Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 193 of 235
Found at i:65693665 original size:25 final size:25
Alignment explanation
Indices: 65693637--65693706 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
65693627 CTCTTTTAAT
* *
65693637 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65693662 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65693687 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65693707 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:65694557 original size:27 final size:26
Alignment explanation
Indices: 65694516--65694616 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 26
65694506 GGCATATTCT
65694516 TCATTTTACCATACAAGGGTATTATGG
1 TCATTTTACC-TACAAGGGTATTATGG
* *
65694543 TCATTTTATCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAAGGG-TATTATGG
* * * * *
65694570 TCTTTTTACCTATTAGGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTATGG
*
65694597 TCATTTCATCCTACAAGGGT
1 TCATTTTA-CCTACAAGGGT
65694617 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTATGG
Found at i:65694717 original size:27 final size:27
Alignment explanation
Indices: 65694613--65694790 Score: 149
Period size: 27 Copynumber: 6.6 Consensus size: 27
65694603 CATCCTACAA
* * * * *
65694613 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** * *
65694640 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** ** *
65694667 TGGTATTTTTATAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
65694694 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
65694721 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
65694748 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
65694775 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
65694791 CTATCCTACA
Statistics
Matches: 123, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:65694723 original size:81 final size:81
Alignment explanation
Indices: 65694613--65694823 Score: 226
Period size: 81 Copynumber: 2.6 Consensus size: 81
65694603 CATCCTACAA
* * * *** **
65694613 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTTTTA
1 GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
** *
65694678 TAATTTTGTAAATTAG
66 TAATTTTACAAACTAG
* ** * * *
65694694 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
65694759 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
** *
65694775 GGGTATTTTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTCTA-CAAACCAAGGGTATTTCAGTAATTTCACAA
65694824 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
81 104 0.98
82 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTCGA
TAATTTTACAAACTAG
Found at i:65694830 original size:27 final size:26
Alignment explanation
Indices: 65694692--65694823 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 26
65694682 TTTGTAAATT
* * *
65694692 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGGTAATTTCACAAA-C
*
65694719 AAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAA-C
* *
65694746 AGTGGTATTTCGGTAATTTTACAAAC
1 AGGGGTATTTCGGTAATTTCACAAAC
* **
65694772 TAGGGGTATTTTGGTAA-TTCTATCCTAC
1 -AGGGGTATTTCGGTAATTTC-A-CAAAC
*
65694800 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
65694824 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
26 4 0.05
27 74 0.88
28 6 0.07
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGGTATTTCGGTAATTTCACAAAC
Found at i:65694856 original size:27 final size:27
Alignment explanation
Indices: 65694822--65695018 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
65694812 GTAATTTCAC
**
65694822 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65694849 AAGT-GAGGGTAAAATGGTAATTTTGTA
1 AA-TCGAGGGTAAAATGGTAATTTTGTA
*
65694876 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
65694903 AATCGAGGGTAAAATGGTAATTCTAT-
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
65694929 AATCGAGGGTAAAACGGTAATTTTGCA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
65694956 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
**
65694983 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
65695010 AATCGAGGG
1 AATCGAGGG
65695019 CATTTCAGTA
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
26 23 0.15
27 127 0.84
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:65694894 original size:107 final size:107
Alignment explanation
Indices: 65694811--65695018 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 107
65694801 GGGGTATTTC
* * * *
65694811 AGTAATT-TCACAATCGAGGGTAAAACAGTAATTTTGTAAAGT-GAGGGTAAAATGGTAATTTTG
1 AGTAATTCT-ACAATCGAGGGTAAAACAGTAATTTTGCAAA-TCGAGGGTAAAACGGTAATTCTA
*
65694874 TAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT
64 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAT
* * * *
65694918 GGTAATTCTATAATCGAGGGTAAAACGGTAATTTTGCAAATCGAGGGTGAAACGGTAATTCTATA
1 AGTAATTCTACAATCGAGGGTAAAACAGTAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATA
* *
65694983 AATCGAGGGTAAAATGGTAATTTTACAAATCGAGGG
66 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
65695019 CATTTCAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 86 0.98
108 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (107 bp):
AGTAATTCTACAATCGAGGGTAAAACAGTAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAT
Found at i:65696022 original size:43 final size:43
Alignment explanation
Indices: 65695961--65696045 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
65695951 CAATTAAATA
*
65695961 CCTATATACAACCTCCTTACGGACCCCCACTCAAGGCCCAATG
1 CCTATATACAACCTCCTTACGAACCCCCACTCAAGGCCCAATG
*
65696004 CCTATATACAACCTCCTTACGAACCCCCACTCAAGGGCCAAT
1 CCTATATACAACCTCCTTACGAACCCCCACTCAAGGCCCAAT
65696046 ACTTCTAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.41, G:0.11, T:0.19
Consensus pattern (43 bp):
CCTATATACAACCTCCTTACGAACCCCCACTCAAGGCCCAATG
Found at i:65698427 original size:13 final size:13
Alignment explanation
Indices: 65698393--65698427 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
65698383 AATAAAATAA
*
65698393 TAAAATATCTTAT
1 TAAAATATTTTAT
65698406 TAAAATATTTTAT
1 TAAAATATTTTAT
65698419 TAAAATATT
1 TAAAATATT
65698428 AATAAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAAATATTTTAT
Found at i:65698733 original size:30 final size:31
Alignment explanation
Indices: 65698665--65698723 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
65698655 CACCTTTAAA
*
65698665 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTTC
65698696 ATATTTACACT-TTAG-CCTCTCAAATTTT
1 ATATTTACACTATTAGTCCT-TCAAATTTT
65698724 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 13 0.50
31 10 0.38
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGTCCTTCAAATTTTTC
Found at i:65699615 original size:20 final size:20
Alignment explanation
Indices: 65699590--65699642 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
65699580 AGGGGCACAT
* *
65699590 GCCCGTGTGGCTTGGAACAC
1 GCCCGTGTGGCCTAGAACAC
*
65699610 GCCCGTGTGGCCTAGAACAT
1 GCCCGTGTGGCCTAGAACAC
65699630 GCCCGTGTGGCCT
1 GCCCGTGTGGCCT
65699643 GCCCATGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTAGAACAC
Found at i:65700427 original size:46 final size:49
Alignment explanation
Indices: 65700377--65700542 Score: 137
Period size: 53 Copynumber: 3.3 Consensus size: 49
65700367 TAGCCCTGCC
* *
65700377 ATGGTCTTACACGGATCACA-TAT-CAT-ACCGATGCCATATCCCAGAT
1 ATGGTCTTATACGGATCACATTATACATCACCGATGCCATAACCCAGAT
* *
65700423 ATGGTCTTATACGAAATCACATTATCACATCACACCGATGCCATAACCCAGCT
1 ATGGTCTTATACG-GATCACATTAT-ACAT--CACCGATGCCATAACCCAGAT
* * *
65700476 ATGGTCTTATACGGGAACACGA--ATCACATTGTACCGATGCCATAGCCC-GACT
1 ATGGTCTTATAC-GGATCAC-ATTAT-ACA-T-CACCGATGCCATAACCCAGA-T
65700528 ATGGTCTTATACGGA
1 ATGGTCTTATACGGA
65700543 ATCATATATC
Statistics
Matches: 99, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
46 12 0.12
47 6 0.06
48 3 0.03
50 3 0.03
51 4 0.04
52 34 0.34
53 35 0.35
54 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
ATGGTCTTATACGGATCACATTATACATCACCGATGCCATAACCCAGAT
Found at i:65700473 original size:53 final size:52
Alignment explanation
Indices: 65700398--65700557 Score: 191
Period size: 52 Copynumber: 3.1 Consensus size: 52
65700388 CGGATCACAT
* *
65700398 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGAAATCACATTATCAC
1 ATCATACCGATGCCATAACCCAGATATGGTCTTATACGGAATCACA-TATCAC
* *
65700451 ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGGAA-CACGA-ATCAC
1 ATCATACCGATGCCATAACCCAGATATGGTCTTATAC-GGAATCAC-ATATCAC
** * *
65700503 ATTGTACCGATGCCATAGCCC-GACTATGGTCTTATACGGAATCATATATCAC
1 ATCATACCGATGCCATAACCCAGA-TATGGTCTTATACGGAATCACATATCAC
65700555 ATC
1 ATC
65700558 TTTTCTGTCA
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
51 6 0.07
52 44 0.48
53 37 0.41
54 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAACCCAGATATGGTCTTATACGGAATCACATATCAC
Found at i:65722347 original size:16 final size:15
Alignment explanation
Indices: 65722320--65722353 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
65722310 ATACATAGTA
*
65722320 TATAATTATATTTAT
1 TATAATTATATTAAT
65722335 TATAATATATATTAAT
1 TATAAT-TATATTAAT
65722351 TAT
1 TAT
65722354 TATCGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:65725541 original size:22 final size:22
Alignment explanation
Indices: 65725516--65725558 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
65725506 GTGCGACAGT
*
65725516 AACGACGGTGTACT-ACAGCAAC
1 AACGACGATGTA-TAACAGCAAC
*
65725538 AACGGCGATGTATAACAGCAA
1 AACGACGATGTATAACAGCAA
65725559 ATTTGGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
AACGACGATGTATAACAGCAAC
Found at i:65730248 original size:28 final size:27
Alignment explanation
Indices: 65730201--65730255 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
65730191 TGCATGAAAT
65730201 CAGCAGGAAATTGATGAATTAAGGGCA
1 CAGCAGGAAATTGATGAATTAAGGGCA
*
65730228 CAGCAGGAAAATTGATTAATTAAGGGCA
1 CAGCAGG-AAATTGATGAATTAAGGGCA
65730256 AAATTGGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (27 bp):
CAGCAGGAAATTGATGAATTAAGGGCA
Found at i:65731840 original size:51 final size:51
Alignment explanation
Indices: 65731750--65731866 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
65731740 ATAAGTGACA
* * *
65731750 AGCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGCGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATCTGATC
* * *
65731801 AGTGGCAAGTGATAAGTGATAAGTGGTAGTTTTACCTACACTTATCTGATC
1 AGCGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATCTGATC
65731852 AGCGACAAGTGATAA
1 AGCGACAAGTGATAA
65731867 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (51 bp):
AGCGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATCTGATC
Found at i:65736811 original size:20 final size:20
Alignment explanation
Indices: 65736786--65736848 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
65736776 TGAAATCAGG
65736786 AAAATTGATGAATTAAGGGC
1 AAAATTGATGAATTAAGGGC
**
65736806 AAAATTG--GACA-GCA-GG-
1 AAAATTGATGA-ATTAAGGGC
*
65736822 AAAATTGATTAATTAAGGGC
1 AAAATTGATGAATTAAGGGC
65736842 AAAATTG
1 AAAATTG
65736849 GAATATTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
16 7 0.22
17 3 0.09
18 5 0.16
19 3 0.09
20 14 0.44
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.24
Consensus pattern (20 bp):
AAAATTGATGAATTAAGGGC
Found at i:65736822 original size:36 final size:36
Alignment explanation
Indices: 65736782--65736850 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
65736772 TGCATGAAAT
65736782 CAGGAAAATTGATGAATTAAGGGCAAAATTGGACAG
1 CAGGAAAATTGATGAATTAAGGGCAAAATTGGACAG
*
65736818 CAGGAAAATTGATTAATTAAGGGCAAAATTGGA
1 CAGGAAAATTGATGAATTAAGGGCAAAATTGGA
65736851 ATATTGCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (36 bp):
CAGGAAAATTGATGAATTAAGGGCAAAATTGGACAG
Found at i:65738470 original size:51 final size:51
Alignment explanation
Indices: 65738354--65738475 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
65738344 ATCTGATCAG
* * * * * *
65738354 TGATAAGTGACAAGCGACACGTGATAAGTGGTAGCTTTAGCTATACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
*
65738405 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGTTTTACCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
65738456 TGATCAGTGACAAGTGATAA
1 TGATCAGTGACAAGTGATAA
65738476 ATGTGATCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
TGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTACCTACACTTATC
Found at i:65742345 original size:7 final size:7
Alignment explanation
Indices: 65742335--65742368 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
65742325 AATGATGAAT
65742335 GATGAGG
1 GATGAGG
65742342 GATGAGG
1 GATGAGG
65742349 GATGAGG
1 GATGAGG
65742356 GATGAGG
1 GATGAGG
65742363 GATGAG
1 GATGAG
65742369 CAGAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:65742352 original size:21 final size:21
Alignment explanation
Indices: 65742328--65742368 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65742318 AGGAGAGAAT
*
65742328 GATGAATGATGAGGGATGAGG
1 GATGAAGGATGAGGGATGAGG
*
65742349 GATGAGGGATGAGGGATGAG
1 GATGAAGGATGAGGGATGAG
65742369 CAGAAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.17
Consensus pattern (21 bp):
GATGAAGGATGAGGGATGAGG
Found at i:65750019 original size:37 final size:37
Alignment explanation
Indices: 65749969--65750048 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
65749959 CTTATTACGA
* *
65749969 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
65750006 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
65750043 GGTCTT
1 AGTCTT
65750049 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:65750238 original size:47 final size:47
Alignment explanation
Indices: 65750179--65750523 Score: 516
Period size: 47 Copynumber: 7.4 Consensus size: 47
65750169 TATCACATTT
* * *
65750179 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
65750224 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
65750271 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
65750318 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
65750365 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
65750412 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
65750459 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
65750507 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
65750524 TATTCAATTA
Statistics
Matches: 277, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 249 0.90
48 20 0.07
49 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:65750363 original size:22 final size:22
Alignment explanation
Indices: 65750336--65750457 Score: 68
Period size: 23 Copynumber: 5.3 Consensus size: 22
65750326 GTTCACTTTC
65750336 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
65750358 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
65750382 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
*** * *
65750405 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
65750429 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
65750452 ATCACA
1 ATCACA
65750458 CATATACATG
Statistics
Matches: 70, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 18 0.26
23 20 0.29
24 20 0.29
25 12 0.17
ACGTcount: A:0.27, C:0.34, G:0.10, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:65750386 original size:25 final size:25
Alignment explanation
Indices: 65750358--65750435 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
65750348 ATTCGGCCTT
65750358 ATCACACATACACCTATTCACATTC
1 ATCACACATACACCTATTCACATTC
*** * *
65750383 AT--CACATTGGCC-ATTCGGCCTT-
1 ATCACACATACACCTATTC-ACATTC
65750405 ATCACACATACACCTATTCACATTC
1 ATCACACATACACCTATTCACATTC
65750430 ATCACA
1 ATCACA
65750436 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 6 0.16
23 10 0.26
24 10 0.26
25 12 0.32
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (25 bp):
ATCACACATACACCTATTCACATTC
Found at i:65755521 original size:13 final size:13
Alignment explanation
Indices: 65755485--65755514 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
65755475 GAGTATTAGA
*
65755485 GAAAGAAATATTT
1 GAAACAAATATTT
65755498 GAAACAAATATTT
1 GAAACAAATATTT
65755511 GAAA
1 GAAA
65755515 TCGATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (13 bp):
GAAACAAATATTT
Found at i:65757779 original size:40 final size:40
Alignment explanation
Indices: 65757396--65757742 Score: 633
Period size: 40 Copynumber: 8.7 Consensus size: 40
65757386 ATTTGAATGA
65757396 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757436 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757476 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757516 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757556 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757596 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65757636 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * *
65757676 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
*
65757716 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
65757743 GTGCGAGTTG
Statistics
Matches: 302, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 299 0.99
41 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:65757785 original size:40 final size:40
Alignment explanation
Indices: 65757399--65757786 Score: 313
Period size: 40 Copynumber: 9.7 Consensus size: 40
65757389 TGAATGATAT
* * * * *
65757399 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757439 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757479 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757519 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757559 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757599 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * * *
65757639 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
*
65757679 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
*
65757719 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
* *
65757759 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
65757787 TTGTGGTTAT
Statistics
Matches: 339, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 336 0.99
41 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
Found at i:65757798 original size:80 final size:80
Alignment explanation
Indices: 65757395--65757806 Score: 623
Period size: 80 Copynumber: 5.2 Consensus size: 80
65757385 CATTTGAATG
65757395 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
65757460 TTTATGCTAGTGATT
66 TTTATGCTAGTGATT
*
65757475 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
65757540 TTTATGCTAGTGATT
66 TTTATGCTAGTGATT
*
65757555 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
65757620 TTTATGCTAGTGATT
66 TTTATGCTAGTGATT
* *
65757635 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
* *
65757700 TTTGTGCGAGTTGA-T
66 TTTATGCTAG-TGATT
* * * * * * * *
65757715 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGCTAAGTCCCGAAGGC
* * * *
65757779 AATTGTGCTTGTGGTT
65 ATTTATGCTAGTGATT
65757795 ATATCC-GGCTAA
1 ATATCCGGGCTAA
65757807 ATTCCGATGA
Statistics
Matches: 313, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
79 8 0.03
80 300 0.96
81 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
TTTATGCTAGTGATT
Found at i:65764138 original size:40 final size:40
Alignment explanation
Indices: 65764083--65764493 Score: 770
Period size: 40 Copynumber: 10.3 Consensus size: 40
65764073 ATTTGAATGA
65764083 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764123 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764163 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764203 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764243 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764283 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764323 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764363 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764403 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * * *
65764443 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
65764483 TATCC-GGCTAA
1 TATCCGGGCTAA
65764494 ATTCCGATGA
Statistics
Matches: 366, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
39 6 0.02
40 360 0.98
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:65771538 original size:40 final size:40
Alignment explanation
Indices: 65771464--65771586 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
65771454 GATAACCAGA
* ** *
65771464 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
* * *
65771504 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTG-TTATATCCGGG
*
65771544 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
65771583 CTAA
1 CTAA
65771587 ATCCTGAAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 8 0.11
40 60 0.86
41 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGGG
Found at i:65779497 original size:40 final size:40
Alignment explanation
