Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013859.1 Kokia drynarioides strain JFW-HI SEQ_128887, whole genome shotgun sequence
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: 257970
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 66 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4483 original size:18 final size:17
Alignment explanation
Indices: 4462--4521 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
4452 CAACAGTTCT
4462 CATAAAATAAGCAGTGCA
1 CATAAAATAAGCAGT-CA
* * *
4480 CATATAATAAGTAATTCA
1 CATAAAATAAG-CAGTCA
*
4498 CATAAAATAGGCAGATCA
1 CATAAAATAAGCAG-TCA
4516 CATAAA
1 CATAAA
4522 TTATCAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.91
19 2 0.06
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.22
Consensus pattern (17 bp):
CATAAAATAAGCAGTCA
Found at i:4503 original size:36 final size:35
Alignment explanation
Indices: 4462--4535 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
4452 CAACAGTTCT
4462 CATAAAATAAGCAG-TGCACATATAATAAGT-AATTCA
1 CATAAAATAAGCAGAT-CACATA-AATAA-TCAATTCA
* *
4498 CATAAAATAGGCAGATCACATAAATTATCAATTCA
1 CATAAAATAAGCAGATCACATAAATAATCAATTCA
4533 CAT
1 CAT
4536 CAAACATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 1 0.03
35 13 0.38
36 19 0.56
37 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (35 bp):
CATAAAATAAGCAGATCACATAAATAATCAATTCA
Found at i:4607 original size:52 final size:51
Alignment explanation
Indices: 4545--4654 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 51
4535 TCAAACATCT
* * * *
4545 GTTCATATGAAATAACATTTCATACCAAATGACAGGTT-ATGCAAAAATAATA
1 GTTCATATGAAACAACAGTTCATACCAAATAACA-ATTCATGC-AAAATAATA
* * *
4597 GTTCATATGAAACATCAGTTCATATCGAATAACAATTCATGCAAAATAATA
1 GTTCATATGAAACAACAGTTCATACCAAATAACAATTCATGCAAAATAATA
4648 GTTCATA
1 GTTCATA
4655 CTCCATCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 18 0.36
52 32 0.64
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.30
Consensus pattern (51 bp):
GTTCATATGAAACAACAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:5337 original size:18 final size:18
Alignment explanation
Indices: 5314--5384 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
5304 AGTTTGGAAA
5314 ATTAATACAATTCGCCAT
1 ATTAATACAATTCGCCAT
* * *
5332 ATTAATACAAATCACCAA
1 ATTAATACAATTCGCCAT
* * *
5350 ATTAACACAGTTTGCCAT
1 ATTAATACAATTCGCCAT
* * *
5368 AATAATATAATTTGCCA
1 ATTAATACAATTCGCCA
5385 AGTTAGCACG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
ATTAATACAATTCGCCAT
Found at i:5678 original size:31 final size:31
Alignment explanation
Indices: 5615--5678 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
5605 CGCAAGCATT
*
5615 ACAAAACCCATATACATATATATTATATAAA
1 ACAAAACCCATATACATATATATTATACAAA
*
5646 ACAAGACCCATATATGCATATATA-TA-ACAAA
1 ACAAAACCCATATA--CATATATATTATACAAA
5677 AC
1 AC
5679 CCACACCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 19 0.66
32 2 0.07
33 8 0.28
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (31 bp):
ACAAAACCCATATACATATATATTATACAAA
Found at i:7788 original size:17 final size:17
Alignment explanation
Indices: 7766--7920 Score: 141
Period size: 17 Copynumber: 9.1 Consensus size: 17
7756 GGGTAACATG
*
7766 TGTGAACCTATGTTTTA
1 TGTGAACCTATGTTATA
7783 TGTGAACCTATGTTATA
1 TGTGAACCTATGTTATA
*
7800 TGCGAACCTATGTTATA
1 TGTGAACCTATGTTATA
* *
7817 AGTGAACCCATGTTATA
1 TGTGAACCTATGTTATA
* *
7834 TATGAACCTTTGTTATA
1 TGTGAACCTATGTTATA
*** *
7851 TAAAAAACCCATGTTATA
1 T-GTGAACCTATGTTATA
* *
7869 TGCGAACCTATGTTACA
1 TGTGAACCTATGTTATA
*
7886 TGCGAA-CTCATGTTATA
1 TGTGAACCT-ATGTTATA
** *
7903 TACGAACCCATGTTATA
1 TGTGAACCTATGTTATA
7920 T
1 T
7921 ACGAACTCAT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
16 2 0.02
17 98 0.86
18 14 0.12
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (17 bp):
TGTGAACCTATGTTATA
Found at i:7812 original size:34 final size:34
Alignment explanation
Indices: 7769--7920 Score: 169
Period size: 34 Copynumber: 4.4 Consensus size: 34
7759 TAACATGTGT
* * *
7769 GAACCTATGTTTTATGTGAACCTATGTTATATGC
1 GAACCTATGTTATATGTGAACCCATGTTATATAC
* *
7803 GAACCTATGTTATAAGTGAACCCATGTTATATAT
1 GAACCTATGTTATATGTGAACCCATGTTATATAC
* *** *
7837 GAACCTTTGTTATATAAAAAACCCATGTTATATGC
1 GAACCTATGTTATAT-GTGAACCCATGTTATATAC
* * *
7872 GAACCTATGTTACATGCGAACTCATGTTATATAC
1 GAACCTATGTTATATGTGAACCCATGTTATATAC
*
7906 GAACCCATGTTATAT
1 GAACCTATGTTATAT
7921 ACGAACTCAT
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
34 69 0.72
35 27 0.28
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (34 bp):
GAACCTATGTTATATGTGAACCCATGTTATATAC
Found at i:7872 original size:69 final size:69
Alignment explanation
Indices: 7787--7921 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
7777 GTTTTATGTG
* * * * **
7787 AACCTATGTTATATGCGAACCTATGTTATAAGTGAACCCATGTTATATATGAACCTTTGTTATAT
1 AACCCATGTTATATGCGAACCTATGTTACAAGCGAACCCATGTTATATACGAACCCATGTTATAT
7852 AAAA
66 AAAA
* *
7856 AACCCATGTTATATGCGAACCTATGTTACATGCGAACTCATGTTATATACGAACCCATGTTATAT
1 AACCCATGTTATATGCGAACCTATGTTACAAGCGAACCCATGTTATATACGAACCCATGTTATAT
7921 A
66 A
7922 CGAACTCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (69 bp):
AACCCATGTTATATGCGAACCTATGTTACAAGCGAACCCATGTTATATACGAACCCATGTTATAT
AAAA
Found at i:13658 original size:29 final size:29
Alignment explanation
Indices: 13625--13789 Score: 137
Period size: 30 Copynumber: 5.6 Consensus size: 29
13615 GACATTTGGC
13625 GTAAAATGGTAATTTTTCGAAAAATC-AGG
1 GTAAAATGGTAATTTTT-GAAAAATCGAGG
* **
13654 GTAAAAAATGG-AATTTTTGGAAGTTCGAGG
1 GT--AAAATGGTAATTTTTGAAAAATCGAGG
13684 GTAAAATGGTAATTTTTAGAAAAATCGA-G
1 GTAAAATGGTAATTTTT-GAAAAATCGAGG
* * **
13713 GTCAAAAATAG-AATTTTTGGAAGTTCGAGG
1 GT--AAAATGGTAATTTTTGAAAAATCGAGG
13743 GTAAAATGGTAATTTTTTG-AAAATCGA-G
1 GTAAAATGGTAA-TTTTTGAAAAATCGAGG
13771 GTCAAAAATGG-AATTTTTG
1 GT--AAAATGGTAATTTTTG
13790 GAAAGTTGGG
Statistics
Matches: 111, Mismatches: 13, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
28 22 0.20
29 34 0.31
30 42 0.38
31 13 0.12
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (29 bp):
GTAAAATGGTAATTTTTGAAAAATCGAGG
Found at i:13671 original size:30 final size:29
Alignment explanation
Indices: 13627--13846 Score: 127
Period size: 30 Copynumber: 7.5 Consensus size: 29
13617 CATTTGGCGT
13627 AAAATGGTAATTTTTCGAAAAATCAGGGTAA
1 AAAATGGTAATTTTT-GAAAAATCAGGGT-A
* **
13658 AAAATGG-AATTTTTGGAAGTTCGAGGGT-
1 AAAATGGTAATTTTTGAAAAATC-AGGGTA
13686 AAAATGGTAATTTTTAGAAAAATC-GAGGTCA
1 AAAATGGTAATTTTT-GAAAAATCAG-GGT-A
* * **
13717 AAAATAG-AATTTTTGGAAGTTCGAGGGT-
1 AAAATGGTAATTTTTGAAAAATC-AGGGTA
13745 AAAATGGTAATTTTTTG-AAAATC-GAGGTCA
1 AAAATGGTAA-TTTTTGAAAAATCAG-GGT-A
** **
13775 AAAATGG-AATTTTTGGAAAGTTGGGGGGTA
1 AAAATGGTAATTTTT-GAAAAAT-CAGGGTA
* * *
13805 AAAAT-GTATTTTTTGGAAAATTAGGGGTA
1 AAAATGGTAATTTTTGAAAAATCA-GGGTA
13834 AAAATGG-AATTTT
1 AAAATGGTAATTTT
13847 AGGAAGTTCG
Statistics
Matches: 146, Mismatches: 23, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
27 1 0.01
28 22 0.15
29 49 0.34
30 56 0.38
31 17 0.12
32 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTTGAAAAATCAGGGTA
Found at i:13698 original size:59 final size:59
Alignment explanation
Indices: 13591--13865 Score: 321
Period size: 59 Copynumber: 4.7 Consensus size: 59
13581 TTGGGAAAGT
* * * * *
13591 TCGAGGTCAAAAATGAAATTTTTAGACA-TTTG-GCGTAAAATGGTAATTTTTCGAAAAA
1 TCGAGGTCAAAAATGGAATTTTTGGA-AGTTCGAGGGTAAAATGGTAATTTTTTGAAAAA
* *
13649 TC-AGGGTAAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAAA
1 TCGA-GGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTTGAAAAA
*
13708 TCGAGGTCAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTTG-AAAA
1 TCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTTGAAAAA
* * *
13766 TCGAGGTCAAAAATGGAATTTTTGGAAAGTTGGGGGGTAAAAAT-GT-ATTTTTTGGAAAAT
1 TCGAGGTCAAAAATGGAATTTTTGG-AAGTTCGAGGGT-AAAATGGTAATTTTTT-GAAAAA
* * * *
13826 TAGGGGT-AAAAATGGAATTTTAGGAAGTTCGGGGGTAAAA
1 TCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAA
13866 ATTTAATTTT
Statistics
Matches: 192, Mismatches: 17, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
57 6 0.03
58 70 0.36
59 102 0.53
60 14 0.07
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (59 bp):
TCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTTGAAAAA
Found at i:13793 original size:29 final size:28
Alignment explanation
Indices: 13627--13851 Score: 159
Period size: 29 Copynumber: 7.6 Consensus size: 28
13617 CATTTGGCGT
*
13627 AAAATGGTAATTTTTCGAAAAATC-AGGGTAA
1 AAAATGG-AATTTTT-GGAAAATCGA-GGT-A
**
13658 AAAATGGAATTTTTGGAAGTTCGAGGGT-
1 AAAATGGAATTTTTGGAAAATCGA-GGTA
*
13686 AAAATGGTAATTTTTAGAAAAATCGAGGTCA
1 AAAATGG-AATTTTT-GGAAAATCGAGGT-A
* **
13717 AAAATAGAATTTTTGGAAGTTCGAGGGT-
1 AAAATGGAATTTTTGGAAAATCGA-GGTA
*
13745 AAAATGGTAATTTTTTGAAAATCGAGGTCA
1 AAAATGG-AATTTTTGGAAAATCGAGGT-A
* * *
13775 AAAATGGAATTTTTGGAAAGTTGGGGGGTA
1 AAAATGGAATTTTTGGAAA-AT-CGAGGTA
* * * *
13805 AAAATGTATTTTTTGGAAAATTAGGGGTA
1 AAAATGGAATTTTTGGAAAA-TCGAGGTA
*
13834 AAAATGGAATTTTAGGAA
1 AAAATGGAATTTTTGGAA
13852 GTTCGGGGGT
Statistics
Matches: 157, Mismatches: 25, Indels: 26
0.75 0.12 0.12
Matches are distributed among these distances:
28 16 0.10
29 68 0.43
30 56 0.36
31 17 0.11
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAAATCGAGGTA
Found at i:13860 original size:29 final size:29
Alignment explanation
Indices: 13652--13876 Score: 172
Period size: 29 Copynumber: 7.7 Consensus size: 29
13642 CGAAAAATCA
*
13652 GGGTAAAAAATGGAATTTTTGGAAGTTCGA
1 GGGT-AAAAATGGAATTTTTGGAAGTTCGG
* **
13682 GGGT-AAAATGGTAATTTTTAGAAAAATC-G
1 GGGTAAAAATGG-AATTTTT-GGAAGTTCGG
* * *
13711 AGGTCAAAAATAGAATTTTTGGAAGTTCGA
1 GGGT-AAAAATGGAATTTTTGGAAGTTCGG
* **
13741 GGGT-AAAATGGTAATTTTTTGAAAATC-G
1 GGGTAAAAATGG-AATTTTTGGAAGTTCGG
* *
13769 AGGTCAAAAATGGAATTTTTGGAAAGTTGGG
1 GGGT-AAAAATGGAATTTTTGG-AAGTTCGG
* * * *
13800 GGGTAAAAATGTATTTTTTGGAAAATT-AG
1 GGGTAAAAATGGAATTTTTGG-AAGTTCGG
*
13829 GGGTAAAAATGGAATTTTAGGAAGTTCGG
1 GGGTAAAAATGGAATTTTTGGAAGTTCGG
**
13858 GGGTAAAAATTTAATTTTT
1 GGGTAAAAATGGAATTTTT
13877 AGATAGTTTA
Statistics
Matches: 150, Mismatches: 34, Indels: 23
0.72 0.16 0.11
Matches are distributed among these distances:
28 20 0.13
29 71 0.47
30 49 0.33
31 10 0.07
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTCGG
Found at i:15047 original size:12 final size:12
Alignment explanation
Indices: 15012--15102 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 12
15002 TAATTTTCCT
15012 TTTTTATTAAT-
1 TTTTTATTAATA
15023 TTTATTATTAATA
1 TTT-TTATTAATA
15036 TTTTTATTAATA
1 TTTTTATTAATA
* *
15048 --TTCATTAATG
1 TTTTTATTAATA
*
15058 TTATTTATTACCTCTA
1 TT-TTTATTA---ATA
*
15074 TTTATTATTAACA
1 TTT-TTATTAATA
*
15087 TTATTATTAATA
1 TTTTTATTAATA
15099 TTTT
1 TTTT
15103 CAAAGCAGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
10 8 0.13
11 3 0.05
12 28 0.46
13 12 0.20
15 1 0.02
16 9 0.15
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (12 bp):
TTTTTATTAATA
Found at i:15846 original size:17 final size:18
Alignment explanation
Indices: 15816--15878 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 18
15806 ATTGGGCTTT
15816 TAAATTTCAAATTT-AAAC
1 TAAATTT-AAATTTCAAAC
15834 TAAATTTAAATTTCAAAC
1 TAAATTTAAATTTCAAAC
* *
15852 -AAATTTAAATTTGAAAA
1 TAAATTTAAATTTCAAAC
15869 TAAATTTAAA
1 TAAATTTAAA
15879 GCCAAATCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 21 0.51
18 20 0.49
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAATTTAAATTTCAAAC
Found at i:16469 original size:98 final size:98
Alignment explanation
Indices: 16306--16918 Score: 472
Period size: 98 Copynumber: 6.3 Consensus size: 98
16296 ATGGTACCAG
* * * *
16306 ATTCGCCATCGCGGCTTAAATCTTTCCCTTTCATGCTTCTGAGGTA-TAAGGTTCGCCATTACGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCC-TTCATGTTTCTGAGGTACT-AGGTTCGCCATTGCGA
*
16370 CTTAAACCTTTCCCTTCGTGTCTTTACGGTATTGT
64 CTTAAACCTTTCCCTTCATGTCTTTACGGTATTGT
* *
16405 ATTCGTCGTTGCGGCTTAAATCCTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACT
* *** * *
16470 TAAACCTTTCCCTTTATGTCTTCGTGGTACTGG
66 TAAACCTTTCCCTTCATGTCTTTACGGTATTGT
* * * * *
16503 ATTCGTCGTTACGGCTTAAATCCTTCCCTTCATGTCTCTGAGGTACTAGGTTCGTCATTGCGACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACT
* * **
16568 TAAACCTTTCCCTTTATG-CTTCTAAGGTACACG-
66 TAAACCTTTCCCTTCATGTCTT-TACGGTA-TTGT
* * ** * * * * * *
16601 GTTCGCCGTTGAGATTTAAACCTTTCCCTTTATATCTTC--ATGGTA-TTGGATTCGCCGTTGTG
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTCTGA-GGTACTAGG-TTCGCCATTGCG
* * * *
16663 CCTTAAATCTTTCCCTTCATGTCTCTGA-GGTACTAGGT
63 ACTTAAACCTTTCCCTTCATGTCT-TTACGGTA-T-TGT
* * * * * * *
