Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold198
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: 3915534
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 240068 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:1689428 original size:15 final size:15
Alignment explanation
Indices: 1689405--1689441 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1689395 GTGTTATGGG
*
1689405 TTAGAGTTTAAGGGT
1 TTAGGGTTTAAGGGT
1689420 TTAGGGTTTAAGGGT
1 TTAGGGTTTAAGGGT
*
1689435 TAAGGGT
1 TTAGGGT
1689442 CGAATTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
TTAGGGTTTAAGGGT
Found at i:1689433 original size:8 final size:8
Alignment explanation
Indices: 1689410--1689441 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
1689400 ATGGGTTAGA
1689410 GTTTAAGG
1 GTTTAAGG
1689418 GTTT-AGG
1 GTTTAAGG
1689425 GTTTAAGG
1 GTTTAAGG
1689433 G-TTAAGG
1 GTTTAAGG
1689440 GT
1 GT
1689442 CGAATTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.64
8 8 0.36
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (8 bp):
GTTTAAGG
Found at i:1689559 original size:21 final size:21
Alignment explanation
Indices: 1689535--1689574 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1689525 GGGGTTTGGG
1689535 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
1689556 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
1689575 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:1689615 original size:171 final size:171
Alignment explanation
Indices: 1689420--1690414 Score: 1990
Period size: 171 Copynumber: 5.8 Consensus size: 171
1689410 GTTTAAGGGT
1689420 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1689485 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1689550 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
1689591 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1689656 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1689721 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
1689762 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1689827 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1689892 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
1689933 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1689998 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1690063 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
1690104 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1690169 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1690234 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
1690275 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1690340 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
1690405 TTTATAGTTA
131 TTTATAGTTA
1690415 ATAAAACGGC
Statistics
Matches: 824, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 824 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (171 bp):
TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
Found at i:1689730 original size:21 final size:21
Alignment explanation
Indices: 1689706--1689745 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1689696 GGGGTTTGGG
1689706 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
1689727 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
1689746 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:1689901 original size:21 final size:21
Alignment explanation
Indices: 1689877--1689916 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1689867 GGGGTTTGGG
1689877 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
1689898 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
1689917 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:1690072 original size:21 final size:21
Alignment explanation
Indices: 1690048--1690087 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1690038 GGGGTTTGGG
1690048 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
1690069 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
1690088 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:1690243 original size:21 final size:21
Alignment explanation
Indices: 1690219--1690258 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1690209 GGGGTTTGGG
1690219 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
1690240 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
1690259 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:1693870 original size:43 final size:42
Alignment explanation
Indices: 1693822--1694023 Score: 291
Period size: 43 Copynumber: 4.7 Consensus size: 42
1693812 CATCATCTGA
1693822 CCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGACAAGCG
1 CCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGA-AAGCG
* *
1693865 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAGAAGCG
1 CCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGA-AAGCG
*
1693908 CCGCTAAAGGTCTT-GTTCTTTAGCGTCGTTTGTGGGAAAAGCG
1 CCGCTAAAGGTCTTGGTT-TTTAGCGGCGTTTGTGGG-AAAGCG
*
1693951 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAGCG
1 CCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGAAAGCG
* *
1693993 TCGCTAAAGGT-ATGGTTCTTTAGCGGCGTTT
1 CCGCTAAAGGTCTTGGTT-TTTAGCGGCGTTT
1694024 ATTTCTAAAA
Statistics
Matches: 144, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
41 4 0.03
42 31 0.22
43 106 0.74
44 3 0.02
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.31
Consensus pattern (42 bp):
CCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGAAAGCG
Found at i:1693967 original size:86 final size:85
Alignment explanation
Indices: 1693822--1694023 Score: 325
Period size: 86 Copynumber: 2.4 Consensus size: 85
1693812 CATCATCTGA
*
1693822 CCGCTAAAGGTCTTGGTT-TTTAGCGGCGTTTGTGGGACAAGCGCCGCTAAAGGTCTTGGTCTTT
1 CCGCTAAAGGTCTT-GTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTT
1693886 AGCGGCGTTTGTAGGAGAAGCG
65 AGCGGCGTTTGTAGGA-AAGCG
*
1693908 CCGCTAAAGGTCTTGTTCTTTAGCGTCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
1 CCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
*
1693973 GCGGCGTTTGTGGGAAAGCG
66 GCGGCGTTTGTAGGAAAGCG
* * *
1693993 TCGCTAAAGGTATGGTTCTTTAGCGGCGTTT
1 CCGCTAAAGGTCTTGTTCTTTAGCGGCGTTT
1694024 ATTTCTAAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
85 35 0.32
86 73 0.68
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.31
Consensus pattern (85 bp):
CCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
GCGGCGTTTGTAGGAAAGCG
Found at i:1694099 original size:22 final size:22
Alignment explanation
Indices: 1694071--1694113 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1694061 TTGCAGCGCT
*
1694071 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
1694093 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
1694114 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:1697787 original size:24 final size:22
Alignment explanation
Indices: 1697760--1697823 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 22
1697750 GAATTGATGA
*
1697760 TGAATTGACATGAGAATATGAAAT
1 TGAATTGAAATGA-AATATG-AAT
*
1697784 TGAATGTGAAATGATATATGAAT
1 TGAAT-TGAAATGAAATATGAAT
*
1697807 TAAATTGTATAATGAAA
1 TGAATTG-A-AATGAAA
1697824 ATTGGATCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
24 16 0.48
25 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (22 bp):
TGAATTGAAATGAAATATGAAT
Found at i:1697985 original size:19 final size:19
Alignment explanation
Indices: 1697907--1697985 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
1697897 GTACGGCTTT
*
1697907 ATGCATTTCATGTGCCAGG
1 ATGCATTTCATGTGCTAGG
*
1697926 ATGCACTTCATG-GCTAGG
1 ATGCATTTCATGTGCTAGG
* * **
1697944 ATGTGC-TTT-GTGCGCTAAT
1 A--TGCATTTCATGTGCTAGG
1697963 ATGCATTTCATGTGCTAGG
1 ATGCATTTCATGTGCTAGG
1697982 ATGC
1 ATGC
1697986 GCTTTGTGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
17 3 0.07
18 11 0.24
19 28 0.62
20 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (19 bp):
ATGCATTTCATGTGCTAGG
Found at i:1697990 original size:38 final size:37
Alignment explanation
Indices: 1697926--1698006 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 37
1697916 ATGTGCCAGG
* * *
1697926 ATGCACTTCATGGCTAGGATGTGCTTTGTGCGCTAAT
1 ATGCACTTCATGGCTAGGATGCGCTTTGTGCACCAAT
*
1697963 ATGCATTTCATGTGCTAGGATGCGCTTTGTGCACCAAT
1 ATGCACTTCATG-GCTAGGATGCGCTTTGTGCACCAAT
1698001 ATGCAC
1 ATGCAC
1698007 AATGTCTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 11 0.29
38 27 0.71
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (37 bp):
ATGCACTTCATGGCTAGGATGCGCTTTGTGCACCAAT
Found at i:1698861 original size:2 final size:2
Alignment explanation
Indices: 1698856--1698894 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1698846 ATATATTTGC
1698856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1698895 GATAATGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1700763 original size:20 final size:20
Alignment explanation
Indices: 1700740--1700805 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
1700730 AGTACCAATT
1700740 CTTTACTCAAAGTATCGATA
1 CTTTACTCAAAGTATCGATA
* * *
1700760 CTTTGCTCGAAGTATCTATA
1 CTTTACTCAAAGTATCGATA
* *
1700780 GTTTA-TGTAAAGTATCGATA
1 CTTTACT-CAAAGTATCGATA
1700800 CTTTAC
1 CTTTAC
1700806 CTCTGGTATC
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (20 bp):
CTTTACTCAAAGTATCGATA
Found at i:1701753 original size:22 final size:22
Alignment explanation
Indices: 1701698--1701753 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
1701688 AGTGCACTAA
*
1701698 TAGAACAGTAAGCACCGAAGTG
1 TAGAACAATAAGCACCGAAGTG
* *
1701720 CA-AATCACTAAGCACCGAAGTG
1 TAGAA-CAATAAGCACCGAAGTG
1701742 TAGAACAATAAG
1 TAGAACAATAAG
1701754 AGCTAAAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (22 bp):
TAGAACAATAAGCACCGAAGTG
Found at i:1711960 original size:20 final size:20
Alignment explanation
Indices: 1711935--1711976 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1711925 AGCTACTCAT
1711935 ATTTTTA-AAAACTTATCAAA
1 ATTTTTAGAAAACTTA-CAAA
*
1711955 ATTTTTAGAACACTTACAAA
1 ATTTTTAGAAAACTTACAAA
1711975 AT
1 AT
1711977 CGACGCCGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTTTTAGAAAACTTACAAA
Found at i:1717706 original size:14 final size:14
Alignment explanation
Indices: 1717687--1717716 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1717677 AAGTATATAA
1717687 AAGCTTAACCACTG
1 AAGCTTAACCACTG
*
1717701 AAGCTTAATCACTG
1 AAGCTTAACCACTG
1717715 AA
1 AA
1717717 CCACTGGGCT
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:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (14 bp):
