983714 Score: 116
Period size: 18 Copynumber: 10.7 Consensus size: 18
32983528 AATTAAAAAT
32983538 TTTAATATAATTATTTAC
1 TTTAATATAATTATTTAC
*
32983556 CTTAATATAATTA---A-
1 TTTAATATAATTATTTAC
* * *
32983570 -ATAAT-TAAGTATTTAA
1 TTTAATATAATTATTTAC
32983586 TTTAATATAATTATTTAC
1 TTTAATATAATTATTTAC
**
32983604 TTTAATATAATTAAATA-
1 TTTAATATAATTATTTAC
* * *
32983621 ATTAA-AT-CTT-TTAAC
1 TTTAATATAATTATTTAC
32983636 -TTAATATAATTATTTAC
1 TTTAATATAATTATTTAC
**
32983653 TTTAATATAATTAAATA-
1 TTTAATATAATTATTTAC
* * *
32983670 ATTAA-AT-CTT-TTAAC
1 TTTAATATAATTATTTAC
32983685 -TTAATATAATTATTTAC
1 TTTAATATAATTATTTAC
32983702 TTTAATATAATTA
1 TTTAATATAATTA
32983715 AATAATTAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
12 5 0.04
13 4 0.03
14 10 0.08
15 10 0.08
16 8 0.07
17 20 0.17
18 62 0.52
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.50
Consensus pattern (18 bp):
TTTAATATAATTATTTAC
Found at i:32983651 original size:49 final size:49
Alignment explanation
Indices: 32983539--32983737 Score: 355
Period size: 49 Copynumber: 4.1 Consensus size: 49
32983529 ATTAAAAATT
* * * *
32983539 TTAATATAATTATTTACCTTAATATAATTAAATAATTAAGT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
32983587 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
32983636 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
32983685 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
32983734 TTAA
1 TTAA
32983738 ATATTTAATT
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
48 39 0.27
49 107 0.73
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.49
Consensus pattern (49 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:32983749 original size:26 final size:24
Alignment explanation
Indices: 32983618--32983741 Score: 80
Period size: 26 Copynumber: 5.1 Consensus size: 24
32983608 ATATAATTAA
32983618 ATAATTAAATCTTTTAACTT-AAT
1 ATAATTAAATCTTTTAACTTAAAT
** *
32983641 ATAATTATTTAC-TTTAA-TATAATTAA
1 ATAATTAAAT-CTTTTAACT-TAA--AT
32983667 ATAATTAAATCTTTTAACTT-AAT
1 ATAATTAAATCTTTTAACTTAAAT
** *
32983690 ATAATTATTTAC-TTTAA-TATAATTAA
1 ATAATTAAAT-CTTTTAACT-TAA--AT
32983716 ATAATTAAATCTTTTAACTTAAAT
1 ATAATTAAATCTTTTAACTTAAAT
32983740 AT
1 AT
32983742 TTAATTAATC
Statistics
Matches: 75, Mismatches: 12, Indels: 27
0.66 0.11 0.24
Matches are distributed among these distances:
22 2 0.03
23 29 0.39
24 7 0.09
25 3 0.04
26 32 0.43
27 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTAAATCTTTTAACTTAAAT
Found at i:32986495 original size:41 final size:41
Alignment explanation
Indices: 32986288--32986774 Score: 403
Period size: 41 Copynumber: 11.9 Consensus size: 41
32986278 AAATAAATTA
*
32986288 GAAAGCGCCGCTAATG--CAC-ACCTTTAGCGACGCTTATTA-G
1 GAAAGCGCCGCTAATGATC-CTACCTTTAGCGGCGCTTA--AGG
* * *
32986328 AAAAGCGCCGCTAATGA-CCTGACCTTTAGCGGCGCTTTAGT
1 GAAAGCGCCGCTAATGATCCT-ACCTTTAGCGGCGCTTAAGG
* * *
32986369 AAAAGCACCGCTAAATGATCCTACCTTTAGCGGCGCTTGAGG
1 GAAAGCGCCGCT-AATGATCCTACCTTTAGCGGCGCTTAAGG
* * *
32986411 GAAAGCGCCGCTAATGA-CTCGACCTTTTAGTGGCGCTTTAGG
1 GAAAGCGCCGCTAATGATC-CTACC-TTTAGCGGCGCTTAAGG
*
32986453 GAAAGCGCCGCTAATGATCATACCTTTAGCGGCGCTTAAGG
1 GAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGCTTAAGG
* * *
32986494 GAAAGCGCCGCTAATTA-CCTGACCTTTAGCGGCGCTTGAGT
1 GAAAGCGCCGCTAATGATCCT-ACCTTTAGCGGCGCTTAAGG
* * * *
32986535 GAAAGCACCGCTAATTACCCTACCTTTAGCGGCGCATT-AGA
1 GAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGC-TTAAGG
* * * * *
32986576 GAAAGCACCGCTAATGA-CTTGAACTTTAGCGGCGCTTTA-T
1 GAAAGCGCCGCTAATGATCCT-ACCTTTAGCGGCGCTTAAGG
* * **
32986616 CACAAGCGCCGCTAATGA-CCTGACCTTTAGCGGCACTTGTGG
1 GA-AAGCGCCGCTAATGATCCT-ACCTTTAGCGGCGCTTAAGG
32986658 GTAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGCTT--GTG
1 G-AAAGCGCCGCTAATGATCCTACCTTTAGCGGCGCTTAAG-G
** * * *
32986699 TTAAGCGCCGCTAATGCT-TTACCTTTTGCGGCGCATTAA-G
1 GAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGC-TTAAGG
* * * *
32986739 AAAAGCGCCGCTAATGCT-TTACCTTTTGCGGCGCTT
1 GAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGCTT
32986775 TGTTTCCAAT
Statistics
Matches: 382, Mismatches: 43, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
39 16 0.04
40 76 0.20
41 164 0.43
42 118 0.31
43 8 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GAAAGCGCCGCTAATGATCCTACCTTTAGCGGCGCTTAAGG
Found at i:32986580 original size:82 final size:82
Alignment explanation
Indices: 32986288--32986775 Score: 489
Period size: 82 Copynumber: 6.0 Consensus size: 82
32986278 AAATAAATTA
* * *
32986288 GAAAGCGCCGCTAATG-CAC-ACCTTTAGCGACGCTT-ATTAGAAAAGCGCCGCTAATGACCTGA
1 GAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGA-GAG-AAAGCGCCGCTAATGACCTGA
32986350 CCTTTAGCGGCGCTTTAGT
64 CCTTTAGCGGCGCTTTAGT
* * * *
32986369 AAAAGCACCGCTAAATGATCCTACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGA-CTCGA
1 GAAAGCGCCGCT-AATGACCCTACCTTTAGCGGCGCTTGAGAGAAAGCGCCGCTAATGACCT-GA
* *
32986433 CCTTTTAGTGGCGCTTTAGG
64 CC-TTTAGCGGCGCTTTAGT
* * * * *
32986453 GAAAGCGCCGCTAATGATCATACCTTTAGCGGCGCTTAAGGGAAAGCGCCGCTAATTACCTGACC
1 GAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGAGAAAGCGCCGCTAATGACCTGACC
*
32986518 TTTAGCGGCGCTTGAGT
66 TTTAGCGGCGCTTTAGT
* * * * *
32986535 GAAAGCACCGCTAATTACCCTACCTTTAGCGGCGCATT-AGAGAAAGCACCGCTAATGACTTGAA
1 GAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGC-TTGAGAGAAAGCGCCGCTAATGACCTGAC
32986599 CTTTAGCGGCGCTTTA-T
65 CTTTAGCGGCGCTTTAGT
* * * *
32986616 CACAAGCGCCGCTAATGA-CCTGACCTTTAGCGGCACTTGTGGGTAAAGCGCCGCTAATGATCCT
1 GA-AAGCGCCGCTAATGACCCT-ACCTTTAGCGGCGCTTGAGAG-AAAGCGCCGCTAATGA-CCT
32986680 -ACCTTTAGCGGCGC-TT-GT
62 GACCTTTAGCGGCGCTTTAGT
* ** * * * *
32986698 GTTAAGCGCCGCTAATG-CTTTACCTTTTGCGGCGCATTAAGA-AAAGCGCCGCTAATG-CTTTA
1 G-AAAGCGCCGCTAATGACCCTACCTTTAGCGGCGC-TTGAGAGAAAGCGCCGCTAATGACCTGA
*
32986760 CCTTTTGCGGCGCTTT
64 CCTTTAGCGGCGCTTT
32986776 GTTTCCAATC
Statistics
Matches: 341, Mismatches: 47, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.01
79 13 0.04
80 17 0.05
81 29 0.09
82 136 0.40
83 98 0.29
84 45 0.13
85 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (82 bp):
GAAAGCGCCGCTAATGACCCTACCTTTAGCGGCGCTTGAGAGAAAGCGCCGCTAATGACCTGACC
TTTAGCGGCGCTTTAGT
Found at i:32989889 original size:182 final size:182
Alignment explanation
Indices: 32989578--32989945 Score: 628
Period size: 182 Copynumber: 2.0 Consensus size: 182
32989568 ACCTTGTTTG
*
32989578 GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCT
1 GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCA
*
32989643 GTTCAAAGCCCATGACCATTTCACAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATAGGGCTCA
66 GTTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATAGGGCTCA
* * * * * * * *
32989708 TTTGACCGACGAGTGCTAACTCGATTCAAAGAGTTGTTGGAGAAGGCTGTTA
131 TTTAACCCACAAGAGCTAACCCGATTCAAAAAGTTGTTGGAGAAAGATGTTA
32989760 GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCA
1 GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCA
* *
32989825 GTTCAAAGCCCGTGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATGGGGCTCA
66 GTTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATAGGGCTCA
32989890 TTTAACCCACAAGAGCTAACCCGATTCAAAAAGTTGTTGGAGAAAGATGTTA
131 TTTAACCCACAAGAGCTAACCCGATTCAAAAAGTTGTTGGAGAAAGATGTTA
32989942 GATT
1 GATT
32989946 GAAGTCTGGG
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 174 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (182 bp):
GATTAAATAATTAGTTCATAAGCTTCTCAACATTGTTTATGCATGAACAAATGTCATGGGCCGCA
GTTCAAAGCCCATGACCATTGCACAAAATGTGTCCCAAGAAGGTCTATCAGTTAGATAGGGCTCA
TTTAACCCACAAGAGCTAACCCGATTCAAAAAGTTGTTGGAGAAAGATGTTA
Found at i:32990076 original size:13 final size:14
Alignment explanation
Indices: 32990058--32990087 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
32990048 TAGATTTGAT
32990058 TTGATTATGTAA-A
1 TTGATTATGTAATA
32990071 TTGATTATGTAATA
1 TTGATTATGTAATA
32990085 TTG
1 TTG
32990088 TAAATCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (14 bp):
TTGATTATGTAATA
Found at i:32990891 original size:9 final size:9
Alignment explanation
Indices: 32990877--32990945 Score: 77
Period size: 9 Copynumber: 7.1 Consensus size: 9
32990867 GCAAATGATT
32990877 TTAAAATTA
1 TTAAAATTA
32990886 TTAAAATTA
1 TTAAAATTA
32990895 TTTAAAATTA
1 -TTAAAATTA
32990905 TTTTTAAAATTA
1 ---TTAAAATTA
32990917 -TAAAATTA
1 TTAAAATTA
32990925 TTAAAATTA
1 TTAAAATTA
32990934 TTTTAAAATTA
1 --TTAAAATTA
32990945 T
1 T
32990946 AATCATCATC
Statistics
Matches: 54, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.15
9 18 0.33
10 9 0.17
11 9 0.17
12 10 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:32990897 original size:20 final size:19
Alignment explanation
Indices: 32990876--32990945 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 19
32990866 AGCAAATGAT
32990876 TTTAAAATTATTAAAATTA
1 TTTAAAATTATTAAAATTA
32990895 TTTAAAATTATTTTTAAAATTA
1 TTTAAAATTA---TTAAAATTA
32990917 --TAAAATTATTAAAATTA
1 TTTAAAATTATTAAAATTA
32990934 TTTTAAAATTAT
1 -TTTAAAATTAT
32990946 AATCATCATC
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.20
19 10 0.22
20 17 0.38
22 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAATTATTAAAATTA
Found at i:32991560 original size:27 final size:28
Alignment explanation
Indices: 32991494--32991565 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
32991484 TAGAGCAACA
*
32991494 CTAACCCAAAATCTCCAAAATCAGAAACG
1 CTAACCCAAAATC-CCCAAATCAGAAACG
* * *
32991523 CTAAACAAAAATCCCCAAATCA-AAACT
1 CTAACCCAAAATCCCCAAATCAGAAACG
*
32991550 CTTACCCAAAATCCCC
1 CTAACCCAAAATCCCC
32991566 TAATTCGACC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 17 0.47
28 8 0.22
29 11 0.31
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (28 bp):
CTAACCCAAAATCCCCAAATCAGAAACG
Found at i:32991974 original size:61 final size:61
Alignment explanation
Indices: 32991879--32992005 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
32991869 ACTTCGAATA
32991879 AGAAAACTTCTCCATTGATGGCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGAT
1 AGAAAACTTCTCCATTGATGGCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGAT
32991940 AGAAAACTTCTCCATTGATGGCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGAT
1 AGAAAACTTCTCCATTGATGGCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGAT
*
32992001 GGAAA
1 AGAAA
32992006 CCCACTAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (61 bp):
AGAAAACTTCTCCATTGATGGCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGAT
Found at i:32992025 original size:61 final size:61
Alignment explanation
Indices: 32991899--32992025 Score: 166
Period size: 61 Copynumber: 2.1 Consensus size: 61
32991889 TCCATTGATG
** ** * *
32991899 GCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGATAGAAAACTTCTCCATTGATG
1 GCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGATAGAAAACCACTAAATTCATA
* *
32991960 GCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGATGGAAACCCACTAAATTTCA-A
1 GCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGATAGAAAACCACTAAA-TTCATA
32992021 GCTTC
1 GCTTC
32992026 AATTTCTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 54 0.95
62 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (61 bp):
GCTTCCAATCAGTTTTTTCAAACAATATTTTCGAAGGAGATAGAAAACCACTAAATTCATA
Found at i:33007758 original size:2 final size:2
Alignment explanation
Indices: 33007751--33007781 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33007741 TAGGTATTAA
33007751 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
33007782 ATCGTTTTTT
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:33030163 original size:61 final size:61
Alignment explanation
Indices: 33030068--33030190 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
33030058 AGTTAGAACT
33030068 TCAACTGGAGCTACGCCGTTCTCACTAGTGTATGGTATGGAAGCAGTTTTACCTATCGAGG
1 TCAACTGGAGCTACGCCGTTCTCACTAGTGTATGGTATGGAAGCAGTTTTACCTATCGAGG
* *
33030129 TCAACTGGAGCTACGCTGTTCTCACTGGTGTATGGTATGGAAGCAGTTTTACCTATCGAGG
1 TCAACTGGAGCTACGCCGTTCTCACTAGTGTATGGTATGGAAGCAGTTTTACCTATCGAGG
33030190 T
1 T
33030191 TGAGATTCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (61 bp):
TCAACTGGAGCTACGCCGTTCTCACTAGTGTATGGTATGGAAGCAGTTTTACCTATCGAGG
Found at i:33031619 original size:124 final size:124
Alignment explanation
Indices: 33031394--33031678 Score: 462
Period size: 124 Copynumber: 2.3 Consensus size: 124
33031384 AAACAACCCC
* **
33031394 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAA
* * * * *
33031459 CTTCAAACCCCTAGCTTCCTGATGAGATATAGAGAAGCGGATCAAAGTAATGAAGCGGT
66 CTTCAAACCCCTAGCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGT
33031518 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAA
1 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAA
* * * *
33031583 CTTCAAACCCCTATCTTCCTTATGAGATACAAAGAAGCGGGTCAAAGCAATAAAGCATT
66 CTTCAAACCCCTAGCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGT
33031642 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATC
1 CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATC
33031679 CGTCTTCCTG
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 149 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (124 bp):
CATCTTCCTGATAAGATACAGAGAAGTGAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAA
CTTCAAACCCCTAGCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGT
Found at i:33031744 original size:85 final size:84
Alignment explanation
Indices: 33031596--33031762 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 84
33031586 CAAACCCCTA
* * *
33031596 TCTTCCTTATGAGATACAAAGAAGCGGGTCAAAGCAATAAAGCATTCATCTTCCTGATAAGATAC
1 TCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGTCATCTTCCTGATAAGATAC
33031661 AGAGAAGTGAACCAAATCCG
66 AGAGAAGT-AACCAAATCCG
* * * * * * * *
33031681 TCTTCCTGATGAGATACAGAGAAGTGGATTAGATCAATGAAGCAGTCATCTTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGTCATCTTCCTGATAAGATAC
33031746 AGAGAAGTAACCAAATC
66 AGAGAAGTAACCAAATC
33031763 GATGAAGCGG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 9 0.13
85 62 0.87
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (84 bp):
TCTTCCTGATGAGATACAAAGAAGCGGATCAAAGCAATAAAGCAGTCATCTTCCTGATAAGATAC
AGAGAAGTAACCAAATCCG
Found at i:33031752 original size:209 final size:206
Alignment explanation
Indices: 33031473--33031874 Score: 572
Period size: 209 Copynumber: 1.9 Consensus size: 206
33031463 AAACCCCTAG
* *
33031473 CTTCCTGATGAGATATAGAGAAGCGGATCAAAGTAATGAAGCGGTCATCTTCCTGATAAGATACA
1 CTTCCTGATGAGATACAGAGAAGCGGATCAAAGTAATGAAGCAGTCATCTTCCTGATAAGATACA
33031538 GAGAAGTGAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAACTTCAAACCCCTATCTTCCT
66 GAGAAGT-AACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAACTTCAAACCCC-ATCTTCCT
* * * *
33031603 TATGAGATACAAAGAAGCGGGTCAAAGCAATAAAGCATTCATCTTCCTGATAAGATACAGAGAAG
129 GATGAGATACAAAGAAGCGGGT-AAAACAACAAAGCAGTCATCTTCCTGATAAGATACAGAGAAG
33031668 TGAACCAAATCCGT
193 TGAACCAAATCCGT
* * * * *
33031682 CTTCCTGATGAGATACAGAGAAGTGGATTAGA-TCAATGAAGCAGTCATCTTCCTGATGAGATAT
1 CTTCCTGATGAGATACAGAGAAGCGGATCAAAGT-AATGAAGCAGTCATCTTCCTGATAAGATAC
* ** *
33031746 AGAGAAGTAACCAAATCGATGAAGCGGAGCTCAATGTGAGTGAAACTTCAAACCTCATCTTCCTG
65 AGAGAAGTAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAACTTCAAACCCCATCTTCCTG
* * * * * *
33031811 ATGAGATATAGAGAAGTGGGTAAAACAACAAAGCGGTCATCTTCCTGGTGAGATACAGAGAAGT
130 ATGAGATACAAAGAAGCGGGTAAAACAACAAAGCAGTCATCTTCCTGATAAGATACAGAGAAGT
33031875 AGATCGAAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
206 37 0.22
207 26 0.15
208 45 0.26
209 63 0.37
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (206 bp):
CTTCCTGATGAGATACAGAGAAGCGGATCAAAGTAATGAAGCAGTCATCTTCCTGATAAGATACA
GAGAAGTAACCAAATCGATGAAGCGAAAATCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGA
TGAGATACAAAGAAGCGGGTAAAACAACAAAGCAGTCATCTTCCTGATAAGATACAGAGAAGTGA
ACCAAATCCGT
Found at i:33033124 original size:10 final size:11
Alignment explanation
Indices: 33033109--33033138 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
33033099 GGGAAGATCC
33033109 TTTGAGAGAG-
1 TTTGAGAGAGT
33033119 TTTGAGAGAGT
1 TTTGAGAGAGT
33033130 TTTGAGAGA
1 TTTGAGAGA
33033139 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (11 bp):
TTTGAGAGAGT
Found at i:33037958 original size:28 final size:28
Alignment explanation
Indices: 33037909--33037990 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
33037899 AAATGATTTT
33037909 AAAATTATTAAAATTATTTTTTAAAAATAA
1 AAAATTATTAAAATTA--TTTTAAAAATAA
* *
33037939 AAAATTATTAAAATTATTTTATAAATAT
1 AAAATTATTAAAATTATTTTAAAAATAA
* *
33037967 AATATTACTAAAATTATTTTAAAA
1 AAAATTATTAAAATTATTTTAAAA
33037991 TTATAATCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 31 0.66
30 16 0.34
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAATTATTAAAATTATTTTAAAAATAA
Found at i:33038610 original size:30 final size:30
Alignment explanation
Indices: 33038518--33038634 Score: 107
Period size: 30 Copynumber: 4.0 Consensus size: 30
33038508 CAGCACTAAC
* * * *
33038518 CCAAAATCTCCAAAATCAAAAACCCTAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* * **
33038548 -AAAAATCCCCAAA-TCAA-AACTCTTAA-
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* *
33038574 CCAAAATCCCCTAATTCGACAACCCAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
*
33038604 CCAAAATCCCCAAATTCAACAACCTAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
33038634 C
1 C
33038635 TCCAAATTCG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
27 18 0.26
28 7 0.10
29 17 0.24
30 28 0.40
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (30 bp):
CCAAAATCCCCAAATTCAACAACCCAAAAT
Found at i:33041757 original size:27 final size:27
Alignment explanation
Indices: 33041727--33041781 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
33041717 TTTTCGTTTA
*
33041727 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
33041754 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
33041781 A
1 A
33041782 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:33041763 original size:6 final size:6
Alignment explanation
Indices: 33041745--33041821 Score: 90
Period size: 6 Copynumber: 13.2 Consensus size: 6
33041735 TTAAATTGAT
*
33041745 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
*
33041792 TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
33041822 AAAAATTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 43 0.70
8 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:33041763 original size:17 final size:17
Alignment explanation
Indices: 33041745--33041818 Score: 102
Period size: 17 Copynumber: 4.6 Consensus size: 17
33041735 TTAAATTGAT
33041745 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
33041761 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
33041778 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
33041792 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
33041809 TTTAAATTTA
1 TTTAAATTTA
33041819 AATAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:33041775 original size:11 final size:10
Alignment explanation
Indices: 33041735--33041812 Score: 60
Period size: 11 Copynumber: 7.9 Consensus size: 10
33041725 TAATTTAGAG
*
33041735 TTAAATTGATT
1 TTAAATTTA-T
33041746 TTAAATTTAT
1 TTAAATTTAT
33041756 TT-AA---AT
1 TTAAATTTAT
33041762 TTAAATTTATT
1 TTAAATTTA-T
33041773 TTAAATTTAAAT
1 TTAAATTT--AT
33041785 TT-AA-TTAT
1 TTAAATTTAT
33041793 TTAAATTTACT
1 TTAAATTTA-T
33041804 TTAAATTTA
1 TTAAATTTA
33041813 AATTTAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 29 0.52
12 3 0.05
13 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:33041839 original size:31 final size:31
Alignment explanation
Indices: 33041804--33041863 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
33041794 TAAATTTACT
33041804 TTAAATT-TAA-ATTTAAATAAAAATTAAAACA
1 TTAAATTCTAACA-TTAAA-AAAAATTAAAACA
33041835 TTAAATTCTAACATTAAAAAAAATTAAAA
1 TTAAATTCTAACATTAAAAAAAATTAAAA
33041864 GTTCAATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 18 0.67
32 8 0.30
33 1 0.04
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (31 bp):
TTAAATTCTAACATTAAAAAAAATTAAAACA
Found at i:33042650 original size:14 final size:14
Alignment explanation
Indices: 33042628--33042657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33042618 TTATATTATC
33042628 AATAATAATAAATA
1 AATAATAATAAATA
*
33042642 AATATTAATAAATA
1 AATAATAATAAATA
33042656 AA
1 AA
33042658 AAGGGGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:33043651 original size:30 final size:29
Alignment explanation
Indices: 33043615--33043911 Score: 400
Period size: 30 Copynumber: 10.0 Consensus size: 29
33043605 GTAAGTCCCT
33043615 AAACTTTTCCAAAATTACATTTTGACTCCA
1 AAACTTTTCCAAAATTACATTTTGAC-CCA
*
33043645 AAACTTTTCCAAAATTACATTTCGACCCTA
1 AAACTTTTCCAAAATTACATTTTGACCC-A
33043675 AAACTTTTCCAAAATTACATTTTGACCCCA
