Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 178 of 221
Found at i:53100878 original size:25 final size:25
Alignment explanation
Indices: 53100850--53100906 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
53100840 AAATAAAGCC
53100850 TTACTTTTTCATACATTCAAGCAAT
1 TTACTTTTTCATACATTCAAGCAAT
53100875 TTACTTTTTCATACATTCAAGCAAT
1 TTACTTTTTCATACATTCAAGCAAT
53100900 TCTACTT
1 T-TACTT
53100907 GTAAGGCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.46
Consensus pattern (25 bp):
TTACTTTTTCATACATTCAAGCAAT
Found at i:53105497 original size:7 final size:7
Alignment explanation
Indices: 53105485--53105518 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
53105475 AGAGTATTGA
53105485 ATGAAAT
1 ATGAAAT
53105492 ATGAAAT
1 ATGAAAT
53105499 ATGAAAT
1 ATGAAAT
53105506 ATGAAAT
1 ATGAAAT
53105513 ATGAAA
1 ATGAAA
53105519 AAGATTCTAA
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:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
ATGAAAT
Found at i:53107349 original size:64 final size:64
Alignment explanation
Indices: 53107248--53107378 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
53107238 TCTTTTACTC
*
53107248 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATACTAAAAAAAGTTAATATATATTA
1 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATACTAAAAAAAGTTAATATATATCA
* *
53107312 CATTGATTATAGATAAGGTAATAATCATTGTTTTTTATATATTAAAAAAAGTTAATATATATCA
1 CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATACTAAAAAAAGTTAATATATATCA
53107376 CAT
1 CAT
53107379 CATGTCATAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (64 bp):
CATTGATTATAGATAAGATAATAATCATTGTTTTTTATATACTAAAAAAAGTTAATATATATCA
Found at i:53113456 original size:25 final size:25
Alignment explanation
Indices: 53113428--53113490 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
53113418 TCCACCGCTC
*
53113428 GTGAGAGCATACCAATTTATAGCTA
1 GTGAGAGCATACCAATCTATAGCTA
* *
53113453 GTGAGAGCATACCGATCTATAGCTC
1 GTGAGAGCATACCAATCTATAGCTA
* *
53113478 GAGTGAGCATACC
1 GTGAGAGCATACC
53113491 GATTCACAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
GTGAGAGCATACCAATCTATAGCTA
Found at i:53113491 original size:25 final size:24
Alignment explanation
Indices: 53113432--53113514 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
53113422 CCGCTCGTGA
* * * *
53113432 GAGCATACCAATTTATAGCTAGTGA
1 GAGCATACCGA-TTATAGCTCGAGT
53113457 GAGCATACCGATCTATAGCTCGAGT
1 GAGCATACCGAT-TATAGCTCGAGT
*
53113482 GAGCATACCGATTCACAGCTCGTA-T
1 GAGCATACCGATT-ATAGCTCG-AGT
53113507 GAGCATAC
1 GAGCATAC
53113515 GTGTACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
GAGCATACCGATTATAGCTCGAGT
Found at i:53113703 original size:31 final size:32
Alignment explanation
Indices: 53113668--53113729 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
53113658 TTTGCATGAA
*
53113668 ATACAAGGAAATG-ATTTTACATG-ATATATAG
1 ATAC-AGGAAATGAATGTTACATGTATATATAG
* *
53113699 ATACATGATATGAATGTTACATGTATATATA
1 ATACAGGAAATGAATGTTACATGTATATATA
53113730 AACTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 6 0.23
31 13 0.50
32 7 0.27
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (32 bp):
ATACAGGAAATGAATGTTACATGTATATATAG
Found at i:53115921 original size:7 final size:7
Alignment explanation
Indices: 53115909--53115953 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
53115899 ATTAACTTTT
53115909 AATACTA
1 AATACTA
*
53115916 AGTACTA
1 AATACTA
53115923 AATACTA
1 AATACTA
*
53115930 AAAACGT-
1 AATAC-TA
53115937 AATACTA
1 AATACTA
53115944 AATACTA
1 AATACTA
53115951 AAT
1 AAT
53115954 TGGCTAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 1 0.03
7 30 0.94
8 1 0.03
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:53117647 original size:28 final size:29
Alignment explanation
Indices: 53117615--53117674 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 29
53117605 AAATATGATT
*
53117615 AAATTTTAATAAAAAATTA-AAATAT-TAA
1 AAATTTT-ATAAAAAATTAGAAAAATATAA
*
53117643 AAA-TTTATTAAAAATTAGAAAAATATAA
1 AAATTTTATAAAAAATTAGAAAAATATAA
53117671 AAAT
1 AAAT
53117675 CGTAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 10 0.37
27 8 0.30
28 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTTTATAAAAAATTAGAAAAATATAA
Found at i:53117706 original size:19 final size:19
Alignment explanation
Indices: 53117666--53117710 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
53117656 ATTAGAAAAA
* *
53117666 TATAAAAATCGTAAAATTT
1 TATAAAAACCGTAAAATAT
53117685 TATAAAAACCGTAAGAA-AT
1 TATAAAAACCGTAA-AATAT
53117704 TATAAAA
1 TATAAAA