AAGCTTAACCACTG
Found at i:1723314 original size:39 final size:39
Alignment explanation
Indices: 1723251--1723450 Score: 231
Period size: 39 Copynumber: 5.1 Consensus size: 39
1723241 ATTTTCAATA
* * *
1723251 CACCGGCACATAGCTTGCCT-GGCACATAGCCCGAATAAC
1 CACCGGCACACAGCCTG-CTAGGCACATAGCCCGAATAAT
* * * *
1723290 CATCGGCACACAGCCTACTAGGCACAAAGCCTGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
** *
1723329 CACTTGCACACAGCCTGCTAAGCACATAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
* * *
1723368 CACCGGCACACAACCTGTTAGGCACATAGCTCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
* * * *
1723407 CACCAGCACACAGCTTGCTAGGCACATAACCTGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
1723446 CACCG
1 CACCG
1723451 TATTTCTATT
Statistics
Matches: 132, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
38 2 0.02
39 130 0.98
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (39 bp):
CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:1728587 original size:29 final size:29
Alignment explanation
Indices: 1728538--1728805 Score: 157
Period size: 29 Copynumber: 9.3 Consensus size: 29
1728528 TCATCAACCA
* * * *
1728538 ATGAAAAGGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCGACT
* ** *
1728567 ATTAAAAGGGATGGTGACGACCATTAACA
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
1728596 ATGAAAAGGGATGGTGACGACCATC-ACCA
1 ATGAAAAGGGATGGTGACGACCATCGA-CT
* *
1728625 ATGAAAAGGGATGGTGACGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * *** ***
1728654 ATGAAAAGCGATAGTTTTGGTTATCGA-T
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** ** * *
1728682 -TGAAAAGGGATAGTTTCGAATATTGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *
1728710 ATGAAAAGGGATGGTGACAACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * *
1728739 ACGAAAAGGGATGGTAACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** * *
1728768 AATGAAAACGGATGGTTTCGACCATCAAAT
1 -ATGAAAAGGGATGGTGACGACCATCGACT
1728798 ATGAAAAG
1 ATGAAAAG
1728806 AGACGGTTAT
Statistics
Matches: 186, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
27 21 0.11
28 5 0.03
29 136 0.73
30 24 0.13
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGACT
Found at i:1728709 original size:27 final size:29
Alignment explanation
Indices: 1728653--1728721 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
1728643 GACCATCAAA
* * **
1728653 TATGAAAAGCGATAGTTTTGGTTATCGA-
1 TATGAAAAGGGATAGTTTCGAATATCGAT
*
1728681 T-TGAAAAGGGATAGTTTCGAATATTGAT
1 TATGAAAAGGGATAGTTTCGAATATCGAT
1728709 TATGAAAAGGGAT
1 TATGAAAAGGGAT
1728722 GGTGACAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 21 0.62
28 2 0.06
29 11 0.32
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.33
Consensus pattern (29 bp):
TATGAAAAGGGATAGTTTCGAATATCGAT
Found at i:1728820 original size:59 final size:58
Alignment explanation
Indices: 1728706--1728821 Score: 133
Period size: 59 Copynumber: 2.0 Consensus size: 58
1728696 TTCGAATATT
* * * *
1728706 GATTATGAAAAGGGATGGTGACAACCATCAACTACGAAAAGGGATGGTAACGACCATC
1 GATTATGAAAACGGATGGTGACAACCATCAAATACGAAAAGAGACGGTAACGACCATC
** * * * *
1728764 GATTAATGAAAACGGATGGTTTCGACCATCAAATATGAAAAGAGACGGTTATGACCAT
1 GATT-ATGAAAACGGATGGTGACAACCATCAAATACGAAAAGAGACGGTAACGACCAT
1728822 TGTTCAGCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
58 4 0.09
59 43 0.91
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (58 bp):
GATTATGAAAACGGATGGTGACAACCATCAAATACGAAAAGAGACGGTAACGACCATC
Found at i:1747892 original size:18 final size:17
Alignment explanation
Indices: 1747859--1747892 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1747849 ATAGATTCAA
*
1747859 TTAAAAATATTGAAAAT
1 TTAAAAATATTAAAAAT
1747876 TTAAAAATTATTAAAAA
1 TTAAAAA-TATTAAAAA
1747893 AAATCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAAATATTAAAAAT
Found at i:1748281 original size:20 final size:19
Alignment explanation
Indices: 1748256--1748319 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
1748246 TTATAAAATA
1748256 TAAAAAAGATAAAAATATAT
1 TAAAAAA-ATAAAAATATAT
*
1748276 TAAAAATAATAAAAAT-TGT
1 TAAAAA-AATAAAAATATAT
*
1748295 AAAATAAAAATAAAAATATTAT
1 -TAA-AAAAATAAAAATA-TAT
1748317 TAA
1 TAA
1748320 TATCTTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.06
20 25 0.71
21 6 0.17
22 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAAAAATAAAAATATAT
Found at i:1753942 original size:29 final size:31
Alignment explanation
Indices: 1753909--1753978 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
1753899 AAATTGTAAT
1753909 AAAATTATAAAAAAAATTGAAAAT-T-ATTA
1 AAAATTATAAAAAAAATTGAAAATATAATTA
* * * *
1753938 TAAATTGT--AAACAATTTAAAATATAATTA
1 AAAATTATAAAAAAAATTGAAAATATAATTA
1753967 AAAATTATAAAA
1 AAAATTATAAAA
1753979 CTATTAAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
27 12 0.39
28 1 0.03
29 16 0.52
31 2 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (31 bp):
AAAATTATAAAAAAAATTGAAAATATAATTA
Found at i:1756564 original size:39 final size:40
Alignment explanation
Indices: 1756510--1756588 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
1756500 CAAGGTCAAA
*
1756510 ATGGGTTCGGGTT-CCCTATTCTGACTTTGGAAAAATCAT
1 ATGGGTTCAGGTTCCCCTATTCTGACTTTGGAAAAATCAT
*
1756549 ATGGGTTCAGGTTCCCCTGTTCTGACTTTGGAAAAATCAT
1 ATGGGTTCAGGTTCCCCTATTCTGACTTTGGAAAAATCAT
1756589 CGAAAATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 12 0.32
40 25 0.68
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (40 bp):
ATGGGTTCAGGTTCCCCTATTCTGACTTTGGAAAAATCAT
Found at i:1757566 original size:34 final size:34
Alignment explanation
Indices: 1757523--1757590 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
1757513 GCATTTTTGA
* *
1757523 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
1757556 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
1757591 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:1765809 original size:23 final size:21
Alignment explanation
Indices: 1765783--1765833 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1765773 ATTTCCTACC
1765783 ATATTACTAATTGACATTTAGAA
1 ATATTA-TAATTGA-ATTTAGAA
*
1765806 ATATTTATAATTTAATTTAGAA
1 ATA-TTATAATTGAATTTAGAA
*
1765828 TTATTA
1 ATATTA
1765834 GTTATAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 9 0.36
24 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (21 bp):
ATATTATAATTGAATTTAGAA
Found at i:1766835 original size:24 final size:23
Alignment explanation
Indices: 1766789--1766835 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1766779 ATTTATCAAG
*
1766789 TGTTTTATTATTATTCTTCAAAA
1 TGTTTTATTATTATTCTTAAAAA
*
1766812 TGTTTTATTATATTTTCTTAAAAA
1 TGTTTTATTAT-TATTCTTAAAAA
1766836 GAGTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (23 bp):
TGTTTTATTATTATTCTTAAAAA
Found at i:1773037 original size:13 final size:14
Alignment explanation
Indices: 1773007--1773039 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1772997 TTCCTTGCAA
1773007 TTTCCTTCTGACGTT
1 TTTCCTTCTGA-GTT
1773022 TTTCCTTCTG-GTT
1 TTTCCTTCTGAGTT
1773035 TTTCC
1 TTTCC
1773040 CATTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
15 10 0.56
ACGTcount: A:0.03, C:0.27, G:0.12, T:0.58
Consensus pattern (14 bp):
TTTCCTTCTGAGTT
Found at i:1774415 original size:23 final size:21
Alignment explanation
Indices: 1774388--1774433 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1774378 CACACGGCAA
*
1774388 TGTCACTCGGTCACATGGGCGTG
1 TGTCA-TC-GTCACATGGCCGTG
*
1774411 TGTCATCTTCACATGGCCGTG
1 TGTCATCGTCACATGGCCGTG
1774432 TG
1 TG
1774434 CCTCCTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.30
Consensus pattern (21 bp):
TGTCATCGTCACATGGCCGTG
Found at i:1775005 original size:37 final size:38
Alignment explanation
Indices: 1774962--1775053 Score: 116
Period size: 37 Copynumber: 2.4 Consensus size: 38
1774952 AGTTCCACAT
* * *
1774962 TGTGGTGTGTAGGGTGGATGAGC-CTTTCAAAGTTC-TA
1 TGTGGTGTGCAGGGTGGATGAGCTCGTT-AAAGCTCATA
* *
1774999 TGTGGTGTGCAGGGTGGATGGGCTCGTTATAGCTCATA
1 TGTGGTGTGCAGGGTGGATGAGCTCGTTAAAGCTCATA
1775037 TGTGGTGTGCAGGGTGG
1 TGTGGTGTGCAGGGTGG
1775054 TCAAAGTGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 26 0.54
38 22 0.46
ACGTcount: A:0.15, C:0.11, G:0.41, T:0.33
Consensus pattern (38 bp):
TGTGGTGTGCAGGGTGGATGAGCTCGTTAAAGCTCATA
Found at i:1776040 original size:29 final size:29
Alignment explanation
Indices: 1775991--1776049 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1775981 CGAAGCCACC
1775991 CAGCCGTGTGGTAGGCCATGTGTGACACA
1 CAGCCGTGTGGTAGGCCATGTGTGACACA
* * *
1776020 CAGCCGTGTGTTGGGCTATGTGTGACACA
1 CAGCCGTGTGGTAGGCCATGTGTGACACA
1776049 C
1 C
1776050 GGTCTAGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.24
Consensus pattern (29 bp):
CAGCCGTGTGGTAGGCCATGTGTGACACA
Found at i:1786833 original size:15 final size:16
Alignment explanation
Indices: 1786811--1786845 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1786801 TAGGAATTAG
*
1786811 TAAAAAATTTCTTCCC
1 TAAAAATTTTCTTCCC
1786827 TAAAAATTTTCTTCCC
1 TAAAAATTTTCTTCCC
1786843 TAA
1 TAA
1786846 TTGTAATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATTTTCTTCCC
Found at i:1788793 original size:5 final size:5
Alignment explanation
Indices: 1788783--1788816 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
1788773 AAGAAACATA
1788783 AAAAG AAAAG AAAAG AAAAG AAAAAG AGAAAG AA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG A-AAAG AA
1788817 GATGGGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1824696 original size:20 final size:20
Alignment explanation
Indices: 1824660--1824698 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1824650 ATATGAAATT
*
1824660 TTTGAGTTTTCAGATATTTA
1 TTTGAGTTTTCAAATATTTA
1824680 TTTGAG-TTTCAAAATATTT
1 TTTGAGTTTTC-AAATATTT
1824699 TCTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (20 bp):
TTTGAGTTTTCAAATATTTA
Found at i:1832103 original size:69 final size:69
Alignment explanation
Indices: 1831992--1832123 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 69
1831982 CTTTTCCAAT
* *
1831992 TCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCTT
1 TCAAGTTTTAAACGATCTCGGGAACTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
1832057 TTTC
66 TTTC
* * *
1832061 TCAAGTTTTGAGCGATCTCGGGAACTAAGAAAAGATCGTGTCCTCACTTACTGGGCATGATCC
1 TCAAGTTTTAAACGATCTCGGGAACTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
1832124 CCTTTTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (69 bp):