1 AAACTTTTCCAAAATTACATTTTGA-CCCA
*
33043705 AAACTTTTCCTAAATTACATTTTGACCCTA
1 AAACTTTTCCAAAATTACATTTTGACCC-A
* *
33043735 AAACTTTTCCAAAAATACATTTTGACCTCG
1 AAACTTTTCCAAAATTACATTTTGACC-CA
* *
33043765 AAACTTTACCAAAATTACATTTTGACCCCG
1 AAACTTTTCCAAAATTACATTTTGA-CCCA
*
33043795 AAACTTTTCTAAAATTACATTTTGACCCCA
1 AAACTTTTCCAAAATTACATTTTGA-CCCA
*
33043825 AAACTTTTCCACAATTACATTTTGACCCCA
1 AAACTTTTCCAAAATTACATTTTGA-CCCA
*
33043855 AAACTTTTCCAAAATTATATTTTGACCTCA
1 AAACTTTTCCAAAATTACATTTTGACC-CA
*
33043885 AAAC-TTTCAAAAATTACCATTTT-ACCC
1 AAACTTTTCCAAAATTA-CATTTTGACCC
33043912 CTAAACTTCC
Statistics
Matches: 243, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.00
29 21 0.09
30 215 0.88
31 6 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTGACCCA
Found at i:33043955 original size:59 final size:58
Alignment explanation
Indices: 33043892--33044088 Score: 175
Period size: 59 Copynumber: 3.4 Consensus size: 58
33043882 TCAAAACTTT
* *
33043892 CAAAAATTACCATTTTACCCCTAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCCTAAATTCCATTTTTAACCCCGATTTCAC
* * * * * * * * ** * **
33043951 CAAAACTTATCGTTTTGCCTCCGAA-TTTTCTAAAATTTCATTTTTGACCTTGTTTTTGC
1 CAAAAATTACCATTTTACC-CCAAACTTTCCT-AAATTCCATTTTTAACCCCGATTTCAC
* *
33044010 CAAAATTTACCATTTTATTCCCCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA--CCCCAAACTTTCCTAAATTCCATTTTTAACCCCGATTTCAC
33044068 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
33044089 TACAAACCCA
Statistics
Matches: 103, Mismatches: 30, Indels: 13
0.71 0.21 0.09
Matches are distributed among these distances:
56 4 0.04
58 20 0.19
59 67 0.65
60 6 0.06
61 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.38
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCTAAATTCCATTTTTAACCCCGATTTCAC
Found at i:33044095 original size:59 final size:58
Alignment explanation
Indices: 33043892--33044110 Score: 148
Period size: 59 Copynumber: 3.8 Consensus size: 58
33043882 TCAAAACTTT
* * *
33043892 CAAAAATTACCATTTTACCCCT-AAACTTCCCTAAATCCCATTTTTAACCCCGATTTCA
1 CAAAAATTACCATTTTACCCCTCAAACTTTCC-AAATTCCATTTTTAGCCCCGATTTCA
* * * * * * * * * ** *
33043950 CCAAAACTTATCGTTTTGCCTC-CGAATTTTCTAAAATTTCATTTTT-GACCTTGTTTTTGC-
1 -CAAAAATTACCATTTTACCCCTCAAACTTTC-CAAATTCCATTTTTAG-CCCCG-ATTT-CA
* *
33044010 CAAAATTTACCATTTTATTCCC-CAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA
1 CAAAAATTACCATTTTA-CCCCTCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA
33044068 CAAAAATTACCATTTTACCCCTACAAAC---CCAAATTACCATTTT
1 CAAAAATTACCATTTTACCCCT-CAAACTTTCCAAATT-CCATTTT
33044111 GCCCCCGGGT
Statistics
Matches: 119, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
56 7 0.06
57 11 0.09
58 19 0.16
59 68 0.57
60 13 0.11
61 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA
Found at i:33055939 original size:68 final size:68
Alignment explanation
Indices: 33055826--33056716 Score: 1406
Period size: 68 Copynumber: 12.9 Consensus size: 68
33055816 ACCTTTTCCT
* * * *
33055826 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGGGTAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
33055891 CGTC
65 CGTC
* * *
33055895 ATTCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGTAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33055960 GTC
66 GTC
*
33055963 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056028 GTC
66 GTC
* * *
33056031 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAACCTCTGAAATTGAAGTAAGAGTAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056096 GTC
66 GTC
*
33056099 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056164 GTC
66 GTC
* * *
33056167 ATGCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTAATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056232 GTC
66 GTC
*
33056235 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056300 GTC
66 GTC
*
33056303 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056368 GTC
66 GTC
* * *
33056371 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATTTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
33056436 -GATC
65 CG-TC
* * *
33056440 ATTTCCTATCCTTTAGAAATTGAAGTAAAGTTGGATAACAAGTCTTCATCTCCGAAATTGAAGTA
1 A--TCC---CC-TT-GAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTA
*
33056505 AGAGCAATGTC
58 AGAGCAACGTC
*
33056516 ATCCCCTTGAAATTGAAGTAGAGAGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056581 GTC
66 GTC
* *
33056584 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
33056649 GTC
66 GTC
* *
33056652 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
33056717 GATCATTTCC
Statistics
Matches: 771, Mismatches: 40, Indels: 22
0.93 0.05 0.03
Matches are distributed among these distances:
68 585 0.76
69 117 0.15
70 2 0.00
71 5 0.01
74 4 0.01
75 2 0.00
76 55 0.07
77 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:33056528 original size:31 final size:31
Alignment explanation
Indices: 33056493--33056671 Score: 133
Period size: 31 Copynumber: 5.4 Consensus size: 31
33056483 CTTCATCTCC
*
33056493 GAAATTGAAGTAAGAGCAATGTCATCCCCTT
1 GAAATTGAAGTAAGAGCAACGTCATCCCCTT
* * **
33056524 GAAATTGAAGTAGAGAGGATAACACGTCTTCATCTCT
1 GAAATTGAAGTA-AGA-G--CA-ACGTCATCCCCT-T
33056561 GAAATTGAAGTAAGAGCAACGTCATCCCCTT
1 GAAATTGAAGTAAGAGCAACGTCATCCCCTT
** * ***
33056592 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCT
1 GAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT-T
* *
33056629 AAAATTGAAGTAAGAGCAACGTCATCCTCTT
1 GAAATTGAAGTAAGAGCAACGTCATCCCCTT
33056660 GAAATTGAAGTA
1 GAAATTGAAGTA
33056672 GAGTTGGATA
Statistics
Matches: 114, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
31 37 0.32
32 22 0.19
33 5 0.04
35 5 0.04
36 20 0.18
37 25 0.22
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (31 bp):
GAAATTGAAGTAAGAGCAACGTCATCCCCTT
Found at i:33057081 original size:27 final size:27
Alignment explanation
Indices: 33057051--33057105 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
33057041 TTTTCGTTTA
*
33057051 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
33057078 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
33057105 A
1 A
33057106 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:33057087 original size:6 final size:6
Alignment explanation
Indices: 33057069--33057145 Score: 81
Period size: 6 Copynumber: 13.2 Consensus size: 6
33057059 TTAAATTGAT
*
33057069 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* *
33057116 TTTAAA TTT-AC TTTGAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
33057146 AAAAATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 42 0.70
8 6 0.10
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:33057087 original size:17 final size:17
Alignment explanation
Indices: 33057069--33057142 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
33057059 TTAAATTGAT
33057069 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
33057085 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
33057102 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
*
33057116 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTTAAA
33057133 TTTAAATTTA
1 TTTAAATTTA
33057143 AATAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:33057099 original size:11 final size:10
Alignment explanation
Indices: 33057059--33057136 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
33057049 TAATTTAGAG
*
33057059 TTAAATTGATT
1 TTAAATTTA-T
33057070 TTAAATTTAT
1 TTAAATTTAT
33057080 TT-AA---AT
1 TTAAATTTAT
33057086 TTAAATTTATT
1 TTAAATTTA-T
33057097 TTAAATTTAAAT
1 TTAAATTT--AT
33057109 TT-AA-TTAT
1 TTAAATTTAT
33057117 TTAAATTTACT
1 TTAAATTTA-T
*
33057128 TTGAATTTA
1 TTAAATTTA
33057137 AATTTAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 28 0.51
12 3 0.05
13 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:33057972 original size:14 final size:14
Alignment explanation
Indices: 33057950--33057979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33057940 TTATATTATC
33057950 AATAATAATAAATA
1 AATAATAATAAATA
*
33057964 AATATTAATAAATA
1 AATAATAATAAATA
33057978 AA
1 AA
33057980 AAGGAGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:33058993 original size:30 final size:30
Alignment explanation
Indices: 33058957--33059280 Score: 429
Period size: 30 Copynumber: 10.9 Consensus size: 30
33058947 AAATTGTCCA
* * *
33058957 AAAATTATATTTTAACCCCAATACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
33058987 AAAATTATATTTTGACCCAAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
33059017 GAAATTACATTTTGACCCCAAAATTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
** *
33059047 AAAATTACATTTCAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33059077 AAAATTACATTTTGACCCCAAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
***
33059107 AAAATTACATTTTGACCTTGAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33059137 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33059167 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33059197 AAAATTACATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
33059227 AAAATTATATTTTGACCCCGAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33059256 AAAATTACCA-TTT-ACCCCCAAACTT
1 AAAATTA-CATTTTGACCCCAAAACTT
33059281 CCCTAAATCC
Statistics
Matches: 263, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
28 9 0.03
29 15 0.06
30 239 0.91
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:33059444 original size:28 final size:28
Alignment explanation
Indices: 33058957--33059475 Score: 196
Period size: 30 Copynumber: 17.7 Consensus size: 28
33058947 AAATTGTCCA
*
33058957 AAAATTA-TATTTTAACCCCAATACTTTTCC
1 AAAATTACCATTTT-ACCCCAA-AC-TTTCC
* *
33058987 AAAATTA-TATTTTGACCCAAAAACTTTTCC
1 AAAATTACCATTTT-ACCC-CAAAC-TTTCC
* *
33059017 GAAATTA-CATTTTGACCCCAAAATTTTTCC
1 AAAATTACCATTTT-ACCCC-AAA-CTTTCC
* *
33059047 AAAATTA-CATTTCAACCCTAAAACTTTTCC
1 AAAATTACCATTT-TACCC-CAAAC-TTTCC
33059077 AAAATTA-CATTTTGACCCCAAAACTTTACC
1 AAAATTACCATTTT-ACCCC-AAACTTT-CC
**
33059107 AAAATTA-CATTTTGACCTTGAAACTTTTCC
1 AAAATTACCATTTT-ACC-CCAAAC-TTTCC
*
33059137 AAAATTA-CATTTTGACCCTAAAACTTTTCC
1 AAAATTACCATTTT-ACCC-CAAAC-TTTCC
*
33059167 AAAATTA-CATTTTGACCCTAAAACTTTTCC
1 AAAATTACCATTTT-ACCC-CAAAC-TTTCC
*
33059197 AAAATTA-CATTTTGACCCCAAAACTTTTCT
1 AAAATTACCATTTT-ACCCC-AAAC-TTTCC
* *
33059227 AAAATTA-TATTTTGACCCCGAAACTTTCA
1 AAAATTACCATTTT-ACCCC-AAACTTTCC
*
33059256 AAAATTACCA-TTTACCCCCAAACTTCCC