16701 -TT-GCCATTACGACTTAAA-CTTTTCCCTTTATGCTTCTGAGGTAC-ACGGTTCACCGTTGCGA
1 ATTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATGTTTCTGAGGTACTA-GGTTCGCCATTGCGA
* * **
16762 CTTAAACCTTTCCCTTTATAT-GGTACTGG-ATT-T
64 CTTAAACCTTTCCCTTCATGTCTTTAC-GGTATTGT
* *
16795 A----CCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACT
* *** * *
16856 TAAACTTTTCCCTTTC-TGTCTTCGTGGTACTGG
66 TAAACCTTTCCC-TTCATGTCTTTACGGTATTGT
16889 ATTCGCCGTTGCGGCTTAAATCTTTCCCTT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTT
16919 TTGAGGCACA
Statistics
Matches: 407, Mismatches: 79, Indels: 57
0.75 0.15 0.10
Matches are distributed among these distances:
92 62 0.15
93 6 0.01
94 2 0.00
96 2 0.00
97 12 0.03
98 285 0.70
99 37 0.09
100 1 0.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (98 bp):
ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACT
TAAACCTTTCCCTTCATGTCTTTACGGTATTGT
Found at i:16571 original size:147 final size:146
Alignment explanation
Indices: 16413--16919 Score: 622
Period size: 147 Copynumber: 3.5 Consensus size: 146
16403 GTATTCGTCG
* * *
16413 TTGCGGCTTAAA-TCCTTCCCTTCATGTTTCTGAGGTACTA-GGTTCGCCATTGCGACTTAAACC
1 TTGCGACTTAAACT-CTTCCCTTCATGCTTCTGAGGTAC-ACGGTTCGCCGTTGCGACTTAAACC
* * ** *
16476 TTTCCCTTTATGTCTTCGTGGTACTGGATTCGTCGTTACGGCTTAAATCCTTCCCTTCATGTCTC
64 TTTCCCTTTAT-TCTTCATGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTC
*
16541 TGAGGTACTAGGTTCGTCA
128 TGAGGTACTAGGTTCGCCA
* * * *
16560 TTGCGACTTAAAC-CTTTCCCTTTATGCTTCTAAGGTACACGGTTCGCCGTTGAGATTTAAACCT
1 TTGCGACTTAAACTC-TTCCCTTCATGCTTCTGAGGTACACGGTTCGCCGTTGCGACTTAAACCT
* *
16624 TTCCCTTTATATCTTCATGGTATTGGATTCGCCGTTGTGCCTTAAATCTTTCCCTTCATGTCTCT
65 TTCCCTTTAT-TCTTCATGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCT
*
16689 GAGGTACTAGGTTTGCCA
129 GAGGTACTAGGTTCGCCA
* * * *
16707 TTACGACTTAAACTTTTCCCTTTATGCTTCTGAGGTACACGGTTCACCGTTGCGACTTAAACCTT
1 TTGCGACTTAAACTCTTCCCTTCATGCTTCTGAGGTACACGGTTCGCCGTTGCGACTTAAACCTT
**
16772 TCCCTTTA----T-ATGGTACTGGATTTACCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCTGA
66 TCCCTTTATTCTTCATGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCTGA
16832 GGTACTAGGTTCGCCA
131 GGTACTAGGTTCGCCA
* * * * *
16848 TTGCGACTTAAACTTTTCCCTTTC-TGTCTTC-GTGGTAC-TGGATTCGCCGTTGCGGCTTAAAT
1 TTGCGACTTAAACTCTTCCC-TTCATG-CTTCTGAGGTACACGG-TTCGCCGTTGCGACTTAAAC
16910 CTTTCCCTTT
63 CTTTCCCTTT
16920 TGAGGCACAA
Statistics
Matches: 318, Mismatches: 35, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
140 2 0.01
141 116 0.36
142 7 0.02
146 2 0.01
147 191 0.60
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (146 bp):
TTGCGACTTAAACTCTTCCCTTCATGCTTCTGAGGTACACGGTTCGCCGTTGCGACTTAAACCTT
TCCCTTTATTCTTCATGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCTGA
GGTACTAGGTTCGCCA
Found at i:16717 original size:49 final size:49
Alignment explanation
Indices: 16320--16918 Score: 427
Period size: 49 Copynumber: 12.3 Consensus size: 49
16310 GCCATCGCGG
* *
16320 CTTAAATCTTTCCCTTTCATG-CTTCTGAGGTA-TAAGGTTCGCCATTACGA
1 CTTAAATCTTTCCC-TTCATGTC-TCTGAGGTACT-AGGTTCGCCGTTGCGA
* * * * * * *
16370 CTTAAACCTTTCCCTTCGTGTCT-TTACGGTA-TTGTATTCGTCGTTGCGG
1 CTTAAATCTTTCCCTTCATGTCTCTGA-GGTACTAG-GTTCGCCGTTGCGA
* * *
16419 CTTAAATCCTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGA
1 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGA
* * * * * *
16468 CTTAAACCTTTCCCTTTATGTCT-TCGTGGTACT-GGATTCGTCGTTACGG
1 CTTAAATCTTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGCCGTTGCGA
* * *
16517 CTTAAATCCTTCCCTTCATGTCTCTGAGGTACTAGGTTCGTCATTGCGA
1 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGA
* * * *
16566 CTTAAACCTTTCCCTTTATG-CTTCTAAGGTAC-ACGGTTCGCCGTTGAGA
1 CTTAAATCTTTCCCTTCATGTC-TCTGAGGTACTA-GGTTCGCCGTTGCGA
* * * * * * * *
16615 TTTAAACCTTTCCCTTTATATCT-TCATGGTA-TTGGATTCGCCGTTGTGC
1 CTTAAATCTTTCCCTTCATGTCTCTGA-GGTACTAGG-TTCGCCGTTGCGA
* * *
16664 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTACGA
1 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGA
* *
16713 CTTAAA-CTTTTCCCTTTATG-CTTCTGAGGTAC-ACGGTTCACCGTTGCGA
1 CTTAAATC-TTTCCCTTCATGTC-TCTGAGGTACTA-GGTTCGCCGTTGCGA
* * * ** * *
16762 CTTAAACCTTTCCC-T--T-TATAT--GGTACT-GGATTTACCGTTGTGG
1 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGG-TTCGCCGTTGCGA
*
16805 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGA
1 CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGA
* *
16854 CTTAAA-CTTTTCCCTTTC-TGTCT-TCGTGGTACT-GGATTCGCCGTTGCGG
1 CTTAAATC-TTTCCC-TTCATGTCTCT-GAGGTACTAGG-TTCGCCGTTGCGA
16903 CTTAAATCTTTCCCTT
1 CTTAAATCTTTCCCTT
16919 TTGAGGCACA
Statistics
Matches: 433, Mismatches: 80, Indels: 74
0.74 0.14 0.13
Matches are distributed among these distances:
42 2 0.00
43 28 0.06
44 1 0.00
45 2 0.00
46 2 0.00
47 3 0.01
48 22 0.05
49 339 0.78
50 34 0.08
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (49 bp):
CTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGA
Found at i:28623 original size:30 final size:30
Alignment explanation
Indices: 28582--28849 Score: 123
Period size: 30 Copynumber: 9.0 Consensus size: 30
28572 TTTTGGATAC
* *
28582 TCGGGGGCAAAATGGTAATTTTGGGAAAGT
1 TCGGGGTCAAAATGGTAATTTTTGGAAAGT
* * *
28612 TCGGGGTCAAAAAAGG-AATTTTTAGACA-T
1 TCGGGGTC-AAAATGGTAATTTTTGGAAAGT
* **
28641 CTGGGGGT-AAAATGGTAATTTTTGGAAAAA
1 -TCGGGGTCAAAATGGTAATTTTTGGAAAGT
*
28671 TCGAGGTCAAAAATGG-AATTTTTGG-AAGT
1 TCGGGGTC-AAAATGGTAATTTTTGGAAAGT
* * * *
28700 TCAAGGGTTAAAATGGTAACTTTTGGAAAAAAT
1 TC-GGGGTCAAAATGGTAATTTTTGG--AAAGT
**
28733 T-AAGGTCAAAAAT-G-AATTTTTTGG-AAGTT
1 TCGGGGTC-AAAATGGTAA-TTTTTGGAAAG-T
* * * * *
28762 TAGGGAT-AAAATGGTAATTTCTAGAAAAAT
1 TCGGGGTCAAAATGGTAATTT-TTGGAAAGT
* *
28792 T-GAGGTTAAAATGG-AA-TTTTGGAAAGT
1 TCGGGGTCAAAATGGTAATTTTTGGAAAGT
* *
28819 TCAGGGGTAAAAAT-GTAATTTTTGGATAGT
1 TC-GGGGTCAAAATGGTAATTTTTGGAAAGT
28849 T
1 T
28850 TAGGGACCTT
Statistics
Matches: 177, Mismatches: 37, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
27 7 0.04
28 16 0.09
29 49 0.28
30 70 0.40
31 26 0.15
32 5 0.03
33 4 0.02
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (30 bp):
TCGGGGTCAAAATGGTAATTTTTGGAAAGT
Found at i:28724 original size:60 final size:59
Alignment explanation
Indices: 28590--28840 Score: 228
Period size: 59 Copynumber: 4.2 Consensus size: 59
28580 ACTCGGGGGC
** * * * ** *
28590 AAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAAAGGAATTTTTAGACA--TCTGGGGGT
1 AAAATGGTAATTTT-GGAAAAATCGAGGTCAAAAATGGAATTTTTGGA-AGTTCAAGGGTT
28649 AAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGTT
1 AAAATGGTAA-TTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGTT
** * *
28709 AAAATGGTAACTTTTGGAAAAAATTAAGGTCAAAAAT-GAATTTTTTGGAAGTT-TAGGGAT
1 AAAATGGTAA-TTTTGG-AAAAATCGAGGTCAAAAATGGAA-TTTTTGGAAGTTCAAGGGTT
* * * * *
28769 AAAATGGTAATTTCTAGAAAAATTGAGGT-TAAAATGGAA-TTTTGGAAAGTTCAGGGGTA
1 AAAATGGTAATTT-TGGAAAAATCGAGGTCAAAAATGGAATTTTTGG-AAGTTCAAGGGTT
28828 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
28841 TGGATAGTTT
Statistics
Matches: 163, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
57 7 0.04
58 18 0.11
59 63 0.39
60 46 0.28
61 29 0.18
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGTT
Found at i:30055 original size:12 final size:12
Alignment explanation
Indices: 29961--30055 Score: 68
Period size: 12 Copynumber: 7.7 Consensus size: 12
29951 TTTTCCTTTT
*
29961 TTATTAATTTTA
1 TTATTAATATTA
*
29973 TTATTAATATTT
1 TTATTAATATTA
29985 TTATTAATATTCA
1 TTATTAATATT-A
* **
29998 TTAATGCTATTTA
1 TTATTAATA-TTA
30011 TTACCTCT-AT-TTA
1 TTA--T-TAATATTA
*
30024 TTATTAACATTA
1 TTATTAATATTA
*
30036 TTACTAATATTA
1 TTATTAATATTA
30048 TTATTAAT
1 TTATTAAT
30056 TTGAATAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 41 0.64
13 16 0.25
14 2 0.03
15 1 0.02
16 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:30831 original size:6 final size:6
Alignment explanation
Indices: 30800--30846 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
30790 TAATTGGACT
* *
30800 TTTAAA TTTCAAA TTTAAA -CTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
30847 GCCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 8 0.24
6 20 0.59
7 6 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:30832 original size:17 final size:17
Alignment explanation
Indices: 30802--30846 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
30792 ATTGGACTTT
*
30802 TAAATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
30820 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
30837 TAAATTTAAA
1 TAAATTTAAA
30847 GCCAAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32239 original size:23 final size:25
Alignment explanation
Indices: 32213--32258 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32203 CCAATTAGGG
32213 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
32236 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
32259 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:38343 original size:321 final size:321
Alignment explanation
Indices: 37898--39504 Score: 2654
Period size: 321 Copynumber: 5.0 Consensus size: 321
37888 GAAAAAGAAC
* * * * *
37898 TGTACATAACTGTAATTTTACGTTATCTTTATACTTTTTCAATGGGAAAATAATAAATTAGATTT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
* *
37963 TTTTTTCAACTTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAG
66 TTTTTT----TTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAG
38028 AAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTT
127 AAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTT
38093 ATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTTTTC
192 ATTTATATCTCTTTCGTTAATTTTGTTAATTGAAT-TTTCTGGAAATATTAAAATATAATTTTTC
38158 TTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAA
256 TTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAA
38223 T
321 T
*
38224 TGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGA-TT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
38288 TTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGAAAA
66 TTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGAAAA
38353 ATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATTT
131 ATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATTT
* *
38418 ATATTTCTTTCGTTAATTTTGTTAATTGAATGTTTCTGAAAATATTAAAATATAATTTTTCTTTA
196 ATATCTCTTTCGTTAATTTTGTTAATTGAAT-TTTCTGGAAATATTAAAATATAATTTTTCTTTA
* *
38483 TACGTGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAATTAATTATTTAAAAAT
260 TACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
* * *
38545 TGTACATAACTGTAATTTTACGTTATTTTTATTCTTTTTCAATAGAAAAATAACAAATCAGATTT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGA--T
38610 TTTTTTTTTTCATTTTTTTTTTCTTGAAATAATTCAAATCCAAC-AAAAAATATTGAAAATTAAG
64 TTTTTTTTTT-A----TTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAG
38674 AAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
124 AAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
38739 TTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTT
189 TTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAAT-TTTCTGGAAATATTAAAATATAATTT
*
38804 TTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATTATTATTTAA
253 TTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAA
38869 AAAT
318 AAAT
* *
38873 TGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAACAAATCAGA---
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
* *
38935 TTTTTTTT-TTTTTTCTTGAAATAATTCAAATCCAAGAAAAAAATATTTAAAATTAAGAAGAAAA
66 TTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGAAAA
38999 ATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATTT
131 ATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATTT
*
39064 ATATCTCTTTCGTTAATTTTGTTAA--G---TTTCTGTAAATATTAAAATATAATTTTTCTTTAT
196 ATATCTCTTTCGTTAATTTTGTTAATTGAATTTTCTGGAAATATTAAAATATAATTTTTCTTTAT
*
39124 ACATATGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
261 ACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
39185 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
*
39250 TTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAAC-AAAAAATATTGAAAATTAAG
66 TTTTTTTT--A-----TTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAG
*
39314 ACGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
124 AAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
*
39379 TTTATTTATATCTCTTTCGTTAATTTTGTTAA--G---TTTCTGTAAATATTAAAATATAATTTT
189 TTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATTTTCTGGAAATATTAAAATATAATTTT
* * *
39439 TCTTTATACATATGTTGCATGATTCAATTGTTAAATCAAATTAATTAAATAAATAATTATATAAA
254 TCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAA
39504 A
319 A
39505 TTTTGTATTT
Statistics