TCAAGTTTTAAACGATCTCGGGAACTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
TTTC
Found at i:1839191 original size:44 final size:44
Alignment explanation
Indices: 1839128--1839525 Score: 295
Period size: 44 Copynumber: 9.0 Consensus size: 44
1839118 GATAGTAGAT
*
1839128 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * ** * * * *
1839172 CTTACCATCCTGTGTTGACAGCGGAGCAGA-CTGAAGATAACAGAT
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
* ** * * *
1839217 CTCGTTTTCCCGTACTGATAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * * *
1839261 CTTGTCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
* * *
1839306 CTTGCCTTCCTGTATTGACAACGAAGCAGATTGAAGACACCAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * *
1839350 CTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAACAGAT
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
* ** * * *
1839395 CTCGTTTTCCCGTACTGATAGCGAAGCAGATCGAAGACACCAGT
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * * ** *
1839439 CTTGCCTCCCTGGGT-TTG-CAGCGGAGCAGA-CTGAAGATAGTAGAT
1 CTTGCCTTCCT--GTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
*
1839484 CTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCA
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
1839526 TAGCTTGCAG
Statistics
Matches: 265, Mismatches: 73, Indels: 31
0.72 0.20 0.08
Matches are distributed among these distances:
43 5 0.02
44 129 0.49
45 126 0.48
46 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:1839272 original size:89 final size:89
Alignment explanation
Indices: 1839114--1839525 Score: 513
Period size: 89 Copynumber: 4.6 Consensus size: 89
1839104 AACAGATCAG
** * * * * *
1839114 TGAAGATAGTAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCA
1 TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
**
1839179 TCCTGTGTTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
** * * *
1839203 TGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGCAGATCGAAGACACTAGCCTTGTCT
1 TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1839268 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
1839292 TGAAGATAGCAGATCTTGCCTTCCTGTATTGACAACGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1839357 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
** * *
1839381 TGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
1839446 CCCTGGGT-TTG-CAGCGGAGCAGAC
66 TCCT--GTACTGACAGCGGAGCAGAC
** * * *
1839470 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCA
1 TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCA
1839526 TAGCTTGCAG
Statistics
Matches: 276, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
89 272 0.99
90 2 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (89 bp):
TGAAGATAACAGATCTCGCCTTCCCGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:1839413 original size:178 final size:177
Alignment explanation
Indices: 1839114--1839525 Score: 664
Period size: 178 Copynumber: 2.3 Consensus size: 177
1839104 AACAGATCAG
* *
1839114 TGAAGATAGTAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCA
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCA
**
1839179 TCCTGTGTTGACAGCGGAGCAGACTGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGC
* * *
1839244 AGATCGAAGACACTAGCCTTGTCTTCCT-GTACTGACAGCGGAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTCCCTGGT-CTG-CAGCGGAGCAGAC
* * * * *
1839292 TGAAGATAGCAGATCTTGCCTTCCTGTATTGACAACGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCA
1839357 TCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGC
* *
1839422 AGATCGAAGACACCAGTCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
131 AGATCGAAGACACCAGCCTTGCCTCCCT-GGTCTGCAGCGGAGCAGAC
1839470 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCA
1 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCA
1839526 TAGCTTGCAG
Statistics
Matches: 215, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
178 211 0.98
179 2 0.01
180 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (177 bp):
TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCA
TCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTCGTTTTCCCGTACTGATAGCGAAGC
AGATCGAAGACACCAGCCTTGCCTCCCTGGTCTGCAGCGGAGCAGAC
Found at i:1841146 original size:3 final size:3
Alignment explanation
Indices: 1841131--1841197 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
1841121 AAAATAATAA
* * * * *
1841131 ATT A-T ATT TTT ATT ATT AGT AGT ATT ATT ATT ATT AAT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
1841178 ATT ATC ATT A-T ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT
1841198 TATATTTACT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1841200 original size:18 final size:18
Alignment explanation
Indices: 1841131--1841197 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
1841121 AAAATAATAA
1841131 ATTA-TATTTTTATTATT
1 ATTAGTATTTTTATTATT
* *
1841148 AGTAGTATTATTATTATT
1 ATTAGTATTTTTATTATT
* * * *
1841166 AATATTATTGTTATTATC
1 ATTAGTATTTTTATTATT
1841184 ATTA-TATTTTTATT
1 ATTAGTATTTTTATT
1841198 TATATTTACT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.29
18 29 0.71
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTAGTATTTTTATTATT
Found at i:1842268 original size:30 final size:30
Alignment explanation
Indices: 1842232--1842290 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
1842222 AATCAAGCAT
1842232 TGAAAATCCCAATCTGTAATTTTGCTTCAC
1 TGAAAATCCCAATCTGTAATTTTGCTTCAC
1842262 TGAAAATCCCAATCTGTAATTTTGCTTCA
1 TGAAAATCCCAATCTGTAATTTTGCTTCA
1842291 ACCTATCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (30 bp):
TGAAAATCCCAATCTGTAATTTTGCTTCAC
Found at i:1842514 original size:9 final size:9
Alignment explanation
Indices: 1842502--1842538 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1842492 ATCATCATCG
1842502 TCATCGTCC
1 TCATCGTCC
1842511 TCATCGTCC
1 TCATCGTCC
*
1842520 TTATCGTCC
1 TCATCGTCC
1842529 TCATCGTCC
1 TCATCGTCC
1842538 T
1 T
1842539 TTTTGCAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.41, G:0.11, T:0.38
Consensus pattern (9 bp):
TCATCGTCC
Found at i:1842525 original size:18 final size:18
Alignment explanation
Indices: 1842504--1842539 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1842494 CATCATCGTC
1842504 ATCGTCCTCATCGTCCTT
1 ATCGTCCTCATCGTCCTT
1842522 ATCGTCCTCATCGTCCTT
1 ATCGTCCTCATCGTCCTT
1842540 TTTGCAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.39, G:0.11, T:0.39
Consensus pattern (18 bp):
ATCGTCCTCATCGTCCTT
Found at i:1846695 original size:17 final size:17
Alignment explanation
Indices: 1846668--1846702 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1846658 AATGGGAGAA
1846668 ATGTAAAATGTAATTATT
1 ATGTAAAATGTAA-TATT
1846686 ATGT-AAATGTAATATT
1 ATGTAAAATGTAATATT
1846702 A
1 A
1846703 AATTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 8 0.47
18 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
ATGTAAAATGTAATATT
Found at i:1847388 original size:72 final size:72
Alignment explanation
Indices: 1847271--1847412 Score: 248
Period size: 72 Copynumber: 2.0 Consensus size: 72
1847261 CTTGTCCAAT
* *
1847271 TCAAGTTTTAAACGATCTCAAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCTT
1 TCAAGTTTTAAACGATCTCAAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
1847336 TTTTTTC
66 TTTTTTC
**
1847343 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
1 TCAAGTTTTAAACGATCTCAAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
1847408 TTTTT
66 TTTTT
1847413 AAATCCGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (72 bp):
TCAAGTTTTAAACGATCTCAAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
TTTTTTC
Found at i:1851879 original size:17 final size:18
Alignment explanation
Indices: 1851857--1851900 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1851847 CTTTCACATG
1851857 TTCTTTT-GTACATATAT
1 TTCTTTTAGTACATATAT
*
1851874 TTCTTTTGAGTACATATGT
1 TTCTTTT-AGTACATATAT
1851893 TCTCTTTT
1 T-TCTTTT
1851901 TTTTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (18 bp):
TTCTTTTAGTACATATAT
Found at i:1853155 original size:3 final size:3
Alignment explanation
Indices: 1853141--1853177 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1853131 CTTTGTGGGA
* *
1853141 TCT TCT TAT TCT TCT TCT TCT TTT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1853178 TGAGATCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:1853178 original size:15 final size:15
Alignment explanation
Indices: 1853141--1853178 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1853131 CTTTGTGGGA
*
1853141 TCTTCTTATTCTTCT
1 TCTTCTTTTTCTTCT
1853156 TCTTCTTTTTCTTCT
1 TCTTCTTTTTCTTCT
1853171 TCTTCTTT
1 TCTTCTTT
1853179 GAGATCCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTCTTTTTCTTCT
Found at i:1854720 original size:16 final size:15
Alignment explanation
Indices: 1854690--1854728 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1854680 TAGGCAAAGT
* *
1854690 TAATAATAATTAATA
1 TAATTATAATAAATA
1854705 TATATTATAATAAATA
1 TA-ATTATAATAAATA
1854721 TAATTATA
1 TAATTATA
1854729 TACTAGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTATAATAAATA
Found at i:1870956 original size:29 final size:30
Alignment explanation
Indices: 1870914--1870991 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
1870904 TAAATTATGG
* * * *
1870914 ATTTAATCCCTATACTTTAG-TTTGTTCAA
1 ATTTAGTCCTTATACTTTAGAATTGATCAA
*
1870943 ATTTAGTCCTTATACTTTTTGAATTGATCAA
1 ATTTAGTCCTTATAC-TTTAGAATTGATCAA
*
1870974 ATTTAGTCCTTGTACTTT
1 ATTTAGTCCTTATACTTT
1870992 TCAATTTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.32
30 7 0.17
31 21 0.51
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (30 bp):
ATTTAGTCCTTATACTTTAGAATTGATCAA
Found at i:1871094 original size:174 final size:174
Alignment explanation
Indices: 1870766--1871094 Score: 378
Period size: 174 Copynumber: 1.9 Consensus size: 174
1870756 TTAATTGGAC
** * *
1870766 CAAATTTAGCCCCTATACTTTTTGAAATGATTGATTTTAGTCTCTCTCCTTTTAAAAATTTGAAA
1 CAAATTTAGCCCCTATACTTTTTGAAATGATCAAATTTAGTCTCTCTACTTTTAAAAATTTGAAA
* * * *
1870831 TTACAATCCTAAACCCAATCTATAGAAGTGAAATCTAGTTGGCTAAATTATGCTATTAATCTTGT
66 TTACAATCCTAAACCCAAACAATAGAAGTGAAATCCAGTTGGCTAAATTATACTATTAATCTTGT
** **
1870896 AATATGTGTAAATTATGGATTTAATCCCTATACTTTAGTTTGTT
131 AATATCCGTAAATTATAAATTTAATCCCTATACTTTAGTTTGTT
* * * * * **
1870940 CAAATTTAGTCCTTATACTTTTTGAATTGATCAAATTTAGTC-CTTGTACTTTTCAATTTTTGAA
1 CAAATTTAGCCCCTATACTTTTTGAAATGATCAAATTTAGTCTC-TCTACTTTTAAAAATTTGAA