53117711 TATATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (19 bp):
TATAAAAACCGTAAAATAT
Found at i:53117728 original size:18 final size:18
Alignment explanation
Indices: 53117698--53117739 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
53117688 AAAAACCGTA
*
53117698 AGAAATTATAAAATATAT
1 AGAAATTATAAAAAATAT
53117716 AGAAA-TATAAAAAAATAT
1 AGAAATTAT-AAAAAATAT
53117734 A-AAATT
1 AGAAATT
53117740 TTATAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AGAAATTATAAAAAATAT
Found at i:53117746 original size:56 final size:55
Alignment explanation
Indices: 53117642--53117769 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 55
53117632 TAAAATATTA
* *
53117642 AAAATTTATTAAAAATTAGAAAAATATAAAAATCGTAAAATTTTATAAAAACCGTAAG
1 AAAA-TTA-TAAAAATTAGAAAAATAAAAAAATCATAAAATTTTAT-AAAACCGTAAG
* **
53117700 -AAATTATAAAATATATAGAAATATAAAAAAAT-ATAAAATTTTATAAATTCGTAAG
1 AAAATTATAAAA-AT-TAGAAAAATAAAAAAATCATAAAATTTTATAAAACCGTAAG
53117755 AAAATTATACAAAAT
1 AAAATTATA-AAAAT
53117770 GTAAAGATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
55 14 0.23
56 26 0.43
57 21 0.34
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.30
Consensus pattern (55 bp):
AAAATTATAAAAATTAGAAAAATAAAAAAATCATAAAATTTTATAAAACCGTAAG
Found at i:53117758 original size:28 final size:28
Alignment explanation
Indices: 53117677--53117759 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
53117667 ATAAAAATCG
* *
53117677 TAAAATTTTATAAAAACCGTAAGAAATTA
1 TAAAATTTTAT-AAAATCGTAAGAAAATA
* * *
53117706 TAAAA-TATATAGAAAT-ATAAAAAAATA
1 TAAAATTTTATA-AAATCGTAAGAAAATA
*
53117733 TAAAATTTTATAAATTCGTAAGAAAAT
1 TAAAATTTTATAAAATCGTAAGAAAAT
53117760 TATACAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
27 17 0.40
28 20 0.48
29 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (28 bp):
TAAAATTTTATAAAATCGTAAGAAAATA
Found at i:53117808 original size:21 final size:21
Alignment explanation
Indices: 53117734--53117808 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
53117724 AAAAAAATAT
* * *
53117734 AAAATTTTATAAATTCGTAAG
1 AAAATTATAAAAATTCGTAAA
53117755 AAAATTATACAAAA-T-GTAAA
1 AAAATTATA-AAAATTCGTAAA
* *
53117775 GATA-TAT-AAAATTCGTAAA
1 AAAATTATAAAAATTCGTAAA
53117794 AAAATTATAAAAATT
1 AAAATTATAAAAATT
53117809 ATCGTACCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
19 10 0.24
20 9 0.21
21 15 0.36
22 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAATTATAAAAATTCGTAAA
Found at i:53118005 original size:19 final size:20
Alignment explanation
Indices: 53117973--53118010 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
53117963 TAAATTTTTT
*
53117973 TAATTTTTATTAAAATTTAA
1 TAATTTTTACTAAAATTTAA
53117993 TAATTTTT-CTAAAATTTA
1 TAATTTTTACTAAAATTTA
53118011 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTACTAAAATTTAA
Found at i:53118206 original size:90 final size:88
Alignment explanation
Indices: 53118057--53118246 Score: 233
Period size: 90 Copynumber: 2.1 Consensus size: 88
53118047 TAATAAGAGC
* * * *
53118057 AGGGGCTTAATTGCTATTTTGAAAAATTTTGAGGGTCTTTTTGATGCACTTTGAAAGTTCAAGTA
1 AGGGGCTTAATTGCTATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACTTTGAAAGTTCAAGTA
*
53118122 CCCAATTGAGTG-AA-AAAAAAT
66 CCCAATTGAGTGCAAGAAAAAAA
*
53118143 AGGGGCTTAATTGCTTTTTATTTTGAAGAAGTTTAAGGGCCTTTTTGATACA-TGTTGAAAGTTC
1 AGGGGCTTAATTGC----TATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACT-TTGAAAGTTC
* *
53118207 AAGTGCTCAATTGAGTGCAAGAAAAAAA
61 AAGTACCCAATTGAGTGCAAGAAAAAAA
*
53118235 AGGGACTTAATT
1 AGGGGCTTAATT
53118247 ATTATTATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
86 14 0.16
89 1 0.01
90 54 0.61
91 2 0.02
92 17 0.19
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (88 bp):
AGGGGCTTAATTGCTATTTTGAAAAAGTTTAAGGGCCTTTTTGATACACTTTGAAAGTTCAAGTA
CCCAATTGAGTGCAAGAAAAAAA
Found at i:53120384 original size:56 final size:55
Alignment explanation
Indices: 53120324--53120450 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 55
53120314 GTGCCACTGA
* * * *
53120324 TGTGTCAAGTGGCATCGATGTTAGATTTTAAAAAATATTTTTTCTTGTGTTGTCAG
1 TGTGTCAAGTGGCACCGATGTCAGA-TTTAAAAAATATTTTTTCTTGTATCGTCAG
* *** ** * * *
53120380 TGTGTCAGGCAACACCTTTGTCAGATTTAAAAAATGTTTTTTTTTGTATCGTCTG
1 TGTGTCAAGTGGCACCGATGTCAGATTTAAAAAATATTTTTTCTTGTATCGTCAG
53120435 TGTGTCAAGTGGCACC
1 TGTGTCAAGTGGCACC
53120451 AGTGATCCTG
Statistics
Matches: 54, Mismatches: 17, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
55 37 0.69
56 17 0.31
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (55 bp):
TGTGTCAAGTGGCACCGATGTCAGATTTAAAAAATATTTTTTCTTGTATCGTCAG