Indices: 65779423--65779594 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
65779413 GATAATCGGA
* **
65779423 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
* * * * *
65779463 CTATGTCTCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTG-CTATATCCGGG
* *
65779503 CTAAGACCCGAAAGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
* * *
65779543 CTAAGACCCGAAGGCATTTGTGTGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
65779582 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
65779595 ATTCTTGGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.14
40 93 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
Found at i:65779556 original size:80 final size:79
Alignment explanation
Indices: 65779423--65779593 Score: 222
Period size: 80 Copynumber: 2.2 Consensus size: 79
65779413 GATAATCGGA
* * * * *
65779423 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCTCGAAGGCATTTATGCT-
1 CTAAGACCCGAAAGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATG-TG
65779487 AG-TGATTATATCCGGG
65 AGTTG-TTATATCC-GG
* *
65779503 CTAAGACCCGAAAGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGTGA
1 CTAAGACCCGAAAGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGA
65779568 GTTGTTATATCCGG
66 GTTGTTATATCCGG
65779582 CTAA-ATCCCGAA
1 CTAAGA-CCCGAA
65779594 GATTCTTGGG
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.16
80 65 0.80
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (79 bp):
CTAAGACCCGAAAGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGTGA
GTTGTTATATCCGG
Found at i:65782096 original size:21 final size:21
Alignment explanation
Indices: 65782061--65782108 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
65782051 AGATGATACA
65782061 TTATTT-TTTACTTAATTTAC
1 TTATTTATTTACTTAATTTAC
65782081 TTAGTTTATTTA-TTAATTTAC
1 TTA-TTTATTTACTTAATTTAC
65782102 TTATTTA
1 TTATTTA
65782109 ACCTTGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATTTACTTAATTTAC
Found at i:65788931 original size:25 final size:23
Alignment explanation
Indices: 65788874--65788995 Score: 165
Period size: 23 Copynumber: 5.2 Consensus size: 23
65788864 AGCCTAGCCT
* *
65788874 CCTTTAGTAACTGGGG-AAAAGC
1 CCTTTAATAACTGGGGCATAAGC
*
65788896 CCTTATCATAACTGGGGCATAAGC
1 CCTT-TAATAACTGGGGCATAAGC
65788920 CCTTTATCATAACTGGGGCATAAGC
1 CCTTTA--ATAACTGGGGCATAAGC
*
65788945 CCTTTAATAATTGGGGCATAAGC
1 CCTTTAATAACTGGGGCATAAGC
*
65788968 CCTTTAATAACTAGGGCATAAGC
1 CCTTTAATAACTGGGGCATAAGC
65788991 CCTTT
1 CCTTT
65788996 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.04
23 53 0.60
24 9 0.10
25 23 0.26
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
CCTTTAATAACTGGGGCATAAGC
Found at i:65788933 original size:48 final size:45
Alignment explanation
Indices: 65788874--65788995 Score: 154
Period size: 48 Copynumber: 2.6 Consensus size: 45
65788864 AGCCTAGCCT
* * *
65788874 CCTTTAGTAACTGGGGAAAAGCCCTTATCATAACTGGGGCATAAGC
1 CCTTTAATAACTGGGGATAAGCCCTT-TAATAACTGGGGCATAAGC
*
65788920 CCTTTATCATAACTGGGGCATAAGCCCTTTAATAATTGGGGCATAAGC
1 CCTTTA--ATAACTGGGG-ATAAGCCCTTTAATAACTGGGGCATAAGC
*
65788968 CCTTTAATAACTAGGGCATAAGCCCTTT
1 CCTTTAATAACT-GGGGATAAGCCCTTT
65788996 TGCACTTCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
46 23 0.34
47 3 0.04
48 32 0.48
49 9 0.13
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
CCTTTAATAACTGGGGATAAGCCCTTTAATAACTGGGGCATAAGC
Found at i:65789070 original size:20 final size:20
Alignment explanation
Indices: 65789042--65789112 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
65789032 GCATTTATGA
* *
65789042 ACATCTCATGTGCTTATCAT
1 ACATATCATGTGCATATCAT
65789062 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65789082 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65789102 AGATATCATGT
1 ACATATCATGT
65789113 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:65789177 original size:25 final size:25
Alignment explanation
Indices: 65789149--65789196 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65789139 ATATATAAAC
* * *
65789149 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65789174 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65789197 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65790417 original size:27 final size:27
Alignment explanation
Indices: 65790355--65790432 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
65790345 GGGCATATTC
*
65790355 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCTTACAGGGGTATTACG
*
65790382 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAGGGG-TATTACG
* * *
65790409 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCTTACAGGGGTATT
65790433 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTATTACG
Found at i:65790503 original size:27 final size:27
Alignment explanation
Indices: 65790450--65790903 Score: 382
Period size: 27 Copynumber: 16.8 Consensus size: 27
65790440 TTTCATCCTA
* * *
65790450 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
65790477 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
65790504 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* ** *
65790533 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
65790560 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
65790587 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
65790614 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
65790641 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
65790668 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
65790695 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
65790722 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
65790749 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
65790776 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
65790803 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
65790830 TGAGGGTATTTCT-GTAATTTTACAAAC
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * *
65790857 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
65790883 CTAGGGTATTCTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
65790904 GTAAATCGAG
Statistics
Matches: 351, Mismatches: 64, Indels: 25
0.80 0.15 0.06
Matches are distributed among these distances:
26 26 0.07
27 292 0.83
28 18 0.05
29 15 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:65790656 original size:81 final size:81
Alignment explanation
Indices: 65790561--65790917 Score: 601
Period size: 81 Copynumber: 4.4 Consensus size: 81
65790551 TTTGTAAATC
65790561 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
65790626 GGTAATTTTACAAACT
66 GGTAATTTTACAAACT
65790642 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
65790707 GGTAATTTTACAAACT
66 GGTAATTTTACAAACT
65790723 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
65790788 GGTAATTTTACAAACT
66 GGTAATTTTACAAACT
* *
65790804 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAG-GGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
* * *
65790868 TAGCAATTTTACAGACT
65 TGGTAATTTTACAAACT
* * ** *
65790885 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
65790918 AAACAGTAAT
Statistics
Matches: 265, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
80 27 0.10
81 236 0.89
82 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
GGTAATTTTACAAACT
Found at i:65791027 original size:38 final size:37
Alignment explanation
Indices: 65790985--65791065 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 37
65790975 CGGTACTTCT
* *
65790985 GTAAATCGAGGGG-AAAATGGTAATTCTGTAAGTCGAGG
1 GTAAAT-G-GGGGTAAAATGGTAATTATGTAAATCGAGG
*
65791023 GTAAAATGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GT-AAATGGGGGTAAAATGGTAATTATGTAAATCGAGG
65791061 GTAAA
1 GTAAA
65791066 ATGGTAATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 7 0.18
38 27 0.71
39 4 0.11
ACGTcount: A:0.37, C:0.05, G:0.33, T:0.25
Consensus pattern (37 bp):
GTAAATGGGGGTAAAATGGTAATTATGTAAATCGAGG
Found at i:65791029 original size:27 final size:27
Alignment explanation
Indices: 65790896--65791031 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
65790886 GGGTATTCTA
* **
65790896 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
65790923 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
65790950 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
65790977 GTACTTCTGTAAATCGAGGGGAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
65791004 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
65791031 G
1 G
65791032 GGGTAAAATG
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:65791053 original size:27 final size:27
Alignment explanation
Indices: 65791023--65791090 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
65791013 TAAGTCGAGG
65791023 GTAAAATGGGGGTAAAATGGTAATTAT
1 GTAAAATGGGGGTAAAATGGTAATTAT
*
65791050 GT-AAATCGGGGGTAAAATGGTAATTCT
1 GTAAAAT-GGGGGTAAAATGGTAATTAT
* *
65791077 GTAAATTGGAGGTA
1 GTAAAATGGGGGTA
65791091 CTTTGGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 4 0.11
27 29 0.81
28 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (27 bp):
GTAAAATGGGGGTAAAATGGTAATTAT
Found at i:65791066 original size:38 final size:37
Alignment explanation
Indices: 65790994--65791069 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 37
65790984 TGTAAATCGA
* *
65790994 GGGGAAAATGGTAATTCTGTAAGTCGAGGGTAAAATG
1 GGGGAAAATGGTAATTATGTAAATCGAGGGTAAAATG
*
65791031 GGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATG
1 GGGG-AAAATGGTAATTATGTAAATCGAGGGTAAAATG
65791069 G
1 G
65791070 TAATTCTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 4 0.11
38 31 0.89
ACGTcount: A:0.36, C:0.04, G:0.36, T:0.25
Consensus pattern (37 bp):
GGGGAAAATGGTAATTATGTAAATCGAGGGTAAAATG
Found at i:65791116 original size:27 final size:27
Alignment explanation
Indices: 65791086--65791185 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
65791076 TGTAAATTGG
** *
65791086 AGGTACTTTGGTAATTTTACAAGTCGA
1 AGGTACTTCAGTAATTTTACAAATCGA
65791113 AGGTACTTCAGTAATTTTACAAATCGA
1 AGGTACTTCAGTAATTTTACAAATCGA
* * * * * *
65791140 GGGTATTTTAATATTTTTACAAA-CTA
1 AGGTACTTCAGTAATTTTACAAATCGA
* *
65791166 AGCGTATTTCGGTAATTTTA
1 AG-GTACTTCAGTAATTTTA
65791186 GTAAACTAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 3 0.05
27 55 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
AGGTACTTCAGTAATTTTACAAATCGA
Found at i:65796733 original size:33 final size:33
Alignment explanation
Indices: 65796691--65796766 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