1 AAAATTACCATTTTA-CCCCAAACTTTCC
* * *
33059284 TAAA-TCCCATTTTTAACCCC-GA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCAAACTTT--CC
* * * * *
33059313 AAAACTTATCGTTTTGCCTCCGAATTTTCC
1 AAAA-TTACCATTTTACC-CCAAACTTTCC
* * ** **
33059343 AAAATT-TCATTTTTAACCTTATTTTTGCC
1 AAAATTACCA-TTTTACCCCAAACTTT-CC
33059372 AAAATTTACCATTTTATTCCCCAAACTTTCC
1 AAAA-TTACCATTTTA--CCCCAAACTTTCC
33059403 -AAATT-CCATTTTTAGCCCC-AA-TTTCAC
1 AAAATTACCA-TTTTA-CCCCAAACTTTC-C
* ***
33059430 AAAATTACCATTTTACCCC-TACAAACC
1 AAAATTACCATTTTACCCCAAACTTTCC
*
33059457 CAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
33059476 CGGGTATCCA
Statistics
Matches: 401, Mismatches: 52, Indels: 75
0.76 0.10 0.14
Matches are distributed among these distances:
26 4 0.01
27 33 0.08
28 38 0.09
29 58 0.14
30 247 0.62
31 12 0.03
32 9 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAACTTTCC
Found at i:33060960 original size:30 final size:28
Alignment explanation
Indices: 33060926--33061003 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 28
33060916 AAATGATTTT
33060926 AAAATTATTAAAATTATTTTTTAAAAATAA
1 AAAATTATTAAAATTATTTTTT--AAATAA
*
33060956 AAAATTATTAAAATTATTTTTTAAATAT
1 AAAATTATTAAAATTATTTTTTAAATAA
* *
33060984 AATATTACTAAAATTATTTT
1 AAAATTATTAAAATTATTTT
33061004 AAAATTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 23 0.51
30 22 0.49
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAATTATTAAAATTATTTTTTAAATAA
Found at i:33061012 original size:28 final size:28
Alignment explanation
Indices: 33060929--33061014 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
33060919 TGATTTTAAA
* *
33060929 ATTATTAAAATTATTTTTTAAAAATAAAAA
1 ATTATTAAAATTA-TTTTT-AAAATATAAT
*
33060959 ATTATTAAAATTATTTTTTAAATATAAT
1 ATTATTAAAATTATTTTTAAAATATAAT
*
33060987 ATTACTAAAATTA-TTTTAAAATTATAAT
1 ATTATTAAAATTATTTTTAAAA-TATAAT
33061015 CATCATCATC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 7 0.14
28 25 0.50
29 5 0.10
30 13 0.26
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATTAAAATTATTTTTAAAATATAAT
Found at i:33061642 original size:30 final size:30
Alignment explanation
Indices: 33061550--33061666 Score: 98
Period size: 30 Copynumber: 4.0 Consensus size: 30
33061540 CAGCACTAAC
* * * *
33061550 CCAAAATCTCCAAAATCAAAAACCCTAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* * **
33061580 -AAAAATCCCCAAA-TCAA-AACTCTTAA-
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
* * *
33061606 CCAAAATCCCCTAATTCGACCACCCAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
*
33061636 CCAAAATCCCCAAATTCAACAACCTAAAAT
1 CCAAAATCCCCAAATTCAACAACCCAAAAT
33061666 C
1 C
33061667 TCCAAATTCG
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
27 18 0.26
28 7 0.10
29 16 0.24
30 27 0.40
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (30 bp):
CCAAAATCCCCAAATTCAACAACCCAAAAT
Found at i:33068200 original size:11 final size:11
Alignment explanation
Indices: 33068181--33068287 Score: 76
Period size: 11 Copynumber: 10.6 Consensus size: 11
33068171 CCATGTCAGC
*
33068181 AAATGATTTTA
1 AAATTATTTTA
33068192 AAATTATTTTA
1 AAATTATTTTA
33068203 AAATTATTTTTTA
1 AAATTA--TTTTA
*
33068216 AAA--A-TATA
1 AAATTATTTTA
33068224 AAATTA--TTA
1 AAATTATTTTA
33068233 AAATTATTTT-
1 AAATTATTTTA
* *
33068243 AAGTTTTTTTA
1 AAATTATTTTA
33068254 AAA-TA---TA
1 AAATTATTTTA
33068261 AAATTA--TTA
1 AAATTATTTTA
33068270 AAATTATTTTA
1 AAATTATTTTA
33068281 AAATTAT
1 AAATTAT
33068288 AATCATCATC
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
7 5 0.06
8 8 0.10
9 16 0.21
10 10 0.13
11 31 0.40
13 8 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:33068259 original size:37 final size:39
Alignment explanation
Indices: 33068189--33068281 Score: 145
Period size: 37 Copynumber: 2.4 Consensus size: 39
33068179 GCAAATGATT
*
33068189 TTAAAATTATTTTAAAATTATTTTTTAAAAATATAAAATTA
1 TTAAAATTATTTT--AAGTATTTTTTAAAAATATAAAATTA
33068230 TTAAAATTATTTTAAGT-TTTTTT-AAAATATAAAATTA
1 TTAAAATTATTTTAAGTATTTTTTAAAAATATAAAATTA
33068267 TTAAAATTATTTTAA
1 TTAAAATTATTTTAA
33068282 AATTATAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
37 29 0.57
38 6 0.12
39 3 0.06
41 13 0.25
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (39 bp):
TTAAAATTATTTTAAGTATTTTTTAAAAATATAAAATTA
Found at i:33068907 original size:23 final size:24
Alignment explanation
Indices: 33068881--33068930 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
33068871 ACTTTTACCC
33068881 AAAATCCCCAAATTCAACAACC-T
1 AAAATCCCCAAATTCAACAACCAT
* *
33068904 AAAATCTCCAAATTCGACAACCAT
1 AAAATCCCCAAATTCAACAACCAT
33068928 AAA
1 AAA
33068931 CAATTCATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATCCCCAAATTCAACAACCAT
Found at i:33069906 original size:47 final size:47
Alignment explanation
Indices: 33069825--33069916 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
33069815 CGATTAACCA
* * * * * *
33069825 CCCATTTAGAATTAGAATTGATAAGATAAGTGTGTCAAATTTCAAAG
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
33069872 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAA
1 CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAA
33069917 TGCAATTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (47 bp):
CCCAATTAGAAGTAAAATAGATAAGACAAATGTGTCAAATTTCAAAG
Found at i:33078268 original size:5 final size:5
Alignment explanation
Indices: 33078258--33078289 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
33078248 AAGTTTACTT
33078258 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TT
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TT
33078290 TTGTTTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTCTC
Found at i:33087400 original size:14 final size:13
Alignment explanation
Indices: 33087381--33087410 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
33087371 GCCTCTTTTG
33087381 TCTTTCGTTCTTCT
1 TCTTTCGTT-TTCT
33087395 TCTTTCGTTTTCT
1 TCTTTCGTTTTCT
33087408 TCT
1 TCT
33087411 CAAGCTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.27, G:0.07, T:0.67
Consensus pattern (13 bp):
TCTTTCGTTTTCT
Found at i:33088602 original size:135 final size:132
Alignment explanation
Indices: 33088354--33088623 Score: 378
Period size: 135 Copynumber: 2.0 Consensus size: 132
33088344 CTCCAAGAAA
* * * * *
33088354 TGCACGGTTTGTTTCCTCACCAAAGCAACTACTGCTAATTTTAAGGTGACTACTATCACCGTTTT
1 TGCACAGTTTGCTTCCTCACCAAAGCAACTACTGCTAACTTTAACGTGACTACTATCACCATTTT
* * *
33088419 CAGGAAAAGTGCTTCTCGGATCCATGCATTCTAGAAGTCCATTAGGAACAGACTGGCAAAGACTA
66 CAGGAAAAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGACTGGCAAAGACCA
33088484 GT
131 GT
* *
33088486 TGCACAGTTTGCTTCCTCACCAAAGCAACTACTGCTAACTTTAACGTGACTTTTTCTATCATCAT
1 TGCACAGTTTGCTTCCTCACCAAAGCAACTACTGCTAACTTTAACGTGAC---TACTATCACCAT
* * * * *
33088551 TTTTAGGAAGAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCTTTAGGAACAGATTGGTAAAGA
63 TTTCAGGAAAAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGACTGGCAAAGA
33088616 CCAGT
128 CCAGT
33088621 TGC
1 TGC
33088624 TTGGTGCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
132 46 0.38
135 74 0.62
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
TGCACAGTTTGCTTCCTCACCAAAGCAACTACTGCTAACTTTAACGTGACTACTATCACCATTTT
CAGGAAAAGTGCTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGACTGGCAAAGACCA
GT
Found at i:33095053 original size:20 final size:21
Alignment explanation
Indices: 33095025--33095077 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
33095015 TTAAAAATTT
*
33095025 ATAACTTTTTAAT-ACTTTTA
1 ATAATTTTTTAATAACTTTTA
*
33095045 ATAATTTTTTTATAACTTTTA
1 ATAATTTTTTAATAACTTTTA
*
33095066 AAATATTTTTTA
1 ATA-ATTTTTTA
33095078 TGGTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 9 0.33
22 7 0.26
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
ATAATTTTTTAATAACTTTTA
Found at i:33095056 original size:21 final size:22
Alignment explanation
Indices: 33095030--33095077 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
33095020 AATTTATAAC
33095030 TTTTTAAT-ACTTTTAATAAT-T
1 TTTTTAATAACTTTTAA-AATAT
33095051 TTTTT-ATAACTTTTAAAATAT
1 TTTTTAATAACTTTTAAAATAT
33095072 TTTTTA
1 TTTTTA
33095078 TGGTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTAATAACTTTTAAAATAT
Found at i:33095078 original size:21 final size:20
Alignment explanation
Indices: 33095025--33095078 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
33095015 TTAAAAATTT
* *
33095025 ATAACTTTTTAATACTTTTA
1 ATAATTTTTTTATACTTTTA
33095045 ATAATTTTTTTATAACTTTTA
1 ATAATTTTTTTAT-ACTTTTA
33095066 A-AATATTTTTTAT
1 ATAAT-TTTTTTAT
33095079 GGTTTTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAATTTTTTTATACTTTTA
Found at i:33095120 original size:21 final size:19
Alignment explanation
Indices: 33095094--33095135 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
33095084 TTTACCATTT
33095094 TAACTTTTATATAATTTTCTA
1 TAACTTTT-TATAATTTT-TA
*
33095115 TAACTTTTTATTATTTTTA
1 TAACTTTTTATAATTTTTA
33095134 TA
1 TA
33095136 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 8 0.40
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TAACTTTTTATAATTTTTA
Found at i:33095212 original size:17 final size:17
Alignment explanation
Indices: 33095148--33095231 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
33095138 TAAAAAAATC
* *
33095148 TATAATCTTTAATGTTT
1 TATAATATTTAATATTT
*
33095165 TATAATATTTTCATATTT
1 TATAATA-TTTAATATTT
**
33095183 T-TCACA-ACATAATATTT
1 TAT-A-ATATTTAATATTT
33095200 TATAATATTTAATACTTT
1 TATAATATTTAATA-TTT
33095218 CTATAAT-TTTAATA
1 -TATAATATTTAATA
33095232 ATATTTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
16 1 0.02
17 22 0.42
18 22 0.42
19 7 0.13
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.54
Consensus pattern (17 bp):
TATAATATTTAATATTT
Found at i:33097685 original size:23 final size:22
Alignment explanation
Indices: 33097643--33097685 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
33097633 TTCAAATTTC
*
33097643 ATTCCAGTTTTTCTTCTTCACT
1 ATTCCAGTTTTTCTCCTTCACT
33097665 ATTCCA-TATTTTCTCCATTCA
1 ATTCCAGT-TTTTCTCC-TTCA
33097686 ACCATCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 1 0.06
22 13 0.72
23 4 0.22
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTCCAGTTTTTCTCCTTCACT
Found at i:33099736 original size:27 final size:27
Alignment explanation
Indices: 33099698--33099760 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
33099688 TTTATACTGT