Matches: 1222, Mismatches: 39, Indels: 44
0.94 0.03 0.03
Matches are distributed among these distances:
312 152 0.12
315 8 0.01
316 1 0.00
317 27 0.02
318 116 0.09
321 302 0.25
322 207 0.17
323 34 0.03
324 10 0.01
325 9 0.01
326 56 0.05
328 272 0.22
329 28 0.02
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (321 bp):
TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
TTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGAAAA
ATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATTT
ATATCTCTTTCGTTAATTTTGTTAATTGAATTTTCTGGAAATATTAAAATATAATTTTTCTTTAT
ACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
Found at i:38987 original size:22 final size:22
Alignment explanation
Indices: 38953--39000 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
38943 TTTTTTCTTG
*
38953 AAATAATTCAAATCCAAGAA-AA
1 AAATAATTAAAAT-CAAGAAGAA
* *
38975 AAATATTTAAAATTAAGAAGAA
1 AAATAATTAAAATCAAGAAGAA
38997 AAAT
1 AAAT
39001 CTAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (22 bp):
AAATAATTAAAATCAAGAAGAA
Found at i:39337 original size:640 final size:645
Alignment explanation
Indices: 37898--39504 Score: 2841
Period size: 640 Copynumber: 2.5 Consensus size: 645
37888 GAAAAAGAAC
* * * *
37898 TGTACATAACTGTAATTTTACGTTATCTTTATACTTTTTCAATGGGAAAATAATAAATTAGA--T
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTTCAATAGAAAAATAATAAATCAGATTT
37961 TTTTTTTTCAAC-TTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAG
66 TTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAAC-AAAAAATATTGAAAATTAAG
38025 AAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
130 AAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCT
38090 TTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTT
195 TTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTT
38155 TTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAA
260 TTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAA
*
38220 AAATTGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAG
325 AAATTGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAACAAATCAG
38285 ATTTTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGA
390 A-TTTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGA
38350 AAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTA
454 AAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTA
*
38415 TTTATATTTCTTTCGTTAATTTTGTTAATTGAATGTTTCTGAAAATATTAAAATATAATTTTTCT
519 TTTATATCTCTTTCGTTAATTTTG---ATTGAATGTTTCTGAAAATATTAAAATATAATTTTTCT
* * *
38480 TTATACGTGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAATTAATTATTTAAAAAT
581 TTATACATATGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
* *
38545 TGTACATAACTGTAATTTTACGTTATTTTTATTCTTTTTCAATAGAAAAATAACAAATCAGATTT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTTCAATAGAAAAATAATAAATCAGA--T
*
38610 TTTTTTTTTTC-A-TTTTTTTTTTCTTGAAATAATTCAAATCCAACAAAAAATATTGAAAATTAA
64 TTTTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAATATTGAAAATTAA
38673 GAAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTC
129 GAAGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTC
38738 TTTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATT
194 TTTTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATT
*
38803 TTTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATTATTATTTA
259 TTTCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTA
38868 AAAATTGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAACAAATCA
324 AAAATTGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAACAAATCA
* *
38933 GA-TTTTTTTT-TTTTTTCTTGAAATAATTCAAATCCAAGAAAAAAATATTTAAAATTAAGAAGA
389 GATTTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGA
38996 AAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTA
454 AAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTA
*
39061 TTTATATCTCTTTCGTTAATTTTG-TT-AA-GTTTCTGTAAATATTAAAATATAATTTTTCTTTA
519 TTTATATCTCTTTCGTTAATTTTGATTGAATGTTTCTGAAAATATTAAAATATAATTTTTCTTTA
39123 TACATATGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
584 TACATATGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
*
39185 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAATAAATCAGATTT
1 TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTTCAATAGAAAAATAATAAATCAGATTT
39250 TTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAATATTGAAAATTAAGA
66 TTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAATATTGAAAATTAAGA
*
39315 CGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTT
131 AGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTT
*
39380 TTATTTATATCTCTTTCGTTAATTTTGTTAA--G----TTTCTGTAAATATTAAAATATAATTTT
196 TTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTTT
* * *
39439 TCTTTATACATATGTTGCATGATTCAATTGTTAAATCAAATTAATTAAATAAATAATTATATAAA
261 TCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAA
39504 A
326 A
39505 TTTTGTATTT
Statistics
Matches: 927, Mismatches: 26, Indels: 27
0.95 0.03 0.03
Matches are distributed among these distances:
634 88 0.09
638 13 0.01
639 1 0.00
640 298 0.32
641 2 0.00
642 2 0.00
646 139 0.15
647 64 0.07
649 279 0.30
650 31 0.03
651 10 0.01
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (645 bp):
TGTACATAACTGTAATTTTACGTTATCTTTATTCTTTTTCAATAGAAAAATAATAAATCAGATTT
TTTTTTTTCAACTTTTTTTTTTCCTGAAATAATTCAAATCCAACAAAAAATATTGAAAATTAAGA
AGAAAAATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTT
TTATTTATATCTCTTTCGTTAATTTTGTTAATTGAATATTTCTGGAAATATTAAAATATAATTTT
TCTTTATACATGTGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAA
AATTGTACATAATTGTAATTTTACGTTATCTTTATTCTTTTCCAATAGAAAAATAACAAATCAGA
TTTTTTTTTATTTTTTCTTGAAATAATTCAAATCCAACAAAAAAATATTGAAAATTAAGAAGAAA
AATCTAATTTTTTATTCTCCAGTTGAAAGGGATATGAATGATATTTTTTTTCTTACTCTTTTATT
TATATCTCTTTCGTTAATTTTGATTGAATGTTTCTGAAAATATTAAAATATAATTTTTCTTTATA
CATATGTTGCATGATTCAATTGTTAAACCAAATTAATTAAATAAATAATTATTTAAAAAT
Found at i:40871 original size:29 final size:29
Alignment explanation
Indices: 40839--41007 Score: 132
Period size: 28 Copynumber: 5.9 Consensus size: 29
40829 TTACAGAGGT
*
40839 TCGGGGGTAAAACGGTAATTTTTGGACAC
1 TCGGGGGTAAAATGGTAATTTTTGGACAC
** *
40868 TCGGCGGCAAAAAT-GTAATTTTCGGACA-
1 TCGG-GGGTAAAATGGTAATTTTTGGACAC
* **
40896 TCTAGGGGTAAAATGGTAATTTTTGGATGC
1 TC-GGGGGTAAAATGGTAATTTTTGGACAC
* *
40926 TC-AGGGTAAAATGGTAATTTTTGGAAAC
1 TCGGGGGTAAAATGGTAATTTTTGGACAC
* ** * *
40954 TCGAGAGCAAAAAT-GTAATTTTTAGACAT
1 TCG-GGGGTAAAATGGTAATTTTTGGACAC
* *
40983 TCGGGGAT-AAATGATAATTTTTGGA
1 TCGGGGGTAAAATGGTAATTTTTGGA
41008 AGCTCAGAGG
Statistics
Matches: 108, Mismatches: 25, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
27 4 0.04
28 46 0.43
29 44 0.41
30 14 0.13
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (29 bp):
TCGGGGGTAAAATGGTAATTTTTGGACAC
Found at i:40964 original size:86 final size:85
Alignment explanation
Indices: 40843--41014 Score: 231
Period size: 86 Copynumber: 2.0 Consensus size: 85
40833 AGAGGTTCGG
* * *
40843 GGGTAAAACGGTAATTTTTGGACACTCGGCGGCAAAAATGTAATTTTCGGACATCTAGGGG-TAA
1 GGGTAAAACGGTAATTTTTGGAAACTCGGCAGCAAAAATGTAATTTTCAGACAT-TAGGGGAT-A
* *
40907 AATGGTAATTTTTGGATGCTCA
64 AATGATAATTTTTGGAAGCTCA
* * *
40929 GGGTAAAATGGTAATTTTTGGAAACTCGAG-AGCAAAAATGTAATTTTTAGACATTCGGGGATAA
1 GGGTAAAACGGTAATTTTTGGAAACTCG-GCAGCAAAAATGTAATTTTCAGACATTAGGGGATAA
40993 ATGATAATTTTTGGAAGCTCA
65 ATGATAATTTTTGGAAGCTCA
41014 G
1 G
41015 AGGCAAAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 27 0.36
86 48 0.63
87 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (85 bp):
GGGTAAAACGGTAATTTTTGGAAACTCGGCAGCAAAAATGTAATTTTCAGACATTAGGGGATAAA
TGATAATTTTTGGAAGCTCA
Found at i:41028 original size:29 final size:28
Alignment explanation
Indices: 40854--41033 Score: 102
Period size: 29 Copynumber: 6.3 Consensus size: 28
40844 GGTAAAACGG
40854 TAATTTTTGGACA-CTCGGCGGCAAAAATG-
1 TAATTTTTGGA-AGCTC-G-GGCAAAAATGA
* * * ** *
40883 TAATTTTCGGACATCTAGGGGTAAAATGG
1 TAATTTTTGGA-AGCTCGGGCAAAAATGA
* * *
40912 TAATTTTTGGATGCTCAGGG-TAAAATGG
1 TAATTTTTGGAAGCTC-GGGCAAAAATGA
*
40940 TAATTTTTGGAAACTCGAGAGCAAAAATG-
1 TAATTTTTGGAAGCTCG-G-GCAAAAATGA
* * * *
40969 TAATTTTTAGACA-TTCGGGGATAAATGA
1 TAATTTTTGGA-AGCTCGGGCAAAAATGA
40997 TAATTTTTGGAAGCTCAGAGGCAAAAAT-A
1 TAATTTTTGGAAGCTC-G-GGCAAAAATGA
41026 TAATTTTT
1 TAATTTTT
41034 TAAAAGTTTG
Statistics
Matches: 121, Mismatches: 19, Indels: 22
0.75 0.12 0.14
Matches are distributed among these distances:
27 9 0.07
28 46 0.38
29 50 0.41
30 16 0.13
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (28 bp):
TAATTTTTGGAAGCTCGGGCAAAAATGA
Found at i:41077 original size:57 final size:58
Alignment explanation
Indices: 40991--41118 Score: 154
Period size: 57 Copynumber: 2.2 Consensus size: 58
40981 ATTCGGGGAT
*
40991 AAATGATAATTTTTGGAAGCTCAGAGGCAAAAATATAATTTTTT-AAAAGTTT-GGGGTA
1 AAATGATAA-TTTTAGAAGCTCAGAGGCAAAAATAT-ATTTTTTGAAAAGTTTAGGGGTA
* * * * *
41049 AAATGATAATTTTAGAAGTTTAGGGGCAAAAATGTATTTTTTGGAAAGTTTAGGGGTA
1 AAATGATAATTTTAGAAGCTCAGAGGCAAAAATATATTTTTTGAAAAGTTTAGGGGTA
*
41107 AAAAG-TAATTTT
1 AAATGATAATTTT
41119 TGGAAAGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
56 7 0.11
57 35 0.57
58 19 0.31
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (58 bp):
AAATGATAATTTTAGAAGCTCAGAGGCAAAAATATATTTTTTGAAAAGTTTAGGGGTA
Found at i:41105 original size:58 final size:57
Alignment explanation
Indices: 40991--41246 Score: 209
Period size: 58 Copynumber: 4.4 Consensus size: 57
40981 ATTCGGGGAT
* * * * *
40991 AAATGATAATTTTTGGAAGCTCAGAGGCAAAAATATAATTTTTTAAAAGTTT-GGGGTA
1 AAATG-TAATTTTTAGAAGTTTAGGGGCAAAAATGT-ATTTTTTAAAAGTTTAGGGGTA
*
41049 AAATGATAA-TTTTAGAAGTTTAGGGGCAAAAATGTATTTTTTGGAAAGTTTAGGGGTA
1 AAATG-TAATTTTTAGAAGTTTAGGGGCAAAAATGTATTTTTT-AAAAGTTTAGGGGTA
* * *** * * *
41107 AAAAGTAATTTTTGGAAAGTTT-GGGGGTTAAATGTTATTTTTGAAAAGTTTAAGGTTA
1 AAATGTAATTTTTAG-AAGTTTAGGGGCAAAAATG-TATTTTTTAAAAGTTTAGGGGTA
* * * *
41165 AAATGTAATTTTTAAGAAGTTTGAGGGTG---AAATGTACTTTTTGAGAAGTTTGGGGGTC
1 AAATGTAATTTTT-AGAAGTTT-AGGG-GCAAAAATGTA-TTTTTTAAAAGTTTAGGGGTA
41223 AAATGTAATTTTTGAGAAGTTTAG
1 AAATGTAATTTTT-AGAAGTTTAG
41247 ATGTCAAAAT
Statistics
Matches: 165, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
56 7 0.04
57 35 0.21
58 105 0.64
59 14 0.08
60 3 0.02
61 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (57 bp):
AAATGTAATTTTTAGAAGTTTAGGGGCAAAAATGTATTTTTTAAAAGTTTAGGGGTA
Found at i:41185 original size:87 final size:87
Alignment explanation
Indices: 41026--41245 Score: 218
Period size: 87 Copynumber: 2.5 Consensus size: 87
41016 GGCAAAAATA
* * * * * **
41026 TAATTTTTTAAAAGTTT-GGGGTAAAATGATAA-TTTT-AGAAGTTTAGGGGCAAAAATGTATTT
1 TAATTTTTGAGAAGTTTGGGGGTCAAATG-TAATTTTTGAAAAGTTTA-AGGTTAAAATGTATTT
**
41088 TTTGGAAAGTTT-AGGGGTAAAAAG
64 TTAAGAAAGTTTGA-GGGTAAAAAG
* *
41112 TAATTTTTG-GAAAGTTTGGGGGTTAAATGTTATTTTTGAAAAGTTTAAGGTTAAAATGTAATTT
1 TAATTTTTGAG-AAGTTTGGGGGTCAAATGTAATTTTTGAAAAGTTTAAGGTTAAAATGT-ATTT
* *
41176 TTAAG-AAGTTTGAGGGTGAAATG
64 TTAAGAAAGTTTGAGGGTAAAAAG
* *
41199 TACTTTTTGAGAAGTTTGGGGGTCAAATGTAATTTTTGAGAAGTTTA
1 TAATTTTTGAGAAGTTTGGGGGTCAAATGTAATTTTTGAAAAGTTTA
41246 GATGTCAAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
86 16 0.14
87 78 0.70
88 17 0.15
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.40
Consensus pattern (87 bp):
TAATTTTTGAGAAGTTTGGGGGTCAAATGTAATTTTTGAAAAGTTTAAGGTTAAAATGTATTTTT
AAGAAAGTTTGAGGGTAAAAAG
Found at i:41252 original size:29 final size:29
Alignment explanation
Indices: 40991--41256 Score: 179
Period size: 29 Copynumber: 9.1 Consensus size: 29
40981 ATTCGGGGAT
* * *
40991 AAATGATAATTTTTG-GAAGCTCAGAGGCAA
1 AAATG-TAATTTTTGAGAAGTTTAGAGG-TA
* * * *
41021 AAATATAATTTTTTAAAAGTTT-GGGGTA
1 AAATGTAATTTTTGAGAAGTTTAGAGGTA
* *
41049 AAATGATAA-TTTT-AGAAGTTTAGGGGCAA
1 AAATG-TAATTTTTGAGAAGTTTAGAGG-TA
* *
41078 AAATGTATTTTTTG-GAAAGTTTAGGGGTA
1 AAATGTAATTTTTGAG-AAGTTTAGAGGTA
* * * *
41107 AAAAGTAATTTTTG-GAAAGTTTGGGGGTT
1 AAATGTAATTTTTGAG-AAGTTTAGAGGTA
* *
41136 AAATGTTATTTTTGAAAAGTTTA-AGGTTA
1 AAATGTAATTTTTGAGAAGTTTAGAGG-TA
* *
41165 AAATGTAATTTTTAAGAAGTTT-GAGGGTG
1 AAATGTAATTTTTGAGAAGTTTAGA-GGTA
* * * *
41194 AAATGTACTTTTTGAGAAGTTTGGGGGTC
1 AAATGTAATTTTTGAGAAGTTTAGAGGTA
*
41223 AAATGTAATTTTTGAGAAGTTTAGATGTCA
1 AAATGTAATTTTTGAGAAGTTTAGAGGT-A
41253 AAAT
1 AAAT
41257 ATGATTTCTA
Statistics
Matches: 188, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
27 7 0.04
28 17 0.09
29 138 0.73
30 26 0.14
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
AAATGTAATTTTTGAGAAGTTTAGAGGTA
Found at i:42315 original size:17 final size:16
Alignment explanation
Indices: 42269--42315 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
42259 GTTTCCTTTT