Found at i:53129531 original size:16 final size:18
Alignment explanation
Indices: 53129496--53129533 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53129486 ATCCTTATTT
*
53129496 AAATAAAATACATTAGTA
1 AAATAAAATACATAAGTA
53129514 AAATAAAATA-A-AAGTA
1 AAATAAAATACATAAGTA
53129530 AAAT
1 AAAT
53129534 TCATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATACATAAGTA
Found at i:53135436 original size:65 final size:61
Alignment explanation
Indices: 53135361--53135483 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 61
53135351 ATTTTAATAA
*
53135361 ATTTATATTAATTTAATTTAATACTTATCTTGATAGTATT-TTATTAACTT-ATATTAAAGTAAG
1 ATTTATATTAATTT-ATTTAATACTT-TATTGA-AGTATTATT-TTAA-TTAATATTAAAGTAAG
53135424 T
61 T
*
53135425 ATTTAATATTAATTTGTTTAATACTTTATTGAAGTATTATTTTAATTCAATATTAAAGT
1 ATTT-ATATTAATTTATTTAATACTTTATTGAAGTATTATTTTAATT-AATATTAAAGT
53135484 TATTAAGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
61 2 0.04
62 10 0.19
63 17 0.32
64 14 0.26
65 10 0.19
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (61 bp):
ATTTATATTAATTTATTTAATACTTTATTGAAGTATTATTTTAATTAATATTAAAGTAAGT
Found at i:53139539 original size:14 final size:13
Alignment explanation
Indices: 53139518--53139553 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
53139508 TTCACCGAAG
53139518 TTCATTTTATTTT
1 TTCATTTTATTTT
*
53139531 TTCATTTT-TATT
1 TTCATTTTATTTT
53139543 TTCATTTTATT
1 TTCATTTTATT
53139554 AAACCCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (13 bp):
TTCATTTTATTTT
Found at i:53149598 original size:103 final size:101
Alignment explanation
Indices: 53149421--53149612 Score: 267
Period size: 103 Copynumber: 1.9 Consensus size: 101
53149411 AATTGACGGA
* * *
53149421 TAAGACCATGGTGGGACCATGGTAGTGTTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
1 TAAGACCATAGTGGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
* *
53149486 TTAAAAGACCATAATTGGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
* * * *
53149522 TAAGACCATAGTTGGACCATGGCAGTATATATATATGTAAGACCATAGCTGGGCTGTGGCATTTT
1 TAAGACCATAGTGGGACCATGGCAGTAT-T-TAAATGTAAGACCATAGCTGGGCTATGGAATTTT
* *
53149587 GATGATAAGACCATAACTGGGTTATG
64 AATGAAAAGACCATAACTGGGTTATG
53149613 ACACTACAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 24 0.31
102 1 0.01
103 53 0.68
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (101 bp):
TAAGACCATAGTGGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
Found at i:53172679 original size:16 final size:18
Alignment explanation
Indices: 53172644--53172681 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53172634 ATCCTTATTT
*
53172644 AAATAAAATACATTAGTA
1 AAATAAAATACATAAGTA
53172662 AAATAAAATA-A-AAGTA
1 AAATAAAATACATAAGTA
53172678 AAAT
1 AAAT
53172682 TCATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATACATAAGTA
Found at i:53178623 original size:68 final size:69
Alignment explanation
Indices: 53178551--53178680 Score: 203
Period size: 68 Copynumber: 1.9 Consensus size: 69
53178541 TTTAATAAAT
*
53178551 TTAATATTAAATTTAATTTAATACTTATCTTGAT-AGTATT-TTATTAACTT-AATATTAAAGTA
1 TTAATATTAAATTTAATTTAATACTTATATTGATAAGTATTATT-TTAA-TTCAATATTAAAGTA
53178613 AGTATC
64 AGTATC
*
53178619 TTAATATTAAATTTAGTTTAATACTTATATTGATAAGTATTATTTTAATTCAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATATTGATAAGTATTATTTTAATTCAATATTAAAGT
53178681 TATTAAGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
68 34 0.60
69 21 0.37
70 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATACTTATATTGATAAGTATTATTTTAATTCAATATTAAAGTAAG
TATC
Found at i:53183860 original size:10 final size:10
Alignment explanation
Indices: 53183845--53183871 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53183835 ACCAAAGATG
53183845 AGTTGAACAT
1 AGTTGAACAT
53183855 AGTTGAACAT
1 AGTTGAACAT
53183865 AGTTGAA
1 AGTTGAA
53183872 ATGGTATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (10 bp):
AGTTGAACAT
Found at i:53187176 original size:137 final size:137
Alignment explanation
Indices: 53186926--53187206 Score: 546
Period size: 137 Copynumber: 2.1 Consensus size: 137
53186916 GTATTCGGTT
53186926 TAAT-CTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
1 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
*
53186990 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTTGTAA
66 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
53187055 AGTTCGG
131 AGTTCGG
53187062 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
1 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
53187127 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