* * * *
1871004 ATTACAAT-CTTAACCCAAACAATAGCAA-TTAAATCCAGTTGGTTAAATGT-TACTATTAATTT
65 ATTACAATCCTAAACCCAAACAATAG-AAGTGAAATCCAGTTGGCTAAAT-TATACTATTAATCT
*
1871066 TGTACTATCCGTAAAGTTATAAATTTAAT
128 TGTAATATCCGTAAA-TTATAAATTTAAT
1871095 TCACATTCTT
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
173 54 0.43
174 73 0.57
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (174 bp):
CAAATTTAGCCCCTATACTTTTTGAAATGATCAAATTTAGTCTCTCTACTTTTAAAAATTTGAAA
TTACAATCCTAAACCCAAACAATAGAAGTGAAATCCAGTTGGCTAAATTATACTATTAATCTTGT
AATATCCGTAAATTATAAATTTAATCCCTATACTTTAGTTTGTT
Found at i:1877499 original size:14 final size:14
Alignment explanation
Indices: 1877458--1877519 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
1877448 TATTAATTAC
* *
1877458 TAATTAAGGCTTAGT
1 TAATTAA-GTTTAAT
1877473 TAATTTAAGTTTAAT
1 TAA-TTAAGTTTAAT
*
1877488 TAATTAATTTTAAT
1 TAATTAAGTTTAAT
*
1877502 TAATTAAGCTTAAAT
1 TAATTAAG-TTTAAT
1877517 TAA
1 TAA
1877520 AGTATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 17 0.43
15 19 0.47
16 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (14 bp):
TAATTAAGTTTAAT
Found at i:1899583 original size:34 final size:34
Alignment explanation
Indices: 1899517--1899610 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 34
1899507 TAAGGCAACT
* * **
1899517 ATCAAAGCTGCTCGTGCACATCAAAAGACATATC
1 ATCAAGGCTGTTCGTGCACATCAATGGACATATC
* * *
1899551 TTCAAGGCTGTTCGTACACATCAATGGGCATATC
1 ATCAAGGCTGTTCGTGCACATCAATGGACATATC
* * *
1899585 AACAAGGCTATTCGGGCACATCAATG
1 ATCAAGGCTGTTCGTGCACATCAATG
1899611 AACAACTGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (34 bp):
ATCAAGGCTGTTCGTGCACATCAATGGACATATC
Found at i:1901974 original size:35 final size:35
Alignment explanation
Indices: 1901925--1901993 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
1901915 TGTCCCATGA
*
1901925 AAATGTATCCATTGAATGATAAATTATCAGTTTCT
1 AAATGTATCCATTGAATGATAAATTATCACTTTCT
*
1901960 AAATGTATCTATTGAATGATAAATTATCACTTTC
1 AAATGTATCCATTGAATGATAAATTATCACTTTC
1901994 CAAAATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (35 bp):
AAATGTATCCATTGAATGATAAATTATCACTTTCT
Found at i:1904438 original size:128 final size:128
Alignment explanation
Indices: 1904277--1904531 Score: 510
Period size: 128 Copynumber: 2.0 Consensus size: 128
1904267 ATATTATGTT
1904277 TTTCATTGTAATATGAAACAAATTTGTGCTCCTTTTAATTATTTAGTTAGACATTAAAACTTTAA
1 TTTCATTGTAATATGAAACAAATTTGTGCTCCTTTTAATTATTTAGTTAGACATTAAAACTTTAA
1904342 TATATATAACAATTTTTATTTGATTAGAAAAAAAATTATATTGTTAACAATATTAATATAATG
66 TATATATAACAATTTTTATTTGATTAGAAAAAAAATTATATTGTTAACAATATTAATATAATG
1904405 TTTCATTGTAATATGAAACAAATTTGTGCTCCTTTTAATTATTTAGTTAGACATTAAAACTTTAA
1 TTTCATTGTAATATGAAACAAATTTGTGCTCCTTTTAATTATTTAGTTAGACATTAAAACTTTAA
1904470 TATATATAACAATTTTTATTTGATTAGAAAAAAAATTATATTGTTAACAATATTAATATAAT
66 TATATATAACAATTTTTATTTGATTAGAAAAAAAATTATATTGTTAACAATATTAATATAAT
1904532 ATATAATATA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (128 bp):
TTTCATTGTAATATGAAACAAATTTGTGCTCCTTTTAATTATTTAGTTAGACATTAAAACTTTAA
TATATATAACAATTTTTATTTGATTAGAAAAAAAATTATATTGTTAACAATATTAATATAATG
Found at i:1904555 original size:7 final size:7
Alignment explanation
Indices: 1904525--1904554 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1904515 AACAATATTA
1904525 ATATAAT
1 ATATAAT
1904532 ATATAAT
1 ATATAAT
1904539 ATATAAT
1 ATATAAT
*
1904546 ATTTAAT
1 ATATAAT
1904553 AT
1 AT
1904555 TCTCGGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATATAAT
Found at i:1904844 original size:13 final size:12
Alignment explanation
Indices: 1904826--1904875 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
1904816 AATTTTAAAA
1904826 TTAAAAATAAATT
1 TTAAAAAT-AATT
*
1904839 TTAAAAATTATT
1 TTAAAAATAATT
1904851 TT-AAAA-AATT
1 TTAAAAATAATT
*
1904861 ATAAAAAT-ATT
1 TTAAAAATAATT
1904872 TTAA
1 TTAA
1904876 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 4 0.13
11 14 0.45
12 5 0.16
13 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAAAAATAATT
Found at i:1904851 original size:12 final size:11
Alignment explanation
Indices: 1904826--1904875 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
1904816 AATTTTAAAA
1904826 TTAAAAATAAATT
1 TTAAAAAT--ATT
1904839 TTAAAAATTATT
1 TTAAAAA-TATT
1904851 TTAAAAA-ATT
1 TTAAAAATATT
*
1904861 ATAAAAATATT
1 TTAAAAATATT
1904872 TTAA
1 TTAA
1904876 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.27
11 6 0.18
12 10 0.30
13 7 0.21
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:1904871 original size:21 final size:22
Alignment explanation
Indices: 1904834--1904875 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1904824 AATTAAAAAT
*
1904834 AAATTTTAAAAATTATTTTAAA
1 AAATTATAAAAATTATTTTAAA
1904856 AAATTATAAAAA-TATTTTAA
1 AAATTATAAAAATTATTTTAA
1904876 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTATAAAAATTATTTTAAA
Found at i:1905956 original size:17 final size:17
Alignment explanation
Indices: 1905934--1906297 Score: 120
Period size: 18 Copynumber: 19.6 Consensus size: 17
1905924 CACGATATAT
*
1905934 ATTTTTTAAAACACGAG
1 ATTTTTTAAAACACGAA
* **
1905951 ATTTTTGAAACACCATAATA
1 ATTTTTTAAA-A-CACGA-A
1905971 ATTTTTTGAAAACACGAA
1 ATTTTTT-AAAACACGAA
* *
1905989 AATTTTTGAAACACGAGAA
1 ATTTTTTAAAACAC--GAA
*
1906008 ATTTTTTTTGGAAACACGAA
1 A--TTTTTT-AAAACACGAA
** * *
1906028 AACTTTTGAAACAAGAA
1 ATTTTTTAAAACACGAA
*
1906045 CTTTTTTTTGAAAACACGAA
1 --ATTTTTT-AAAACACGAA
*
1906065 AATTTTT-AAACACGAGA
1 ATTTTTTAAAACACGA-A
*
1906082 ATTTTTTTTGAAAGCACGAA
1 A--TTTTTT-AAAACACGAA
* *
1906102 ATTCTTTGAAACACGAA
1 ATTTTTTAAAACACGAA
* **
1906119 TTTTTTTTTTGAAAATGCGAAA
1 ---ATTTTTT-AAAACACG-AA
* **
1906141 ATTTTTGAAACACAAAAA
1 ATTTTTTAAA-ACACGAA
*
1906159 ATTTTTTGAAAACGCGAAA
1 ATTTTTT-AAAACACG-AA
*
1906178 AATTTTT-AAACACGAGA
1 ATTTTTTAAAACACGA-A
*
1906195 ATTTTTTTTGAAAACATGAA
1 A--TTTTTT-AAAACACGAA
* * *
1906215 AATTTTTGAAATACGAA
1 ATTTTTTAAAACACGAA
* *
1906232 AATTTTTAAACACAAGAA
1 ATTTTTTAAA-ACACGAA
*
1906250 TTTTTTTGAAAACACGAGA
1 ATTTTTT-AAAACACGA-A
* *
1906269 AATTTTTGAAACACGAAA
1 ATTTTTTAAAACACG-AA
*
1906287 ATTTTTGAAAA
1 ATTTTTTAAAA
1906298 GACGTATTGT
Statistics
Matches: 253, Mismatches: 60, Indels: 67
0.67 0.16 0.18
Matches are distributed among these distances:
16 9 0.04
17 58 0.23
18 71 0.28
19 51 0.20
20 28 0.11
21 27 0.11
22 9 0.04
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTTTTTAAAACACGAA
Found at i:1905960 original size:37 final size:37
Alignment explanation
Indices: 1905918--1906296 Score: 348
Period size: 37 Copynumber: 10.2 Consensus size: 37
1905908 CGTGATCCGA
* *
1905918 TTGAAACACGATATATATTTTTT-AAAACACG-AGATTT
1 TTGAAACACGA-A-ATTTTTTTTGAAAACACGAAAATTT
* *
1905955 TTGAAACACCATAATAATTTTTTGAAAACACGAAAATTT
1 TTGAAACACGA-AAT-TTTTTTTGAAAACACGAAAATTT
* *
1905994 TTGAAACACGAGAAATTTTTTTTGGAAACACGAAAACTT
1 TTGAAACAC--GAAATTTTTTTTGAAAACACGAAAATTT
* *
1906033 TTGAAACAAGAACTTTTTTTTGAAAACACGAAAATTT
1 TTGAAACACGAAATTTTTTTTGAAAACACGAAAATTT
*
1906070 TT-AAACACGAGAATTTTTTTTGAAAGCACG-AAATTCT
1 TTGAAACACGA-AATTTTTTTTGAAAACACGAAAATT-T
* **
1906107 TTGAAACACGAATTTTTTTTTTGAAAATGCGAAAATTT
1 TTGAAACACGAA-ATTTTTTTTGAAAACACGAAAATTT
* ** *
1906145 TTGAAACACAAAAAATTTTTTGAAAACGCGAAAAATTT
1 TTGAAACACGAAATTTTTTTTGAAAACACG-AAAATTT
*
1906183 TT-AAACACGAGAATTTTTTTTGAAAACATGAAAATTT
1 TTGAAACACGA-AATTTTTTTTGAAAACACGAAAATTT
* * * **
1906220 TTGAAATACGAAA--ATTTTT-AAACACAAGAATTTTT
1 TTGAAACACGAAATTTTTTTTGAAA-ACACGAAAATTT
*
1906255 TTGAAAACACGAGAA--ATTTTTG-AAACACGAAAATTT
1 TTG-AAACACGA-AATTTTTTTTGAAAACACGAAAATTT
1906291 TTGAAA
1 TTGAAA
1906297 AGACGTATTG
Statistics
Matches: 289, Mismatches: 36, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
34 3 0.01
35 20 0.07
36 33 0.11
37 109 0.38
38 73 0.25
39 47 0.16
40 3 0.01
41 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (37 bp):
TTGAAACACGAAATTTTTTTTGAAAACACGAAAATTT
Found at i:1906273 original size:75 final size:76
Alignment explanation
Indices: 1905918--1906296 Score: 337
Period size: 75 Copynumber: 5.1 Consensus size: 76
1905908 CGTGATCCGA
* * * * * *
1905918 TTGAAACACGATATATATTTTTTAAAACACG-AGA-TTTTTGAAACACCA-TAATAATTTTTTGA
1 TTGAAACACGAGA-A-ATTTTTTGAAACACGAAAATTTTTTGAAACACGAGAAAT-TTTTTTTGA
1905980 AAACACGAAAATTT
63 AAACACGAAAATTT
* *
1905994 TTGAAACACGAGAAATTTTTTTTGGAAACACGAAAA-CTTTTGAAACA--AGAACTTTTTTTTGA
1 TTGAAACACGAGAAA--TTTTTT-GAAACACGAAAATTTTTTGAAACACGAGAAATTTTTTTTGA
1906056 AAACACGAAAATTT
63 AAACACGAAAATTT
* * **
1906070 TT-AAACACGAGAATTTTTTTTGAAAGCACG-AAATTCTTTGAAACACGA-ATTTTTTTTTTGAA
1 TTGAAACACGAGAA-ATTTTTTGAAA-CACGAAAATTTTTTGAAACACGAGAAATTTTTTTTGAA
**
1906132 AATGCGAAAATTT
64 AACACGAAAATTT
* * * *
1906145 TTGAAACACAAAAAATTTTTTGAAAACGCGAAAAATTTTT-AAACACGAG-AATTTTTTTTGAAA
1 TTGAAACACGAGAAATTTTTTG-AAACACGAAAATTTTTTGAAACACGAGAAATTTTTTTTGAAA
*
1906208 ACATGAAAATTT
65 ACACGAAAATTT
*
1906220 TTGAAATACGA-AAA-TTTTT-AAACAC-AAGAATTTTTTTGAAAACACGAGAAA---TTTTTG-
1 TTGAAACACGAGAAATTTTTTGAAACACGAA-AA-TTTTTTG-AAACACGAGAAATTTTTTTTGA
1906277 AAACACGAAAATTT
63 AAACACGAAAATTT
1906291 TTGAAA
1 TTGAAA
1906297 AGACGTATTG
Statistics
Matches: 254, Mismatches: 30, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
70 2 0.01
71 26 0.10
72 11 0.04
73 12 0.05
74 32 0.13
75 87 0.34
76 63 0.25
77 9 0.04
78 12 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (76 bp):
TTGAAACACGAGAAATTTTTTGAAACACGAAAATTTTTTGAAACACGAGAAATTTTTTTTGAAAA
CACGAAAATTT
Found at i:1907129 original size:11 final size:11
Alignment explanation
Indices: 1907104--1907163 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
1907094 TGATATATTG
*
1907104 TTTTTCTCTT-
1 TTTTTCTTTTC
1907114 TTTTTCTTTCTC
1 TTTTTCTTT-TC
1907126 TTTTTCTTCTTTC
1 TTTTTC-T-TTTC
*
1907139 TTTTTTTTTTC
1 TTTTTCTTTTC
1907150 TTTTTCTTCTTC
1 TTTTTCTT-TTC
1907162 TT
1 TT
1907164 CTTCGGGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 8 0.19
11 12 0.29
12 12 0.29
13 8 0.19
14 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:1907133 original size:6 final size:6
Alignment explanation
Indices: 1907114--1907163 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
1907104 TTTTTCTCTT
* *
1907114 TTTTTC TTTCTC TTTTTC TTCTTTC TTTTT- TTTTTC TTTTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC
1907162 TT
1 TT
1907164 CTTCGGGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
6 28 0.72
7 6 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:1907135 original size:15 final size:15