65796681 TGTATATATG
* *
65796691 TAAGACCATAGTTGGTCTATGGCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
*
65796724 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
65796757 TAAGACCATA
1 TAAGACCATA
65796767 ACCGAGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGA
Found at i:65796778 original size:33 final size:33
Alignment explanation
Indices: 65796707--65796780 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
65796697 CATAGTTGGT
* * *
65796707 CTATGGCATACTGATGATAAGACCATAGCTGGG
1 CTATGGCATACTGATGATAAGACCATAACCGAG
*
65796740 CTATGGCATTCTGATGATAAGACCATAACCGAG
1 CTATGGCATACTGATGATAAGACCATAACCGAG
*
65796773 TTATGGCA
1 CTATGGCA
65796781 CTATGAACGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (33 bp):
CTATGGCATACTGATGATAAGACCATAACCGAG
Found at i:65797145 original size:194 final size:194
Alignment explanation
Indices: 65796816--65797206 Score: 638
Period size: 194 Copynumber: 2.0 Consensus size: 194
65796806 CCATGGCTAT
* * * *
65796816 GCACATGTAAGACCATAGTTGGACTATGGAACAATATGAATCATGTTCCAGGATTTCAATTGTCT
1 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTACCAGGATTTCAATCGTCT
* *
65796881 TTCCAGTATGCGTCAGATGGAAATACATAATGGTCTAAACACAATGTGTGAGACAGTAAACGGTT
66 TTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGTT
** *
65796946 CGTAATAGTATATATTTGTAATGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
131 CGTAATAGTATATATTTACAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
*
65797010 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTACTAGGATTTCAATCGTCT
1 GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTACCAGGATTTCAATCGTCT
* * *
65797075 TTTCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAATACAACGTGTGAGACGGTAAACGGTT
66 TTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGTT
* **
65797140 CGTAATAGTATATATTTACAAAGGTGGTAAATGTTGTATTATCATTATATGTTAAAGAGATTAC
131 CGTAATAGTATATATTTACAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
65797204 GCA
1 GCA
65797207 TTGTGATAGT
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
194 181 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (194 bp):
GCACATGTAAGACCAAAGTTGGACTATGGAACAATATGAATCAGGTACCAGGATTTCAATCGTCT
TTCCAGTATGCGTCAGATGGAAATACATAAGGGTCTAAACACAACGTGTGAGACAGTAAACGGTT
CGTAATAGTATATATTTACAAAGGTGATAAACATTGTATTATCATTATATGTTAAAGAGATTAC
Found at i:65800519 original size:39 final size:40
Alignment explanation
Indices: 65800342--65800519 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
65800332 CGGATGATAA
* * * *
65800342 CCGGGCCAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
65800382 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65800422 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
65800462 CCGGGCTAAGTCCCGAAGGCAATTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
65800502 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65800520 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 108 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65805281 original size:42 final size:43
Alignment explanation
Indices: 65805235--65805354 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 43
65805225 AATGCCTTTA
* * *
65805235 TCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCAATG
1 TCCCAGACACGGTCTTACACGTAAACTCAAAT-CGAGGCCAATG
* * **
65805277 TCCCAGACATGGTCTTACAGGTAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACGTAAA-CTCAAATCGAGGCCAATG
*
65805321 TCCCAGACACGGTCTTACACATAAATCTCAAATC
1 TCCCAGACACGGTCTTACACGTAAA-CTCAAATC
65805355 AATATCAACA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 19 0.29
43 3 0.05
44 39 0.59
45 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
TCCCAGACACGGTCTTACACGTAAACTCAAATCGAGGCCAATG
Found at i:65807944 original size:12 final size:13
Alignment explanation
Indices: 65807920--65807952 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
65807910 CAACATCTAT
65807920 TCAAAATTCAGAA
1 TCAAAATTCAGAA
65807933 TCAAAA-TCAGAA
1 TCAAAATTCAGAA
*
65807945 TCAGAATT
1 TCAAAATT
65807953 ACATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (13 bp):
TCAAAATTCAGAA
Found at i:65811542 original size:24 final size:24
Alignment explanation
Indices: 65811483--65811544 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 24
65811473 GTGATATTTA
65811483 TGCAAATGATGTTTTATGTTGGAC
1 TGCAAATGATGTTTTATGTTGGAC
*
65811507 T--ACATGA----TTATGTTGGAC
1 TGCAAATGATGTTTTATGTTGGAC
65811525 TGCAAATGATGTTTTATGTT
1 TGCAAATGATGTTTTATGTT
65811545 TTATGTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
18 12 0.40
20 5 0.17
22 5 0.17
24 8 0.27
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (24 bp):
TGCAAATGATGTTTTATGTTGGAC
Found at i:65816806 original size:45 final size:45
Alignment explanation
Indices: 65816755--65816846 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
65816745 CTGTTACAAG
*
65816755 TACAAGTTGTCCTTCCGTATTATGATCCAACCACGTAATAACACT
1 TACAAGTTGTCCTTCAGTATTATGATCCAACCACGTAATAACACT
65816800 TACAAGTTGTCCTTCAGTATTATGATCCAACCACGTAATAACACT
1 TACAAGTTGTCCTTCAGTATTATGATCCAACCACGTAATAACACT
65816845 TA
1 TA
65816847 GTATTAGTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (45 bp):
TACAAGTTGTCCTTCAGTATTATGATCCAACCACGTAATAACACT
Found at i:65818341 original size:46 final size:46
Alignment explanation
Indices: 65818262--65818349 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
65818252 CAAAAAAACT
* * ** *
65818262 GGAAATGATCCATTTGCAATTCTATATGGATTACTTGAAAATGATC
1 GGAAATGATCCATTTGCAAATCTAGATAAATTACTTAAAAATGATC
* *
65818308 GGAAATGATTCATTTGCAAATGTAGATAAATTACTTAAAAAT
1 GGAAATGATCCATTTGCAAATCTAGATAAATTACTTAAAAAT
65818350 TATAGGAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (46 bp):
GGAAATGATCCATTTGCAAATCTAGATAAATTACTTAAAAATGATC
Found at i:65823412 original size:140 final size:138
Alignment explanation
Indices: 65823137--65823651 Score: 652
Period size: 140 Copynumber: 3.7 Consensus size: 138
65823127 TGATTCATAC
* *
65823137 ATTTTACCAAATTTATTAATATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAT
1 ATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAA
* * *
65823202 GGAAACT-A-ATTTTTTGGAAAGAATATAATTAATACATGAATTTGATTCATATAAAATATTAAT
66 GGAAATTAATATTTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAAT
65823265 TGTATATAA
131 TGTATAT-A
* * * *
65823274 ATTTTA-CAGAATTTATTAATATAAATAGTTATATTATTTAAGTTT-GTTCAAAATATAAAAGAC
1 ATTTTACCA-AATTTATTAATATAAACAATTATATTAATTAA-TTTCGGTCAAAATATAAAAGAC
*
65823337 AAGGAAATTGATATTCTTTT-GAAAGAAATATAATTAATATATGAATTTGATTCATACAAAATAT
64 AAGGAAATTAATATT-TTTTGGAAAG-AATATAATTAATATATGAATTTGATTCATACAAAATAT
65823401 TAATTGTATAT-
127 TAATTGTATATA
* * * *
65823412 ATTTCATCTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGATAT
1 ATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACA-
* *
65823477 A-GAAATTAATATTCGTTTAGAAAGAATATAATTAATGTATAT-AGATTTGATTCATACAAAATA
65 AGGAAATTAATATT-TTTTGGAAAGAATATAATTAA--TATATGA-ATTTGATTCATACAAAATA
*
65823540 TTAATTGTTTAT-
126 TTAATTGTATATA
* *
65823552 ATTTTACCAAATTAATTAATATAATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGA
1 ATTTTACCAAATTTATT-A-AT-ATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGA
* * *
65823617 TATGGAAATTAATCTTTTTTGGAAAGAATATAATT
63 CAAGGAAATTAATATTTTTTGGAAAGAATATAATT
65823652 CATTTTTCTA
Statistics
Matches: 334, Mismatches: 27, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
136 2 0.01
137 62 0.19
138 81 0.24
139 16 0.05
140 99 0.30
141 1 0.00
142 19 0.06
143 54 0.16
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (138 bp):
ATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAA
GGAAATTAATATTTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAAT
TGTATATA
Found at i:65823431 original size:257 final size:253
Alignment explanation
Indices: 65822965--65823651 Score: 711
Period size: 257 Copynumber: 2.6 Consensus size: 253
65822955 AATAGAGAAC
*
65822965 AAAGATAAAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
1 AAAGATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
* *
65823030 TATTAATATAAATAGATATATTAATTAATTTCAGTCAAAGTATAAAAGACATGGAAATTATTATT
66 TATTAATATAAATAGATATATTAATTAATTT-AGTCAAAATATAAAAGACAAGGAAATTATTATT
* * ***
65823095 CTTTTGGAAATAATATAATTAATATATGAGTTTGATTCATACATTTTACCAAATTTATTAATATA
130 CTTTTGGAAAAAATATAATTAATATATGAATTTGATTCATACAAAATACCAAATTTATTAATATA
65823160 AAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
195 AAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
* *
65823219 AAAGAATATAATTAATACATGAATTTGATTCATATAAAATATTAATTGTATATAAATTTTA-CAG
1 AAAG-ATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATAT--ATTTTATC-G
* *
65823283 AATTTATTAATATAAATAGTTATATTATTTAAGTTT-GTTCAAAATATAAAAGACAAGGAAATTG
62 AATTTATTAATATAAATAGATATATTAATTAA-TTTAG-TCAAAATATAAAAGACAAGGAAATT-
65823347 A-TATTCTTTT-GAAAGAAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTAT
124 ATTATTCTTTTGGAAA-AAATATAATTAATATATGAATTTGATTCATAC--------AA----A-
* * *
65823410 ATATTTCATCTAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGAT
175 ATA---C--CAAATTTATTAATATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGAC
* * *
65823475 ATAGAAATTAATATTCGTTTAG
235 ATGGAAACTAAT-TT--TTTGG
* * * * *
65823497 AAAGAATATAATTAATGTATAT-AGATTTGATTCATACAAAATATTAATTGTTTATATTTTACCA
1 AAAG-ATAAAATTAA--TACATGA-ATTTGATTCATACAAAATATTAATTGTATATATTTTATCG
* * * * *
65823561 AATTAATTAATATAATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGATATGGAAAT
62 AATTTATTAATATAA-ATA-GA-TATATTAATTAATTT-AGTCAAAATATAAAAGACAAGGAAAT
* * *
65823626 TAATCTT-TTTTGGAAAGAATATAATT
123 TATTATTCTTTTGGAAAAAATATAATT
65823652 CATTTTTCTA
Statistics
Matches: 362, Mismatches: 31, Indels: 54
0.81 0.07 0.12
Matches are distributed among these distances:
254 4 0.01
255 45 0.12
256 6 0.02
257 99 0.27
258 4 0.01
265 1 0.00
270 2 0.01
273 1 0.00
275 63 0.17
276 2 0.01
278 39 0.11
279 4 0.01
280 50 0.14
281 41 0.11
282 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (253 bp):
AAAGATAAAATTAATACATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATT
TATTAATATAAATAGATATATTAATTAATTTAGTCAAAATATAAAAGACAAGGAAATTATTATTC
TTTTGGAAAAAATATAATTAATATATGAATTTGATTCATACAAAATACCAAATTTATTAATATAA
AAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAACTAATTTTTTGG
Found at i:65823667 original size:16 final size:17
Alignment explanation
Indices: 65823646--65823679 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65823636 TGGAAAGAAT