66 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
53187192 AGTTCGG
131 AGTTCGG
53187199 TAATACTC
1 TAATACTC
53187207 TGTAACCCTA
Statistics
Matches: 143, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 4 0.03
137 139 0.97
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (137 bp):
TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
AGTTCGG
Found at i:53214105 original size:16 final size:18
Alignment explanation
Indices: 53214070--53214107 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53214060 ATCCTTATTT
*
53214070 AAATAAAATACATTAGTA
1 AAATAAAATACATAAGTA
53214088 AAATAAAATA-A-AAGTA
1 AAATAAAATACATAAGTA
53214104 AAAT
1 AAAT
53214108 TCATATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATACATAAGTA
Found at i:53217132 original size:17 final size:18
Alignment explanation
Indices: 53217097--53217141 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
53217087 TATTATTAAA
*
53217097 TTTAATTAATATTTATAT
1 TTTAATAAATATTTATAT
*
53217115 TTTAATAAATATTCTATTAA
1 TTTAATAAATATT-TA-TAT
53217135 TTTAATA
1 TTTAATA
53217142 TATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAAATATTTATAT
Found at i:53225091 original size:10 final size:10
Alignment explanation
Indices: 53225076--53225102 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53225066 ACCAAAGATG
53225076 AGTTGAACAT
1 AGTTGAACAT
53225086 AGTTGAACAT
1 AGTTGAACAT
53225096 AGTTGAA
1 AGTTGAA
53225103 ATGGTATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (10 bp):
AGTTGAACAT
Found at i:53228402 original size:137 final size:137
Alignment explanation
Indices: 53228152--53228432 Score: 546
Period size: 137 Copynumber: 2.1 Consensus size: 137
53228142 GTATTCGGTT
53228152 TAAT-CTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
1 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
*
53228216 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTTGTAA
66 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
53228281 AGTTCGG
131 AGTTCGG
53228288 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
1 TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
53228353 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
66 TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
53228418 AGTTCGG
131 AGTTCGG
53228425 TAATACTC
1 TAATACTC
53228433 TGTAACCCTA
Statistics
Matches: 143, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 4 0.03
137 139 0.97
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (137 bp):
TAATACTCGATTCACTTCTAAGGTGAATATTGGGCCTCGAGGGTCCATCTAAGAGACAATATGAG
TGTTATATGATTGATTCTTAATATGTATAACAAAGGTTGAGAAATGTCTCATATTTAATTCGTAA
AGTTCGG
Found at i:53234737 original size:103 final size:101
Alignment explanation
Indices: 53234560--53234751 Score: 267
Period size: 103 Copynumber: 1.9 Consensus size: 101
53234550 AATTGACGGA
* * *
53234560 TAAGACCATGGTGGGACCATGGTAGTGTTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
1 TAAGACCATAGTGGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
* *
53234625 TTAAAAGACCATAATTGGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
* * * *
53234661 TAAGACCATAGTTGGACCATGGCAGTATATATATATGTAAGACCATAGCTGGGCTGTGGCATTTT
1 TAAGACCATAGTGGGACCATGGCAGTAT-T-TAAATGTAAGACCATAGCTGGGCTATGGAATTTT
* *
53234726 GATGATAAGACCATAACTGGGTTATG
64 AATGAAAAGACCATAACTGGGTTATG
53234752 ACACTACAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 24 0.31
102 1 0.01
103 53 0.68
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (101 bp):
TAAGACCATAGTGGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGGAATTTTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
Found at i:53245977 original size:40 final size:40
Alignment explanation
Indices: 53245895--53245977 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
53245885 CAGGTTTTGT
* * **
53245895 TGCCTAGCAAGCTTCGTGTCGGTGTATCTATCGGGCTAAA
1 TGCCTAGCAAGCTTCATGCCGGTGTATCTATAAGGCTAAA
* * *
53245935 TGCCTAGCAAGCTTCATGCCGGTGTATTTGTAAGGCTTAA
1 TGCCTAGCAAGCTTCATGCCGGTGTATCTATAAGGCTAAA
53245975 TGC
1 TGC
53245978 TTAGTAGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (40 bp):
TGCCTAGCAAGCTTCATGCCGGTGTATCTATAAGGCTAAA
Found at i:53252922 original size:26 final size:26
Alignment explanation
Indices: 53252905--53252964 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
53252895 TCGTAATAAA
*
53252905 GCTGCCAGTAATAGTATCGCAGCAAG
1 GCTGCCAGTAATAGTATCGCAGTAAG
*
53252931 GCTACCAGTAATAGTATCGCAGTAAG
1 GCTGCCAGTAATAGTATCGCAGTAAG
53252957 GCTGCCAG
1 GCTGCCAG
53252965 AAACAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (26 bp):