Alignment explanation
Indices: 1907106--1907166 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
1907096 ATATATTGTT
1907106 TTTCTCTTTTT-TTC
1 TTTCTCTTTTTCTTC
1907120 TTTCTCTTTTTCTTC
1 TTTCTCTTTTTCTTC
* *
1907135 TTTCTTTTTTTTTTC
1 TTTCTCTTTTTCTTC
* *
1907150 TTTTTCTTCTTCTTC
1 TTTCTCTTTTTCTTC
1907165 TT
1 TT
1907167 CGGGTTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 11 0.28
15 29 0.73
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTCTTTTTCTTC
Found at i:1907145 original size:27 final size:27
Alignment explanation
Indices: 1907110--1907163 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1907100 ATTGTTTTTC
1907110 TCTTTTTTTCTTTCTCTTT-TTCTTCTT
1 TCTTTTTTT-TTTCTCTTTCTTCTTCTT
*
1907137 TCTTTTTTTTTTCTTTTTCTTCTTCTT
1 TCTTTTTTTTTTCTCTTTCTTCTTCTT
1907164 CTTCGGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (27 bp):
TCTTTTTTTTTTCTCTTTCTTCTTCTT
Found at i:1907151 original size:24 final size:23
Alignment explanation
Indices: 1907104--1907160 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
1907094 TGATATATTG
1907104 TTTTTC-TCTTTTTTTCTTTCTC
1 TTTTTCTTCTTTTTTTCTTTCTC
* *
1907126 TTTTTCTTCTTTCTTTTTTTTTTC
1 TTTTTCTTCTTT-TTTTCTTTCTC
1907150 TTTTTCTTCTT
1 TTTTTCTTCTT
1907161 CTTCTTCGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 6 0.19
23 5 0.16
24 20 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTCTTCTTTTTTTCTTTCTC
Found at i:1907800 original size:29 final size:29
Alignment explanation
Indices: 1907751--1907817 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1907741 AAGGGCCTAA
1907751 ATGTAATTTACAAAATATTAGGGGTTAAT
1 ATGTAATTTACAAAATATTAGGGGTTAAT
* * *
1907780 ATGTAAATTTAGAAAA-GTTAGGGGTTAAA
1 ATGT-AATTTACAAAATATTAGGGGTTAAT
*
1907809 ATATAATTT
1 ATGTAATTT
1907818 TTGAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 18 0.55
30 10 0.30
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.37
Consensus pattern (29 bp):
ATGTAATTTACAAAATATTAGGGGTTAAT
Found at i:1907833 original size:30 final size:29
Alignment explanation
Indices: 1907749--1907847 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 29
1907739 TTAAGGGCCT
* *
1907749 AAATGTAA-TTTACAAAATATTAGGGGTTA
1 AAATATAATTTTAGAAAAT-TTAGGGGTTA
* * * *
1907778 ATATGTAAATTTAGAAAAGTTAGGGGTTA
1 AAATATAATTTTAGAAAATTTAGGGGTTA
* *
1907807 AAATATAATTTTTGAAAAATTTAGGGGCTA
1 AAATATAATTTTAG-AAAATTTAGGGGTTA
*
1907837 AAATTTAATTT
1 AAATATAATTT
1907848 GTATTTTTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 27 0.47
30 31 0.53
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.37
Consensus pattern (29 bp):
AAATATAATTTTAGAAAATTTAGGGGTTA
Found at i:1908268 original size:76 final size:76
Alignment explanation
Indices: 1908166--1908823 Score: 874
Period size: 76 Copynumber: 8.7 Consensus size: 76
1908156 AATCCAAAGT
* * ** * *
1908166 TCAACTCACTTCTCAG-ATTATGAGTTGA-CCTTTGAAAAATAGAAATTGAAAAATACCTCGGCA
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAAATACCTCAGCA
*
1908229 TATGACCCAAGGC
64 TGTGACCCAAGGC
* * * * * *
1908242 TCAACTCACCTTTCGCAATATAAGTTGATTTTTCGGAAAATAGAAATTAAAATATACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA-ATACCTCAGCAT
*
1908307 GTGACCCGAGGC
65 GTGACCCAAGGC
* * * * * *
1908319 TCAACTCACTTCTTGCAATATGAGTTGATTTTTTTAAAAAAAGAAATTAAAAATACCTCGGC--G
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATG
*
1908382 TGCAGCCCGAGGC
66 TG-A-CCCAAGGC
*
1908395 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAGC--
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
1908458 GTGA-CCAAGGC
65 GTGACCCAAGGC
* *
1908469 TCAACTCAGCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAGC--
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
*
1908532 GTGACCCGAGGC
65 GTGACCCAAGGC
* *
1908544 TCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAAACAGAAA-TGAAAATACCTCAGAAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
1908608 GTGACCCAAGGC
65 GTGACCCAAGGC
* *
1908620 TCAACTCACCTCTTGCAATATGAGTTGATTGTTTTGAAAAACAGAAA-TGAAAATACCTCAGGAT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
1908684 GTGACCCAAGGC
65 GTGACCCAAGGC
1908696 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TGAAAATACCTCAAG-AT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC-AGCAT
1908759 GTGACCCAAGGC
65 GTGACCCAAGGC
1908771 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
1908824 ATATAATTCT
Statistics
Matches: 529, Mismatches: 41, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
74 87 0.16
75 142 0.27
76 187 0.35
77 113 0.21
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATG
TGACCCAAGGC
Found at i:1908645 original size:151 final size:151
Alignment explanation
Indices: 1908196--1908823 Score: 860
Period size: 151 Copynumber: 4.1 Consensus size: 151
1908186 TGAGTTGACC
* * * *
1908196 TTTGAAAAATAGAAATTGAAAAATACCTCGGCATATGACCCAAGGCTCAACTCACCTTTCGCAAT
1 TTTGAAAAACAGAAATTG-AAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCTCTCGCAAT
* * * * * * *
1908261 ATAAGTTGATTTTTCGGAAAATAGAAATTAAAATATACCTCAGCATGTGACCCGAGGCTCAACTC
63 ATGAGTTGATTTTTTGAAAAACAGAAATTGAAA-ATACCTCAGAATGTGACCCAAGGCTCAACTC
* *
1908326 ACTTCTTGCAATATGAGTTGATTTT
127 ACCTCTCGCAATATGAGTTGATTTT
* * * *
1908351 TTT-AAAAAAAGAAATTAAAAATACCTCGGCGTGCAGCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTG-A-CCCAAGGCTCAACTCACCTCTCGCAATA
* *
1908415 TGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAG--CGTGA-CCAAGGCTCAACTCA
64 TGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGAATGTGACCCAAGGCTCAACTCA
*
1908477 GCTCTCGCAATATGAGTTGATTTT
128 CCTCTCGCAATATGAGTTGATTTT
* * *
1908501 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAGTATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
1908566 AGTTGATTTTTTTGAAAAACAGAAA-TGAAAATACCTCAGAATGTGACCCAAGGCTCAACTCACC
66 AGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGAATGTGACCCAAGGCTCAACTCACC
* *
1908630 TCTTGCAATATGAGTTGATTGT
130 TCTCGCAATATGAGTTGATTTT
*
1908652 TTTGAAAAACAGAAA-TGAAAATACCTCAGGATGTGACCCAAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCA-G-CGTGACCCAAGGCTCAACTCACCTCTCGCAATA
1908716 TGAGTTGATTTTTTGAAAAACAGAAA-TGAAAATACCTCA-AGATGTGACCCAAGGCTCAACTCA
64 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGA-ATGTGACCCAAGGCTCAACTCA
1908779 CCTCTCGCAATATGAGTTGA-TTT
128 CCTCTCGCAATATGAGTTGATTTT
1908802 TTTGAAAAACAGAAATTGAAAA
1 TTTGAAAAACAGAAATTGAAAA
1908824 ATATAATTCT
Statistics
Matches: 432, Mismatches: 30, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
148 14 0.03
149 53 0.12
150 74 0.17
151 161 0.37
152 39 0.09
153 55 0.13
154 33 0.08
155 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (151 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGAATGTGACCCAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTT
Found at i:1916908 original size:75 final size:73
Alignment explanation
Indices: 1916818--1917079 Score: 297
Period size: 75 Copynumber: 3.6 Consensus size: 73
1916808 ATTTTTTTGG
* * *
1916818 AAACACGA-AACTTTTTTAAAAACACGAAAACTTTTGAAACAAGAACTTTTTTTTTGAAAACACG
1 AAACACGAGAATTTTTTTGAAAACACGAAAATTTTTGAAACAAGAA-TTTTTTTTTGAAAACACG
1916882 AAAATTTTT
65 AAAATTTTT
* *
1916891 AAACACGAGAATTTTTTTTGAAAACACG-AAATTCTTTGAAACATGAAATTTTTTTTTGAAAACG
1 AAACACGAGAA-TTTTTTTGAAAACACGAAAATT-TTTGAAACAAG-AATTTTTTTTTGAAAACA
1916955 CGAAAATTTTT
63 CGAAAATTTTT
* * *
1916966 GAAACACGAAAATTTTTTTGAAAACGCGAAAAATTTTT-AAACACGAGAA----TTTTTG-AAAT
1 -AAACACGAGAATTTTTTTGAAAACACG-AAAATTTTTGAAACA--AGAATTTTTTTTTGAAAAC
1917025 ACGAAAATTTTT
62 ACGAAAATTTTT
* *
1917037 AAACACAAGAATTTTTTTGAGAACACGAGAAATTTTTGAAACA
1 AAACACGAGAATTTTTTTGAAAACACGA-AAATTTTTGAAACA
1917080 CGAAAATTTT
Statistics
Matches: 164, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
69 1 0.01
70 31 0.19
71 19 0.12
72 6 0.04
73 8 0.05
74 6 0.04
75 70 0.43
76 17 0.10
77 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (73 bp):
AAACACGAGAATTTTTTTGAAAACACGAAAATTTTTGAAACAAGAATTTTTTTTTGAAAACACGA
AAATTTTT
Found at i:1917088 original size:38 final size:37
Alignment explanation
Indices: 1916811--1917090 Score: 299
Period size: 38 Copynumber: 7.6 Consensus size: 37
1916801 ACAAGAAATT
* *
1916811 TTTTTGGAAACACG-AAACTTTTTTAAAAACACGAAAA
1 TTTTT-GAAACACGAAAATTTTTTTGAAAACACGAAAA
* * **
1916848 CTTTTGAAACAAGAACTTTTTTTTTGAAAACACGAAAA
1 TTTTTGAAACACGAA-AATTTTTTTGAAAACACGAAAA
*
1916886 TTTTT-AAACACGAGAATTTTTTTTGAAAACACG-AAA
1 TTTTTGAAACACGA-AAATTTTTTTGAAAACACGAAAA
* * *
1916922 TTCTTTGAAACATGAAATTTTTTTTTGAAAACGCGAAAA
1 TT-TTTGAAACACGAAA-ATTTTTTTGAAAACACGAAAA
*
1916961 TTTTTGAAACACGAAAATTTTTTTGAAAACGCGAAAAA
1 TTTTTGAAACACGAAAATTTTTTTGAAAACACG-AAAA
* *
1916999 TTTTT-AAACACGAGAA--TTTTTG-AAATACGAAAA
1 TTTTTGAAACACGAAAATTTTTTTGAAAACACGAAAA
*
1917032 TTTTT-AAACAC-AAGAATTTTTTTGAGAACACGAGAAA
1 TTTTTGAAACACGAA-AATTTTTTTGAAAACACGA-AAA
1917069 TTTTTGAAACACGAAAATTTTT
1 TTTTTGAAACACGAAAATTTTT
1917091 GAAAAGACGT
Statistics
Matches: 209, Mismatches: 19, Indels: 29
0.81 0.07 0.11
Matches are distributed among these distances:
32 1 0.00
33 17 0.08
34 5 0.02
35 12 0.06
36 18 0.09
37 68 0.33
38 81 0.39
39 7 0.03
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (37 bp):
TTTTTGAAACACGAAAATTTTTTTGAAAACACGAAAA
Found at i:1917090 original size:37 final size:36
Alignment explanation
Indices: 1916773--1917095 Score: 277
Period size: 38 Copynumber: 8.8 Consensus size: 36
1916763 CCATAATAAT
* * * *
1916773 TTTTTGAAAACACGGAAA-TTTTTGAAGCACAAGAAATT
1 TTTTTG-AAACACGAAAATTTTTTGAA-AACACGAAA-A
* *
1916811 TTTTTGGAAACACGAAACTTTTTTAAAAACACGAAAA
1 TTTTT-GAAACACGAAAATTTTTTGAAAACACGAAAA
* * **
1916848 CTTTTGAAACAAGAACTTTTTTTTTGAAAACACGAAAA
1 TTTTTGAAACACGAA--AATTTTTTGAAAACACGAAAA
*
1916886 TTTTT-AAACACGAGAATTTTTTTTGAAAACACG-AAA
1 TTTTTGAAACACGA-AA-ATTTTTTGAAAACACGAAAA
* * *
1916922 TTCTTTGAAACATGAAATTTTTTTTTGAAAACGCGAAAA
1 TT-TTTGAAACACGAAA--ATTTTTTGAAAACACGAAAA
*
1916961 TTTTTGAAACACGAAAATTTTTTTGAAAACGCGAAAAA
1 TTTTTGAAACACGAAAA-TTTTTTGAAAACACG-AAAA
* *
1916999 TTTTT-AAACACGAGAA-TTTTTG-AAATACGAAAA
1 TTTTTGAAACACGAAAATTTTTTGAAAACACGAAAA
*
1917032 TTTTT-AAACAC-AAGAATTTTTTTGAGAACACGAGAAA
1 TTTTTGAAACACGAA-AA-TTTTTTGAAAACACGA-AAA
1917069 TTTTTGAAACACGAAAA-TTTTTGAAAA
1 TTTTTGAAACACGAAAATTTTTTGAAAA
1917096 GACGTATCGT
Statistics
Matches: 241, Mismatches: 25, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
32 1 0.00
33 17 0.07
34 5 0.02
35 12 0.05
36 29 0.12
37 65 0.27
38 97 0.40
39 15 0.06
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (36 bp):