65823646 ATAATT-CATTTTTCTA
1 ATAATTCCATTTTTCTA
*
65823662 ATAATTCCTTTTTTCTA
1 ATAATTCCATTTTTCTA
65823679 A
1 A
65823680 CTTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATTCCATTTTTCTA
Found at i:65825750 original size:9 final size:9
Alignment explanation
Indices: 65825664--65825793 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
65825654 GAGGAAAATT
65825664 TTATAAAAA
1 TTATAAAAA
*
65825673 TCATAAAAA
1 TTATAAAAA
65825682 TTAT-AAAA
1 TTATAAAAA
*
65825690 TATATAGAAA
1 T-TATAAAAA
*
65825700 TATAGAAAAAA
1 T-TA-TAAAAA
*
65825711 TTAT-CAAA
1 TTATAAAAA
* *
65825719 TTTTATAAAG
1 TTATA-AAAA
*
65825729 TCATAAGAAAA
1 TTAT-A-AAAA
65825740 TTATAAAAA
1 TTATAAAAA
*
65825749 TTGTAAAGAA
1 TTATAAA-AA
* * *
65825759 ATATAAGAT
1 TTATAAAAA
65825768 TCGTATAATAAA
1 T--TATAA-AAA
65825780 TTATAAAAA
1 TTATAAAAA
65825789 TTATA
1 TTATA
65825794 GTTCCAAGAG
Statistics
Matches: 88, Mismatches: 23, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
8 11 0.12
9 33 0.38
10 25 0.28
11 17 0.19
12 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:65826037 original size:31 final size:30
Alignment explanation
Indices: 65825972--65826029 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
65825962 TTTGAAGAAG
* *
65825972 TTTATAGTTTTTTTTATGATTTTTATAAAAT
1 TTTATAGTTTTTTTTAT-TTTTTTACAAAAT
65826003 TTTATAGTTTTTTTTATTTTTTTACAA
1 TTTATAGTTTTTTTTATTTTTTTACAA
65826030 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTATAGTTTTTTTTATTTTTTTACAAAAT
Found at i:65833281 original size:24 final size:24
Alignment explanation
Indices: 65833254--65833316 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
65833244 GGATTTCTAA
*
65833254 GGCACTATGTGTGCAGG-TTAGCAT
1 GGCACTATGTGTGC-GGATTAGAAT
* *
65833278 GGCACTAAGTGTGCGGATTTGAAT
1 GGCACTATGTGTGCGGATTAGAAT
*
65833302 AGCACTATGTGTGCG
1 GGCACTATGTGTGCG
65833317 AAATCGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (24 bp):
GGCACTATGTGTGCGGATTAGAAT
Found at i:65840559 original size:25 final size:25
Alignment explanation
Indices: 65840522--65840613 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 25
65840512 GAAATGACAT
65840522 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTAAGTGTGCGGATTTTGAA
* *
65840547 TGGCACTATGTGTGCTGA-TTTGAA
1 TGGCACTAAGTGTGCGGATTTTGAA
* * *
65840571 TGTCAATACGAGTGTGTGGATTTCT-AA
1 TGGCACTA--AGTGTGCGGATTT-TGAA
*
65840598 -GGCACTATGTGTGCGG
1 TGGCACTAAGTGTGCGG
65840614 GTTAGCATTG
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 19 0.37
25 16 0.31
26 12 0.23
27 4 0.08
28 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.34
Consensus pattern (25 bp):
TGGCACTAAGTGTGCGGATTTTGAA
Found at i:65842396 original size:40 final size:40
Alignment explanation
Indices: 65842341--65842532 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
65842331 CGGATGATAA
* * *
65842341 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
65842381 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65842421 CC-GGCTTAAGCCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGC-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65842461 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65842501 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65842533 AGCTGTATCC
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65844791 original size:24 final size:24
Alignment explanation
Indices: 65844759--65844806 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
65844749 GTTGCACATC
65844759 AAATATAT-GGTTGGGTTATGAAAT
1 AAATATATGGGTTGGG-TATGAAAT
65844783 AAATATATGGGTTGGGTATGAAAT
1 AAATATATGGGTTGGGTATGAAAT
65844807 TGCTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (24 bp):
AAATATATGGGTTGGGTATGAAAT
Found at i:65845303 original size:14 final size:14
Alignment explanation
Indices: 65845280--65845312 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
65845270 AGGAGAGAAT
65845280 GATGAATGATGAGG
1 GATGAATGATGAGG
*
65845294 GATGAGTGATGAGG
1 GATGAATGATGAGG
65845308 GATGA
1 GATGA
65845313 TTAGAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.21
Consensus pattern (14 bp):
GATGAATGATGAGG
Found at i:65853009 original size:29 final size:29
Alignment explanation
Indices: 65852967--65853025 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
65852957 AATCAACAAG
65852967 TTAGTCCAATAACAATACGCCATGTAATT
1 TTAGTCCAATAACAATACGCCATGTAATT
*
65852996 TTAGTCCCATAACAATACGCCATGTAATT
1 TTAGTCCAATAACAATACGCCATGTAATT
65853025 T
1 T
65853026 GTCTCAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAGTCCAATAACAATACGCCATGTAATT
Found at i:65859906 original size:30 final size:30
Alignment explanation
Indices: 65859871--65859927 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
65859861 TGAGCCTAGT
*
65859871 GGCAAAAGTGTAATTATGCAAAAGTTTAGG
1 GGCAAAAATGTAATTATGCAAAAGTTTAGG
* *
65859901 GGCAAAAATGTAATTTTGCCAAAGTTT
1 GGCAAAAATGTAATTATGCAAAAGTTT
65859928 GTATTAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAATGTAATTATGCAAAAGTTTAGG
Found at i:65861863 original size:21 final size:22
Alignment explanation
Indices: 65861824--65861876 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
65861814 CATACAATTG
*
65861824 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
65861846 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
65861866 ATAAAATAATA
1 TTAAAATAATA
65861877 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:65870364 original size:30 final size:30
Alignment explanation
Indices: 65870318--65870377 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65870308 TTCCCGAGCC
* *
65870318 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
* *
65870348 TAGGGGAAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
65870378 CATATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAATTATGCAAAAGTT
Found at i:65872646 original size:27 final size:27
Alignment explanation
Indices: 65872616--65872793 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
65872606 ATATTGAGCC
* *
65872616 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
65872643 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65872670 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
65872698 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
65872725 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65872752 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
65872779 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65872794 GTACAGTTTA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65872755 original size:82 final size:81
Alignment explanation
Indices: 65872642--65872792 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
65872632 TATAATCAAC
*
65872642 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
65872707 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* ** *
65872724 TCGCACACTTAGTG-CATCGTATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
65872788 AGTGC
65 AGTGC
65872793 TGTACAGTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:65876095 original size:567 final size:567
Alignment explanation
Indices: 65875020--65876153 Score: 1948
Period size: 567 Copynumber: 2.0 Consensus size: 567
65875010 ATGCTATTTA
*
65875020 GTCCATGAAAATCTATAGTAAAGTAAAATTTGCCATAAAATAGAATCTGATAGCAGCAGTGATGT
1 GTCCATGAAAATCTATAGTAAAGTAAAATTTGCCATAAAATAGAATCTGACAGCAGCAGTGATGT
* * *
65875085 AAATTTGAAAAATAACTAAAAATAGTATAAATGGAATTAAATGATTATTAAGTTATTAAATTGAA
66 AAATTTGAAAAATAACTAAAAATAGTATAAATGGAATTAAATGATGAGTAAGTTATGAAATTGAA
* *
65875150 GCTTGATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTGTGAGATA
131 GCCTGATGAGTCTATTTTCATATGAATGGAACAAAACAGGTATATGAGTTATATTTTGTGAGATA
65875215 TTTAAGGTTTGGTGGAACAGGGTCAGAGTGATCTCTGTATCCCCTATTCTAACTTTAAAAATTCA
196 TTTAAGGTTTGGTGGAACAGGGTCAGAGTGATCTCTGTATCCCCTATTCTAACTTTAAAAATTCA
*
65875280 CTATAAATTTTAAAAAAACAATTAGGAGTTTTATCTTACATTTATGAAATCCTTATTTAGTCTAG
261 CTATAAATTTTAAAAAAACAATTAGGAGTTTTATCTTACATTTATGAAATCCTTATTGAGTCTAG
* *
65875345 TTTTATAAGTAACAAACGACATAGTCATTGAAACTCTGTACAGGGAGACATCTGATTCGTAATAC
326 TTTTATAAGAAACAAACGACATAGTCATTAAAACTCTGTACAGGGAGACATCTGATTCGTAATAC
**
65875410 ACAGGGGTCAGAGTAGTCGAACCCTGAAATAGGGGAGACTTTAACTAATAAACTGTACTAATTTT
391 ACAGGGGTCAGAGTAGTCGAACCCTGAAATAGGGGAGACTTTAACTAATAAACTGTACTAATTGG
* *
65875475 CTTGACCAAAAATTCTAGAAAAACATTAGTAAATAGATATATGAGTCTAGTTTCAGGGAAAATTT
456 CTTGACCAAAAATTCTAGAAAAAAATTAGTAAATAGATATATGAGTATAGTTTCAGGGAAAATTT
*** * *
65875540 ATGGATATTAATTTCGAGTTTCTGAACTTGAGATATGAATTTTTAAG
521 ACAAATATTAATTTCGAGTTTCAGAACTCGAGATATGAATTTTTAAG
*
65875587 GTCCATGAAAATCTATAGTAAAGTAAAATTTGCCATAAAATAGAATCTGACAGCAGTAGTGATGT
1 GTCCATGAAAATCTATAGTAAAGTAAAATTTGCCATAAAATAGAATCTGACAGCAGCAGTGATGT
* *
65875652 AAATTTGAAAATTAACTAAAAATAGTATAAATGGAATTAAATGATGAGTAAGTTATGAAATTTAA
66 AAATTTGAAAAATAACTAAAAATAGTATAAATGGAATTAAATGATGAGTAAGTTATGAAATTGAA
*
65875717 GCCTGATGAGTCTATTTTCATATGAATGGAACAAAAGAGGTATATGAGTTATATTTTGTGAGATA
131 GCCTGATGAGTCTATTTTCATATGAATGGAACAAAACAGGTATATGAGTTATATTTTGTGAGATA
* * * *
65875782 TTTAAGTTTTGGTGGAATAGGGTCAGGGTGATCTCTGTATCCCCTATTCTGACTTTAAAAATTCA
196 TTTAAGGTTTGGTGGAACAGGGTCAGAGTGATCTCTGTATCCCCTATTCTAACTTTAAAAATTCA
65875847 CTATAAATTTTACAAAAAA-AATTAGGAGTTTTATCTTAC-TTGTATGAAATCCTTATTGAGTCT
261 CTATAAATTTTA-AAAAAACAATTAGGAGTTTTATCTTACATT-TATGAAATCCTTATTGAGTCT
* * *
65875910 AGTTTTATAAGAAACAAACGGCATAGTCATTAAAACTCTGTACAGGGAGATATCTGATTTGTAAT
324 AGTTTTATAAGAAACAAACGACATAGTCATTAAAACTCTGTACAGGGAGACATCTGATTCGTAAT
*
65875975 ACACAGGGGTCAGAGTAGTTGAACCCTGAAATAGGGGAGACTTTAACTAATAAACTGTACTAATT
389 ACACAGGGGTCAGAGTAGTCGAACCCTGAAATAGGGGAGACTTTAACTAATAAACTGTACTAATT
*
65876040 GGCTTGACCAAAAATTCTAGAAAAAAATTAGTAAATATATATATGAGTATAGTTTCAGGGAAAAT
454 GGCTTGACCAAAAATTCTAGAAAAAAATTAGTAAATAGATATATGAGTATAGTTTCAGGGAAAAT
*
65876105 TTACAAATATTAATTTTGAGTTTCAGAACTCGAGATATGAATTTTTAAG
519 TTACAAATATTAATTTCGAGTTTCAGAACTCGAGATATGAATTTTTAAG
65876154 CGACTGTGAT
Statistics
Matches: 533, Mismatches: 32, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
566 2 0.00
567 525 0.98
568 6 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (567 bp):
GTCCATGAAAATCTATAGTAAAGTAAAATTTGCCATAAAATAGAATCTGACAGCAGCAGTGATGT
AAATTTGAAAAATAACTAAAAATAGTATAAATGGAATTAAATGATGAGTAAGTTATGAAATTGAA
GCCTGATGAGTCTATTTTCATATGAATGGAACAAAACAGGTATATGAGTTATATTTTGTGAGATA
TTTAAGGTTTGGTGGAACAGGGTCAGAGTGATCTCTGTATCCCCTATTCTAACTTTAAAAATTCA
CTATAAATTTTAAAAAAACAATTAGGAGTTTTATCTTACATTTATGAAATCCTTATTGAGTCTAG