GCTGCCAGTAATAGTATCGCAGTAAG
Found at i:53255220 original size:21 final size:21
Alignment explanation
Indices: 53255186--53255238 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
53255176 GTTGTAAGAC
*
53255186 ATTTCTAGATTTAGTTTAATGT
1 ATTTC-AGTTTTAGTTTAATGT
53255208 ATTTCAGTTTTAGTTTAATGT
1 ATTTCAGTTTTAGTTTAATGT
53255229 ATTTCAGTTT
1 ATTTCAGTTT
53255239 CTTTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.57
Consensus pattern (21 bp):
ATTTCAGTTTTAGTTTAATGT
Found at i:53259845 original size:70 final size:70
Alignment explanation
Indices: 53259680--53259833 Score: 299
Period size: 70 Copynumber: 2.2 Consensus size: 70
53259670 GGTATATGGC
*
53259680 ATGTATAGGCTAGTGTCAATAGGATACATTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
53259745 AAATG
66 AAATG
53259750 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
53259815 AAATG
66 AAATG
53259820 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
53259834 TTATTATGGA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 83 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
AAATG
Found at i:53265223 original size:7 final size:7
Alignment explanation
Indices: 53265211--53265235 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53265201 CTGGCCTTTG
53265211 AAAATGA
1 AAAATGA
53265218 AAAATGA
1 AAAATGA
53265225 AAAATGA
1 AAAATGA
53265232 AAAA
1 AAAA
53265236 GCAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATGA
Found at i:53266740 original size:21 final size:20
Alignment explanation
Indices: 53266711--53266756 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
53266701 AGTATAAATA
*
53266711 CCCCCTTTTATGTGTAATTTG
1 CCCCTTTTTATG-GTAATTTG
* *
53266732 CCCCTTTTTTTGGTATTTTG
1 CCCCTTTTTATGGTAATTTG
53266752 CCCCT
1 CCCCT
53266757 AATAATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.09, C:0.28, G:0.13, T:0.50
Consensus pattern (20 bp):
CCCCTTTTTATGGTAATTTG
Found at i:53268993 original size:3 final size:3
Alignment explanation
Indices: 53268985--53269027 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
53268975 CAGAGAACTA
*
53268985 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53269028 GGGGATTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53275404 original size:26 final size:26
Alignment explanation
Indices: 53275374--53275426 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
53275364 TATGATAGTA
53275374 TGACTTTGGAAGATTATACACTTAAC
1 TGACTTTGGAAGATTATACACTTAAC
53275400 TGACTTTGGAAGATTATACACTTAAC
1 TGACTTTGGAAGATTATACACTTAAC
53275426 T
1 T
53275427 AATCTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (26 bp):
TGACTTTGGAAGATTATACACTTAAC
Found at i:53277412 original size:3 final size:3
Alignment explanation
Indices: 53277406--53277438 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
53277396 ATAAAATCTC
53277406 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
53277439 TTGGGAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:53281181 original size:10 final size:10
Alignment explanation
Indices: 53281166--53281191 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
53281156 GGGCTTAAAA
53281166 GAAAGAAAGG
1 GAAAGAAAGG
53281176 GAAAGAAAGG
1 GAAAGAAAGG
53281186 GAAAGA
1 GAAAGA
53281192 CTTTGGCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAAGAAAGG
Found at i:53289542 original size:3 final size:3
Alignment explanation
Indices: 53289534--53289573 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53289524 TATAGGGAAC
53289534 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53289574 TAAGTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53289609 original size:9 final size:9
Alignment explanation
Indices: 53289538--53289602 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
53289528 GGGAACAATA
*
53289538 ATAATAATA
1 ATAATAATG
*
53289547 ATAATAATA
1 ATAATAATG
*
53289556 ATAATAATA
1 ATAATAATG
53289565 ATAATAAT-
1 ATAATAATG
53289573 ATAAGTAACATCG
1 ATAA-T-A-AT-G
*
53289586 ACAATAATG
1 ATAATAATG
53289595 ATAATAAT
1 ATAATAAT
53289603 TGAAATATAC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
8 4 0.08
9 35 0.71
10 3 0.06
11 3 0.06
12 1 0.02
13 3 0.06
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (9 bp):
ATAATAATG
Found at i:53290591 original size:9 final size:9
Alignment explanation
Indices: 53290577--53290623 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
53290567 TGTAAAAAAA
53290577 AGAATAAAC
1 AGAATAAAC
53290586 AGAATAAAC
1 AGAATAAAC
53290595 AG-A-AAAC
1 AGAATAAAC
*
53290602 -GAAATAAAA
1 AG-AATAAAC