42269 TTTATT-TATTAT-TA
1 TTTATTATATTATATA
42283 TTTATTAT-TTATTATA
1 TTTATTATATTA-TATA
42299 TTTATTATATTGATATA
1 TTTATTATATT-ATATA
42316 AATATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.32
15 2 0.07
16 10 0.36
17 6 0.21
18 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATATTATATA
Found at i:43011 original size:17 final size:17
Alignment explanation
Indices: 42989--43093 Score: 108
Period size: 17 Copynumber: 6.3 Consensus size: 17
42979 AACCTTTGAT
*
42989 TAAATTTTAATTTAAAA
1 TAAATTTAAATTTAAAA
43006 TAAATTTAAATTTTAAAA
1 TAAATTTAAA-TTTAAAA
* *
43024 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
* *
43041 T-AA-GTAAATTTTAAA
1 TAAATTTAAATTTAAAA
*
43056 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
43073 TAAA-TTAAAATTAAAA
1 TAAATTTAAATTTAAAA
*
43089 AAAAT
1 TAAAT
43094 CCAAAATTGG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
15 9 0.12
16 18 0.25
17 28 0.39
18 17 0.24
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:43013 original size:11 final size:11
Alignment explanation
Indices: 42997--43065 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 11
42987 ATTAAATTTT
42997 AATTTAAAATA
1 AATTTAAAATA
43008 AATTT-AAAT-
1 AATTTAAAATA
43017 --TTTAAAATA
1 AATTTAAAATA
*
43026 AATTTAAACTCA
1 AATTTAAAAT-A
* *
43038 AA-AT-AAGTA
1 AATTTAAAATA
*
43047 AATTTTAAATA
1 AATTTAAAATA
43058 AATTTAAA
1 AATTTAAA
43066 CTTAAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
9 3 0.07
10 8 0.18
11 24 0.53
12 3 0.07
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:43087 original size:32 final size:33
Alignment explanation
Indices: 42989--43081 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
42979 AACCTTTGAT
* *
42989 TAAATTTTAATTTAAAATAAATTTAAATTTTAAAA
1 TAAATTTAAACTTAAAATAAA-TTAAATTTT-AAA
* *
43024 TAAATTTAAACTCAAAAT-AAGTAAATTTTAAA
1 TAAATTTAAACTTAAAATAAATTAAATTTTAAA
43056 TAAATTTAAACTTAAAATAAATTAAA
1 TAAATTTAAACTTAAAATAAATTAAA
43082 ATTAAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
32 20 0.39
33 14 0.27
34 2 0.04
35 15 0.29
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (33 bp):
TAAATTTAAACTTAAAATAAATTAAATTTTAAA
Found at i:43828 original size:173 final size:173
Alignment explanation
Indices: 43539--43862 Score: 474
Period size: 173 Copynumber: 1.9 Consensus size: 173
43529 ATCTGGTTCA
* * *
43539 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTATATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
43604 AAGAAGCTGGGGTTCGAAGATTTGTTCACTTTGAGCCTGATTTCATTGATTTGGTTTACTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTAAGCCTGATTTCATTGATTTGGTATACCTCTCA
*
43669 GTATCTCATCAGGAAGATGACTGCATCACTTTGTTTCAATTCG
131 GTATCTCATCAAGAAGATGACTGCATCACTTTGTTTCAATTCG
* *
43712 CTTCTCTATATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTATATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* *
43777 AGGAAGCTGGGGTTCGAAG-TTTCGCTCA-TATTAAGCTTTG-TTTCATTGATTTGGTATACCTC
66 AAGAAGCTGGGGTTCGAAGATTT-GCTCACT-TTAAGC-CTGATTTCATTGATTTGGTATACCTC
**
43839 TTTGTATCTCATCAAGAAGATGAC
128 TCAGTATCTCATCAAGAAGATGAC
43863 CGCACCGCAT
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
172 4 0.03
173 128 0.96
174 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (173 bp):
CTTCTCTATATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTAAGCCTGATTTCATTGATTTGGTATACCTCTCA
GTATCTCATCAAGAAGATGACTGCATCACTTTGTTTCAATTCG
Found at i:44234 original size:78 final size:78
Alignment explanation
Indices: 44100--44401 Score: 311
Period size: 78 Copynumber: 3.9 Consensus size: 78
44090 TGATTAACTA
* * * * * *
44100 CAATCTGCCCCATGATCGGGGTAAGAGATTGGA-TGGCT-ATGATCTACCCCATGCTCGGGGTAA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATT-AACT-GATGATGATCTGCCCCAGGCTCGGGGTAA
44163 GAGATCGAATGGCTG
64 GAGATCGAATGGCTG
* *
44178 CAATCTGCCCCAAGCTCGGGGTAAGAGATTAACTGATGATGATCTGCCCTAGGCTCGGGGTAAAA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTAACTGATGATGATCTGCCCCAGGCTCGGGGTAAGA
**
44243 GATCGAACAGCTG
66 GATCGAATGGCTG
* * * * * * * * * * *
44256 TAATTTTCCCCAAACTCAGGGAAAGAGATTTACTGATGGTGATCTGCCCCAGGTTCAGGATAAGA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTAACTGATGATGATCTGCCCCAGGCTCGGGGTAAGA
44321 GATCGAATGGCTG
66 GATCGAATGGCTG
* *** * * * *
44334 CAATCTACCCCAAGCTCGGGGTAAGAGATTCGTTGGTGATGATCTGCCCCAAGCTCGGAGAAAGA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTAACTGATGATGATCTGCCCCAGGCTCGGGGTAAGA
44399 GAT
66 GAT
44402 TTACTGATGG
Statistics
Matches: 180, Mismatches: 42, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
77 3 0.02
78 177 0.98
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (78 bp):
CAATCTGCCCCAAGCTCGGGGTAAGAGATTAACTGATGATGATCTGCCCCAGGCTCGGGGTAAGA
GATCGAATGGCTG
Found at i:44354 original size:117 final size:116
Alignment explanation
Indices: 44230--44479 Score: 333
Period size: 117 Copynumber: 2.1 Consensus size: 116
44220 TCTGCCCTAG
* * *
44230 GCTCGGGGTAAAAGATCGAACAGCTG-TAATTTTCCCCAAACTCAGG-GAAAGAGATTTACTGAT
1 GCTCGGGGTAAGAGATCG--CAGCTGATAATCTGCCCCAAACTC-GGAGAAAGAGATTTACTGAT
*
44293 GGTGATCTGCCCCAGGTTCAGGATAAGAGATCGAATGGCTGCAATCTACCCCAA
63 GGTGATCTGCCCCAGGCTCAGGATAAGAGATCGAATGGCTGCAATCTACCCCAA
** * * *
44347 GCTCGGGGTAAGAGATTCGTTGGTGATGATCTGCCCCAAGCTCGGAGAAAGAGATTTACTGATGG
1 GCTCGGGGTAAGAGA-TCGCAGCTGATAATCTGCCCCAAACTCGGAGAAAGAGATTTACTGATGG
* * * *
44412 TGATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCAG
65 TGATCTGCCCCAGGCTCAGGATAAGAGATCGAATGGCTGCAATCTACCCCAA
44464 GCTCGGGGTAAGAGAT
1 GCTCGGGGTAAGAGAT
44480 TTGCTGGTGA
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
116 6 0.05
117 108 0.92
118 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (116 bp):
GCTCGGGGTAAGAGATCGCAGCTGATAATCTGCCCCAAACTCGGAGAAAGAGATTTACTGATGGT
GATCTGCCCCAGGCTCAGGATAAGAGATCGAATGGCTGCAATCTACCCCAA
Found at i:44462 original size:78 final size:78
Alignment explanation
Indices: 44336--44795 Score: 394
Period size: 78 Copynumber: 5.9 Consensus size: 78
44326 AATGGCTGCA
* * ** * * *
44336 ATCTACCCCAAGCTCGGGGTAAGAGATTCG-TTGG-TGATGATCTGCCCCAAGCTCGGAGAAAGA
1 ATCTACCCTAAGCTCGGGGTAAGAGA-TCGAATGGCT-ACAATCTACCCCAAGCTCGGGGTAAGA
*
44399 GATTTACTGATGGTG
64 GATTTGCTGATGGTG
* * * *
44414 ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGA
1 ATCTACCCTAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAGA
* * *
44479 TTTGCTGGTGATT
66 TTTGCTGATGGTG
* * * * * * * * **
44492 ATCTACCTTAAGGTTGAGATAAGAGATCAAATGGTTACAATCTACCTCGGGCTCGGGGTAAGAGA
1 ATCTACCCTAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAGA
* * *
44557 TTTGTTAATGATG
66 TTTGCTGATGGTG
* * * * *
44570 ATCTACCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCAACCTGCCCC-AGACTCAGGGT-A-AG
1 ATCTACCCTAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAG-CTCGGGGTAAGAG
*
44632 ATTGGCTGATGGTG
65 ATTTGCTGATGGTG
* * * * *
44646 ATCTA-CCTCAAGCTCGGGGTAAAAGATCGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAG
1 ATCTACCCT-AAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAG
* * *
44710 ATTGGTTGATAGTG
65 ATTTGCTGATGGTG
* * * * * *
44724 ATCTACCCCAAGCTCGAGGTAAAAGATCGGATGG-TTCAATCTACCCCAAGCTTGGGGTAAGAGA
1 ATCTACCCTAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAGA
*
44788 TTGGCTGA
66 TTTGCTGA
44796 ATCTTCATTC
Statistics
Matches: 306, Mismatches: 68, Indels: 17
0.78 0.17 0.04
Matches are distributed among these distances:
75 2 0.01
76 58 0.19
77 39 0.13
78 204 0.67
79 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (78 bp):
ATCTACCCTAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTACCCCAAGCTCGGGGTAAGAGA
TTTGCTGATGGTG
Found at i:44480 original size:117 final size:117
Alignment explanation
Indices: 44263--44495 Score: 369
Period size: 117 Copynumber: 2.0 Consensus size: 117
44253 CTGTAATTTT
*
44263 CCCCAAACTCAGGGAAAGAGATTTACTGATGGTGATCTGCCCCAGGTTCAGGATAAGAGATCGAA
1 CCCCAAACTCAGGGAAAGAGATTTACTGATGGTGATCTGCCCCAGGCTCAGGATAAGAGATCGAA
*
44328 TGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGTTGGTGATGATCTG
66 TGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCTG
* * * *
44380 CCCCAAGCTC-GGAGAAAGAGATTTACTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCGA
1 CCCCAAACTCAGG-GAAAGAGATTTACTGATGGTGATCTGCCCCAGGCTCAGGATAAGAGATCGA
* * *
44444 ATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTTGCTGGTGATTATCT
65 ATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCT
44496 ACCTTAAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
116 2 0.02
117 104 0.98
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (117 bp):
CCCCAAACTCAGGGAAAGAGATTTACTGATGGTGATCTGCCCCAGGCTCAGGATAAGAGATCGAA
TGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCTG
Found at i:44496 original size:39 final size:39
Alignment explanation
Indices: 44115--44789 Score: 194
Period size: 39 Copynumber: 17.4 Consensus size: 39
44105 TGCCCCATGA
* *
44115 TCGGGGTAAGAGATTGGATGGCT-ATGATCTACCCCATGC
1 TCGGGGTAAGAGATTTGATGG-TGATGATCTACCCCAGGC
* * *
44154 TCGGGGTAAGAGA-TCGAATGGCTGCA--ATCTGCCCCAAGC
1 TCGGGGTAAGAGATTTG-ATGG-TG-ATGATCTACCCCAGGC
* * * *
44193 TCGGGGTAAGAGA-TTAACTGATGATGATCTGCCCTAGGC
1 TCGGGGTAAGAGATTTGA-TGGTGATGATCTACCCCAGGC
* * * * * * * **
44232 TCGGGGTAAAAGA-TCGAACAGCTG-TAATTTTCCCCAAAC
1 TCGGGGTAAGAGATTTG-A-TGGTGATGATCTACCCCAGGC
* * * * * *
44271 TCAGGGAAAGAGATTT-ACTGATGGTGATCTGCCCCAGGT
1 TCGGGGTAAGAGATTTGA-TGGTGATGATCTACCCCAGGC
* * * *
44310 TCAGGATAAGAGA-TCGAATGGCTGCA--ATCTACCCCAAGC
1 TCGGGGTAAGAGATTTG-ATGG-TG-ATGATCTACCCCAGGC
* * * *
44349 TCGGGGTAAGAGATTCGTTGGTGATGATCTGCCCCAAGC
1 TCGGGGTAAGAGATTTGATGGTGATGATCTACCCCAGGC
* * * * * *
44388 TCGGAGAAAGAGATTT-ACTGATGGTGATCTGCCCTAGGC
1 TCGGGGTAAGAGATTTGA-TGGTGATGATCTACCCCAGGC
*
44427 TCGGGGTAAGAGA-TCGAATGGCTGCA--ATCTACCCCAGGC
1 TCGGGGTAAGAGATTTG-ATGG-TG-ATGATCTACCCCAGGC
* * **
44466 TCGGGGTAAGAGATTTGCTGGTGATTATCTACCTTAAGG-
1 TCGGGGTAAGAGATTTGATGGTGATGATCTACC-CCAGGC
* * * *** * ** * *
44505 TTGAGATAAGAGATCAAATGGTTACAATCTACCTCGGGC
1 TCGGGGTAAGAGATTTGATGGTGATGATCTACCCCAGGC
* ** *
44544 TCGGGGTAAGAGATTTGTTAATGATGATCTACCCCAAGC
1 TCGGGGTAAGAGATTTGATGGTGATGATCTACCCCAGGC
* * * *
44583 TCGGGGTAAGAGA-TCGAATGGCTGCA--ACCTGCCCCAGAC
1 TCGGGGTAAGAGATTTG-ATGG-TG-ATGATCTACCCCAGGC
* * * * * * *
44622 TCAGGGT-A-AGATTGGCTGATGGTGATCTACCTCAAGC
1 TCGGGGTAAGAGATTTGATGGTGATGATCTACCCCAGGC
* * * ** * *
44659 TCGGGGTAAAAGA-TCGAATGGTTACAATCTGCCCTAGGC
1 TCGGGGTAAGAGATTTG-ATGGTGATGATCTACCCCAGGC
* * * *
44698 TCGGGGTAAGAGATTGGTTGAT-AGTGATCTACCCCAAGC
1 TCGGGGTAAGAGATTTGATGGTGA-TGATCTACCCCAGGC
* * ** * *
44737 TCGAGGTAAAAGATCGGATGGT--TCAATCTACCCCAAGC
1 TCGGGGTAAGAGATTTGATGGTGAT-GATCTACCCCAGGC
*
44775 TTGGGGTAAGAGATT
1 TCGGGGTAAGAGATT
44790 GGCTGAATCT
Statistics
Matches: 460, Mismatches: 138, Indels: 77
0.68 0.20 0.11
Matches are distributed among these distances:
36 2 0.00
37 23 0.05
38 52 0.11
39 357 0.78
40 24 0.05
41 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
TCGGGGTAAGAGATTTGATGGTGATGATCTACCCCAGGC
Found at i:44545 original size:117 final size:117
Alignment explanation
Indices: 44316--44596 Score: 293
Period size: 117 Copynumber: 2.4 Consensus size: 117
44306 AGGTTCAGGA
* *
44316 TAAGAGATCGAATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGTTGGTGATGATCTGC
1 TAAGAGATCGAATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCTAC
** * *** *
44381 CCCAAGCTCGGAGAAAGAGATTTACTGATGGTGATCTGCCCTAGGCTCGGGG
66 CCCAAGCTCGGAGAAAGAGATCAAATGATGACAATCTACCCTAGGCTCGGGG
* * *
44433 TAAGAGATCGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTTGCTGGTGATTATCTAC
1 TAAGAGATCGAATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCTAC
** * * * * *
44498 CTTAAGGT-TGAGATAAGAGATCAAATGGTTACAATCTA-CCTCGGGCTCGGGG
66 CCCAAGCTCGGAGA-AAGAGATCAAATGATGACAATCTACCCT-AGGCTCGGGG
* *
44550 TAAGAGATTTGTTAAT-GATG--ATCTACCCCAAGCTCGGGGTAAGAGAT
1 TAAGAGA-TCG--AATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGAT
44597 CGAATGGCTG
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
116 7 0.05
117 122 0.89
118 2 0.01
119 3 0.02
120 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (117 bp):
TAAGAGATCGAATGGCTGCAATCTACCCCAAGCTCGGGGTAAGAGATTCGCTGGTGATGATCTAC
CCCAAGCTCGGAGAAAGAGATCAAATGATGACAATCTACCCTAGGCTCGGGG
Found at i:46155 original size:23 final size:24
Alignment explanation
Indices: 46129--46180 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
46119 CTCCTTTTAT
46129 TTTTTCCAATTTTC-TCTATTTTC
1 TTTTTCCAATTTTCTTCTATTTTC
** *
46152 TTTTTCCTTTTTTCTTCTTTTTTC
1 TTTTTCCAATTTTCTTCTATTTTC
46176 TTTTT
1 TTTTT
46181 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTCCAATTTTCTTCTATTTTC
Found at i:46169 original size:17 final size:17
Alignment explanation
Indices: 46149--46221 Score: 85