* *
33099698 TTAAGTAA-TTTTAAATTTTTAAAAAA
1 TTAATTAATTTTTAAATTTTAAAAAAA
33099724 TTAATTAATTTTTAAATTTTAAAAAAA
1 TTAATTAATTTTTAAATTTTAAAAAAA
33099751 TTAATTAATT
1 TTAATTAATT
33099761 GTTGATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TTAATTAATTTTTAAATTTTAAAAAAA
Found at i:33101170 original size:14 final size:14
Alignment explanation
Indices: 33101142--33101180 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
33101132 ATAGAATTGA
*
33101142 AGAAGAAATAAAAAA
1 AGAAGAAA-AAAAAG
33101157 ACGAAGAAAAAAAAG
1 A-GAAGAAAAAAAAG
33101172 AGAAGAAAA
1 AGAAGAAAA
33101181 GTGAGCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 7 0.32
16 7 0.32
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (14 bp):
AGAAGAAAAAAAAG
Found at i:33108753 original size:21 final size:21
Alignment explanation
Indices: 33108724--33108763 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33108714 TAATCGATGT
33108724 TTATAAATTT-ATTATTTTTAA
1 TTATAAATTTAATT-TTTTTAA
*
33108745 TTATTAATTTAATTTTTTT
1 TTATAAATTTAATTTTTTT
33108764 GTTGAGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATAAATTTAATTTTTTTAA
Found at i:33115691 original size:20 final size:19
Alignment explanation
Indices: 33115639--33115697 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
33115629 CTATTTAAAT
*
33115639 AAAAAAATATTATAATATTA
1 AAAAAAATA-TAAAATATTA
* * *
33115659 TAATAAATTTAAAATATTA
1 AAAAAAATATAAAATATTA
33115678 GAAAAAAATATAAAATATTA
1 -AAAAAAATATAAAATATTA
33115698 TTAATATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAAAATATAAAATATTA
Found at i:33115714 original size:20 final size:18
Alignment explanation
Indices: 33115647--33115715 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
33115637 ATAAAAAAAT
*
33115647 ATTATAATATTATAATAA
1 ATTAAAATATTATAATAA
* *
33115665 ATTTAAAATATTAGAAAAAA
1 A-TTAAAATATTA-TAATAA
*
33115685 ATATAAAATATTATTAATAT
1 AT-TAAAATATTA-TAATAA
33115705 ATTAATAATAT
1 ATTAA-AATAT
33115716 AACATGAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 1 0.03
19 14 0.35
20 25 0.62
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
ATTAAAATATTATAATAA
Found at i:33116027 original size:24 final size:23
Alignment explanation
Indices: 33115978--33116032 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
33115968 AATGTTCATA
** *
33115978 AACATGTTCATTTAATTTAATCG
1 AACATGTTCATGAAATATAATCG
*
33116001 AACATGTTCATGAACATATAATTG
1 AACATGTTCATGAA-ATATAATCG
33116025 AACATGTT
1 AACATGTT
33116033 TACGAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
AACATGTTCATGAAATATAATCG
Found at i:33116039 original size:24 final size:24
Alignment explanation
Indices: 33115995--33116040 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33115985 TCATTTAATT
*
33115995 TAATCGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACATA
* *
33116019 TAATTGAACATGTTTACGAACA
1 TAATCGAACATGTTCACGAACA
33116041 ATATTAGTGG
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:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:33116866 original size:17 final size:17
Alignment explanation
Indices: 33116840--33116873 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33116830 ATTTACATTT
33116840 TAAATTATAATT-TTAA
1 TAAATTATAATTATTAA
33116856 TAAATTTATAATTATTAA
1 TAAA-TTATAATTATTAA
33116874 AAGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTATAATTATTAA
Found at i:33116970 original size:12 final size:12
Alignment explanation
Indices: 33116953--33117075 Score: 51
Period size: 12 Copynumber: 10.1 Consensus size: 12
33116943 TTATATTTTT
33116953 TATTTAATTAAA
1 TATTTAATTAAA
*
33116965 TATTTAACTAAA
1 TATTTAATTAAA
33116977 T-TTTAA--AAA
1 TATTTAATTAAA
*
33116986 TAATTTTA-TAGGTAA
1 T-ATTTAATTA---AA
*
33117001 TATTTAAATAAA
1 TATTTAATTAAA
*
33117013 TATTTATGTTAAA
1 TATTTA-ATTAAA
* * *
33117026 TAAAATGAA-TATAT
1 T--ATTTAATTA-AA
33117040 TATTTAATT-AA
1 TATTTAATTAAA
*
33117051 TTTTTAATTAAA
1 TATTTAATTAAA
*
33117063 TATTTATTTAAA
1 TATTTAATTAAA
33117075 T
1 T
33117076 TTAAAATATT
Statistics
Matches: 83, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
9 4 0.05
11 18 0.22
12 38 0.46
13 8 0.10
14 7 0.08
15 8 0.10
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTTAATTAAA
Found at i:33117027 original size:25 final size:25
Alignment explanation
Indices: 33116953--33117027 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
33116943 TTATATTTTT
* *
33116953 TATTTAATTAAATATTTA-ACTAAA
1 TATTTAAATAAATATTTATGCTAAA
* *
33116977 T-TTTAAAAATAAT-TTTATAGGT-AA
1 TATTTAAATA-AATATTTAT-GCTAAA
*
33117001 TATTTAAATAAATATTTATGTTAAA
1 TATTTAAATAAATATTTATGCTAAA
33117026 TA
1 TA
33117028 AAATGAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
23 10 0.26
24 12 0.31
25 17 0.44
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (25 bp):
TATTTAAATAAATATTTATGCTAAA
Found at i:33130421 original size:29 final size:30
Alignment explanation
Indices: 33130354--33130421 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
33130344 AATATTAAAA
*
33130354 TTATATAAGAATTTTGATTTAATGTGTAGTG
1 TTATATATGAATTTTGATTT-ATGTGTAGTG
* * *
33130385 TTACATATGAATTTTGATTT-TGTGTGGTT
1 TTATATATGAATTTTGATTTATGTGTAGTG
33130414 TTATATAT
1 TTATATAT
33130422 AAAATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
31 18 0.56
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.53
Consensus pattern (30 bp):
TTATATATGAATTTTGATTTATGTGTAGTG
Found at i:33138242 original size:11 final size:11
Alignment explanation
Indices: 33138226--33138268 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
33138216 TGCTCTTATT
33138226 AAAAATTTAAA
1 AAAAATTTAAA
33138237 AAAAATTATAAAA
1 AAAAATT-T-AAA
*
33138250 AATAAATTTTAA
1 AA-AAATTTAAA
33138262 AAAAATT
1 AAAAATT
33138269 ATTAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 12 0.43
12 5 0.18
13 6 0.21
14 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:33138256 original size:14 final size:13
Alignment explanation
Indices: 33138226--33138266 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
33138216 TGCTCTTATT
33138226 AAAAATT-T-AAA
1 AAAAATTATAAAA
33138237 AAAAATTATAAAA
1 AAAAATTATAAAA
*
33138250 AATAAATTTTAAAA
1 AA-AAATTATAAAA
33138264 AAA
1 AAA
33138267 TTATTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 7 0.27
12 1 0.04
13 6 0.23
14 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:33138504 original size:21 final size:20
Alignment explanation
Indices: 33138475--33138514 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33138465 TGTGCAAAAA
*
33138475 ATAATAAAAATCAATAAAATT
1 ATAAAAAAAAT-AATAAAATT
*
33138496 ATAAAAAAAATTATAAAAT
1 ATAAAAAAAATAATAAAAT
33138515 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAAAAATAATAAAATT
Found at i:33138538 original size:19 final size:18
Alignment explanation
Indices: 33138516--33138576 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
33138506 TTATAAAATA
33138516 TTTAAATTTTTATAAATTT
1 TTTAAATTTTTAT-AATTT
33138535 TTTACGAA-TTTTAT-ATTT
1 TTTA--AATTTTTATAATTT
*
33138553 CTTTATATTTTGTATAATTT
1 -TTTAAATTTT-TATAATTT
33138573 TTTA
1 TTTA
33138577 CGACTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
17 1 0.03
18 7 0.20
19 15 0.43
20 10 0.29
21 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAAATTTTTATAATTT
Found at i:33138601 original size:38 final size:39
Alignment explanation
Indices: 33138506--33138612 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
33138496 ATAAAAAAAA
33138506 TTATAAAATATTTA-AATTTTTATAAATTTTTTACGAATT
1 TTATAAAA-ATTTATAATTTTTATAAATTTTTTACGAATT
**** *
33138545 TTATATTTCTTTAT-ATTTTGTAT-AATTTTTTACGACTT
1 TTATAAAAATTTATAATTTT-TATAAATTTTTTACGAATT
* *
33138583 TT-TAAAAATTTATAATTTTTTTATATTTTT
1 TTATAAAAATTTATAATTTTTATAAATTTTT
33138613 ATATATTATA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
37 9 0.17
38 36 0.68
39 8 0.15
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (39 bp):
TTATAAAAATTTATAATTTTTATAAATTTTTTACGAATT
Found at i:33138702 original size:10 final size:10
Alignment explanation
Indices: 33138591--33138709 Score: 65
Period size: 9 Copynumber: 12.4 Consensus size: 10
33138581 TTTTTAAAAA
33138591 TTTATA-ATT
1 TTTATATATT
*
33138600 TTTTTATATT
1 TTTATATATT
33138610 TTTATATATT
1 TTTATATATT
*
33138620 ATATATATACTT
1 -TTTATATA-TT
*
33138632 TTTCTA-ATT
1 TTTATATATT
* *
33138641 TTTATTAAAAT
1 TTTA-TATATT
* *
33138652 TTAATA-ATA
1 TTTATATATT
*
33138661 TTTATA-ACT
1 TTTATATATT
*
33138670 TTTATTTA-T
1 TTTATATATT
33138679 TTTA-AT-TT
1 TTTATATATT
*
33138687 TCTATATATT
1 TTTATATATT
33138697 TTTATAT-TT
1 TTTATATATT
33138706 TTTA
1 TTTA
33138710 ATAAAAATAG
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
8 5 0.06
9 35 0.42
10 26 0.31
11 16 0.19
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATATATT
Found at i:33138869 original size:87 final size:83
Alignment explanation
Indices: 33138733--33138928 Score: 216
Period size: 87 Copynumber: 2.3 Consensus size: 83
33138723 CTTAATTGCA
* * * * *
33138733 TTTTTTGAAAAAAATT-GAAATTTTTTTGATGCATTTTAAAAGTTCAAGTA-TCCAATTAAATGT
1 TTTTTTGAAAAAAATTAAAAACTTTTTTAATGCATTTTAAAAATTCAAGTACT-CAAATAAATG-
33138796 AAAAAAATAAAAACATAATTACT
64 AAAAAAA-AAAAA-A-AATTACT
* * * * *
33138819 TTTTTTGAAAAAATTTAAAAACTTTTTTAATGTATTTTAAAAATTTAAGTACTCAAATATATGCA
1 TTTTTTGAAAAAAATTAAAAACTTTTTTAATGCATTTTAAAAATTCAAGTACTCAAATAAATGAA
*
33138884 AAAAAAAAAAAACTTACT
66 AAAAAAAAAAAAATTACT
* *
33138902 TTTTTTAAAAAAAATTAAAAGCTTTTT
1 TTTTTTGAAAAAAATTAAAAACTTTTT
33138929 ACACCCTTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
83 30 0.32
84 1 0.01
85 5 0.05
86 21 0.22
87 36 0.38
88 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (83 bp):
TTTTTTGAAAAAAATTAAAAACTTTTTTAATGCATTTTAAAAATTCAAGTACTCAAATAAATGAA
AAAAAAAAAAAAATTACT
Found at i:33140183 original size:2 final size:2
Alignment explanation
Indices: 33140176--33140204 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33140166 TATGGGATAT
33140176 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33140205 TGTTTTCCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33142389 original size:41 final size:42
Alignment explanation
Indices: 33142331--33142441 Score: 142
Period size: 41 Copynumber: 2.7 Consensus size: 42
33142321 GAACTGAAAT
33142331 TATTATAATATTATTTATA-TAATTATTTAAAAGATATTTAAA
1 TATTATAATATTATTTATATTAATTATTTAAAA-ATATTTAAA
*
33142373 TATTA-AA-ATTACTTTATATTAATTATTTACAAATATTTAAA
1 TATTATAATATTA-TTTATATTAATTATTTAAAAATATTTAAA