53290611 AGAATAAAC
1 AGAATAAAC
53290620 AGAA
1 AGAA
53290624 AATGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
6 1 0.03
7 4 0.12
8 2 0.06
9 24 0.75
10 1 0.03
ACGTcount: A:0.70, C:0.09, G:0.13, T:0.09
Consensus pattern (9 bp):
AGAATAAAC
Found at i:53290600 original size:25 final size:26
Alignment explanation
Indices: 53290572--53290625 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
53290562 AGATTTGTAA
*
53290572 AAAAAAG-AATAAACAGAATAAACAG
1 AAAAAAGAAATAAAAAGAATAAACAG
*
53290597 -AAAACGAAATAAAAAGAATAAACAG
1 AAAAAAGAAATAAAAAGAATAAACAG
53290622 AAAA
1 AAAA
53290626 TGAAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 17 0.68
26 3 0.12
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.07
Consensus pattern (26 bp):
AAAAAAGAAATAAAAAGAATAAACAG
Found at i:53290630 original size:25 final size:25
Alignment explanation
Indices: 53290579--53290630 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
53290569 TAAAAAAAAG
*
53290579 AATAAACAGAATAAACAGAAAACGA
1 AATAAAAAGAATAAACAGAAAACGA
*
53290604 AATAAAAAGAATAAACAGAAAATGA
1 AATAAAAAGAATAAACAGAAAACGA
53290629 AA
1 AA
53290631 AAACAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.10
Consensus pattern (25 bp):
AATAAAAAGAATAAACAGAAAACGA
Found at i:53290634 original size:15 final size:16
Alignment explanation
Indices: 53290608--53290647 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
53290598 AAACGAAATA
*
53290608 AAAAGAATAAACAGA-
1 AAAAGAAAAAACAGAG
*
53290623 AAATGAAAAAACAGAG
1 AAAAGAAAAAACAGAG
53290639 AAAAGAAAA
1 AAAAGAAAA
53290648 GAGAGCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAACAGAG
Found at i:53291521 original size:45 final size:45
Alignment explanation
Indices: 53291452--53292208 Score: 183
Period size: 44 Copynumber: 16.9 Consensus size: 45
53291442 CAATTTATAG
* * *
53291452 CTTCAATCTGTTCCATTACAACTTCAAGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * * *
53291497 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
** * * *
53291542 GATCCA-CT-CT--ACTGCAACTTC-AGAGAGATAAGA-TCTGTAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAAATAAGATTC-G----CTAT
* * * * *
53291587 AGCTTCAATTTGTTTCACTGCAACTTCAGGGGAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * *
53291634 CTTTAGTCTGCTCCACTGCAACTTC-AGAGAAATAAGACTT-G-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAAATAAGA-TTCGCTAT
* * * * * *
53291678 CTTCAA-CTCGCTCCACTACAAATTCAGGGAGATAAGGTTTG--AT
1 CTTCAATCT-GCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * * * *
53291721 -AT-GATCTGCTCTACTACAAATTC-AGAGAGATAAGA-TCTGCAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAAATAAGATTC-GC----TAT
* * * * * * *
53291768 AGCTTCAATTTGTTTCACTGCAATTTTAGGGAAATAAGATTCACTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * *
53291815 CTTCAGTCT-CTTCCACTGCAACTTTAGGGAAATAAGACTT-G-TAA
1 CTTCAATCTGC-TCCACTGCAACTTCAAGGAAATAAGA-TTCGCTAT
* * * * * * *
53291859 CTTCAACCGGCTCCACTGCAACTTTAAGGAGATAAGGCTT-AC-AA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAA-GATTCGCTAT
* * * * * *
53291903 CTTCAACCTGCTCCACTGTAACTTCAAGGAGATAGGGTTTGCTA-
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * *
53291947 --T-GATCTGCTCTACTGCAACTTC-A-GATAGATAAGATTTGTTATTT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGA-A-ATAAGATTCGCTA--T
* * * *
53291991 AGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * *** * * * *
53292038 CTTCAGTCTGCTCTACTACAACTTTGGGGAGATAAGAGTAG-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * * * * *
53292082 CTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGCTT-GC-AA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAA-GATTCGCTAT
* * * * * * * **
53292126 CTTCAA-CTTGCTCCACTGTAACTTTAGGGAGATACGACTAG-TGG
1 CTTCAATC-TGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
* * *
53292170 CTTCAATCTACTCTACTGCAACTTCAAGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATT
53292209 GGCCATGATG
Statistics
Matches: 524, Mismatches: 129, Indels: 119
0.68 0.17 0.15
Matches are distributed among these distances:
39 2 0.00
40 5 0.01
41 73 0.14
42 4 0.01
43 13 0.02
44 190 0.36
45 139 0.27
46 4 0.01
47 12 0.02
48 2 0.00
49 29 0.06
50 2 0.00
51 43 0.08
52 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTAT
Found at i:53291540 original size:137 final size:137
Alignment explanation
Indices: 53291313--53291670 Score: 495
Period size: 137 Copynumber: 2.6 Consensus size: 137
53291303 ATAGAATTAG
* * * * * * *
53291313 TAGCTTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATT-GGTATATTCA-ACTTGCTCCAT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTC-TGCTCCAC