TTTTATAAGAAACAAACGACATAGTCATTAAAACTCTGTACAGGGAGACATCTGATTCGTAATAC
ACAGGGGTCAGAGTAGTCGAACCCTGAAATAGGGGAGACTTTAACTAATAAACTGTACTAATTGG
CTTGACCAAAAATTCTAGAAAAAAATTAGTAAATAGATATATGAGTATAGTTTCAGGGAAAATTT
ACAAATATTAATTTCGAGTTTCAGAACTCGAGATATGAATTTTTAAG
Found at i:65886205 original size:48 final size:48
Alignment explanation
Indices: 65886134--65886229 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
65886124 TCGGTCAAGA
65886134 AAGCCACCAAAACTATTAAGGAACATGCATCCTCTATTACCACAATCT
1 AAGCCACCAAAACTATTAAGGAACATGCATCCTCTATTACCACAATCT
65886182 AAGCCACCAAAACTATTAAGGAACATGCATCCTCTATTACCACAATCT
1 AAGCCACCAAAACTATTAAGGAACATGCATCCTCTATTACCACAATCT
65886230 GTGAATCGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.29, G:0.08, T:0.23
Consensus pattern (48 bp):
AAGCCACCAAAACTATTAAGGAACATGCATCCTCTATTACCACAATCT
Found at i:65887729 original size:17 final size:17
Alignment explanation
Indices: 65887707--65887746 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
65887697 GATAAGTATA
65887707 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
65887724 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
65887741 CATTGT
1 CATTGT
65887747 TATTACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:65894012 original size:90 final size:92
Alignment explanation
Indices: 65893869--65894050 Score: 226
Period size: 90 Copynumber: 2.0 Consensus size: 92
65893859 TGAATTCCAT
* * * *
65893869 TAAGAGCGTGTCGGGCTAAGTAACCGGGGTGCGGTGTTTGGGTTGTCATCCCTCTTCGCATCAAA
1 TAAGAGCGTGTCGGGCTAAGTAACCGAGGTGCGGTGCTTAGGTTCTCATCCCTCTTCGCATCAAA
* *
65893934 AGGTTCGATACATT-C-TTAAAAAAAA
66 AAGTTCAATACATTCCATTAAAAAAAA
* * * * *
65893959 TAAGAGTGTGTTC-GGCTGAGTAACCGAGGTGGGGTGCTTAGGTTCTCATCCCTCTTTGCGTCAA
1 TAAGAGCGTG-TCGGGCTAAGTAACCGAGGTGCGGTGCTTAGGTTCTCATCCCTCTTCGCATCAA
*
65894023 AAATTTCAATACATTCCATTAAAAAAAA
65 AAAGTTCAATACATTCCATTAAAAAAAA
65894051 ACAAAAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 64 0.83
91 3 0.04
92 10 0.13
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (92 bp):
TAAGAGCGTGTCGGGCTAAGTAACCGAGGTGCGGTGCTTAGGTTCTCATCCCTCTTCGCATCAAA
AAGTTCAATACATTCCATTAAAAAAAA
Found at i:65898697 original size:19 final size:20
Alignment explanation
Indices: 65898675--65898712 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65898665 TTACTTTTTC
65898675 TTTTCCCCTAAAA-TTTTAT
1 TTTTCCCCTAAAAGTTTTAT
*
65898694 TTTTCCCTTAAAAGTTTTA
1 TTTTCCCCTAAAAGTTTTA
65898713 CTTCCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTCCCCTAAAAGTTTTAT
Found at i:65899086 original size:18 final size:18
Alignment explanation
Indices: 65899049--65899086 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
65899039 AAAAAATCAC
*
65899049 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
65899067 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
65899085 AT
1 AT
65899087 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:65899550 original size:16 final size:16
Alignment explanation
Indices: 65899529--65899564 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
65899519 TTTGGTTCGT
65899529 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65899545 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65899561 TGTA
1 TGTA
65899565 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65899820 original size:16 final size:16
Alignment explanation
Indices: 65899780--65899834 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
65899770 TTAATCATAT
*
65899780 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
65899796 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
65899811 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
65899829 -TAAAAT
1 TTAAAAT
65899835 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:65899827 original size:18 final size:17
Alignment explanation
Indices: 65899800--65899834 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65899790 TTTTTATTAA
*
65899800 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65899818 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65899835 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65899846 original size:15 final size:16
Alignment explanation
Indices: 65899826--65899856 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65899816 ATATATAATT
65899826 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
65899841 TAATAAATATTCTTAA
1 TAATAAATATTCTTAA
65899857 ATGAATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:65900124 original size:22 final size:22
Alignment explanation
Indices: 65900096--65900180 Score: 118
Period size: 22 Copynumber: 3.7 Consensus size: 22
65900086 TGTAAGTTAG
65900096 AGCATATGAAATTACTTTTTGA
1 AGCATATGAAATTACTTTTTGA
*
65900118 AGCATATGAAATTACTGTAAGTT-A
1 AGCATATGAAATTACT-T--TTTGA
65900142 GAGCATATGAAATTACTTTTTGA
1 -AGCATATGAAATTACTTTTTGA
65900165 AGCATATGAAATTACT
1 AGCATATGAAATTACT
65900181 GTAAGTTAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
22 34 0.61
23 2 0.04
24 2 0.04
25 18 0.32
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (22 bp):
AGCATATGAAATTACTTTTTGA
Found at i:65900131 original size:47 final size:47
Alignment explanation
Indices: 65900078--65900203 Score: 252
Period size: 47 Copynumber: 2.7 Consensus size: 47
65900068 ATTGCAAAAA
65900078 GAAATTACTGTAAGTTAGAGCATATGAAATTACTTTTTGAAGCATAT
1 GAAATTACTGTAAGTTAGAGCATATGAAATTACTTTTTGAAGCATAT
65900125 GAAATTACTGTAAGTTAGAGCATATGAAATTACTTTTTGAAGCATAT
1 GAAATTACTGTAAGTTAGAGCATATGAAATTACTTTTTGAAGCATAT
65900172 GAAATTACTGTAAGTTAGAGCATATGAAATTA
1 GAAATTACTGTAAGTTAGAGCATATGAAATTA
65900204 AGCAAAGATC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (47 bp):
GAAATTACTGTAAGTTAGAGCATATGAAATTACTTTTTGAAGCATAT
Found at i:65900152 original size:25 final size:25
Alignment explanation
Indices: 65900078--65900203 Score: 160
Period size: 25 Copynumber: 5.3 Consensus size: 25
65900068 ATTGCAAAAA
65900078 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
65900103 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
65900125 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
65900150 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
65900172 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
65900197 GAAATTA
1 GAAATTA
65900204 AGCAAAGATC
Statistics
Matches: 87, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
21 6 0.07
22 32 0.37
23 2 0.02
24 2 0.02
25 39 0.45
26 6 0.07
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (25 bp):
GAAATTACTGTAAGTTAGAGCATAT
Found at i:65909932 original size:12 final size:12
Alignment explanation
Indices: 65909915--65909955 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
65909905 GGAGATAGGA
65909915 AAAACAGGTTCC
1 AAAACAGGTTCC
*
65909927 AAAACAGG---A
1 AAAACAGGTTCC
65909936 AAAACAGGTTCC
1 AAAACAGGTTCC
65909948 AAAACAGG
1 AAAACAGG
65909956 AAAAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:65909936 original size:21 final size:21
Alignment explanation
Indices: 65909911--65909963 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
65909901 CAGTGGAGAT
65909911 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
65909932 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
65909953 AGGAAAAACAG
1 AGGAAAAACAG
65909964 TGGCTGTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.55, C:0.17, G:0.21, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:65921797 original size:39 final size:39
Alignment explanation
Indices: 65921680--65921942 Score: 259
Period size: 40 Copynumber: 6.6 Consensus size: 39
65921670 GCTCCTCGTT
* *
65921680 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
65921720 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
65921760 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
65921799 CAAATGCCTTCGGATCTTAGTCTGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
* *
65921839 CAAATGCCTTCGGGCTTAGCCCGAAATTAATATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
65921878 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
65921919 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
65921943 CATCATTCAA
Statistics
Matches: 190, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
39 87 0.46
40 92 0.48
41 11 0.06
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:65921798 original size:79 final size:80
Alignment explanation
Indices: 65921680--65921942 Score: 326
Period size: 79 Copynumber: 3.3 Consensus size: 80
65921670 GCTCCTCGTT
* * * **
65921680 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTTGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCC-TTCGGATCTTAGTC
65921742 CGGATTTAGTAACTCGCA
63 CGGATTTAGTAACTCGCA
*
65921760 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
65921824 ATTTAGTATCTCGCA
66 ATTTAGTAACTCGCA
* *
65921839 CAAATGCCTTCGGG-CTTAGCCCGAAATTAATATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
* *
65921903 ATATT-GTCACTTAGCA
66 AT-TTAGTAAC-TCGCA
65921919 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65921943 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
78 16 0.10
79 125 0.77
80 22 0.13
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:65929830 original size:39 final size:39
Alignment explanation
Indices: 65929709--65929918 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
65929699 GCTCCTCGTT
* *
65929709 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
65929749 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
65929789 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCTCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65929828 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
65929867 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65929906 CAAATGCCTTCGG
1 CAAATGCCTTCGG
65929919 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 111 0.70
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:65929954 original size:78 final size:79
Alignment explanation
Indices: 65929709--65929968 Score: 286
Period size: 78 Copynumber: 3.3 Consensus size: 79
65929699 GCTCCTCGTT
* ** *
65929709 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGAAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
65929772 GGAT-TTAGTAAC-TCGCA
62 GGATATTAGT-ACTTCGCA
* * *
65929789 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCTCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
65929853 ATTAGTA-TCTCGCA
66 ATTAGTACT-TCGCA
*