Period size: 17 Copynumber: 4.3 Consensus size: 17
46139 TTTCTCTATT
*
46149 TTCTTTTTCCTTTTTTC
1 TTCTTTTTTCTTTTTTC
*
46166 TTCTTTTTTCTTTTTTT
1 TTCTTTTTTCTTTTTTC
*
46183 TTCTTTTTTC-TTTCTC
1 TTCTTTTTTCTTTTTTC
* *
46199 TTCTTTTTTATTTATTTT
1 TTCTTTTTTCTTT-TTTC
46217 TTCTT
1 TTCTT
46222 CATTGAATCT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
16 13 0.28
17 27 0.57
18 7 0.15
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTTTTTTCTTTTTTC
Found at i:46173 original size:10 final size:10
Alignment explanation
Indices: 46158--46222 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
46148 TTTCTTTTTC
46158 CTTTTTTCTT
1 CTTTTTTCTT
46168 CTTTTTTCTT
1 CTTTTTTCTT
*
46178 TTTTTTTCTTT
1 CTTTTTTC-TT
*
46189 TTTCTTTCTCTT
1 CTT-TTT-TCTT
*
46201 CTTTTTTATTT
1 CTTTTTT-CTT
*
46212 ATTTTTTCTT
1 CTTTTTTCTT
46222 C
1 C
46223 ATTGAATCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 20 0.44
11 16 0.36
12 7 0.16
13 2 0.04
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:46187 original size:34 final size:34
Alignment explanation
Indices: 46147--46221 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
46137 ATTTTCTCTA
* *
46147 TTTTCTTTTTCCTTTTTTCTTCTTTTTTCTTT-TT
1 TTTTCTTTTTCC-TTTCTCTTCTTTTTTATTTATT
*
46181 TTTTCTTTTTTCTTTCTCTTCTTTTTTATTTATT
1 TTTTCTTTTTCCTTTCTCTTCTTTTTTATTTATT
46215 TTTTCTT
1 TTTTCTT
46222 CATTGAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 17 0.46
34 20 0.54
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (34 bp):
TTTTCTTTTTCCTTTCTCTTCTTTTTTATTTATT
Found at i:46190 original size:27 final size:27
Alignment explanation
Indices: 46147--46222 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 27
46137 ATTTTCTCTA
* *
46147 TTTTCTTTTTCCTTTTTTCTTCTTTTTTC
1 TTTT-TTTTT-CTTTTTTCTTCTCTCTTC
46176 TTTTTTTTTCTTTTTTCTT-TCTCTTC
1 TTTTTTTTTCTTTTTTCTTCTCTCTTC
*
46202 TTTTTTATTTATTTTTTCTTC
1 TTTTTT-TTTCTTTTTTCTTC
46223 ATTGAATCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.26
27 22 0.52
28 5 0.12
29 4 0.10
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTTTTTTCTTTTTTCTTCTCTCTTC
Found at i:51331 original size:87 final size:87
Alignment explanation
Indices: 51184--51403 Score: 280
Period size: 87 Copynumber: 2.5 Consensus size: 87
51174 AACAAATGAA
** *** ** *
51184 GTCAAAAATGCGATTTTTGGATGCCCGGGGGTAAAATGGTAATTTACGGAGGTTCGAGGGTAAAA
1 GTCAAAAATGTAATTTTTGGACATCCGGGGGTAAAATGGTAATTTTTGGAGGTTCAAGGGTAAAA
* *
51249 TGGTAGTTTTTGGACACTTAAG
66 TGGTAATTTTTGGAAACTTAAG
* *
51271 GTCAAAAATGTAATTTTTGGACATCCGGGAGTAAAATGGTAATTTTTGGATGTTCAAGGGTAAAA
1 GTCAAAAATGTAATTTTTGGACATCCGGGGGTAAAATGGTAATTTTTGGAGGTTCAAGGGTAAAA
*
51336 TGGTAATTTTTGGAAACTTGAG
66 TGGTAATTTTTGGAAACTTAAG
* * * *
51358 GGCAAAAATATAATATTTGGACATTCGGGGGT-AAATGGTAATTTTT
1 GTCAAAAATGTAATTTTTGGACATCCGGGGGTAAAATGGTAATTTTT
51404 CTAAGTTCAG
Statistics
Matches: 115, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 14 0.12
87 101 0.88
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (87 bp):
GTCAAAAATGTAATTTTTGGACATCCGGGGGTAAAATGGTAATTTTTGGAGGTTCAAGGGTAAAA
TGGTAATTTTTGGAAACTTAAG
Found at i:51359 original size:29 final size:29
Alignment explanation
Indices: 51212--51614 Score: 164
Period size: 29 Copynumber: 13.9 Consensus size: 29
51202 GGATGCCCGG
** *
51212 GGGTAAAATGGTAATTTACGG-AGGTTCGA
1 GGGTAAAATGGTAATTTTTGGAAAGTT-GA
* * *
51241 GGGTAAAATGGTAGTTTTTGGACACTT-A
1 GGGTAAAATGGTAATTTTTGGAAAGTTGA
* * *
51269 AGGTCAAAAAT-GTAATTTTTGGACA-TCCG-
1 GGGT--AAAATGGTAATTTTTGGAAAGT-TGA
* *
51298 GGAGTAAAATGGTAATTTTTGG-ATGTTCAA
1 GG-GTAAAATGGTAATTTTTGGAAAGTT-GA
*
51328 GGGTAAAATGGTAATTTTTGGAAACTTGA
1 GGGTAAAATGGTAATTTTTGGAAAGTTGA
* * * * *
51357 GGGCAAAAAT-ATAATATTTGGACA-TTCGG
1 GGG-TAAAATGGTAATTTTTGGAAAGTT-GA
** *
51386 GGGT-AAATGGTAATTTTT-CTAAGTTCA
1 GGGTAAAATGGTAATTTTTGGAAAGTTGA
* * *
51413 GAGAAAAAT-GTAATTTTTTGAAAGTTTTGA
1 GGGTAAAATGGTAATTTTTGGAAAG--TTGA
*
51443 -GGTAAAATGGTAATTTTTGG-AAGTTCA
1 GGGTAAAATGGTAATTTTTGGAAAGTTGA
* * *
51470 TGGGAAAAAAT--TAGTTTTTAGAAAGTTTG-
1 -GGG-TAAAATGGTAATTTTTGGAAAG-TTGA
* *
51499 GGGTAAAAAT-TTAATTTTTGGAAAGTTTA
1 GGGT-AAAATGGTAATTTTTGGAAAGTTGA
**
51528 GGGGTTAAAAT-GTAAATTTTTAAAAAGTTCGA
1 -GGG-TAAAATGGT-AATTTTTGGAAAGTT-GA
* * *
51560 GGTTAAAAT-GTAATTTTTAG-AAGTTTGG
1 GGGTAAAATGGTAATTTTTGGAAAG-TTGA
*
51588 GGGTTAAAAT-GTAATTTTTGAAAAGTT
1 GGG-TAAAATGGTAATTTTTGGAAAGTT
51615 TAGATGTCAA
Statistics
Matches: 282, Mismatches: 57, Indels: 70
0.69 0.14 0.17
Matches are distributed among these distances:
27 19 0.07
28 52 0.18
29 135 0.48
30 59 0.21
31 16 0.06
32 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAAGTTGA
Found at i:51451 original size:57 final size:57
Alignment explanation
Indices: 51390--51584 Score: 155
Period size: 57 Copynumber: 3.4 Consensus size: 57
51380 ATTCGGGGGT
* *
51390 AAATGGTAATTTTTCTAAGTTCA-GAG-AAAAATGTAATTTTTTGAAAGTTTTGAGGTA
1 AAATGGTAATTTTTCGAAGTTCATGAGAAAAAAT-TAATTTTTAGAAAG-TTTGAGGTA
* * * *
51447 AAATGGTAATTTTTGGAAGTTCATGGGAAAAAATTAGTTTTTAGAAAGTTTGGGGTAA
1 AAATGGTAATTTTTCGAAGTTCATGAGAAAAAATTAATTTTTAGAAAGTTTGAGGT-A
* * * * * ** * *
51505 AAAT-TTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAAATTTTTAAAAAGTTCGAGGTTA
1 AAATGGTAATTTTTCG-AAGTTCATGAGAAAAAAT-T-AATTTTTAGAAAGTTTGAGG-TA
*
51565 AAAT-GTAATTTTTAGAAGTT
1 AAATGGTAATTTTTCGAAGTT
51585 TGGGGGTTAA
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
57 38 0.33
58 33 0.29
59 12 0.11
60 30 0.26
61 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.39
Consensus pattern (57 bp):
AAATGGTAATTTTTCGAAGTTCATGAGAAAAAATTAATTTTTAGAAAGTTTGAGGTA
Found at i:51458 original size:30 final size:30
Alignment explanation
Indices: 51417--51615 Score: 171
Period size: 29 Copynumber: 6.8 Consensus size: 30
51407 AGTTCAGAGA
* *
51417 AAAATGTAATTTTTTGAAAGTTTTGAGG-T
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTT
* * **
51446 AAAATGGTAATTTTT-GGAAGTTCAT-GGGAA
1 AAAAT-GTAATTTTTAGAAAGTT-TTGGGGTT
* *
51476 AAAAT-TAGTTTTTAGAAAG-TTTGGGGTA
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTT
* * *
51504 AAAATTTAATTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTT
* * *
51534 AAAATGTAAATTTTTAAAAAG-TTCGAGGTT
1 AAAATGT-AATTTTTAGAAAGTTTTGGGGTT
*
51564 AAAATGTAATTTTTAG-AAGTTTGGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTT
51593 AAAATGTAATTTTT-GAAAAGTTT
1 AAAATGTAATTTTTAG-AAAGTTT
51616 AGATGTCAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 21 0.15
29 58 0.42
30 48 0.35
31 11 0.08
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAAGTTTTGGGGTT
Found at i:51626 original size:29 final size:30
Alignment explanation
Indices: 51417--51647 Score: 156
Period size: 30 Copynumber: 7.8 Consensus size: 30
51407 AGTTCAGAGA
*
51417 AAAATGTAATTTTTTG-AAAGTTTTGAGG-T
1 AAAATGTAA-TTTTTGAAAAGTTTAGAGGTT
* * **
51446 AAAATGGTAATTTTTG-GAAGTTCATG-GGAA
1 AAAAT-GTAATTTTTGAAAAGTTTA-GAGGTT
* * *
51476 AAAAT-TAGTTTTT-AGAAAGTTT-GGGGTA
1 AAAATGTAATTTTTGA-AAAGTTTAGAGGTT
* * *
51504 AAAATTTAATTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAGAGGTT
* *
51534 AAAATGTAAATTTTTAAAAAG-TTCGAGGTT
1 AAAATGT-AATTTTTGAAAAGTTTAGAGGTT
* * *
51564 AAAATGTAATTTTT-AGAAGTTTGGGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAGAGGTT
* *
51593 AAAATGTAATTTTTGAAAAGTTTAGATGTC
1 AAAATGTAATTTTTGAAAAGTTTAGAGGTT
* * * *
51623 AAATTATGATTTTTGAAGAGTTTAG
1 AAAATGTAATTTTTGAAAAGTTTAG
51648 GGACCTTCTA
Statistics
Matches: 162, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.01
28 19 0.12
29 65 0.40
30 66 0.41
31 11 0.07
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTAGAGGTT
Found at i:53355 original size:23 final size:23
Alignment explanation
Indices: 53329--53384 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
53319 TAATTTTAAA
*
53329 TAAATTTAAACTCAAAATAAGTT
1 TAAATTTAAACTCAAAATAAATT
*
53352 TAAATTTAAACTTAAAATAAATT
1 TAAATTTAAACTCAAAATAAATT
*
53375 AAAATTTAAA
1 TAAATTTAAA
53385 AAAAAAGTCC
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:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAATTTAAACTCAAAATAAATT
Found at i:53372 original size:17 final size:17
Alignment explanation
Indices: 53352--53385 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53342 AAAATAAGTT
*
53352 TAAATTTAAACTTAAAA
1 TAAATTAAAACTTAAAA
*
53369 TAAATTAAAATTTAAAA
1 TAAATTAAAACTTAAAA
53386 AAAAAGTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATTAAAACTTAAAA
Found at i:58138 original size:41 final size:41
Alignment explanation
Indices: 57912--58138 Score: 253
Period size: 41 Copynumber: 5.5 Consensus size: 41
57902 GGTGTATAAA
*** * * *
57912 AAGGAAGACTCATGTCTCGGGTTGAGCATGAGA-AATTGTAT
1 AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTA-TGAAT
57953 AAATGGAAGACTCATGTCTCGAAATGAGAATGAGATTATGAAT
1 -AA-GGAAGACTCATGTCTCGAAATGAGAATGAGATTATGAAT
57996 AAGGAAGACTCATGTCTC-AAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCGAA-ATGAGAATGAGATTATGAAT
*
58037 AAGGAATACTCATGTCTCGAAATGAGAATGAGATTATG-AT
1 AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTATGAAT
* * * **
58077 CAAGGAAAACTCATGTCTCGAGATGAGAATGAGAATATGGTT
1 -AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTATGAAT
* * *
58119 AAAGAAGACTTATGACTCGA
1 AAGGAAGACTCATGTCTCGA
58139 TAGAGCATAA
Statistics
Matches: 164, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.02
41 121 0.74
42 7 0.04
43 31 0.19
44 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTATGAAT
Found at i:58138 original size:82 final size:82
Alignment explanation
Indices: 57912--58138 Score: 287
Period size: 82 Copynumber: 2.7 Consensus size: 82
57902 GGTGTATAAA
* * * *
57912 AAGGAAGACTCATGTCTCGGGTTGAGCATGAGAA-ATTGTATAAATGGAAGACTCATGTCTCGAA
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGGT-TAAA--GAAGACTCATGTCTCGAA
57976 ATGAGAATGAGATTATGAAT
63 ATGAGAATGAGATTATGAAT
* * ** * *
57996 AAGGAAGACTCATGTCTCAAGATGAGAATGAGATTATGAATAAGGAATACTCATGTCTCGAAATG
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAAGAAGACTCATGTCTCGAAATG
58061 AGAATGAGATTATG-AT
66 AGAATGAGATTATGAAT
* * *
58077 CAAGGAAAACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAAGAAGACTTATGACTCGA
1 -AAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAAGAAGACTCATGTCTCGA
58139 TAGAGCATAA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
81 2 0.02
82 86 0.70
84 32 0.26
85 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (82 bp):
AAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAAGAAGACTCATGTCTCGAAATG
AGAATGAGATTATGAAT
Found at i:60845 original size:41 final size:41
Alignment explanation
Indices: 60793--60960 Score: 230
Period size: 41 Copynumber: 4.1 Consensus size: 41
60783 ATAAATGGAG
*
60793 GACTCATGTCTCGAAATAAGAATGAGTTTATGAATAAGGAA
1 GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAA
* *
60834 GACTCGTGTCTCGAGATGAA-AATGAGATTATGAATAAGGAA
1 GACTCATGTCTCGAAAT-AAGAATGAGATTATGAATAAGGAA
* *
60875 GACTCATGTCTCGAAATGAGAATGAGATTATGATTAAGGAA
1 GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAA
* * * **
60916 GACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAGGAA
1 GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAA
60957 GACT
1 GACT
60961 TATGACTTGA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 112 0.97
42 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (41 bp):
GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAA
Found at i:60899 original size:82 final size:82
Alignment explanation
Indices: 60793--60960 Score: 264
Period size: 82 Copynumber: 2.0 Consensus size: 82
60783 ATAAATGGAG
* *
60793 GACTCATGTCTCGAAATAAGAATGAGTTTATGAATAAGGAAGACTCGTGTCTCGAGATGAAAATG
1 GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAAGACTCATGTCTCGAGATGAAAATG
*
60858 AGATTATGAATAAGGAA
66 AGAATATGAATAAGGAA
* * *
60875 GACTCATGTCTCGAAATGAGAATGAGATTATGATTAAGGAAGACTCATGTCTCGAGATGAGAATG
1 GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAAGACTCATGTCTCGAGATGAAAATG
**
60940 AGAATATGGTTAAGGAA
66 AGAATATGAATAAGGAA
60957 GACT
1 GACT
60961 TATGACTTGA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (82 bp):
GACTCATGTCTCGAAATAAGAATGAGATTATGAATAAGGAAGACTCATGTCTCGAGATGAAAATG
AGAATATGAATAAGGAA
Found at i:62359 original size:41 final size:41
Alignment explanation
Indices: 62253--62485 Score: 150
Period size: 41 Copynumber: 5.7 Consensus size: 41
62243 TAGAAAAAAA
* * * * * *
62253 CGCCACTAAAGGTCATAGCATTAGTGGCACTTATGAGAAAA
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGGAAG
* * * * * * *
62294 TGCTGCTAATGGTCTGACCTTTAGCGGCATTTTTGAGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGGAAG
* **
62335 CGCAGCTAAAGGTCAGAGCATTAGCGGCGCTTAT-AGGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGG-AAG