TTTTTGAAACACGAAAATTTTTTGAAAACACGAAAA
Found at i:1917091 original size:17 final size:17
Alignment explanation
Indices: 1916773--1917094 Score: 204
Period size: 17 Copynumber: 17.5 Consensus size: 17
1916763 CCATAATAAT
*
1916773 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* *
1916791 TTTTTGAAGCACAAGAAATT
1 TTTTTGAA--ACACGAAA-A
*
1916811 TTTTTGGAAACACGAAACT
1 TTTTT-GAAACACGAAA-A
*
1916830 TTTTTAAAAACACGAAAA
1 TTTTT-GAAACACGAAAA
* * **
1916848 CTTTTGAAACAAGAACTTTT
1 TTTTTGAAACACGAA---AA
1916868 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
1916886 TTTTT-AAACACGAGAATTT
1 TTTTTGAAACACGA-AA--A
1916905 TTTTTGAAAACACG-AAA
1 TTTTTG-AAACACGAAAA
* *
1916922 TTCTTTGAAACATGAAATTTT
1 TT-TTTGAAACACGAAA---A
*
1916943 TTTTTGAAAACGCGAAAA
1 TTTTTG-AAACACGAAAA
1916961 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
1916978 TTTTTTTGAAAACGCGAAAAA
1 --TTTTTG-AAACACG-AAAA
*
1916999 TTTTT-AAACACGAGAA
1 TTTTTGAAACACGAAAA
*
1917015 TTTTTGAAATACGAAAA
1 TTTTTGAAACACGAAAA
1917032 TTTTT-AAACAC-AAGAA
1 TTTTTGAAACACGAA-AA
1917048 TTTTTTTGAGAACACGAGAAA
1 --TTTTTGA-AACACGA-AAA
1917069 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
1917086 TTTTTGAAA
1 TTTTTGAAA
1917095 AGACGTATCG
Statistics
Matches: 242, Mismatches: 31, Indels: 63
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.01
16 23 0.10
17 62 0.26
18 39 0.16
19 55 0.23
20 25 0.10
21 35 0.14
22 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:1917882 original size:14 final size:14
Alignment explanation
Indices: 1917840--1917892 Score: 67
Period size: 13 Copynumber: 4.0 Consensus size: 14
1917830 GTGATATATA
1917840 TTTTT-TTC-TCTT
1 TTTTTCTTCTTCTT
*
1917852 TTTTTCTTC-TCTC
1 TTTTTCTTCTTCTT
*
1917865 TTTTTCTTCTTTTT
1 TTTTTCTTCTTCTT
1917879 TTTTTCTTCTTCTT
1 TTTTTCTTCTTCTT
1917893 CAGGCCGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 5 0.14
13 15 0.43
14 15 0.43
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTCTTCTT
Found at i:1917889 original size:23 final size:23
Alignment explanation
Indices: 1917842--1917889 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
1917832 GATATATATT
1917842 TTTTTCTCTTTTTTTCTTCTCTC
1 TTTTTCTCTTTTTTTCTTCTCTC
*
1917865 TTTTTCTTCTTTTTTTTTTCT-TC
1 TTTTTC-TCTTTTTTTCTTCTCTC
1917888 TT
1 TT
1917890 CTTCAGGCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTCTCTTTTTTTCTTCTCTC
Found at i:1918127 original size:17 final size:17
Alignment explanation
Indices: 1918107--1918144 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1918097 TCACGATGGC
1918107 GGTGAGA-CGACGGTGG
1 GGTGAGATCGACGGTGG
*
1918123 TGGTGGGATCGACGGTGG
1 -GGTGAGATCGACGGTGG
1918141 GGTG
1 GGTG
1918145 GGCTTTTCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.11, G:0.58, T:0.18
Consensus pattern (17 bp):
GGTGAGATCGACGGTGG
Found at i:1918534 original size:30 final size:29
Alignment explanation
Indices: 1918480--1918547 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
1918470 TAGGGCCTAA
*
1918480 ATGTAATTTACAAAATGTTAGGGGTCAAT
1 ATGTAATTTACAAAAAGTTAGGGGTCAAT
* * *
1918509 ATGTAAATTTAGAAAAAGTTGGGGGTCAAA
1 ATGT-AATTTACAAAAAGTTAGGGGTCAAT
*
1918539 ATATAATTT
1 ATGTAATTT
1918548 TTGAAAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
ATGTAATTTACAAAAAGTTAGGGGTCAAT
Found at i:1921572 original size:23 final size:23
Alignment explanation
Indices: 1921542--1921589 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
1921532 GAAAATGAAG
1921542 TTCTCTGTCT-TATGACATGCTTT
1 TTCTCTGTCTGT-TGACATGCTTT
1921565 TTCTCTGTCTGTTGACATGCTTT
1 TTCTCTGTCTGTTGACATGCTTT
1921588 TT
1 TT
1921590 TTGCTCTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.10, C:0.21, G:0.15, T:0.54
Consensus pattern (23 bp):
TTCTCTGTCTGTTGACATGCTTT
Found at i:1932683 original size:27 final size:28
Alignment explanation
Indices: 1932644--1932706 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
1932634 AGTTGTTTTT
*
1932644 TTATTAT-TACATTTA-TACCATTATTTA
1 TTATTATATACATTTACTACCATTA-TAA
*
1932671 TTATTATAT-CATTTACTATCATTATAA
1 TTATTATATACATTTACTACCATTATAA
1932698 TTATTATAT
1 TTATTATAT
1932707 TTTCTATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTATATACATTTACTACCATTATAA
Found at i:1932893 original size:21 final size:20
Alignment explanation
Indices: 1932849--1932895 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
1932839 TAAATCTTTT
*
1932849 ATATACTTTATATTTTATAT
1 ATATACTTTATATTTTATAA
* *
1932869 ATATACTTTTTTATTTTGTAA
1 ATATAC-TTTATATTTTATAA
1932890 ATATAC
1 ATATAC
1932896 ACACATATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATACTTTATATTTTATAA
Found at i:1936569 original size:22 final size:22
Alignment explanation
Indices: 1936544--1936585 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1936534 GCAAATGTTA
1936544 TTTCATTCTTTACGATTTTTTC
1 TTTCATTCTTTACGATTTTTTC
**
1936566 TTTCATTCTTTTGGATTTTT
1 TTTCATTCTTTACGATTTTT
1936586 CTGCCAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTCATTCTTTACGATTTTTTC
Found at i:1944421 original size:44 final size:43
Alignment explanation
Indices: 1944269--1944433 Score: 162
Period size: 43 Copynumber: 3.8 Consensus size: 43
1944259 AGCTCGTACA
* *
1944269 ATGCCATCGTCCCAGACGAT-GTCTTACATGT-AATCAAATATAG
1 ATGCCAACGTCCCAGACG-TGGTCTTACACGTAAATCAAATAT-G
* * *
1944312 ATGCC-ACTGTCCCACACAG-GGTCTTACACGTAAATCATATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAATATG
* *
1944355 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAA--TCAAATATG
*
1944399 ATGCCAACGTCCCATACGTGGTCTTACACG-AAATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC
1944434 GTATATCGGA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 55 0.54
44 38 0.38
45 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATG
Found at i:1944433 original size:86 final size:86
Alignment explanation
Indices: 1944269--1944438 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 86
1944259 AGCTCGTACA
*
1944269 ATGCCATCGTCCCAGACGATGTCTTACATGTAATCAAATATAGATGCCACTGTCCCACACAGGGT
1 ATGCCATCGTCCCAGACGATGTCTTACACGTAATCAAATATAGATGCCACTGTCCCACACAGGGT
1944334 CTTACACGTAAATCATATACG
66 CTTACACGTAAATCATATACG
*
1944355 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-GTCCCATA
1 ATGCC-ATCGTCCCAGACGAT-GTCTTACACGT-AA--TCAAATATAGATGCC-ACTGTCCCACA
*
1944415 C-GTGGTCTTACACG-AAATCGTATA
60 CAG-GGTCTTACACGTAAATCATATA
1944439 TCGGAATTCT
Statistics
Matches: 74, Mismatches: 3, Indels: 14
0.81 0.03 0.15
Matches are distributed among these distances:
85 2 0.03
86 34 0.46
87 29 0.39
88 3 0.04
89 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (86 bp):
ATGCCATCGTCCCAGACGATGTCTTACACGTAATCAAATATAGATGCCACTGTCCCACACAGGGT
CTTACACGTAAATCATATACG
Found at i:1954723 original size:35 final size:35
Alignment explanation
Indices: 1954640--1954766 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
1954630 GTACATCGTC
* * * *
1954640 AGTCCAACCAAAACACACCAGATGCTCACACGGGCC
1 AGTCCAACCAAAACACACCA-ATGCTCATAAGAGCT
* ** *
1954676 AATCCCTCCAAAACACAGCAATGCTCATAAGAGCT
1 AGTCCAACCAAAACACACCAATGCTCATAAGAGCT
*
1954711 AGTCCAATCAAAACACACCAATGCTCATAAGAGCT
1 AGTCCAACCAAAACACACCAATGCTCATAAGAGCT
*
1954746 AGTCCAACCGAAACACACCAA
1 AGTCCAACCAAAACACACCAA
1954767 AAAGATAGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 60 0.79
36 16 0.21
ACGTcount: A:0.41, C:0.34, G:0.13, T:0.13
Consensus pattern (35 bp):
AGTCCAACCAAAACACACCAATGCTCATAAGAGCT
Found at i:1960113 original size:42 final size:42
Alignment explanation
Indices: 1960047--1960296 Score: 351
Period size: 42 Copynumber: 5.9 Consensus size: 42
1960037 AGCGTTTTCA
* *
1960047 AAAAAAACGCCGCTAGAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
1960089 GAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
1960131 AAAAAAACGCTGCTAAAGAACATGTTCTTTTGCGGCGCTTAT
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
1960173 AACAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
1960215 AAAAGAAACGCCGCTAAAGAAAATGTTCTTTAGCGGCGCTTTA-
1 AAAA-AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTAG
* *
1960258 AAAAGAAATGCCGCTAAAG-ACAATGCTCTTTTAGCGGCG
1 AAAA-AAACGCCGCTAAAGAAC-ATGTTC-TTTAGCGGCG
1960297 TTTATTCTTA
Statistics
Matches: 188, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
42 119 0.63
43 56 0.30
44 13 0.07
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:1960687 original size:21 final size:21
Alignment explanation
Indices: 1960661--1960714 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1960651 GCCTGCTCTA
*
1960661 CTTCTCTTGCTGCAGCTTCTG
1 CTTCTCTCGCTGCAGCTTCTG
*
1960682 CTTCTCTCGCTGTAGCTTCTG
1 CTTCTCTCGCTGCAGCTTCTG
*
1960703 CTTCTCGCGCTG
1 CTTCTCTCGCTG
1960715 TCGCCTCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.35, G:0.20, T:0.41
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCTTCTG
Found at i:1960715 original size:21 final size:21
Alignment explanation
Indices: 1960669--1960726 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
1960659 TACTTCTCTT
* *
1960669 GCTGCAGCTTCTGCTTCTCTC
1 GCTGTAGCTTCTGCTTCTCGC
1960690 GCTGTAGCTTCTGCTTCTCGC
1 GCTGTAGCTTCTGCTTCTCGC
* *
1960711 GCTGTCGCCTCTGCTT
1 GCTGTAGCTTCTGCTT
1960727 TAAGTTGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.03, C:0.36, G:0.22, T:0.38
Consensus pattern (21 bp):
GCTGTAGCTTCTGCTTCTCGC
Found at i:1968522 original size:44 final size:44
Alignment explanation
Indices: 1968438--1968523 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
1968428 ACATATCCAA
* * **
1968438 TTGCGGCGTTTTAAGCAAAGCGCCACAAAATGTAGGTCAAAAAT
1 TTGCAGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
* *
1968482 TTGCAGCGTTTTATA-CTAAGCGCCACTAAATATAACTCAAAA
1 TTGCAGCGTTTTA-AGCAAAGCGCCACAAAATATAACTCAAAA
1968524 CGCGGTCGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (44 bp):
TTGCAGCGTTTTAAGCAAAGCGCCACAAAATATAACTCAAAAAT
Found at i:1969078 original size:7 final size:7
Alignment explanation
Indices: 1969068--1969140 Score: 83
Period size: 7 Copynumber: 10.3 Consensus size: 7
1969058 ACCTCAAAAA
1969068 CCAAACC
1 CCAAACC
1969075 CCAAACC
1 CCAAACC
1969082 CCAAACC
1 CCAAACC
*
1969089 CCAATCC
1 CCAAACC
*
1969096 CTAAACC
1 CCAAACC
* *
1969103 CTAAATC
1 CCAAACC
1969110 CCAAACC
1 CCAAACC
*
1969117 CTAAACC
1 CCAAACC
*
1969124 CTAAACC
1 CCAAACC
1969131 CCAAAACC
1 CC-AAACC
1969139 CC
1 CC
1969141 GAGCAGTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
7 50 0.88
8 7 0.12
ACGTcount: A:0.41, C:0.51, G:0.00, T:0.08
Consensus pattern (7 bp):
CCAAACC
Found at i:1969086 original size:21 final size:21