65929867 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGGA
*
65929932 TATT-GTCACTTAGCA
65 TATTAGT-ACTTCGCA
*
65929947 C-AA-GCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
65929969 GACATCATTC
Statistics
Matches: 158, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
77 1 0.01
78 83 0.53
79 49 0.31
80 24 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
ATTAGTACTTCGCA
Found at i:65942166 original size:31 final size:30
Alignment explanation
Indices: 65942097--65942167 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
65942087 TTGTTAGTTG
*
65942097 TTTTTATTTTATTTTTGTTAAGACTTATAT
1 TTTTTATTTTATTTTTATTAAGACTTATAT
* **
65942127 GTTTTATTTTATTTTTATTCTGAACTT-TATT
1 TTTTTATTTTATTTTTATTAAG-ACTTATA-T
65942158 TTTTTATTTT
1 TTTTTATTTT
65942168 TTCAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (30 bp):
TTTTTATTTTATTTTTATTAAGACTTATAT
Found at i:65942623 original size:15 final size:15
Alignment explanation
Indices: 65942603--65942632 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65942593 CAAGTATGAT
*
65942603 AAATTATTTTTTTAG
1 AAATTATTATTTTAG
65942618 AAATTATTATTTTAG
1 AAATTATTATTTTAG
65942633 GTTGTCTCCC
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:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
AAATTATTATTTTAG
Found at i:65949163 original size:10 final size:11
Alignment explanation
Indices: 65949138--65949169 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
65949128 ATTTAATTAA
65949138 TTTTTAAACAG
1 TTTTTAAACAG
65949149 TTTTTAAACAG
1 TTTTTAAACAG
*
65949160 TTTTTGAACA
1 TTTTTAAACA
65949170 CCTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (11 bp):
TTTTTAAACAG
Found at i:65950286 original size:48 final size:48
Alignment explanation
Indices: 65950204--65950538 Score: 321
Period size: 48 Copynumber: 6.9 Consensus size: 48
65950194 ATACTAGGGT
*
65950204 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * * **
65950252 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGACATCGACATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* **
65950300 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * *
65950348 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * ***
65950396 TATGTGAGCCAGTGTAAGACCATGTTTGGAATATGGCATCGGCATTGT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
* * * * * *
65950444 TATGTGAGCCAGTGTAAGAACATGTCTGGGGCATGGCATTC-GCACCGATG
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCATC-A-A
* * * * **
65950494 TATAAGAACCAGTTTAAGACCATGTCCAGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
65950539 TTGACCCTTT
Statistics
Matches: 234, Mismatches: 49, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
48 197 0.84
49 4 0.02
50 33 0.14
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAA
Found at i:65950468 original size:144 final size:144
Alignment explanation
Indices: 65950204--65950482 Score: 450
Period size: 144 Copynumber: 1.9 Consensus size: 144
65950194 ATACTAGGGT
* * *
65950204 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGAGTAA
1 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
* *
65950269 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACAT
66 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
65950334 GGCATCGACATTGA
131 GGCATCGACATTGA
*
65950348 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
1 TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
* * * * * *
65950413 GACCATGTTTGGAATATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGAACATGTCTGGGGCAT
66 GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
65950478 GGCAT
131 GGCAT
65950483 TCGCACCGAT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 123 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
TATGACAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGAGTAA
GACCATGTTTGGAACATGACATCGACATTGATATGAGAGCCAGTGTAAGAACATGTCTGGGACAT
GGCATCGACATTGA
Found at i:65955224 original size:25 final size:25
Alignment explanation
Indices: 65955192--65955242 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
65955182 GACAATGTAG
* *
65955192 AAAGTAATGCACCGGCTCCTGCTGA
1 AAAGTAATACACCGGCTCCGGCTGA
*
65955217 AAAGTAATACACTGGCTCCGGCTGA
1 AAAGTAATACACCGGCTCCGGCTGA
65955242 A
1 A
65955243 GGGGCGGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (25 bp):
AAAGTAATACACCGGCTCCGGCTGA
Found at i:65959866 original size:46 final size:46
Alignment explanation
Indices: 65959816--65959941 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
65959806 TGGTTGAGCA
*
65959816 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
65959862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
65959908 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65959942 GGGGCAGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:65966952 original size:46 final size:46
Alignment explanation
Indices: 65966902--65967071 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
65966892 TTGAGCATCT
*
65966902 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
* * *
65966948 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG--TCC
* * *
65966995 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
* *
65967041 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65967072 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 56 0.53
47 29 0.28
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGTCC
Found at i:65967055 original size:93 final size:93
Alignment explanation
Indices: 65966896--65967066 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
65966886 GGATGGTTGA
* * *
65966896 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
65966961 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65966989 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
*
65967054 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
65967067 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65972239 original size:11 final size:11
Alignment explanation
Indices: 65972225--65972254 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65972215 AATATAAAGT
65972225 TAATGATACAA
1 TAATGATACAA
*
65972236 TAATAATACAA
1 TAATGATACAA
65972247 TAATGATA
1 TAATGATA
65972255 AACATAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
TAATGATACAA
Found at i:65974135 original size:179 final size:177
Alignment explanation
Indices: 65973708--65974182 Score: 689
Period size: 177 Copynumber: 2.7 Consensus size: 177
65973698 TTCGGTCCGC
* * * * * * * *
65973708 TCCAATATAATTTCAAGGAAAAGGGATTTGTAGTTTTGATCTACTCCACTGAATCTTCAAGGAGA
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
* * *
65973773 TAAGAATTGGTAATTTCAACCTGCTCCACTGTAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
* *
65973838 CCTGCTCTACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGC
131 CCTGCTCAACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGA
* * * * * ** *
65973885 TCTAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCTATCTACTCCGCTGGAACTTCAAAAAAG
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
*
65973950 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGTATTTTTAT
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
* *
65974015 CTTGCTCAACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGA
131 CCTGCTCAACTACAACTTCAGAGAG--AAGGATTGTGGCTTCGATCTGA
*
65974064 TCCAATGTAATTTCAAAGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
1 TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
* *
65974129 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTCAGGGAGATACGGTTTG
66 TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTG
65974183 CGACTTGTAG
Statistics
Matches: 261, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
177 132 0.51
179 129 0.49
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (177 bp):
TCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGG
TAAGAATTGATAATTTCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTCTATTTTTAT
CCTGCTCAACTACAACTTCAGAGAGAAGGATTGTGGCTTCGATCTGA
Found at i:65974916 original size:46 final size:46
Alignment explanation
Indices: 65974859--65975098 Score: 225
Period size: 46 Copynumber: 5.2 Consensus size: 46
65974849 AATTTTTAGT
* * * *
65974859 TTCTTCCATCCATCCCACAGTAACTC-AGGGCTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGG-TACAGGATTTGTATC
* * * * * *
65974905 ATCTTCAATCCATCTCACTACAGCTC-TGGTGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGG-GTACAGGATTTGTATC
* * *
65974951 TTCTTCAATCCATCCCACTGCAGCTCAAAGGTACAGGATTTGTATT
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
* *
65974997 TTCTTCAATCCA-CCTAACTGCAGCTCAAGGGTACAGGATTTGTATC
1 TTCTTCAATCCATCC-CACTGCAACTCAAGGGTACAGGATTTGTATC
* * * * * * **
65975043 TTCTTCAATCCATCCCATTACAGCTCAGGGGTATAGGACTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
65975089 TTCTTCAATC
1 TTCTTCAATC
65975099 AATTGGTTTG
Statistics
Matches: 164, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 2 0.01
46 158 0.96
47 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTACAGGATTTGTATC
Found at i:65975093 original size:92 final size:92
Alignment explanation
Indices: 65974859--65975098 Score: 279
Period size: 92 Copynumber: 2.6 Consensus size: 92
65974849 AATTTTTAGT
* * * * *
65974859 TTCTTCCATCCATCCCACAGTA-A-CTCAGGGCTATAGGATTTGTATCATCTTCAATCCATCTCA
1 TTCTTCAATCCATCCCAC--TACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAA
* *
65974922 CTACAGCTCTGGTGTATAGGATTTGTATC
64 CTACAGCTCAGGTGTACAGGATTTGTATC
* ** * *
65974951 TTCTTCAATCCATCCCACTGCAGCTCAAAGGTACAGGATTTGTATTTTCTTCAATCCACCTAACT
1 TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAACT
*
65975016 GCAGCTCAAGG-GTACAGGATTTGTATC
66 ACAGCTC-AGGTGTACAGGATTTGTATC
* * **
65975043 TTCTTCAATCCATCCCATTACAGCTCAGGGGTATAGGACTTGTGGCTTCTTCAATC
1 TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATC
65975099 AATTGGTTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 119 0.97
93 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (92 bp):
TTCTTCAATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTATCTTCTTCAATCCACCTAACT
ACAGCTCAGGTGTACAGGATTTGTATC
Found at i:65978287 original size:80 final size:79
Alignment explanation
Indices: 65978143--65978367 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
65978133 GCTCCTCGTT
* * * * *
65978143 CAAATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
65978208 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* **
65978222 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