* * * * * * *
62376 CACCTCTAAAGGTCAGACCATTAGCAGCGC-TTCCA-CA-TAAA
1 CGCCGCTAAAGGTCAGAGCATTAGC-G-GCATT-TATGAGGAAG
* * * *
62417 CACCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGGGGAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGGAAG
*
62458 CGCCGCTAAAGGTCTGAGCATTAGCGGC
1 CGCCGCTAAAGGTCAGAGCATTAGCGGC
62486 GCTAAATAGC
Statistics
Matches: 144, Mismatches: 40, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
39 3 0.02
40 6 0.04
41 129 0.90
42 2 0.01
43 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCATTAGCGGCATTTATGAGGAAG
Found at i:62486 original size:41 final size:41
Alignment explanation
Indices: 62330--62488 Score: 165
Period size: 41 Copynumber: 3.9 Consensus size: 41
62320 GCATTTTTGA
* *
62330 GGAAGCGCAGCTAAAGGTCAGAGCATTAGCGGCGCTTATAG
1 GGAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCTTATAG
* * * * ** *
62371 GAAAGCACCTCTAAAGGTCAGACCATTAGCAGCGCTTCCAC
1 GGAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCTTATAG
** * * * *
62412 ATAAACACCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGG
1 GGAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCTTATAG
* *
62453 GGAAGCGCCGCTAAAGGTCTGAGCATTAGCGGCGCT
1 GGAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCT
62489 AAATAGCGGC
Statistics
Matches: 91, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (41 bp):
GGAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCTTATAG
Found at i:64215 original size:41 final size:41
Alignment explanation
Indices: 64105--64299 Score: 126
Period size: 41 Copynumber: 4.7 Consensus size: 41
64095 AATATGGGAA
** *
64105 AGAGCATTAGTTGCGTTTTTCCCATAAACGTCGCTAAAGGT-
1 AGAGCATTAGCGGCG-TTTTCCCAAAAACGTCGCTAAAGGTC
* ****
64146 AAAGCATTAGCGGCGTTTATGGGGAAAACGTCGCTAAAGGTC
1 AGAGCATTAGCGGCGTTT-TCCCAAAAACGTCGCTAAAGGTC
* * *
64188 AGAGCATTAGCGGCGTTTTCTCAAAAACATCAC-AAAGGTCC
1 AGAGCATTAGCGGCGTTTTCCCAAAAACGTCGCTAAAGGT-C
* * * *** * *
64229 AGAACATTAACAGCGTTTATGGAAAAAAACGCCGCTAAAGGTT
1 AGAGCATTAGCGGCGTTT-T-CCCAAAAACGTCGCTAAAGGTC
* * *
64272 A-AGCAATAGCGACGTTTTCCCATAAACG
1 AGAGCATTAGCGGCGTTTTCCCAAAAACG
64300 CCACTAATTT
Statistics
Matches: 114, Mismatches: 34, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
40 15 0.13
41 55 0.48
42 29 0.25
43 9 0.08
44 6 0.05
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AGAGCATTAGCGGCGTTTTCCCAAAAACGTCGCTAAAGGTC
Found at i:64467 original size:23 final size:23
Alignment explanation
Indices: 64437--64493 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
64427 TCTTTCAAAA
64437 CCCCAAATCCCAAATTTCTAATC
1 CCCCAAATCCCAAATTTCTAATC
**
64460 CCCCAAATCCCAAATTTCTCCTC
1 CCCCAAATCCCAAATTTCTAATC
*
64483 TCCCAAATCCC
1 CCCCAAATCCC
64494 GTTTCTCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.25
Consensus pattern (23 bp):
CCCCAAATCCCAAATTTCTAATC
Found at i:68706 original size:43 final size:43
Alignment explanation
Indices: 68645--68940 Score: 189
Period size: 43 Copynumber: 7.1 Consensus size: 43
68635 TACAATCATA
* *
68645 TTCTTTAGCAGCGTTTGTGGGGAAAGGGCCACTAAAGACCATG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
* * * ** ** *
68688 TTCTTTAGTGGCGTTTGTGGGGAAAACGTCGTTAAAGATAACG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
* * *
68731 TTTTTTAGCGGCGTTTGTAGGGAAAGAG-CAGCTAAAGACCATG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCA-CTAAAGACCATG
* * * * **
68774 TTCTTTAGCGGTGTTTATGGGAAAAGCACCGTTAAAGACCATG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
* * * * **
68817 TTCTTTAGCGACATTTGTCGGGAAAGCACCGTTAAAGACCA--
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
* * * ****
68858 ------AGTGGCATTTGTGGGAAAAGCATTGCTAAAGACCATG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
* * **
68895 TTCTTTAGCAGCGTTTGT-GGAAAAGCGCTGCTAAAGACCATG
1 TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
68937 TTCT
1 TTCT
68941 ATAGTGAATG
Statistics
Matches: 196, Mismatches: 47, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
35 28 0.14
42 27 0.14
43 140 0.71
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAAGACCATG
Found at i:68824 original size:86 final size:85
Alignment explanation
Indices: 68645--68946 Score: 268
Period size: 86 Copynumber: 3.6 Consensus size: 85
68635 TACAATCATA
*
68645 TTCTTTAGCAGCGTTTGTGGGGAAAGGGCCA-CTAAAGACCATGTTCTTTAGTGGCGTTTGTGGG
1 TTCTTTAGCAGCGTTTGT-GGGAAAGAG-CAGCTAAAGACCATGTTCTTTAGTGGCGTTTGT-GG
* ** *
68709 GAAAA-CGTCGTTAAAGATAACG
63 GAAAAGCATCGTTAAAGACCATG
* * * * *
68731 TTTTTTAGCGGCGTTTGTAGGGAAAGAGCAGCTAAAGACCATGTTCTTTAGCGGTGTTTATGGGA
1 TTCTTTAGCAGCGTTTGT-GGGAAAGAGCAGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGA
*
68796 AAAGCACCGTTAAAGACCATG
65 AAAGCATCGTTAAAGACCATG
* * * *
68817 TTCTTTAGC-GACATTTGTCGGGAAAGCA-CCGTTAAAGACCA--------AGTGGCATTTGTGG
1 TTCTTTAGCAG-CGTTTGT-GGGAAAG-AGCAGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGG
* *
68872 GAAAAGCATTGCTAAAGACCATG
63 GAAAAGCATCGTTAAAGACCATG
* * * *
68895 TTCTTTAGCAGCGTTTGTGGAAAAGCGCTGCTAAAGACCATGTTCTATAGTG
1 TTCTTTAGCAGCGTTTGTGGGAAAGAGCAGCTAAAGACCATGTTCTTTAGTG
68947 AATGAGAGGA
Statistics
Matches: 173, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
77 17 0.10
78 45 0.26
79 1 0.01
85 14 0.08
86 95 0.55
87 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (85 bp):
TTCTTTAGCAGCGTTTGTGGGAAAGAGCAGCTAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAA
AAGCATCGTTAAAGACCATG
Found at i:70709 original size:29 final size:29
Alignment explanation
Indices: 70667--70732 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
70657 ATCCTCACTA
*
70667 AAGATTCACTCAAAGTACTCAAAGTGTTT
1 AAGATTCACTCAAAGCACTCAAAGTGTTT
*
70696 AAGATTCACTCAAAGCGCTCAAAGTGTTT
1 AAGATTCACTCAAAGCACTCAAAGTGTTT
*
70725 AAGTTTCA
1 AAGATTCA
70733 TGAAATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (29 bp):
AAGATTCACTCAAAGCACTCAAAGTGTTT
Found at i:80408 original size:56 final size:56
Alignment explanation
Indices: 80317--80427 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
80307 AGCTACAGGA
* * * *
80317 GACACACGGTCTAAGCATATGGGCGTGTGCTAGACCGTGTGTCCATACTGTTTTGT
1 GACACACGGGCTAAGCACATGGGCGTGTGCTAGACCATGTGTCCATACTATTTTGT
** *
80373 GACACACGGGCTGGGCACATGGGCGTGTG-TCAGACCATGTGTGCATACTATTTTG
1 GACACACGGGCTAAGCACATGGGCGTGTGCT-AGACCATGTGTCCATACTATTTTG
80428 GGAAATAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 46 0.98
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (56 bp):
GACACACGGGCTAAGCACATGGGCGTGTGCTAGACCATGTGTCCATACTATTTTGT
Found at i:80788 original size:2 final size:2
Alignment explanation
Indices: 80781--80808 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80771 TTAATGGTTG
80781 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80809 GACTAAGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82143 original size:22 final size:22
Alignment explanation
Indices: 82091--82143 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
82081 AAGTTCTTGT
*
82091 AAATTAAAACAATTATAGTTTC
1 AAATTAAAACAATTAAAGTTTC
* *
82113 CAATATAAAA-AATTAAAATTTTC
1 AAAT-TAAAACAATT-AAAGTTTC
82136 AAATTAAA
1 AAATTAAA
82144 TATTAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTAAAACAATTAAAGTTTC
Found at i:89157 original size:29 final size:29
Alignment explanation
Indices: 89106--89165 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
89096 GGTTGGATGG
89106 GAGAGAAGTAAAAGTTTTAGGGAGAAAAT
1 GAGAGAAGTAAAAGTTTTAGGGAGAAAAT
89135 GAGAGAGAGTAAAAGTTTT-GGGAGAAAAT
1 GAGAGA-AGTAAAAGTTTTAGGGAGAAAAT
89164 GA
1 GA
89166 AAAAGTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (29 bp):
GAGAGAAGTAAAAGTTTTAGGGAGAAAAT
Found at i:94327 original size:18 final size:17
Alignment explanation
Indices: 94300--94346 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
94290 CGAAACTTAT
*
94300 AATA-ATAATATTATTAA
1 AATATATAATATTAAT-A
94317 AATATATAATACTTAATA
1 AATATATAATA-TTAATA
*
94335 TATATATAATAT
1 AATATATAATAT
94347 AGTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 17 0.65
19 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATATAATATTAATA
Found at i:94352 original size:5 final size:5
Alignment explanation
Indices: 94297--94360 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
94287 AATCGAAACT
* *
94297 TATAA TAATAA TATTA T-TAA AAT-A TATAA TACTTAA TATATA TATAA
1 TATAA T-ATAA TATAA TATAA TATAA TATAA TA--TAA TATA-A TATAA
*
94344 TATAG TATAA TATAA TA
1 TATAA TATAA TATAA TA
94361 CATATCCCCC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
4 5 0.11
5 27 0.57
6 10 0.21
7 5 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:100611 original size:117 final size:117
Alignment explanation
Indices: 100405--100628 Score: 412
Period size: 117 Copynumber: 1.9 Consensus size: 117
100395 GAGAAAAGAG
* *
100405 CTTGGGCTTTCTAACACCCTACACCCAACTCGAGAGCAAACCAAATGTAGGATGTCATATTTATT
1 CTTGGGCTTCCTAACACCCTACACCCAACTCGAGAGCAAACCAAATGTAGGATGTCACATTTATT
*
100470 GTTGAAGCAACTCAAACGAACATAAAAACAATCAATGATAAATCGGAGGCTA
66 GCTGAAGCAACTCAAACGAACATAAAAACAATCAATGATAAATCGGAGGCTA
*
100522 CTTGGGCTTCCTAACACCCTACACCCAACTGGAGAGCAAACCAAATGTAGGATGTCACATTTATT
1 CTTGGGCTTCCTAACACCCTACACCCAACTCGAGAGCAAACCAAATGTAGGATGTCACATTTATT
100587 GCTGAAGCAACTCAAACGAACATAAAAACAATCAATGATAAA
66 GCTGAAGCAACTCAAACGAACATAAAAACAATCAATGATAAA
100629 AATAATTCAA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 103 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (117 bp):
CTTGGGCTTCCTAACACCCTACACCCAACTCGAGAGCAAACCAAATGTAGGATGTCACATTTATT
GCTGAAGCAACTCAAACGAACATAAAAACAATCAATGATAAATCGGAGGCTA
Found at i:102356 original size:16 final size:16
Alignment explanation
Indices: 102331--102379 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
102321 TTAATTTTTA
* *
102331 TTTTTATTTAGTTATT
1 TTTTTGTTTATTTATT
102347 TTTTTGTTTATTTATT
1 TTTTTGTTTATTTATT
*
102363 TTGTTG-TTATTTATT
1 TTTTTGTTTATTTATT
102378 TT
1 TT
102380 CATATCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTTGTTTATTTATT
Found at i:102364 original size:15 final size:15
Alignment explanation
Indices: 102327--102379 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
102317 GCATTTAATT
*
102327 TTTA-TTTTTATTTA
1 TTTATTTTTTGTTTA
*
102341 GTTATTTTTTTGTTTA
1 TTTA-TTTTTTGTTTA
102357 TTTATTTTGTTG-TTA
1 TTTATTTT-TTGTTTA
102372 TTTATTTT
1 TTTATTTT
102380 CATATCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 3 0.09
15 15 0.45
16 15 0.45
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (15 bp):
TTTATTTTTTGTTTA
Found at i:102503 original size:34 final size:35
Alignment explanation
Indices: 102465--102533 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
102455 CCATACTCCC
102465 TTTAAATTTATTTTAAATTAAATTT-GTTTAAAAA
1 TTTAAATTTATTTTAAATTAAATTTAGTTTAAAAA
*
102499 TTTAAATTTATTTTAAATTTAATTTAAGTTTAAAA
1 TTTAAATTTATTTTAAATTAAATTT-AGTTTAAAA
102534 TTATTTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 24 0.75
36 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTAAATTTAGTTTAAAAA
Found at i:102515 original size:11 final size:11
Alignment explanation
Indices: 102497--102531 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
102487 TTTGTTTAAA
102497 AATTTAAATTT
1 AATTTAAATTT
*
102508 ATTTTAAATTT
1 AATTTAAATTT
*
102519 AATTTAAGTTT
1 AATTTAAATTT
102530 AA
1 AA
102532 AATTATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:102530 original size:17 final size:17
Alignment explanation
Indices: 102465--102532 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
102455 CCATACTCCC
*
102465 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
*
102482 -TTAAATTT-GTTTAAAAA
1 TTTAAATTTAATTT--AAA
*
102499 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
102516 TTT-AATTTAAGTTTAAA
1 TTTAAATTTAA-TTTAAA
102533 ATTATTTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.07
16 14 0.33
17 15 0.35
18 8 0.19
19 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:103586 original size:21 final size:23
Alignment explanation
Indices: 103557--103599 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
103547 AGGGAAAACC
*
103557 GTTTAGATCTAGGC-TAGATCTT
1 GTTTAGATCTAGACTTAGATCTT
103579 GTTT-GATCTAGACTTAGATCT
1 GTTTAGATCTAGACTTAGATCT
103600 GTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (23 bp):
GTTTAGATCTAGACTTAGATCTT
Found at i:104527 original size:58 final size:59
Alignment explanation
Indices: 104430--104751 Score: 368
Period size: 58 Copynumber: 5.5 Consensus size: 59
104420 CCTTGGAAGT
*
104430 CCCCGAAACTTCCAAAAATCTCATTTTTACCCTCAAACTTCTAAAAATCCCA-TTTTAA
1 CCCCAAAACTTCCAAAAATCTCATTTTTACCCTCAAACTTCTAAAAATCCCATTTTTAA
* * *
104488 CCCCAAAACTTCCAAAAATCTCATTTTTACTCTCGAACTTCTAAAAATCCCATTTTAAA
1 CCCCAAAACTTCCAAAAATCTCATTTTTACCCTCAAACTTCTAAAAATCCCATTTTTAA