Alignment explanation
Indices: 1969055--1969135 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
1969045 TTCTAATCCT
* *
1969055 TAAACCTCAAAAACCAAACCC
1 TAAACCCCAAAACCCAAACCC
* * *
1969076 CAAACCCCAAACCCCAATCCC
1 TAAACCCCAAAACCCAAACCC
* *
1969097 TAAACCCTAAATCCCAAACCC
1 TAAACCCCAAAACCCAAACCC
* *
1969118 TAAACCCTAAACCCCAAA
1 TAAACCCCAAAACCCAAA
1969136 ACCCCGAGCA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (21 bp):
TAAACCCCAAAACCCAAACCC
Found at i:1970394 original size:114 final size:114
Alignment explanation
Indices: 1970194--1970473 Score: 560
Period size: 114 Copynumber: 2.5 Consensus size: 114
1970184 NNNNNNNNNN
1970194 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1970259 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
66 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
1970308 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1970373 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
66 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
1970422 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGAT
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGAT
1970474 ATCTGGAGGC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 166 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (114 bp):
GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
Found at i:1970540 original size:114 final size:113
Alignment explanation
Indices: 1970194--1970598 Score: 543
Period size: 114 Copynumber: 3.6 Consensus size: 113
1970184 NNNNNNNNNN
1970194 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1970259 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
66 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTA-CAAGT
1970308 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
1970373 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTATCAAGT
66 TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTA-CAAGT
* * *
1970422 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGAT-ATCTGGAGGCCC
1 GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGAT-TTGCGGCGC
* * * * * * *
1970486 TTCCCACCAAACGCTGCT-ATAACTATCCTTTA-CTGGCGTTTTCCTTA-AA-C
65 ATCCGA-CAAACGCCGCTGATGA-TATACTTTAGC-GGCATTTT--TTACAAGT
* * * * * *
1970536 GCCACTAATTATAGTA-TACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATGTTTTGCGGCG
1 GCCACTAATTCTAATACT-CCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCG
1970599 TTTAACGCTC
Statistics
Matches: 264, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
113 3 0.01
114 230 0.87
115 28 0.11
117 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (113 bp):
GCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATGATTTGCGGCGCA
TCCGACAAACGCCGCTGATGATATACTTTAGCGGCATTTTTTACAAGT
Found at i:1974163 original size:29 final size:29
Alignment explanation
Indices: 1974130--1974186 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
1974120 ATTTAAAACT
1974130 ATGTAATTATCGATACAATTTCAAAAGTG
1 ATGTAATTATCGATACAATTTCAAAAGTG
1974159 ATGTAATTATCGATACAATTTCAAAAGT
1 ATGTAATTATCGATACAATTTCAAAAGT
1974187 ATCTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (29 bp):
ATGTAATTATCGATACAATTTCAAAAGTG
Found at i:1980791 original size:23 final size:23
Alignment explanation
Indices: 1980765--1980820 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
1980755 ATTGTTGTGG
1980765 CCAACGAGAAGAACGAGTTGATT
1 CCAACGAGAAGAACGAGTTGATT
*
1980788 CCAACGGGAAGAACGAGTTGATT
1 CCAACGAGAAGAACGAGTTGATT
*
1980811 CCAACAAGAA
1 CCAACGAGAA
1980821 CAACCACGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (23 bp):
CCAACGAGAAGAACGAGTTGATT
Found at i:1990126 original size:25 final size:25
Alignment explanation
Indices: 1990098--1990172 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
1990088 GAGAGCTTAT
**
1990098 CGATTCTCAGCTTGTATGAGGTTAC
1 CGATTCTCAGCTTGTATGAGCATAC
1990123 CGATT-TACAGCTTGTGA-GAGCATAC
1 CGATTCT-CAGCTTGT-ATGAGCATAC
*
1990148 CGATTCAT-AGCTCGTATGAGCATAC
1 CGATTC-TCAGCTTGTATGAGCATAC
1990173 ATGTACAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
24 2 0.05
25 38 0.90
26 1 0.02
27 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
CGATTCTCAGCTTGTATGAGCATAC
Found at i:1990141 original size:50 final size:51
Alignment explanation
Indices: 1990055--1990168 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 51
1990045 AGACACACCA
** * *
1990055 CAGCTTGTATGAGCTTACCGATTTGTAGATCATGAGAGCTTATCGATTC-T
1 CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
* * **
1990105 CAGCTTGTATGAGGTTACCGATTTACAGCTTGTGAGAGCATACCGATTCAT
1 CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
*
1990156 -AGCTCGTATGAGC
1 CAGCTTGTATGAGC
1990169 ATACATGTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (51 bp):
CAGCTTGTATGAGCTTACCGATTTACAGATCATGAGAGCATACCGATTCAT
Found at i:1991404 original size:13 final size:13
Alignment explanation
Indices: 1991363--1991396 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1991353 ACAGTGAGTT
* *
1991363 ACATGGCTTGGCG
1 ACATGGCCTGGGG
1991376 ACATGGCCTGGGG
1 ACATGGCCTGGGG
1991389 ACATGGCC
1 ACATGGCC
1991397 GTGTGACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (13 bp):
ACATGGCCTGGGG
Found at i:1994083 original size:6 final size:6
Alignment explanation
Indices: 1994074--1994126 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
1994064 GTTTTATTTT
* *
1994074 TTTATG TTTATG TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1994122 TTTAT
1 TTTAT
1994127 TAAGAGCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:2002087 original size:21 final size:21
Alignment explanation
Indices: 2002057--2002099 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2002047 GTATTATGCA
*
2002057 TTATACATATGTGCCCATAAT
1 TTATACATATGTGCCCACAAT
*
2002078 TTATATATATGTGCCCACAAT
1 TTATACATATGTGCCCACAAT
2002099 T
1 T
2002100 ATCCAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
TTATACATATGTGCCCACAAT
Found at i:2003718 original size:127 final size:127
Alignment explanation
Indices: 2003492--2003746 Score: 456
Period size: 127 Copynumber: 2.0 Consensus size: 127
2003482 TATATATAAG
2003492 TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTTAACTTGATGTTT
1 TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTTAACTTGATGTTT
*
2003557 AACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCATTGTCGGTATTATACCATCTTGA
66 AACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
* * *
2003619 TAAATGAGTAAACATAAAACCTGGTTCTAAAACTCCCTGTTTCCTCTTTTTTTAACTTGATGTTT
1 TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTTAACTTGATGTTT
* *
2003684 AACTTCTCAGCCAAGTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
66 AACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
2003746 T
1 T
2003747 CTCCACTATA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (127 bp):
TAAATGAGGAAACATAAAACCTAGTTCTAAAACTCCATGTTTCCTCTTTTTTTAACTTGATGTTT
AACTCCTCAGCCAACTTTTTCAAATGTTGTAAGGTTCCACTGTCGGTATTATACCATCTTGA
Found at i:2031863 original size:26 final size:26
Alignment explanation
Indices: 2031834--2031894 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
2031824 TAGGTTAATT
* *
2031834 TTAAAATAAGTAATATGTAAAATAAC
1 TTAAAATAAATAATATATAAAATAAC
*
2031860 TTAAAATAAATAATATATAAAGTAAC
1 TTAAAATAAATAATATATAAAATAAC
2031886 TTAAAATAA
1 TTAAAATAA
2031895 TTAGTCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:2031942 original size:21 final size:21
Alignment explanation
Indices: 2031913--2031952 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2031903 ATAAGTTAGG
2031913 TTAAAATAATAAATAAAAGGT
1 TTAAAATAATAAATAAAAGGT
* **
2031934 TTAATATAATCTATAAAAG
1 TTAAAATAATAAATAAAAG
2031953 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAAAATAATAAATAAAAGGT
Found at i:2033404 original size:14 final size:15
Alignment explanation
Indices: 2033380--2033414 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2033370 TTTTGGTTTG
2033380 TTATATGGACTGTTA
1 TTATATGGACTGTTA
*
2033395 TTAT-TGGACTTTTA
1 TTATATGGACTGTTA
2033409 TTATAT
1 TTATAT
2033415 ATATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (15 bp):
TTATATGGACTGTTA
Found at i:2034422 original size:88 final size:89
Alignment explanation
Indices: 2034235--2034474 Score: 331
Period size: 88 Copynumber: 2.7 Consensus size: 89
2034225 ACTTTACTGT
* * *
2034235 CAGTACAAGGAAG-CGAGATCTGCTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGACT
1 CAGTAC-AGGAAGACAAGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCT
**
2034299 TGCTATCTTCGATCTGCTTCGCTAC
65 TGCTATCTTCGATCTGCTTCAATAC
* * * *
2034324 CAGTAGAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGC-T
1 CAGTACAGGAAGACAAGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTT
* *
2034388 GGTGTCTTCGATCTGCTTCAATAC
66 GCTATCTTCGATCTGCTTCAATAC
* * *
2034412 CAGTACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCACTACTACTCAGGGAGATAAGGC
1 CAGTACAGGAAGACAAGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGC
2034475 AAGTGGCTTA
Statistics
Matches: 132, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
88 83 0.63
89 49 0.37
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (89 bp):
CAGTACAGGAAGACAAGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTT
GCTATCTTCGATCTGCTTCAATAC
Found at i:2034511 original size:88 final size:87
Alignment explanation
Indices: 2034250--2034560 Score: 279
Period size: 88 Copynumber: 3.5 Consensus size: 87
2034240 CAAGGAAGCG
* * * *
2034250 AGATCTGCTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGACTTGCTATCTTCGATCTG
1 AGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTAG-TGTCTTCGATCTG
* *
2034315 CTTCGCTACCAGT-AGAGGAAGACA
65 CTTCACTACCA-TCTG-GGAAGACA
* * * *
2034339 AGATCTACTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGTCTTCGATCTGC
1 AGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTCTTCGATCTGC
* *
2034404 TTCAATACCAGTAC-AGGAAGACA
66 TTCACTACCA-T-CTGGGAAGACA
* * * * * **
2034427 AGATCTACTATCTTCAGTCTACTCCACTACTACTCAGGGAGATAAGGCAAGTGGCTTAAATCTGC
1 AGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTCTTCGATCTGC
* * *
2034492 TTCCCTACTATCTTGGGAAGATA
66 TTCACTACCATC-TGGGAAGACA
* * * * *
2034515 AGAT-T-CATCGTCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAG
1 AGATCTAC-T-ATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAG
2034561 ATCTGTAATC
Statistics
Matches: 184, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
86 2 0.01
87 3 0.02
88 134 0.73
89 45 0.24