*
33142414 TATTATATTA-TA-TTATATTAATTTATTT
1 TATTATAATATTATTTATATTAA-TTATTT
33142442 TTAGTTTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 11
0.83 0.03 0.15
Matches are distributed among these distances:
40 13 0.21
41 28 0.45
42 20 0.32
43 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (42 bp):
TATTATAATATTATTTATATTAATTATTTAAAAATATTTAAA
Found at i:33145810 original size:90 final size:91
Alignment explanation
Indices: 33145692--33145885 Score: 221
Period size: 90 Copynumber: 2.1 Consensus size: 91
33145682 TTAAAAAATA
* ***
33145692 TTAGGTAGCAAATTAGGAAAAACAGTCAAGTTT-AGGTACCAAATTGGACCCCAAAAAG-TTTAA
1 TTAGGTACCAAATTAGGAAAAACAGTCAAGTTTGA-GTACCAAATTGGACAAAAAAAAGTTTTAA
* *
33145755 ATACCAACTTAAAAAAAAGTGTTAAGT
65 ATACCAAATTAAAAAAAAGTGTCAAGT
* ** * *
33145782 TTAGGTACCAAATTAGGAAGAAGTGTCAAGTTTGAGTATCAAATTGGACAAAAAAAAGTTTTAAG
1 TTAGGTACCAAATTAGGAAAAACAGTCAAGTTTGAGTACCAAATTGGACAAAAAAAAGTTTTAAA
* **
33145847 TATCAAATTAGGAAAAAGTGTCAAGT
66 TACCAAATTAAAAAAAAGTGTCAAGT
* *
33145873 TCAAGTACCAAAT
1 TTAGGTACCAAAT
33145886 AATATATTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
90 48 0.56
91 38 0.44
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (91 bp):
TTAGGTACCAAATTAGGAAAAACAGTCAAGTTTGAGTACCAAATTGGACAAAAAAAAGTTTTAAA
TACCAAATTAAAAAAAAGTGTCAAGT
Found at i:33145885 original size:31 final size:31
Alignment explanation
Indices: 33145747--33145885 Score: 115
Period size: 31 Copynumber: 4.5 Consensus size: 31
33145737 GGACCCCAAA
* * ** *
33145747 AAGTTTAAATACCAACTTAAAAAAAAGTGTT
1 AAGTTTAAGTACCAAATTAGGAAAAAGTGTC
* *
33145778 AAGTTTAGGTACCAAATTAGGAAGAAGTGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAGTGTC
* * **
33145809 AAGTTTGAGTATCAAATT-GGACAAAA---AA
1 AAGTTTAAGTACCAAATTAGGA-AAAAGTGTC
*
33145837 AAGTTTTAAGTATCAAATTAGGAAAAAGTGTC
1 AAG-TTTAAGTACCAAATTAGGAAAAAGTGTC
*
33145869 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
33145886 AATATATTAA
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
28 3 0.04
29 18 0.21
30 6 0.07
31 54 0.64
32 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.27
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGGAAAAAGTGTC
Found at i:33149085 original size:23 final size:22
Alignment explanation
Indices: 33149042--33149085 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33149032 AATATATTTT
33149042 TTTATTTTATTGTATAGGAAAGA
1 TTTATTTTATTGTATA-GAAAGA
33149065 TTTATTTATATTAGTAT-GAAA
1 TTTATTT-TATT-GTATAGAAA
33149086 TCAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
24 4 0.21
25 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTATTTTATTGTATAGAAAGA
Found at i:33153032 original size:28 final size:28
Alignment explanation
Indices: 33152973--33153032 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
33152963 AACCCTTTTT
* * * ***
33152973 TTTAATTAATTACGTAAGTAACTTATTT
1 TTTAATTAAATACGAAAGTAACCTAAAA
33153001 TTTAATTAAATACGAAAGTAACCTAAAA
1 TTTAATTAAATACGAAAGTAACCTAAAA
33153029 TTTA
1 TTTA
33153033 CAGTAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (28 bp):
TTTAATTAAATACGAAAGTAACCTAAAA
Found at i:33153278 original size:13 final size:13
Alignment explanation
Indices: 33153260--33153314 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
33153250 GCTTTTTCTT
33153260 TTTTATTATTTAA
1 TTTTATTATTTAA
33153273 TTTTATTA-TTATA
1 TTTTATTATTTA-A
* **
33153286 TTTTATAATAAAA
1 TTTTATTATTTAA
*
33153299 TATTATTATTT-A
1 TTTTATTATTTAA
33153311 TTTT
1 TTTT
33153315 TTAAACTCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
12 7 0.22
13 24 0.75
14 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:33153579 original size:18 final size:18
Alignment explanation
Indices: 33153531--33153582 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
33153521 ACCAAAAATA
* *
33153531 AAATATATATTTAAATTT
1 AAATATATATTTTATTTT
33153549 AAATATATATTTTATTTT
1 AAATATATATTTTATTTT
33153567 AAATATATATTTTATT
1 AAATATATATTTTATT
33153583 CTTGATGGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATATATTTTATTTT
Found at i:33153815 original size:11 final size:11
Alignment explanation
Indices: 33153756--33153818 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
33153746 TTTTTAAAAT
33153756 TTTA-AATTTA
1 TTTATAATTTA
33153766 TTTATAATTTA
1 TTTATAATTTA
*
33153777 ---AAAATATTA
1 TTTATAAT-TTA
33153786 TTT-TAAATTTA
1 TTTAT-AATTTA
*
33153797 TTTCTAATTTA
1 TTTATAATTTA
33153808 TTTATAATTTA
1 TTTATAATTTA
33153819 AAAATATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 4 0.09
11 28 0.65
12 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATAATTTA
Found at i:33154271 original size:26 final size:28
Alignment explanation
Indices: 33154206--33154273 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 28
33154196 CTGTATATTT
33154206 TAAGTTATTTTTATATTTAATTAAAAAAA
1 TAAGTTA-TTTTATATTTAATTAAAAAAA
* *
33154235 TAAATTA-TTTA-A-TTAATTTAAAAAA
1 TAAGTTATTTTATATTTAATTAAAAAAA
33154260 -AAGTTACTTTTATA
1 TAAGTTA-TTTTATA
33154274 AAAAAGCCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 5 0.15
25 12 0.36
26 5 0.15
27 5 0.15
29 6 0.18
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
TAAGTTATTTTATATTTAATTAAAAAAA
Found at i:33154599 original size:73 final size:73
Alignment explanation
Indices: 33154481--33154634 Score: 283
Period size: 73 Copynumber: 2.1 Consensus size: 73
33154471 TAATATACTT
33154481 TTTTTTTTGAAAAACCCATCTACAAAAAGTCTTACTATCTTAAATAATTTTGAAATCAGCCTAAA
1 TTTTTTTTGAAAAACCCATCTACAAAAAGTCTTACTATCTTAAATAATTTTGAAATCAGCCTAAA
*
33154546 TTTCAAA-
66 ATTCAAAC
33154553 TTTTTTTTGAAAAACCCATCCTACAAAAAGTCTTACTATCTTAAATAATTTTGAAATCAGCCTAA
1 TTTTTTTTGAAAAACCCAT-CTACAAAAAGTCTTACTATCTTAAATAATTTTGAAATCAGCCTAA
33154618 AATTCAAAC
65 AATTCAAAC
33154627 TTTTTTTT
1 TTTTTTTT
33154635 TCTAAAATTA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
72 19 0.24
73 52 0.66
74 8 0.10
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (73 bp):
TTTTTTTTGAAAAACCCATCTACAAAAAGTCTTACTATCTTAAATAATTTTGAAATCAGCCTAAA
ATTCAAAC
Found at i:33156931 original size:30 final size:30
Alignment explanation
Indices: 33156861--33157485 Score: 754
Period size: 30 Copynumber: 20.9 Consensus size: 30
33156851 GGATTTAGGG
* *
33156861 AAGTTTGGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * * * *
33156890 AAGCTTCGGGGTTAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33156920 AATTTTTGGGGTCAAAATGTAATTTTGGAG
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
33156950 AAGTCTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33156980 AAGTTTTAGGGTTAAAATGTAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33157010 AAGTTTTGGGGTCAAAATGCAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33157040 AAGTTTTGAGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
33157070 AAGTTTTGGGGTCAAAATCTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33157100 AAGTTTTGGGGTTAAAATGTAATTTAGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * *
33157130 AAGTTTCGAGGTTAAAATGTAATTTTGGTA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
** *
33157160 AAGTTTCAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
33157190 AAGTCTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33157220 AAGTTTTAGGGTTAAAATGTAATTTTAGG-A
1 AAGTTTTGGGGTCAAAATGTAATTTT-GGAA
*
33157250 AAGTTTCGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33157280 AAGTTTTGGGGTCAAAATGCAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33157310 AAGTTTTGGGGCCAAAATGCAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
33157340 AAGTTTTAGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33157370 AAGTTTTGAGGTCAAAATGTAATTTAGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33157400 AAGTTTCGAGGTCAAAATATAATTTTGGTAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGG-AA
** *
33157431 AA-TTTCAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33157460 AAGGTTTGGGGTCAAAAGGTAATTTT
1 AAGTTTTGGGGTCAAAATGTAATTTT
33157486 TTGGACAATT
Statistics
Matches: 512, Mismatches: 78, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
29 24 0.05
30 483 0.94
31 5 0.01
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:33159540 original size:6 final size:6
Alignment explanation
Indices: 33159513--33159591 Score: 83
Period size: 6 Copynumber: 13.2 Consensus size: 6
33159503 ATGTTTAGTG
* * *
33159513 TTTAAA TTTTAA TTTTAA TTTAAA TTTAAA -GTAAA TTTAAA TAATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
33159562 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA T
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
33159592 CAATTTAACT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
4 1 0.02
5 7 0.11
6 48 0.76
7 1 0.02
8 6 0.10
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:33159549 original size:17 final size:16
Alignment explanation
Indices: 33159529--33159599 Score: 83
Period size: 17 Copynumber: 4.4 Consensus size: 16
33159519 TTTTAATTTT
33159529 AATTTAAATTTAAAGTA
1 AATTTAAATTT-AAGTA
*
33159546 AATTTAAA--TAATTA
1 AATTTAAATTTAAGTA
33159560 AATTTAAATTTAAGATA
1 AATTTAAATTTAAG-TA
* *
33159577 AATTTAAATTTAAATC
1 AATTTAAATTTAAGTA
33159593 AATTTAA
1 AATTTAA
33159600 CTCTAAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.26
15 1 0.02
16 11 0.23
17 23 0.49
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAGTA
Found at i:33159606 original size:16 final size:16
Alignment explanation
Indices: 33159529--33159607 Score: 54
Period size: 17 Copynumber: 4.9 Consensus size: 16
33159519 TTTTAATTTT
* *
33159529 AATTTAAATTTAAAGTA
1 AATTTAAATCTAAA-TC
* *
33159546 AATTTAAA--TAATTA
1 AATTTAAATCTAAATC
* *
33159560 AATTTAAATTTAAGATA
1 AATTTAAATCTAA-ATC
*
33159577 AATTTAAATTTAAATC
1 AATTTAAATCTAAATC
*
33159593 AATTTAACTCTAAAT
1 AATTTAAATCTAAAT
33159608 TAAAACCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 18 0.33
17 23 0.43
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTTAAATCTAAATC
Found at i:33160190 original size:137 final size:137
Alignment explanation
Indices: 33159944--33160694 Score: 1200
Period size: 137 Copynumber: 5.5 Consensus size: 137
33159934 GGAAATGATC
* *
33159944 TTGCTCTTACTTCAATTTCAGAGATAAAG-GTGTGTTATCCAACTCTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGA
** * *
33160008 TGACGTTGCTCTTACTTCAATTTCAGAGATGTAGTCGTGTTATCCACTCTACTTCAACTTCAAGG
65 TGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
33160073 GGATGACA
130 GGATGACA
*
33160081 TTGCTCTTACTTTAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
*
33160146 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAACTTCAAGGG
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
33160211 GATGACA
131 GATGACA
*
33160218 TTGCTCTTACTTTAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
33160283 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
33160348 GATGACA
131 GATGACA
* *
33160355 TTGCTCTTACTTCAATTTTAGAGATAGAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* * *
33160420 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGA
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGG
*
33160485 GGATGACG
130 GGATGACA
** * * *
33160493 TTGCTCTTACTTCAATTTCAGAGATGTAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* * *
33160558 GACGTCGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCG
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
*
33160623 GATTGGCA
131 GA-TGACA
* * * * *
33160631 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTAAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
33160695 TAGCATTGAT
Statistics
Matches: 582, Mismatches: 29, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
137 414 0.71
138 168 0.29
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (137 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
GATGACA
Found at i:33160265 original size:206 final size:206
Alignment explanation
Indices: 33159887--33160694 Score: 1138
Period size: 206 Copynumber: 3.9 Consensus size: 206
33159877 GCTCTTCAGG
* *
33159887 GAGATAAAGACTTTGTTATCCAACTTTACTTCAATTTCTAGAGGATAGGAAATGATC-TTGCTCT
1 GAGATAAAGAC-GTGTTATCCAACTCTACTTCAATTTC-A-A-G--AGG--ATGA-CGTTGCTCT
** *
33159951 TACTTCAATTTCAGAGATAAAGGTGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
57 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACATTG
** * * * * *
33160016 CTCTTACTTCAATTTCAGAGATGTAGTCGTGTTATCCACTCTACTTCAACTTCAAGGGGATGACA
122 CTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAAGAGGATGACG
*
33160081 TTGCTCTTACTTTAATTTCA
187 TTGCTCTTACTTCAATTTCA
* *
33160101 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* *
33160166 TTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAACTTCAAGGGGATGACATTGCTCTTACTT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTT
* *
33160230 TAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTT
131 CAATTTCAGAGATAAAGACGTGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTT
33160295 ACTTCAATTTCA
195 ACTTCAATTTCA
* *
33160307 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAAT
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * * * *
33160371 TTTAGAGATAGAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTT
*
33160436 CAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTT
131 CAATTTCAGAGATAAAGACGTGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTT
33160501 ACTTCAATTTCA
195 ACTTCAATTTCA
** * *
33160513 GAGATGTAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACGTCGCTCTTACTTCAAT
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * *
33160578 TTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATTGGCATTGCTCTTACT
66 TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGA-TGACATTGCTCTTACT
* * * *
33160642 TCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTAAATTTCAAGCGGAT
130 TCAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAAGAGGAT
33160695 TAGCATTGAT
Statistics
Matches: 542, Mismatches: 47, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
205 122 0.23
206 279 0.51
207 100 0.18
208 3 0.01
210 1 0.00
211 1 0.00
212 1 0.00
213 24 0.04
214 11 0.02
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (206 bp):
GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTT
CAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTA
CTTCAATTTCA
Found at i:33160702 original size:69 final size:69
Alignment explanation
Indices: 33159944--33160694 Score: 1134
Period size: 69 Copynumber: 10.9 Consensus size: 69
33159934 GGAAATGATC
**
33159944 TTGCTCTTACTTCAATTTCAGAGATAAAGGTGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160009 GACG
66 GACG
** * * *
33160013 TTGCTCTTACTTCAATTTCAGAGATGTAGTCGTGTTATCC-ACTCTACTTCAACTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
33160077 GACA
66 GACG
* * *
33160081 TTGCTCTTACTTTAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160146 GACG
66 GACG
* *
33160150 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAACTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
33160214 GACA
66 GACG
* * *
33160218 TTGCTCTTACTTTAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160283 GACG
66 GACG
*
33160287 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
33160351 GACA
66 GACG
* * * *
33160355 TTGCTCTTACTTCAATTTTAGAGATAGAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160420 GACG
66 GACG
* *
33160424 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160489 GACG
66 GACG
** *
33160493 TTGCTCTTACTTCAATTTCAGAGATGTAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160558 GACG
66 GACG
* * *
33160562 TCGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGA-
* *
33160626 TGGCA
65 TGACG
* * *
33160631 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTAAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33160695 TAGCATTGAT
Statistics
Matches: 626, Mismatches: 52, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
68 207 0.33
69 419 0.67
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (69 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
GACG
Found at i:33167879 original size:139 final size:139
Alignment explanation
Indices: 33167629--33167908 Score: 560
Period size: 139 Copynumber: 2.0 Consensus size: 139
33167619 GAAAAACTCC
33167629 TTATAGCATTACCCACCAAGCGATCGAGATACGGTGTCTTTAGTGTGTGGACAAAAAGCATCGTT
1 TTATAGCATTACCCACCAAGCGATCGAGATACGGTGTCTTTAGTGTGTGGACAAAAAGCATCGTT
33167694 GTCTCCTTTTCGGTTAAGTATGGTTGTACTTGGGTGGCTATATCCCTCCAACGTTGAGCATATTA
66 GTCTCCTTTTCGGTTAAGTATGGTTGTACTTGGGTGGCTATATCCCTCCAACGTTGAGCATATTA
33167759 TCGAAAGCT
131 TCGAAAGCT
33167768 TTATAGCATTACCCACCAAGCGATCGAGATACGGTGTCTTTAGTGTGTGGACAAAAAGCATCGTT
1 TTATAGCATTACCCACCAAGCGATCGAGATACGGTGTCTTTAGTGTGTGGACAAAAAGCATCGTT
33167833 GTCTCCTTTTCGGTTAAGTATGGTTGTACTTGGGTGGCTATATCCCTCCAACGTTGAGCATATTA
66 GTCTCCTTTTCGGTTAAGTATGGTTGTACTTGGGTGGCTATATCCCTCCAACGTTGAGCATATTA
33167898 TCGAAAGCT
131 TCGAAAGCT
33167907 TT
1 TT
33167909 CACTTGGTTT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 141 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (139 bp):
TTATAGCATTACCCACCAAGCGATCGAGATACGGTGTCTTTAGTGTGTGGACAAAAAGCATCGTT
GTCTCCTTTTCGGTTAAGTATGGTTGTACTTGGGTGGCTATATCCCTCCAACGTTGAGCATATTA
TCGAAAGCT
Found at i:33172774 original size:30 final size:30
Alignment explanation
Indices: 33172704--33173036 Score: 402
Period size: 30 Copynumber: 11.1 Consensus size: 30
33172694 AGATTTAGGG
* *
33172704 AAGTTTGGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * * *
33172733 AAGCTTCGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
33172763 AATTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33172793 AAGTCTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33172823 AAGTTTTAGGGTTAAAATGTAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
33172853 AAGTTTTGGGGTCAAAATGCAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
33172883 AAGTTTTGGGG-CTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTC-AAAATGTAATTTTGGAA
*
33172913 AAGTTTTAGGGTCAAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTC-AAAATGTAATTTTGGAA
* * *
33172944 AATTTTTGGGGTCAAAATGTAATTTAGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
33172974 AAGTTTCGAGGTCAAAATGTAATTTTGGTA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
** *
33173004 AAGTTTCAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
33173034 AAG
1 AAG
33173037 GTCAAAAGGT
Statistics
Matches: 263, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
29 19 0.07
30 215 0.82
31 29 0.11
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:33175111 original size:6 final size:6
Alignment explanation
Indices: 33175084--33175162 Score: 74
Period size: 6 Copynumber: 13.2 Consensus size: 6
33175074 ATGTTTAGTG
* * **
33175084 TTTAAA TTTTAA TTTTAA TTTAAA TTTAAA -GCAAA TTTAAA TAATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
33175133 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA T
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
33175163 CAATTTAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 1 0.02
5 6 0.10
6 47 0.77
7 1 0.02
8 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:33175120 original size:17 final size:16
Alignment explanation
Indices: 33175100--33175160 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
33175090 TTTTAATTTT
33175100 AATTTAAATTTAAAGCA
1 AATTTAAATTT-AAGCA
**
33175117 AATTTAAA--TAATTA
1 AATTTAAATTTAAGCA
*
33175131 AATTTAAATTTAAGATA
1 AATTTAAATTTAAG-CA
33175148 AATTTAAATTTAA
1 AATTTAAATTTAA
33175161 ATCAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.29
15 1 0.03
16 3 0.08
17 23 0.61
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (16 bp):
AATTTAAATTTAAGCA
Found at i:33175177 original size:16 final size:16
Alignment explanation
Indices: 33175100--33175178 Score: 54
Period size: 17 Copynumber: 4.9 Consensus size: 16
33175090 TTTTAATTTT
* *
33175100 AATTTAAATTTAAAGC
1 AATTTAAATCTAAATC
* *
33175116 AAATTTAAA--TAATTA
1 -AATTTAAATCTAAATC
* *
33175131 AATTTAAATTTAAGATA
1 AATTTAAATCTAA-ATC
*
33175148 AATTTAAATTTAAATC
1 AATTTAAATCTAAATC
*
33175164 AATTTAACTCTAAAT
1 AATTTAAATCTAAAT
33175179 TAAAACCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 18 0.35
17 23 0.44
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
AATTTAAATCTAAATC
Found at i:33179891 original size:15 final size:15
Alignment explanation
Indices: 33179871--33179902 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33179861 AATCATTGGG
33179871 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
33179886 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
33179901 TT
1 TT
33179903 ATGAACAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:33182428 original size:51 final size:51
Alignment explanation
Indices: 33182368--33182477 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
33182358 TTTTTCAGGT
*