* * * *
104547 CCCCAAAACTTCCAAACATCACATTTTTAACCCTAAAACTTCAAAAAATCCCATTTTTAA
1 CCCCAAAACTTCCAAAAATCTCATTTTT-ACCCTCAAACTTCTAAAAATCCCATTTTTAA
* * * *
104607 CCCCGAAACTTCTAAAAATC-CAATTTTACCC-CTAAACTTCTAAAAATCCAATTTTTAA
1 CCCCAAAACTTCCAAAAATCTCATTTTTACCCTC-AAACTTCTAAAAATCCCATTTTTAA
* * * * * * *
104665 CCCTAAAACTTCTAAAAATCCCATTTTTAACCC-CAAAATTTTCAAAAGTTCCATTTTT-A
1 CCCCAAAACTTCCAAAAATCTCATTTTT-ACCCTCAAACTTCT-AAAAATCCCATTTTTAA
* *
104724 CCCCCAAAC-TCCTAAAGATCTCATTTTT
1 CCCCAAAACTTCC-AAAAATCTCATTTTT
104752 TGACCCCAAA
Statistics
Matches: 226, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
58 96 0.42
59 70 0.31
60 60 0.27
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.32
Consensus pattern (59 bp):
CCCCAAAACTTCCAAAAATCTCATTTTTACCCTCAAACTTCTAAAAATCCCATTTTTAA
Found at i:104752 original size:30 final size:30
Alignment explanation
Indices: 104430--104761 Score: 331
Period size: 30 Copynumber: 11.2 Consensus size: 30
104420 CCTTGGAAGT
* * *
104430 CCCCGAAACTTCCAAAAATCTCATTTTT-A
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
104459 CCCTC-AAACTTCTAAAAATCCCA-TTTTAA
1 CCC-CAAAACTTCTAAAAATCCCATTTTTAA
* *
104488 CCCCAAAACTTCCAAAAATCTCATTTTT-A
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
* * *
104517 CTCTC-GAACTTCTAAAAATCCCATTTTAAA
1 C-CCCAAAACTTCTAAAAATCCCATTTTTAA
* * *
104547 CCCCAAAACTTCCAAACATCACATTTTTAA
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
* *
104577 CCCTAAAACTTCAAAAAATCCCATTTTTAA
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
* *
104607 CCCCGAAACTTCTAAAAAT-CCAATTTT-A
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
* *
104635 CCCCTAAACTTCTAAAAATCCAATTTTTAA
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
*
104665 CCCTAAAACTTCTAAAAATCCCATTTTTAA
1 CCCCAAAACTTCTAAAAATCCCATTTTTAA
* * *
104695 CCCCAAAA-TTTTCAAAAGTTCCATTTTT-A
1 CCCCAAAACTTCT-AAAAATCCCATTTTTAA
* * * * *
104724 CCCCCAAACTCCTAAAGATCTCATTTTTTGA
1 CCCCAAAACTTCTAAAAATCCCA-TTTTTAA
104755 CCCCAAA
1 CCCCAAA
104762 TTTTTCCAAA
Statistics
Matches: 249, Mismatches: 41, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
28 24 0.10
29 92 0.37
30 126 0.51
31 7 0.03
ACGTcount: A:0.38, C:0.30, G:0.02, T:0.31
Consensus pattern (30 bp):
CCCCAAAACTTCTAAAAATCCCATTTTTAA
Found at i:106037 original size:17 final size:17
Alignment explanation
Indices: 106015--106079 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
106005 CAAACTAATC
106015 TTAAATTTATTTTAAGA
1 TTAAATTTATTTTAAGA
* * *
106032 TTAAATTTGTTTAAAAA
1 TTAAATTTATTTTAAGA
* *
106049 TTTAAATTTAATTTAAGT
1 -TTAAATTTATTTTAAGA
106067 TTAAATTTATTTT
1 TTAAATTTATTTT
106080 CAAATTTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 26 0.68
18 12 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAAATTTATTTTAAGA
Found at i:106054 original size:35 final size:35
Alignment explanation
Indices: 106015--106095 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
106005 CAAACTAATC
*
106015 TTAAATTTATTTTAAGATTAAATTTGTTTAAAAAT
1 TTAAATTTATTTTAAGATTAAATTTATTTAAAAAT
* * **
106050 TTAAATTTAATTTAAGTTTAAATTTATTTTCAAAT
1 TTAAATTTATTTTAAGATTAAATTTATTTAAAAAT
*
106085 TTAAAATTATT
1 TTAAATTTATT
106096 ATAAATTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TTAAATTTATTTTAAGATTAAATTTATTTAAAAAT
Found at i:106103 original size:17 final size:16
Alignment explanation
Indices: 106046--106108 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
106036 ATTTGTTTAA
*
106046 AAATTTAAATTTAATTT
1 AAATTTAAAATT-ATTT
* *
106063 AAGTTTAAATTTATTTT
1 AAATTTAAAATTA-TTT
106080 CAAATTTAAAATTATTAT
1 -AAATTTAAAATTATT-T
106098 AAATTTAAAAT
1 AAATTTAAAAT
106109 AAATAAAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.03
17 27 0.68
18 12 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
AAATTTAAAATTATTT
Found at i:106105 original size:35 final size:35
Alignment explanation
Indices: 106032--106106 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
106022 TATTTTAAGA
* * *
106032 TTAAATTTGTTTAAAAATTTAAATTTAATTTAAGT
1 TTAAATTTATTTAAAAATTTAAAATTAATTTAAAT
**
106067 TTAAATTTATTTTCAAATTTAAAATT-ATTATAAAT
1 TTAAATTTATTTAAAAATTTAAAATTAATT-TAAAT
106102 TTAAA
1 TTAAA
106107 ATAAATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTAAATTTATTTAAAAATTTAAAATTAATTTAAAT
Found at i:106166 original size:23 final size:24
Alignment explanation
Indices: 106135--106214 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
106125 CAAAATGTCT
106135 AATTACAAAGCCCAATTGGGCCCA
1 AATTACAAAGCCCAATTGGGCCCA
* ***
106159 AATT-CAAATGACCCAAACT-AAACC-
1 AATTACAAA-G-CCC-AATTGGGCCCA
106183 AATTACAAAGCCCAATTGGGCCCA
1 AATTACAAAGCCCAATTGGGCCCA
106207 AATT-CAAA
1 AATTACAAA
106215 TGACCCAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 13
0.67 0.13 0.21
Matches are distributed among these distances:
22 3 0.07
23 13 0.31
24 14 0.33
25 9 0.21
26 3 0.07
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (24 bp):
AATTACAAAGCCCAATTGGGCCCA
Found at i:106174 original size:25 final size:25
Alignment explanation
Indices: 106145--106222 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
106135 AATTACAAAG
106145 CCCAATTGGGCCCAAATTCAAATGA
1 CCCAATTGGGCCCAAATTCAAATGA
* ***
106170 CCCAAACT-AAACC-AATTACAAA-G-
1 CCC-AATTGGGCCCAAATT-CAAATGA
106193 CCCAATTGGGCCCAAATTCAAATGA
1 CCCAATTGGGCCCAAATTCAAATGA
106218 CCCAA
1 CCCAA
106223 ACTAAACCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
22 3 0.08
23 9 0.23
24 10 0.26
25 14 0.36
26 3 0.08
ACGTcount: A:0.41, C:0.31, G:0.12, T:0.17
Consensus pattern (25 bp):
CCCAATTGGGCCCAAATTCAAATGA
Found at i:106191 original size:48 final size:48
Alignment explanation
Indices: 106135--106255 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
106125 CAAAATGTCT
106135 AATTACAAAGCCCAATTGGGCCCAAATTCAAATGACCCAAACTAAACC
1 AATTACAAAGCCCAATTGGGCCCAAATTCAAATGACCCAAACTAAACC
106183 AATTACAAAGCCCAATTGGGCCCAAATTCAAATGACCCAAACTAAACC
1 AATTACAAAGCCCAATTGGGCCCAAATTCAAATGACCCAAACTAAACC
* *
106231 AATTACAAATCCCAA-TAGGCCCAAA
1 AATTACAAAGCCCAATTGGGCCCAAA
106256 CCAATTAACC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 9 0.13
48 62 0.87
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.17
Consensus pattern (48 bp):
AATTACAAAGCCCAATTGGGCCCAAATTCAAATGACCCAAACTAAACC
Found at i:106874 original size:3 final size:3
Alignment explanation
Indices: 106868--106902 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
106858 AATGATGTAT
106868 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
106903 TTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:107933 original size:30 final size:30
Alignment explanation
Indices: 107897--108196 Score: 301
Period size: 30 Copynumber: 10.1 Consensus size: 30
107887 CCCTGAAGGT
*
107897 CCCTAAACCTTCCAAAAATCCCATTTTTGA
1 CCCTAAAACTTCCAAAAATCCCATTTTTGA
*
107927 CCCTAAAACTTCCAAAAATTACC-TTTTT-A
1 CCCTAAAACTTCCAAAAA-TCCCATTTTTGA
*
107956 CCCTCAAACTTCCAAAAATCCCATTTTTGA
1 CCCTAAAACTTCCAAAAATCCCATTTTTGA
* * * *
107986 CCCCAAAACTTCAAAAAATGCCATTTTTTA
1 CCCTAAAACTTCCAAAAATCCCATTTTTGA
108016 CCCTAAAACTTCCAAAAATCCCATTTTTGA
1 CCCTAAAACTTCCAAAAATCCCATTTTTGA
*
108046 -CCTCAAAACTTCCAAAAATTCCATTTTT-A
1 CCCT-AAAACTTCCAAAAATCCCATTTTTGA
*** *
108075 CCCCCGAACTTTCAAAAAAT-CCATTTTTGA
1 CCCTAAAAC-TTCCAAAAATCCCATTTTTGA
* * *
108105 CCCCAAAACTTCCAAAAATTCC-TTTTTTA
1 CCCTAAAACTTCCAAAAATCCCATTTTTGA
* * * *
108134 TCCC-CAAACTTCCAAATATCTCATTTTTTTA
1 -CCCTAAAACTTCCAAAAATCCCA-TTTTTGA
* *
108165 CCAC-GAAACTTCCAAAAATTCCATTTTTGA
1 CC-CTAAAACTTCCAAAAATCCCATTTTTGA
108195 CC
1 CC
108197 TTGAGCTTCC
Statistics
Matches: 227, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.01
29 67 0.30
30 131 0.58
31 26 0.11
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (30 bp):
CCCTAAAACTTCCAAAAATCCCATTTTTGA
Found at i:108108 original size:119 final size:118
Alignment explanation
Indices: 107896--108192 Score: 404
Period size: 119 Copynumber: 2.5 Consensus size: 118
107886 GCCCTGAAGG
* *
107896 TCCCTAAACCTTCCAAAAATCCCATTTTTGACCCTAAAACTTCCAAAAATTACC-TTTTTACCCT
1 TCCCTAAAACTTCCAAAAATCCCATTTTTGACCC-AAAACTTCCAAAAATT-CCATTTTTACCCC
*
107960 CAAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCAAAAAATGCCATTTTTTA
64 CAAACTTCAAAAAATCCCATTTTTGACCCCAAAACTTCAAAAAATGCC-TTTTTTA
108016 -CCCTAAAACTTCCAAAAATCCCATTTTTGACCTCAAAACTTCCAAAAATTCCATTTTTACCCCC
1 TCCCTAAAACTTCCAAAAATCCCATTTTTGACC-CAAAACTTCCAAAAATTCCATTTTTACCCCC
* * *
108080 GAACTTTCAAAAAAT-CCATTTTTGACCCCAAAACTTCCAAAAATTCCTTTTTTA
65 AAAC-TTCAAAAAATCCCATTTTTGACCCCAAAACTTCAAAAAATGCCTTTTTTA
* * * * *
108134 TCCC-CAAACTTCCAAATATCTCATTTTTTTACCACGAAACTTCCAAAAATTCCATTTTT
1 TCCCTAAAACTTCCAAAAATCCCA-TTTTTGACC-CAAAACTTCCAAAAATTCCATTTTT
108193 GACCTTGAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
118 25 0.16
119 125 0.78
120 10 0.06
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (118 bp):
TCCCTAAAACTTCCAAAAATCCCATTTTTGACCCAAAACTTCCAAAAATTCCATTTTTACCCCCA
AACTTCAAAAAATCCCATTTTTGACCCCAAAACTTCAAAAAATGCCTTTTTTA
Found at i:108209 original size:60 final size:59
Alignment explanation
Indices: 107897--108192 Score: 384
Period size: 60 Copynumber: 5.0 Consensus size: 59
107887 CCCTGAAGGT
*
107897 CCCT-AAACCTTCCAAAAATCCCATTTTTGACCCTAAAACTTCCAAAAATTACC-TTTTTA
1 CCCTCAAA-CTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATT-CCATTTTTA
* *
107956 CCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCAAAAAATGCCATTTTTTA
1 CCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATTCCA-TTTTTA
* *
108016 CCCTAAAACTTCCAAAAATCCCATTTTTGACCTCAAAACTTCCAAAAATTCCATTTTTA
1 CCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
* * * *
108075 CCCCCGAACTTTCAAAAAAT-CCATTTTTGACCCCAAAACTTCCAAAAATTCCTTTTTTA
1 CCCTCAAAC-TTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
* * * * *
108134 TCCC-CAAACTTCCAAATATCTCATTTTTTTACCACGAAACTTCCAAAAATTCCATTTTT
1 -CCCTCAAACTTCCAAAAATCCCA-TTTTTGACCCCAAAACTTCCAAAAATTCCATTTTT
108193 GACCTTGAGC
Statistics
Matches: 209, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
58 10 0.05
59 98 0.47
60 101 0.48
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (59 bp):
CCCTCAAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
Found at i:108219 original size:60 final size:59
Alignment explanation
Indices: 107897--108220 Score: 349
Period size: 59 Copynumber: 5.5 Consensus size: 59
107887 CCCTGAAGGT
*
107897 CCCT-AAACCTTCCAAAAATC-CCATTTTTGACCCTAAAACTTCCAAAAATTACC-TTTTTA
1 CCCTCAAA-CTTCC-AAAATCTCCATTTTTGACCCCAAAACTTCCAAAAATT-CCATTTTTA
* *
107956 CCCTCAAACTTCCAAAAATC-CCATTTTTGACCCCAAAACTTCAAAAAATGCCATTTTTTA
1 CCCTCAAACTTCC-AAAATCTCCATTTTTGACCCCAAAACTTCCAAAAATTCCA-TTTTTA
* *
108016 CCCTAAAACTTCCAAAAATC-CCATTTTTGACCTCAAAACTTCCAAAAATTCCATTTTTA
1 CCCTCAAACTTCC-AAAATCTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
* * * ** *
108075 CCCCCGAACTTTCAAAAAATCCATTTTTGACCCCAAAACTTCCAAAAATTCCTTTTTTA
1 CCCTCAAACTTCCAAAATCTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
* * *
108134 TCCC-CAAACTTCCAAATATCT-CATTTTTTTACCACGAAACTTCCAAAAATTCCATTTTTGA
1 -CCCTCAAACTTCCAAA-ATCTCCA-TTTTTGACCCCAAAACTTCCAAAAATTCCATTTTT-A
** *
108195 -CCTTGAGCTTCCAAAATCTCCATTTT
1 CCCTCAAACTTCCAAAATCTCCATTTT
108221 CAACTTCGAA
Statistics
Matches: 229, Mismatches: 26, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
58 6 0.03
59 117 0.51
60 105 0.46
61 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
CCCTCAAACTTCCAAAATCTCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTTTTA
Found at i:113560 original size:40 final size:39
Alignment explanation
Indices: 113497--113586 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
113487 AAGGTAATGT
* * *
113497 TTTATGTAATTATAAAAATTATTACGAAAA-TTTATAATAA
1 TTTATATAATTACAAAAATTATTAC-AAAAGTTGA-AATAA
113537 TTTATATAATTACATAAAA-TATTACAAAAGTTGAAATAA
1 TTTATATAATTACA-AAAATTATTACAAAAGTTGAAATAA
*
113576 TTTGTATAATT
1 TTTATATAATT
113587 GAATAATGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 19 0.43
40 21 0.48
41 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (39 bp):
TTTATATAATTACAAAAATTATTACAAAAGTTGAAATAA
Found at i:115644 original size:18 final size:18
Alignment explanation
Indices: 115606--115647 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
115596 ATTTTTATAG
* **
115606 ATTTTTATATAATTTTTA
1 ATTTTTATAAAATTTAGA
115624 ATTTTTATAAAATTTAGA
1 ATTTTTATAAAATTTAGA
115642 ATTTTT
1 ATTTTT
115648 TTAAGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTATAAAATTTAGA
Found at i:115674 original size:15 final size:15
Alignment explanation
Indices: 115656--115685 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115646 TTTTAAGAAA
115656 TATTTTTATTTTTTG
1 TATTTTTATTTTTTG
*
115671 TATTTTTTTTTTTTG