* * ** *
53291376 TACAACTTCAGGGAGATAAGGTTTGATATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCT
65 TGCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGATAAGATCT
53291441 GCAATTTA
130 GCAATTTA
* * *
53291449 TAGCTTCAATCTGTTCCATTACAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
53291514 GCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTG
66 GCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTG
*
53291579 TAATTTA
131 CAATTTA
* * * *
53291586 TAGCTTCAATTTGTTTCACTGCAACTTCAGGGGAATAAGATTCGCTATCTTTAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
* *
53291651 GCAACTTCAGAGAAATAAGA
66 GCAACTTCAGGGAGATAAGA
53291671 CTTGTAACTT
Statistics
Matches: 195, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
136 36 0.18
137 158 0.81
138 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (137 bp):
TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACT
GCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTG
CAATTTA
Found at i:53291624 original size:92 final size:92
Alignment explanation
Indices: 53291510--53291808 Score: 308
Period size: 92 Copynumber: 3.3 Consensus size: 92
53291500 CAGTCTGCTC
**
53291510 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
53291575 TCTGTAATTTATAGCTTCAATTTGTTT
66 TCTGTAATTTATAGCTTCAATTTGTTT
* * * * *
53291602 CACTGCAACTTCAGGG-GAATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGAGAAA
1 CACTGCAACTTCAGGGAG-ATAAGATTTG--AT-ATGA-TCTGCTCTACTGCAACTTCAGAGAGA
* * * * *
53291666 TAAGA-C--T--TGTA-A-CTTCAACTCGCTC
61 TAAGATCTGTAATTTATAGCTTCAATTTGTTT
* * * * *
53291691 CACTACAAATTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
*
53291756 TCTGCAATTTATAGCTTCAATTTGTTT
66 TCTGTAATTTATAGCTTCAATTTGTTT
* * *
53291783 CACTGCAATTTTAGGGAAATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
53291809 CACTATCTTC
Statistics
Matches: 161, Mismatches: 33, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
85 27 0.17
86 3 0.02
87 2 0.01
89 31 0.19
90 5 0.03
91 5 0.03
92 55 0.34
93 1 0.01
94 2 0.01
95 3 0.02
96 27 0.17
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (92 bp):
CACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTGTAATTTATAGCTTCAATTTGTTT
Found at i:53291878 original size:44 final size:44
Alignment explanation
Indices: 53291826--53292206 Score: 234
Period size: 44 Copynumber: 8.6 Consensus size: 44
53291816 TTCAGTCTCT
* * *
53291826 TCCACTGCAACTTTAGGGAAATAAGACTTGTAACTTCAACCGGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * **
53291870 TCCACTGCAACTTTAAGGAGATAAGGCTTACAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * ** * * *
53291914 TCCACTGTAACTTCAAGGAGAT-AGGGTT-T-GCTAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACT-TCAACCTGC
* ** * * *
53291955 TCTACTGCAACTTCAGATAGATAAGATTTGTTATTTAGCTTTAATCC-GT
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-TA---A-CTTCAA-CCTGC
* * **
53292004 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGC
* * ** * * *
53292049 TCTACTACAACTTTGGGGAGATAAGAGTAGTAACTTCAACCTGT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * *
53292093 TCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACTTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * * ** * *
53292137 TCCACTGTAACTTTAGGGAGATACGACTAGTGGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* *
53292181 TCTACTGCAACTTCAAGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
53292207 TTGGCCATGA
Statistics
Matches: 253, Mismatches: 70, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
41 24 0.09
42 5 0.02
43 5 0.02
44 158 0.62
45 27 0.11
46 1 0.00
48 3 0.01
49 29 0.11
50 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
Found at i:53291895 original size:181 final size:181
Alignment explanation
Indices: 53291506--53291895 Score: 595
Period size: 181 Copynumber: 2.2 Consensus size: 181
53291496 TCTTCAGTCT
* * *
53291506 GCTCCACTGCAACTTCAGGGAGATAAGATTTGATATGATCCACTCTACTGCAACTTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCCACTCTACTACAAATTCAGAGAGAT
* * *
53291571 AAGATCTGTAATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGGAATAAGATTCGCTATCT
66 AAGATCTGCAATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTATCT
*
53291636 TTAGTCTGCTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAACTC
131 TCAGTCTGCTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAACTC
* * **
53291687 GCTCCACTACAAATTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCCACTCTACTACAAATTCAGAGAGAT
* *
53291752 AAGATCTGCAATTTATAGCTTCAATTTGTTTCACTGCAATTTTAGGGAAATAAGATTCACTATCT