65978287 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * *
65978302 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGTCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
65978366 GA
64 GA
65978368 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 37 0.30
80 80 0.66
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGTCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:65978327 original size:40 final size:40
Alignment explanation
Indices: 65978145--65978367 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
65978135 TCCTCGTTCA
* ** * * *
65978145 AATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
65978184 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65978224 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65978264 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
65978304 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
65978344 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65978368 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65978376 original size:41 final size:41
Alignment explanation
Indices: 65978299--65978376 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65978289 TTAGTATCTC
* * *
65978299 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65978340 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65978377 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65985011 original size:11 final size:11
Alignment explanation
Indices: 65984997--65985026 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65984987 AATATAAAGT
65984997 TAATGATACAA
1 TAATGATACAA
*
65985008 TAATAATACAA
1 TAATGATACAA
65985019 TAATGATA
1 TAATGATA
65985027 AACATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
TAATGATACAA
Found at i:65989102 original size:40 final size:40
Alignment explanation
Indices: 65989056--65989202 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
65989046 CCAACCCAAT
* * * ** *
65989056 TGCCTTCAGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
65989096 TACCTTCGGGACTTAACCCAGAAATAGA-AACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATA-ACAACCAGCACGAA
65989136 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
65989176 TGCCTTCGGGACTTAACCTGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
65989203 TCCTCAATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 91 0.98
41 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:65995506 original size:108 final size:108
Alignment explanation
Indices: 65995350--65995649 Score: 307
Period size: 108 Copynumber: 2.8 Consensus size: 108
65995340 ACCGACGATG
* * ** * * * *
65995350 AAAATGC-AGTTCGGAATGAGAAAAACACTTTCCAGAACTTGAACAACAATAACAATGAGAATGC
1 AAAATGCAAG-TCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGC
* **
65995414 AGGCCAAAATGAGAACGATGCTGCTCAGAGCATTAGTGACAACA
65 AGGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
* * * *
65995458 AAAATGCAAGTCAGAATGAGAATGATGCTTCTCAGAAATTAAAGAACAACAACAATGAGAGTGCA
1 AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGCA
* * * * *
65995523 GACCGAAATGAGAAAAATGCTGCTGAGAGCATTACCGACAACG
66 GGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
* * * * * *
65995566 AGAATGCAGGTCAGAATGAGAATAATGCTTCCCAGAACTTAAATAACGATGGA-AATGAGAATGC
1 AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAAT-AACAATGAGAATGC
* * *
65995630 AAGACAGAATGAGAACAATG
65 AGGCCAAAATGAGAACAATG
65995650 ATCCTGTTCG
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
108 151 0.98
109 3 0.02
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (108 bp):
AAAATGCAAGTCAGAATGAGAATAATGCTTCCCAGAAATTAAAGAACAATAACAATGAGAATGCA
GGCCAAAATGAGAACAATGCTGCTCAGAGCATTACCGACAACA
Found at i:65998665 original size:29 final size:29
Alignment explanation
Indices: 65998623--65998687 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
65998613 CTTAACAAAA
* * *
65998623 TAAAAATGCTTAATACACTAAATATTA-AT
1 TAAAAATACTTAATACAC-AAACACTATAT
* *
65998652 TAAAAATATTTAATGCACAAACACTATAT
1 TAAAAATACTTAATACACAAACACTATAT
65998681 TAAAAAT
1 TAAAAAT
65998688 GTTCAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATACTTAATACACAAACACTATAT
Found at i:66007488 original size:40 final size:40
Alignment explanation
Indices: 66007435--66007583 Score: 221
Period size: 40 Copynumber: 3.7 Consensus size: 40
66007425 ACTACTTGCT
66007435 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
66007475 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
66007515 CAAATGCCTTCGGGACTTAGCCCGG-AATTAG-ACACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA-ACTCGCA
* *
66007555 CAAATGCCTTCAGGACTTAACCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
66007584 CATCCGAATA
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:66012514 original size:53 final size:53
Alignment explanation
Indices: 66012332--66012538 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 53
66012322 ATTAGGGTTT
* * * *
66012332 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGCTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
66012386 AAGGAAATCATGTAAGACCA-CCTCAAGACATGGCATTGATAAACTACGATAAGGT
1 AAGGATACCATGTAAGACCATGC-CAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
66012441 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
66012494 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
66012539 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 46 0.39
54 33 0.28
55 38 0.32
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:66020628 original size:39 final size:39
Alignment explanation
Indices: 66020580--66020820 Score: 240
Period size: 39 Copynumber: 6.1 Consensus size: 39
66020570 CGGAATTTAA
** ** *
66020580 CCGGATATAGTTCCTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
* *
66020620 CCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
*
66020659 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
*
66020698 CCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGCTTAGC
* * * *
66020737 CCGGA-ATTATTATCTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG-GCTTAGC
* * *
66020777 CCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
66020816 CCGGA
1 CCGGA
66020821 CATCATTCAA
Statistics
Matches: 173, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 122 0.71
40 45 0.26
41 6 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
Found at i:66020709 original size:79 final size:79
Alignment explanation
Indices: 66020599--66020820 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
66020589 GTTCCTCGTT
* * *
66020599 CAAATGCCTTCGGGACATAGCCCGGTA-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
66020663 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
66020678 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
66020741 AATTATTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
66020756 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
66020818 GGA
63 GGA
66020821 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 55 0.44
79 62 0.49
80 8 0.06
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:66020781 original size:118 final size:118
Alignment explanation
Indices: 66020599--66020820 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 118
66020589 GTTCCTCGTT
*
66020599 CAAATGCCTTCGGGACATAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
66020664 T-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 TATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
66020717 CAAATGCCTTCGGG-CTTAGCCCGGAATTA-TTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGAA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
*
66020779 GGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
63 GGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
66020821 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
117 25 0.27
118 59 0.65
119 7 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:66025091 original size:40 final size:40
Alignment explanation
Indices: 66025047--66025310 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
66025037 GTTCCTCGTT
* *
66025047 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66025087 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66025127 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66025167 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66025207 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
66025246 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
66025287 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66025311 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.24
40 143 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66027220 original size:20 final size:22
Alignment explanation
Indices: 66027185--66027224 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
66027175 AATAATTATC
66027185 ATTTCTATGTATTTCAAGTTTT
1 ATTTCTATGTATTTCAAGTTTT
66027207 ATTTCT-TG-ATTTCAAGTT
1 ATTTCTATGTATTTCAAGTT
66027225 CTTACCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
ATTTCTATGTATTTCAAGTTTT
Found at i:66027456 original size:67 final size:67
Alignment explanation
Indices: 66027347--66027479 Score: 203
Period size: 67 Copynumber: 2.0 Consensus size: 67
66027337 TTTCCATTTC
**
66027347 AGAGAGCACACTCCCACGAACCTCAATTCTTACAGTAAGATTACCAGTCCAAGCTAAATCCCCTG
1 AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
66027412 TG
66 TG
* * * * *
66027414 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACAGGATTACCAGTCCAGGCTAAATGCCCTG
1 AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
66027479 T
66 T
66027480 AACATATGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCACGAACCTCAATTCTTACAACAAGATTACCAGTCCAAGCTAAATCCCCTG
TG
Found at i:66027577 original size:58 final size:54
Alignment explanation
Indices: 66027451--66027586 Score: 157
Period size: 58 Copynumber: 2.4 Consensus size: 54
66027441 TCTTACAACA
* * *
66027451 GGATTACCAGTCCAGGCTAAATGCCCTGTAACATATGCTCAAAAAGTATTGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAAAGTATTGTCG
* * * *
66027505 GGATTACCAATCCAGGCTAAATCCCCTGCAATGACAAATACTCTATAAAGCT-TTGTCT
1 GGATTACCAGTCCAGGCTAAATCCCCTG---TAACAAATACTC-AAAAAG-TATTGTCG
66027563 GGATTACCAGTCCAGGCTAAATCC
1 GGATTACCAGTCCAGGCTAAATCC
66027587 AAACTCACAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 26 0.38
57 9 0.13
58 33 0.48
59 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAACAAATACTCAAAAAGTATTGTCG
Done.