1 TATTTTTATTTTTTG
115686 AAAGGGACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (15 bp):
TATTTTTATTTTTTG
Found at i:117748 original size:24 final size:24
Alignment explanation
Indices: 117721--117825 Score: 165
Period size: 24 Copynumber: 4.4 Consensus size: 24
117711 ATTAGCCAAC
* *
117721 ACGAGCCCAGAATGATTAGGTCTT
1 ACGAGCCCAAAATGATTAGCTCTT
*
117745 ACGAGCCCAAAATGATTAGCTTTT
1 ACGAGCCCAAAATGATTAGCTCTT
117769 ACGAGCCCAAAATGATTAGCTCTT
1 ACGAGCCCAAAATGATTAGCTCTT
* *
117793 ACGAGCCCATAATGATTAGCCCTT
1 ACGAGCCCAAAATGATTAGCTCTT
117817 ACGAGCCCA
1 ACGAGCCCA
117826 GATAGAGTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (24 bp):
ACGAGCCCAAAATGATTAGCTCTT
Found at i:117763 original size:48 final size:48
Alignment explanation
Indices: 117711--117827 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 48
117701 ACAGATGACA
** *
117711 ATTAGCCAACACGAGCCCAGAATGATTAGGTCTTACGAGCCCAAAATG
1 ATTAGCCATTACGAGCCCAGAATGATTAGCTCTTACGAGCCCAAAATG
** * *
117759 ATTAGCTTTTACGAGCCCAAAATGATTAGCTCTTACGAGCCCATAATG
1 ATTAGCCATTACGAGCCCAGAATGATTAGCTCTTACGAGCCCAAAATG
*
117807 ATTAGCCCTTACGAGCCCAGA
1 ATTAGCCATTACGAGCCCAGA
117828 TAGAGTTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (48 bp):
ATTAGCCATTACGAGCCCAGAATGATTAGCTCTTACGAGCCCAAAATG
Found at i:117984 original size:82 final size:82
Alignment explanation
Indices: 117855--118029 Score: 260
Period size: 82 Copynumber: 2.1 Consensus size: 82
117845 ACGATGATGG
* ** *
117855 TCACACAAGCTGATGAGAACCCATAACATATGCAAAGTTTCAGCCATCGATACGGTCCAAAATTT
1 TCACACAAGCTGATGAGAACCCACAACATATGCAAAGACTCAACCATCGATACGGTCCAAAATTT
*
117920 CTCACTCTCGATGCTAT
66 CTCACTCTCGATGCTAC
* * * *
117937 TCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAACCATCGATATGGTCCAAAATTT
1 TCACACAAGCTGATGAGAACCCACAACATATGCAAAGACTCAACCATCGATACGGTCCAAAATTT
*
118002 CTCACTCTCGATGCTGC
66 CTCACTCTCGATGCTAC
118019 TCACACAAGCT
1 TCACACAAGCT
118030 AATAAGATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (82 bp):
TCACACAAGCTGATGAGAACCCACAACATATGCAAAGACTCAACCATCGATACGGTCCAAAATTT
CTCACTCTCGATGCTAC
Found at i:119502 original size:18 final size:18
Alignment explanation
Indices: 119479--119517 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
119469 ATCCCGTATC
119479 ACTGTTACACTTTCAATG
1 ACTGTTACACTTTCAATG
119497 ACTGTTACACTTTCAATG
1 ACTGTTACACTTTCAATG
119515 ACT
1 ACT
119518 TGGTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (18 bp):
ACTGTTACACTTTCAATG
Found at i:121008 original size:22 final size:22
Alignment explanation
Indices: 120983--121024 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
120973 TCAATTAAGA
*
120983 AAAATATCTATTTTTTTTTAAT
1 AAAATATCTACTTTTTTTTAAT
*
121005 AAAATATGTACTTTTTTTTA
1 AAAATATCTACTTTTTTTTA
121025 TAATGCATAT
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:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATATCTACTTTTTTTTAAT
Found at i:121008 original size:23 final size:22
Alignment explanation
Indices: 120977--121024 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
120967 TATGTGTCAA
*
120977 TTAAGAAAAATATCTATTTTTTT
1 TTAAG-AAAATATCTACTTTTTT
* *
121000 TTAATAAAATATGTACTTTTTT
1 TTAAGAAAATATCTACTTTTTT
121022 TTA
1 TTA
121025 TAATGCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
TTAAGAAAATATCTACTTTTTT
Found at i:124285 original size:28 final size:28
Alignment explanation
Indices: 124254--124308 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
124244 AATGGAAAAT
124254 AAAGAAGA-AGAAA-AAAAAAAGTAAATTC
1 AAAGAAGATA-AAAGAAAAAAA-TAAATTC
*
124282 AAAGAATATAAAAGAAAAAAATAAATT
1 AAAGAAGATAAAAGAAAAAAATAAATT
124309 GCTCGAAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.15
Consensus pattern (28 bp):
AAAGAAGATAAAAGAAAAAAATAAATTC
Found at i:125737 original size:18 final size:18
Alignment explanation
Indices: 125716--125750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
125706 AATATTATAA
125716 AATAAAATAATTATTTTG
1 AATAAAATAATTATTTTG
* *
125734 AATATAATTATTATTTT
1 AATAAAATAATTATTTT
125751 TATATGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AATAAAATAATTATTTTG
Found at i:125914 original size:17 final size:17
Alignment explanation
Indices: 125892--125960 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
125882 TTTTATGAAT
*
125892 AAAATATTTATTAATTA
1 AAAATATTTATTAAATA
**
125909 AAAATATGAATTAAAATA
1 AAAATATTTATT-AAATA
125927 AAAA-ATTTA--AAAT-
1 AAAATATTTATTAAATA
* *
125940 AATATATTTATTAATTA
1 AAAATATTTATTAAATA
125957 AAAA
1 AAAA
125961 AAACTTGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
13 3 0.08
14 9 0.23
16 3 0.08
17 16 0.41
18 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AAAATATTTATTAAATA
Found at i:139878 original size:72 final size:72
Alignment explanation
Indices: 139797--139935 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
139787 TATGTGTGTA
139797 CCCATGTGACCACTACACCTT-ATTTCAAAAAACAGTACCCACACACAGTCTAGCACACACCCGT
1 CCCATGTGACCACTACACCTTAATTT-AAAAAACAGTACCCACACACAGTCTAGCACACACCCGT
139861 GTGGCTTG
65 GTGGCTTG
* * * * * * *
139869 CCCATGTGACCACTTCACTTTAATTTAGAAAACAGTAGCCACACACGGTCTGGCACACGCCCGTG
1 CCCATGTGACCACTACACCTTAATTTAAAAAACAGTACCCACACACAGTCTAGCACACACCCGTG
139934 TG
66 TG
139936 TCCACTGTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 55 0.93
73 4 0.07
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.22
Consensus pattern (72 bp):
CCCATGTGACCACTACACCTTAATTTAAAAAACAGTACCCACACACAGTCTAGCACACACCCGTG
TGGCTTG
Found at i:143589 original size:30 final size:31
Alignment explanation
Indices: 143553--143617 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
143543 ATAGTTTATG
*
143553 TTTTTATAATTTTTAAAAAATTAAATTA-AA
1 TTTTTATAATTTTTAAAAAATTAAAATATAA
* *
143583 TTTTTATCATTTTTAAAAGATTAAAATATAA
1 TTTTTATAATTTTTAAAAAATTAAAATATAA
143614 TTTT
1 TTTT
143618 ATTTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAAATTAAAATATAA
Found at i:145152 original size:32 final size:32
Alignment explanation
Indices: 145116--145195 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 32
145106 AACTTTTTTT
*
145116 TTTTTGTCTAATTTGGT-TCTCAAACTTGACAC
1 TTTTTGTCTAAGTTGGTATCT-AAACTTGACAC
* * *
145148 TTTTTTTTTAAGTTGGTATCTAAATTTGACA-
1 TTTTTGTCTAAGTTGGTATCTAAACTTGACAC
*
145179 TTTTT-TTTAAGTTGGTA
1 TTTTTGTCTAAGTTGGTA
145196 CTTAACCTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 12 0.28
31 5 0.12
32 23 0.53
33 3 0.07
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.54
Consensus pattern (32 bp):
TTTTTGTCTAAGTTGGTATCTAAACTTGACAC
Found at i:145558 original size:59 final size:60
Alignment explanation
Indices: 145417--145573 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 60
145407 TAAATTTAGG
* * * **
145417 TACCAAATTGAATCTAAAAAAA-CTTAGGTACTAAATTAGGAAAAAAAAAACATCAAGTTTAGG
1 TACCAAATTGAGTC-AAAAAAAGCTTAGGTACCAAATTAGG---AAAAAAACATCAAGTTCAAA
* * ***
145480 TACCAAATTGGGTCCAAAAAAGCTTAGGTACCAAATTAGG-AAAAATTGTCAAGTTCAAA
1 TACCAAATTGAGTCAAAAAAAGCTTAGGTACCAAATTAGGAAAAAAACATCAAGTTCAAA
145539 TACCAAATTGAGTCAAAAAAAG-TT-GGTACCAAATT
1 TACCAAATTGAGTCAAAAAAAGCTTAGGTACCAAATT
145574 TAAAAAAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
57 11 0.14
58 2 0.02
59 33 0.41
62 6 0.07
63 29 0.36
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (60 bp):
TACCAAATTGAGTCAAAAAAAGCTTAGGTACCAAATTAGGAAAAAAACATCAAGTTCAAA
Found at i:146836 original size:246 final size:246
Alignment explanation
Indices: 146564--147055 Score: 761
Period size: 246 Copynumber: 2.0 Consensus size: 246
146554 AAGCATTCAC
*
146564 ATATATATAAAAAAAACATTTTGATTATAATCAAATTAATAATCTTATTATAAAATGAA-CTTAA
1 ATATATATAAAAAAAACATTTTGATTATAATCAAATTAATAATCTTATTATAAAATGAATC-CAA
* **
146628 CAAGTGACTCTAGTGATAAAAAGGATGTTGTTTATCCTGGGAGACACGGGTTCGAGCACCTATAC
65 CAAGTGACTCTAGTGATAAAAAGGATGTTGTTCATCCTGGGAGACACAAGTTCGAGCACCTATAC
* * * *
146693 GTGCAAGGTATGTGTGCATTGTCAAAGGGTTAAGAAAGTATGAACAGATATTATCATGTAACCAC
130 GTGCAAGGTATGTGTGCATTGTCAAAGGGTTAAAAAAGTATAAACAGATACTACCATGTAACCAC
*
146758 ACCAATATATTAAAAAAAATAACCTTATTATAATAAACCCCATGTGATGGCT
195 ACCAATATATTAAAAAAAATAACCTTATTATAATAAACACCATGTGATGGCT
* * *
146810 ATATATATATATAAAACATTTTGATTATAATCAAATTACTAATCTTATTATAAAATGAATCCAAC
1 ATATATATAAAAAAAACATTTTGATTATAATCAAATTAATAATCTTATTATAAAATGAATCCAAC
* * * **
146875 AAGTGGCTCTAGTGATAAAAATGATGTTGTTCATCTTGGGAGACACAAGTTCGAGCACCTATGTG
66 AAGTGACTCTAGTGATAAAAAGGATGTTGTTCATCCTGGGAGACACAAGTTCGAGCACCTATACG
* * *
146940 TGTAAGGTGTGTGTGCATTGTCAAAGGGTTAAAAAAGTATAAACAGATACTACCATGTAATCACA
131 TGCAAGGTATGTGTGCATTGTCAAAGGGTTAAAAAAGTATAAACAGATACTACCATGTAACCACA
* * *
147005 CCAGTATATTAAAAAAAATAACCTTATTATAATGAACACCTTGTGATGGCT
196 CCAATATATTAAAAAAAATAACCTTATTATAATAAACACCATGTGATGGCT
147056 TGATGATCAA
Statistics
Matches: 222, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
246 221 1.00
247 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (246 bp):
ATATATATAAAAAAAACATTTTGATTATAATCAAATTAATAATCTTATTATAAAATGAATCCAAC
AAGTGACTCTAGTGATAAAAAGGATGTTGTTCATCCTGGGAGACACAAGTTCGAGCACCTATACG
TGCAAGGTATGTGTGCATTGTCAAAGGGTTAAAAAAGTATAAACAGATACTACCATGTAACCACA
CCAATATATTAAAAAAAATAACCTTATTATAATAAACACCATGTGATGGCT
Found at i:149413 original size:23 final size:25
Alignment explanation
Indices: 149360--149413 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
149350 TTCATCTTAT
149360 TTTATTTGTTAATATTCTCAACATA
1 TTTATTTGTTAATATTCTCAACATA
* * **
149385 TATATTT-TTTAT-TTCTCAATTTA
1 TTTATTTGTTAATATTCTCAACATA
149408 TTTATT
1 TTTATT
149414 AGAGTAAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 14 0.58
24 4 0.17
25 6 0.25
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTATTTGTTAATATTCTCAACATA
Found at i:150075 original size:6 final size:6
Alignment explanation
Indices: 150064--150104 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
150054 GTGTCGTTAC
* *
150064 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTC TTCTTC TTCTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTT
150105 CCGTTTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:154562 original size:6 final size:6
Alignment explanation
Indices: 154545--154574 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
154535 GCGAAAAGGG
*
154545 AAAAAT AGAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
154575 GGTCATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:178958 original size:17 final size:17
Alignment explanation
Indices: 178938--179004 Score: 102
Period size: 16 Copynumber: 4.1 Consensus size: 17
178928 CCAATGTTAA
*
178938 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
178955 A-TTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
178971 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
178988 ATTTTAAA-TTAAATTT
1 ATTTTAAATTTAAATTT
179004 A
1 A
179005 AAATTAAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 23 0.50
17 23 0.50
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:178965 original size:6 final size:6
Alignment explanation
Indices: 178934--179020 Score: 76
Period size: 6 Copynumber: 15.2 Consensus size: 6
178924 GAACCCAATG
* * *
178934 TTAAATT TTAAAT TTTAAT TT--AT TTAAGT TTAAAT TT-ATT TTAAAT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
178980 TTAAAT TT-ATT TTAAA- TTAAAT TTAAAA TTAAGT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
179021 ATCCAAATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.06
5 13 0.20
6 42 0.66
7 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:178978 original size:33 final size:33
Alignment explanation
Indices: 178938--179004 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
178928 CCAATGTTAA
* *
178938 ATTTTAAATTTTAATTTA-TTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAA-ATTAAATTT
178971 ATTTTAAATTTAAATTTATTTTAAATTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAATTAAATTT
179004 A
1 A
179005 AAATTAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
ATTTTAAATTTAAATTTATTTTAAATTAAATTT
Found at i:179409 original size:13 final size:13
Alignment explanation
Indices: 179391--179429 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
179381 TACATTAAAG
179391 TTTTAATAAATAA
1 TTTTAATAAATAA
*
179404 TTTTAAT-AATGA
1 TTTTAATAAATAA
*
179416 TATTAATAAATAA
1 TTTTAATAAATAA
179429 T
1 T
179430 AATATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
TTTTAATAAATAA
Found at i:179427 original size:16 final size:16
Alignment explanation
Indices: 179408--179440 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
179398 AAATAATTTT
*
179408 AATAATGATATTAATA
1 AATAATAATATTAATA
179424 AATAATAATATTAATA
1 AATAATAATATTAATA
179440 A
1 A
179441 TTGTCTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AATAATAATATTAATA
Done.