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
AGATCTACTATCTTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGTCTTCGATCTGC
TTCACTACCATCTGGGAAGACA
Found at i:2034627 original size:176 final size:176
Alignment explanation
Indices: 2034428--2034997 Score: 768
Period size: 176 Copynumber: 3.2 Consensus size: 176
2034418 AGGAAGACAA
* ** * * *
2034428 GATCTACTATCTTCAGTCTACTCCACTACTACTCAGGGAGATAAGGCAAGTGGCTTAAATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT
** * *
2034493 TCCCTACTATCTTGGGAAGATAAGATTCATCGTCTTCAATCTGCTCCACTACTGCTTAGAGAGAT
66 TCCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* *
2034558 AAGATCTGTAATCTTCCACCTATTCAACTGCTGTCCAGGGAGATAG
131 AAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAG
* * * *
2034604 GATCTACAATCTTCGACCTACTCCATTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTTCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT
* *
2034669 TCCCTACTATATTGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
66 TCCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * *
2034734 AAGATCTGAAATCTTCAACCTACTCCACT-ATTTTCAAGGAGATAAG
131 AAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGAT-AG
* * * * * *
2034780 G-TCTAAAATCTTCAACCTACTCTACCGCTGCTCAGGGAGATAAGGGTAGTGGCTTAAATCCGTT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT
* * *
2034844 TCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTTAGGGAGAT
66 TCCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
* *
2034909 AAGATCTGTAATCTTCAACCTATTCCATTGCTGTCTAGGGAGATAG
131 AAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAG
* *
2034955 GAT-TCACAATCTTCAACCTACTCCACTGTTGCTCAAGGAGATA
1 GATCT-ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATA
2034998 GGACTTACAA
Statistics
Matches: 338, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
175 153 0.45
176 185 0.55
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (176 bp):
GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT
TCCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
AAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAG
Found at i:2034948 original size:44 final size:44
Alignment explanation
Indices: 2034918--2035102 Score: 266
Period size: 44 Copynumber: 4.2 Consensus size: 44
2034908 TAAGATCTGT
*
2034918 AATCTTCAACCTATTCCATTGCTGTCTAGGGAGATAGGATTCAC
1 AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGATTCAC
* * *
2034962 AATCTTCAACCTACTCCACTGTTG-CTCAAGGAGATAGGACTT-AC
1 AATCTTCAACCTATTCCACTGCTGTCT-AGGGAGATAGGA-TTCAC
*
2035006 AATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCAC
1 AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGATTCAC
* * *
2035050 AATCTTCAACCTATTCCACTACTGTCCAAGGAGATAGGATTCAC
1 AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGATTCAC
2035094 AATCTTCAA
1 AATCTTCAA
2035103 TCCGCTTCGC
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
43 4 0.03
44 120 0.94
45 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGATTCAC
Found at i:2034981 original size:88 final size:88
Alignment explanation
Indices: 2034525--2035073 Score: 307
Period size: 88 Copynumber: 6.2 Consensus size: 88
2034515 AGATTCATCG
* * * * * * *
2034525 TCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCCACCTATTCAACTGCT
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACT
*
2034590 GTCCAGGGAGATAGGA-TCTACAA
66 GTCTAGGGAGATAGGATTC-ACAA
* * * * * ** * * *
2034613 TCTTCGACCTACTCCATTGCTGCTCAAGGAGATAAG-GCTAGT-GGCTTAAATCTTCTTCC-CTA
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATCTTCAA-CCTATTCCACTA
* * * * ** **
2034675 CTATATTGGGAAGATAAGATTTGCCG
64 CTGTCTAGGG-AGATAGGATTCACAA
* * * * * * *
2034701 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTACTCCACTATT
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACT
* * *
2034766 TTC-AAGGAGATAAGG--TCTAAAA
66 GTCTAGGGAGAT-AGGATTC-ACAA
* ** * * *
2034788 TCTTCAACCTACTCTACCGCTGCTCAGGGAGATAAG---GGTAGTGGCTTAAATCCGT-TTCC-C
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCAA-CC-TATTCCAC
** * * * **
2034848 TACTACCTTGGGAAGATAAGATTCGCCG
62 TACTGTCTAGGG-AGATAGGATTCACAA
** ** * * * *
2034876 TCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCATTGCT
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACT
2034941 GTCTAGGGAGATAGGATTCACAA
66 GTCTAGGGAGATAGGATTCACAA
** * * *
2034964 TCTTCAACCTACTCCACTGTTGCTCAAGGAGATAGGA-CT-TACAATCTTCAACCTATTCCACTG
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGT--AATCTTCAACCTATTCCACTA
*
2035027 CTGTCCAGGGAGATAGGATTCACAA
64 CTGTCTAGGGAGATAGGATTCACAA
*
2035052 TCTTCAACCTATTCCACTACTG
1 TCTTCAACCTACTCCACTACTG
2035074 TCCAAGGAGA
Statistics
Matches: 328, Mismatches: 109, Indels: 48
0.68 0.22 0.10
Matches are distributed among these distances:
84 3 0.01
86 12 0.04
87 59 0.18
88 222 0.68
89 28 0.09
91 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
TCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTACT
GTCTAGGGAGATAGGATTCACAA
Found at i:2035080 original size:88 final size:88
Alignment explanation
Indices: 2034887--2035102 Score: 294
Period size: 88 Copynumber: 2.5 Consensus size: 88
2034877 CTTTGATTTG
* * * ** * *
2034887 CTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATCTTCAACCTATTCCATTGCTGTCTAGGGAG
1 CTCCACTACTGCTCAAGGAGATAGGATTC-ACAATCTTCAACCTATTCCACTGCTGTCCAGGGAG
2034951 ATAGGATTCACAATCTTCAACCTA
65 ATAGGATTCACAATCTTCAACCTA
**
2034975 CTCCACTGTTGCTCAAGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGTCCAGGGAG
1 CTCCACTACTGCTCAAGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGTCCAGGGAG
2035039 ATAGGATTCACAATCTTCAACCTA
65 ATAGGATTCACAATCTTCAACCTA
*
2035063 TTCCACTACTG-TCCAAGGAGATAGGATTCACAATCTTCAA
1 CTCCACTACTGCT-CAAGGAGATAGGATTCACAATCTTCAA
2035103 TCCGCTTCGC
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
87 3 0.03
88 108 0.96
90 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (88 bp):
CTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGA
TAGGATTCACAATCTTCAACCTA
Found at i:2035085 original size:351 final size:351
Alignment explanation
Indices: 2034459--2035102 Score: 805
Period size: 351 Copynumber: 1.8 Consensus size: 351
2034449 TCCACTACTA
* * *
2034459 CTCAGGGAGATAAGGCAAGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTCATC
1 CTCAGGGAGATAAGGCAAGTGGCTTAAATCCGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
*
2034524 GTCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCCACCTATTCAACTGC
66 GTCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAACCTATTCAACTGC
* * *
2034589 TGTCCAGGGAGATAGGATCTACAATCTTCGACCTACTCCATTGCTGCTCAAGGAGATAAGGCTAG
131 TGTCCAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAC
** * * ** ** ** * * *
2034654 TGGCTTAAATCTTCTTCCCTACTATATTGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACT
196 AAGCTTAAATCCTATTCCCTACTATACAGGGAAGATAAGATTCACAATCTTCAACCTACTCCACT
* * *
2034719 ACTGCTTAGGGAGATAAGATCTGA-AATCTTCAACCTACTCCACTATTTTCAAGGAGATAAGGTC
261 ACTGCTCAAGGAGATAAGAT-TCACAATCTTCAACCTACTCCACTATTTTCAAGGAGATAAGGTC
2034783 TAAAATCTTCAACCTACTCTACCGCTG
325 TAAAATCTTCAACCTACTCTACCGCTG
** * *
2034810 CTCAGGGAGATAAGGGTAGTGGCTTAAATCCGTTTCCCTACTACCTTGGGAAGATAAGATTCGCC
1 CTCAGGGAGATAAGGCAAGTGGCTTAAATCCGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
** * * * *
2034875 GTCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCATTGC
66 GTCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAACCTATTCAACTGC
* *
2034940 TGTCTAGGGAGATAGGAT-TCACAATCTTCAACCTACTCCACTGTTGCTCAAGGAGAT-AGGACT
131 TGTCCAGGGAGATAGGATCT-ACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGG-C-
* * * * * * *
2035003 TACAATCTTCAA-CCTATTCCACTGCTGTCCAGGG-AGATAGGATTCACAATCTTCAACCTATTC
193 TACAAGCTTAAATCCTATTCC-CTACTATACAGGGAAGATAAGATTCACAATCTTCAACCTACTC
*
2035066 CACTACTG-TCCAAGGAGATAGGATTCACAATCTTCAA
257 CACTACTGCT-CAAGGAGATAAGATTCACAATCTTCAA
2035103 TCCGCTTCGC
Statistics
Matches: 244, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
350 7 0.03
351 222 0.91
352 15 0.06
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (351 bp):
CTCAGGGAGATAAGGCAAGTGGCTTAAATCCGCTTCCCTACTACCTTGGGAAGATAAGATTCACC
GTCTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTCAACCTATTCAACTGC
TGTCCAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAC
AAGCTTAAATCCTATTCCCTACTATACAGGGAAGATAAGATTCACAATCTTCAACCTACTCCACT
ACTGCTCAAGGAGATAAGATTCACAATCTTCAACCTACTCCACTATTTTCAAGGAGATAAGGTCT
AAAATCTTCAACCTACTCTACCGCTG
Found at i:2037446 original size:10 final size:10
Alignment explanation
Indices: 2037433--2037467 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
2037423 GATTTTGACC
2037433 TTTTTTATTA
1 TTTTTTATTA
*
2037443 TTTTTGA-TA
1 TTTTTTATTA
2037452 TTTTTTATTA
1 TTTTTTATTA
2037462 TTTTTT
1 TTTTTT
2037468 TTGAATCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:2037447 original size:19 final size:19
Alignment explanation
Indices: 2037410--2037466 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2037400 TCATCATTTT
*
2037410 CATTTTTTATTTTGATTTTGA
1 CATTTTTTATTAT--TTTTGA
*
2037431 CCTTTTTTATTATTTTTGA
1 CATTTTTTATTATTTTTGA
*
2037450 TATTTTTTATTATTTTT
1 CATTTTTTATTATTTTT
2037467 TTTGAATCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 21 0.66
21 11 0.34
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (19 bp):
CATTTTTTATTATTTTTGA
Found at i:2041889 original size:26 final size:26
Alignment explanation
Indices: 2041859--2041919 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
2041849 TAGGTTAATT
* *
2041859 TTAAAATAAGTAATATGTAAAATAAC
1 TTAAAATAAATAATATATAAAATAAC
*
2041885 TTAAAATAAATAATATATAAAGTAAC
1 TTAAAATAAATAATATATAAAATAAC
2041911 TTAAAATAA
1 TTAAAATAA
2041920 TTAGTCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAATAAC
Found at i:2041967 original size:21 final size:21
Alignment explanation
Indices: 2041938--2041977 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2041928 ATAGGTTATG
2041938 TTAAAATAATAAATAAAAGGT
1 TTAAAATAATAAATAAAAGGT
* **
2041959 TTAATATAATCTATAAAAG
1 TTAAAATAATAAATAAAAG
2041978 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAAAATAATAAATAAAAGGT
Found at i:2043142 original size:21 final size:20
Alignment explanation
Indices: 2043109--2043148 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2043099 AATCGGGTTT
2043109 GGGTTAGGCTAATTTGGGCTG
1 GGGTTAGGCTAA-TTGGGCTG
2043130 GGGTT-GGCTTAATTGGGCT
1 GGGTTAGGC-TAATTGGGCT
2043149 TAGTTCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.10, G:0.42, T:0.35
Consensus pattern (20 bp):
GGGTTAGGCTAATTGGGCTG
Done.