33182368 CATTTTCATTTTGGAAAAAACCA-AATTCATTTCCAAATGA-TTCCATTTCTC
1 CATTTTCATTTTGGAAAAAACCATAA-TCATTTACAAAT-ATTTCCATTTCTC
* *
33182419 CATTTTCATTTTGGAGAAAACCATAATCATTTACAAATATTTTCATTTCTC
1 CATTTTCATTTTGGAAAAAACCATAATCATTTACAAATATTTCCATTTCTC
33182470 CATTTTCA
1 CATTTTCA
33182478 CCATTTCTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
50 1 0.02
51 51 0.94
52 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (51 bp):
CATTTTCATTTTGGAAAAAACCATAATCATTTACAAATATTTCCATTTCTC
Found at i:33187477 original size:44 final size:44
Alignment explanation
Indices: 33187412--33187499 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
33187402 TTAATATGAG
*
33187412 ATCTTGATGGGATTTAATGAGATATAGATGAGA-ACATTATTGAA
1 ATCTTGATGAGATTTAATGAGATATAGATGAGAGA-ATTATTGAA
*
33187456 ATCTTGATGAGATTTAGTGAGATATAGATGAGAGAATTATTGAA
1 ATCTTGATGAGATTTAATGAGATATAGATGAGAGAATTATTGAA
33187500 GTTCAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (44 bp):
ATCTTGATGAGATTTAATGAGATATAGATGAGAGAATTATTGAA
Found at i:33187487 original size:21 final size:21
Alignment explanation
Indices: 33187407--33187488 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
33187397 AAATTTTAAT
* * *
33187407 ATGAGATCTTGATGGGATTTA
1 ATGAGATATAGATGAGATTTA
*
33187428 ATGAGATATAGATGAGAACATTA
1 ATGAGATATAGATGAG-A-TTTA
* * * *
33187451 TTGAAATCTTGATGAGATTTA
1 ATGAGATATAGATGAGATTTA
*
33187472 GTGAGATATAGATGAGA
1 ATGAGATATAGATGAGA
33187489 GAATTATTGA
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 29 0.63
22 2 0.04
23 15 0.33
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.33
Consensus pattern (21 bp):
ATGAGATATAGATGAGATTTA
Found at i:33189749 original size:15 final size:15
Alignment explanation
Indices: 33189729--33189760 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33189719 AATCATTGGG
33189729 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
33189744 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
33189759 TT
1 TT
33189761 ATGAACAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:33192117 original size:51 final size:51
Alignment explanation
Indices: 33192057--33192166 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
33192047 TTTTTCAGAT
* *
33192057 CATTTTCATTTTGGAAAAAACCA-AATTCATTTCCGAATGA-TTCCATTTCTC
1 CATTTTCATTTTGGAAAAAACCATAA-TCATTTACAAAT-ATTTCCATTTCTC
* *
33192108 CATTTTCATTTTGGAGAAAACCATAATCATTTACAAATATTTTCATTTCTC
1 CATTTTCATTTTGGAAAAAACCATAATCATTTACAAATATTTCCATTTCTC
33192159 CATTTTCA
1 CATTTTCA
33192167 CCATTTCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
50 1 0.02
51 50 0.94
52 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (51 bp):
CATTTTCATTTTGGAAAAAACCATAATCATTTACAAATATTTCCATTTCTC
Found at i:33193522 original size:11 final size:11
Alignment explanation
Indices: 33193506--33193531 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33193496 AGGCCAATAT
33193506 GTGTTGATTGA
1 GTGTTGATTGA
33193517 GTGTTGATTGA
1 GTGTTGATTGA
33193528 GTGT
1 GTGT
33193532 GCAGGAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (11 bp):
GTGTTGATTGA
Found at i:33195703 original size:28 final size:29
Alignment explanation
Indices: 33195658--33195725 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
33195648 GATTAAAAAA
33195658 TTAACGGTCAA-TAGTCAACTG-TCAATGG
1 TTAACGGTCAACTAGTCAAC-GATCAATGG
33195686 TTAACGGTCAACTA-TCAACGATCAATGG
1 TTAACGGTCAACTAGTCAACGATCAATGG
* *
33195714 TCAATGGTCAAC
1 TTAACGGTCAAC
33195726 GGTCGAGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 33 0.92
29 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (29 bp):
TTAACGGTCAACTAGTCAACGATCAATGG
Found at i:33195717 original size:14 final size:14
Alignment explanation
Indices: 33195660--33195729 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
33195650 TTAAAAAATT
*
33195660 AACGGTCAATAGTC
1 AACGGTCAATGGTC
* *
33195674 AACTGTCAATGGTT
1 AACGGTCAATGGTC
*
33195688 AACGGTCAACT-ATC
1 AACGGTCAA-TGGTC
*
33195702 AACGATCAATGGTC
1 AACGGTCAATGGTC
* *
33195716 AATGGTCAACGGTC
1 AACGGTCAATGGTC
33195730 GAGTTCAGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
13 1 0.02
14 41 0.95
15 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (14 bp):
AACGGTCAATGGTC
Found at i:33197342 original size:15 final size:16
Alignment explanation
Indices: 33197303--33197346 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
33197293 AGCTTATGAC
*
33197303 CTTTTGTTAAAATTAA
1 CTTTTGTTAAAATCAA
* *
33197319 ATATTGTTAAAA-CAA
1 CTTTTGTTAAAATCAA
33197334 CTTTTGTTAAAAT
1 CTTTTGTTAAAAT
33197347 AATAACACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (16 bp):
CTTTTGTTAAAATCAA
Found at i:33202160 original size:31 final size:31
Alignment explanation
Indices: 33202122--33202183 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33202112 ACTAAAATAA
33202122 AAGACAAATAACTAGTTTGGTTGTTGAACTT
1 AAGACAAATAACTAGTTTGGTTGTTGAACTT
33202153 AAGACAAATAACTAGTTTGGTTGTTGAACTT
1 AAGACAAATAACTAGTTTGGTTGTTGAACTT
33202184 TTTCCTTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (31 bp):
AAGACAAATAACTAGTTTGGTTGTTGAACTT
Found at i:33209656 original size:51 final size:50
Alignment explanation
Indices: 33209585--33209685 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 50
33209575 CGTGTTTTAA
** *
33209585 ATTTTATTTTTTTATTCAATTATTTTATTTTCTATTTTAAATACATCAGT
1 ATTTTATTTTTCGATTCAATTATTTTATATTCTATTTTAAATACATCAGT
* *
33209635 ATTTATATTTTTCGATTCAATTATTTTATATTCTATTTTTAATATATCAGT
1 ATTT-TATTTTTCGATTCAATTATTTTATATTCTATTTTAAATACATCAGT
33209686 TTCGTAGGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (50 bp):
ATTTTATTTTTCGATTCAATTATTTTATATTCTATTTTAAATACATCAGT
Found at i:33212426 original size:16 final size:17
Alignment explanation
Indices: 33212393--33212428 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
33212383 TATTACAGAC
33212393 ATAGTTATTCTCGAACA
1 ATAGTTATTCTCGAACA
33212410 ATAGTTATTCT-GAACA
1 ATAGTTATTCTCGAACA
33212426 ATA
1 ATA
33212429 ACTATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (17 bp):
ATAGTTATTCTCGAACA
Found at i:33212434 original size:16 final size:17
Alignment explanation
Indices: 33212398--33212436 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
33212388 CAGACATAGT
**
33212398 TATTCTCGAACAATAGT
1 TATTCTCGAACAATAAC
33212415 TATTCT-GAACAATAAC
1 TATTCTCGAACAATAAC
33212431 TATTCT
1 TATTCT
33212437 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (17 bp):
TATTCTCGAACAATAAC
Found at i:33219091 original size:17 final size:18
Alignment explanation
Indices: 33219066--33219102 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
33219056 TATTTTAAAA
33219066 ATTATAAATA-TATAAATT
1 ATTATAAATAGTA-AAATT
33219084 ATTA-AAATAGTAAAATT
1 ATTATAAATAGTAAAATT
33219101 AT
1 AT
33219103 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTATAAATAGTAAAATT
Found at i:33223837 original size:40 final size:40
Alignment explanation
Indices: 33223750--33223860 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
33223740 GAAAACTCAA
* *
33223750 AAAAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTTTCT
1 AAAAGCGCCGCTATTGCTTT-ACTTTTTGCGGCGCTTTTCT
** *
33223791 TTAAGCGCCGCTATTGCTTTACTTTTTGCGGCG-TTTATGT
1 AAAAGCGCCGCTATTGCTTTACTTTTTGCGGCGCTTT-TCT
33223831 AAAAGCGCCGCTATTGCTTTACTTTTTGCG
1 AAAAGCGCCGCTATTGCTTTACTTTTTGCG
33223861 ATGTTTTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.05
40 41 0.66
41 18 0.29
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (40 bp):
AAAAGCGCCGCTATTGCTTTACTTTTTGCGGCGCTTTTCT
Found at i:33224656 original size:20 final size:21
Alignment explanation
Indices: 33224631--33224800 Score: 77
Period size: 20 Copynumber: 7.9 Consensus size: 21
33224621 AAAAACGCAT
*
33224631 AAAAATAAC-ATCCAAACAAC
1 AAAAATAACAATCAAAACAAC
33224651 AAAAATAACAATCAAAACAAC
1 AAAAATAACAATCAAAACAAC
* * * *
33224672 AGCAAACAACATTAAAAATAGCAAC
1 A-AAAATAACAAT-CAAA-A-CAAC
*
33224697 AAAAATAAC-AGCAAAAACAACAC
1 AAAAATAACAATC-AAAAC-A-AC
* **
33224720 AAAAATAACAACCAAAACATT
1 AAAAATAACAATCAAAACAAC
* *
33224741 AAAAA-AAGC-ACCAAAACAGTAA
1 AAAAATAA-CAATCAAAACA--AC
33224763 AAAAAT-ACAA--AAACAGCAA-
1 AAAAATAACAATCAAA-A-CAAC
33224782 AAAAATAACAATCAAAACA
1 AAAAATAACAATCAAAACA
33224801 GTAAAAAAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
19 6 0.05
20 30 0.26
21 21 0.18
22 23 0.20
23 22 0.19
24 9 0.08
25 5 0.04
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.09
Consensus pattern (21 bp):
AAAAATAACAATCAAAACAAC
Found at i:33224702 original size:12 final size:12
Alignment explanation
Indices: 33224685--33224736 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
33224675 AAACAACATT
*
33224685 AAAAATAGCAAC
1 AAAAATAACAAC
*
33224697 AAAAATAACAGC
1 AAAAATAACAAC
*
33224709 AAAAACAAC-AC
1 AAAAATAACAAC
33224720 AAAAATAACAACC
1 AAAAATAACAA-C
33224733 AAAA
1 AAAA
33224737 CATTAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
11 9 0.27
12 19 0.58
13 5 0.15
ACGTcount: A:0.71, C:0.19, G:0.04, T:0.06
Consensus pattern (12 bp):
AAAAATAACAAC
Found at i:33224707 original size:34 final size:33
Alignment explanation
Indices: 33224631--33224736 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 33
33224621 AAAAACGCAT
*
33224631 AAAAATAACATCCAAACAAC-AAAAATAACAATC
1 AAAAATAACA-GCAAACAACAAAAAATAACAATC
* *
33224664 -AAAACAACAGCAAACAACATTAAAAATAGCAA-C
1 AAAAATAACAGCAAACAACA--AAAAATAACAATC
*
33224697 AAAAATAACAGCAAAAACAACACAAAAATAACAACC
1 AAAAATAACAGC--AAACAACA-AAAAATAACAATC
33224733 AAAA
1 AAAA
33224737 CATTAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
31 8 0.13
32 8 0.13
33 1 0.02
34 20 0.33
35 10 0.17
36 13 0.22
ACGTcount: A:0.68, C:0.21, G:0.03, T:0.08
Consensus pattern (33 bp):
AAAAATAACAGCAAACAACAAAAAATAACAATC
Found at i:33224746 original size:23 final size:23
Alignment explanation
Indices: 33224697--33224809 Score: 96
Period size: 23 Copynumber: 5.2 Consensus size: 23
33224687 AAATAGCAAC
* * ** *
33224697 AAAAATAACAGCAAAAACAACAC
1 AAAAATAACAACCAAAACAGTAA
*
33224720 AAAAATAACAACCAAAACA-TTA
1 AAAAATAACAACCAAAACAGTAA
*
33224742 AAAAA-AGC-ACCAAAACAGTAA
1 AAAAATAACAACCAAAACAGTAA
*
33224763 AAAAAT-AC-A--AAAACAGCAA
1 AAAAATAACAACCAAAACAGTAA
*
33224782 AAAAATAACAATCAAAACAGTAA
1 AAAAATAACAACCAAAACAGTAA
33224805 AAAAA
1 AAAAA
33224810 AGGACCAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
19 15 0.20
20 11 0.15
21 12 0.16
22 5 0.07
23 31 0.42
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAAATAACAACCAAAACAGTAA
Done.