66 AAGATCTGCAATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTATCT
* *
53291817 TCAGTCT-CTTCCACTGCAACTTTAGGGAAATAAGACTTGTAACTTCAAC-C
131 TCAGTCTGC-TCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAACTC
* *
53291867 GGCTCCACTGCAACTTTAAGGAGATAAGG
1 -GCTCCACTGCAACTTCAGGGAGATAAGG
53291896 CTTACAACTT
Statistics
Matches: 188, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
180 2 0.01
181 186 0.99
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCCACTCTACTACAAATTCAGAGAGAT
AAGATCTGCAATTTATAGCTTCAATTTGTTTCACTGCAACTTCAGGGAAATAAGATTCACTATCT
TCAGTCTGCTCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAACTC
Found at i:53292101 original size:223 final size:225
Alignment explanation
Indices: 53291643--53292159 Score: 648
Period size: 223 Copynumber: 2.3 Consensus size: 225
53291633 TCTTTAGTCT
* * * * ** *
53291643 GCTCCACTGCAAC-TTCAGAGAAATAAGACTTGTAACTTCAA-CTCGCTCCACTACAAATTCAGG
1 GCTCCACTGCAACTTTAAG-GAGATAAGGCTTGCAACTTCAACCT-GCTCCACTGTAACTTCAGG
53291706 GAGATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGC
64 GAGATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGC
** * * * *
53291771 TTCAATTTGTTTCACTGCAATTTTAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTGCAA
129 TTCAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTACAA
*
53291836 CTTTAGGGAAATAAGACTTGTAACTTCAACCG
194 CTTTAGGGAAATAAGACTAGTAACTTCAACCG
* *
53291868 GCTCCACTGCAACTTTAAGGAGATAAGGCTTACAACTTCAACCTGCTCCACTGTAACTTCAAGGA
1 GCTCCACTGCAACTTTAAGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTCAGGGA
* * * * * * **
53291933 GATAGGGTTTGCTATGATCTGCTCTACTGCAACTTCAGATAGATAAGATTTGTTA-TT-TAGCTT
66 GATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCTT
* * *
53291996 TAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC-TCTACTACAAC
131 CAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCT-CTTCCACTACAAC
* * * *
53292060 TTTGGGGAGATAAGAGTAGTAACTTCAACCT
195 TTTAGGGAAATAAGACTAGTAACTTCAACCG
* * * * *
53292091 GTTCCACTGCAACTTCAGGGAGATAAGGCTTGCAACTTCAACTTGCTCCACTGTAACTTTAGGGA
1 GCTCCACTGCAACTTTAAGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTCAGGGA
53292156 GATA
66 GATA
53292160 CGACTAGTGG
Statistics
Matches: 251, Mismatches: 38, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
223 147 0.59
224 3 0.01
225 95 0.38
226 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (225 bp):
GCTCCACTGCAACTTTAAGGAGATAAGGCTTGCAACTTCAACCTGCTCCACTGTAACTTCAGGGA
GATAAGGTTTGATATGATCTGCTCTACTACAAATTCAGAGAGATAAGATCTGCAATTTATAGCTT
CAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTCTTCCACTACAACT
TTAGGGAAATAAGACTAGTAACTTCAACCG
Found at i:53293104 original size:21 final size:21
Alignment explanation
Indices: 53293078--53293121 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53293068 TGGCCTCTCC
*
53293078 TTTTTCCTTTCATTTTCTTTT
1 TTTTTCCTTTCATTTTATTTT
* *
53293099 TTTTTCTTTTTATTTTATTTT
1 TTTTTCCTTTCATTTTATTTT
53293120 TT
1 TT
53293122 AAAAGTGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTCCTTTCATTTTATTTT
Found at i:53296500 original size:3 final size:3
Alignment explanation
Indices: 53296492--53296537 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
53296482 TATAGGAAAC
53296492 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53296538 TAAGTAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53303610 original size:3 final size:3
Alignment explanation
Indices: 53303602--53303665 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
53303592 AAAAGGAAAA
53303602 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
53303650 AAG AAG AAA AAG AAG A
1 AAG AAG AAG AAG AAG A
53303666 GAAAATACCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:53309051 original size:16 final size:16
Alignment explanation
Indices: 53309030--53309094 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
53309020 CGCTGTATTG
53309030 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
*
53309046 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATA
* * *
53309062 GAATAGAAGTGTAATG
1 GAATAGAGGCGTAATA
53309078 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
53309094 G
1 G
53309095 CAAATCAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.34, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:53309134 original size:45 final size:44
Alignment explanation
Indices: 53309071--53309161 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 44
53309061 GGAATAGAAG
53309071 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGC-AATC-ATGTGTTTGGTTGAA
*
53309116 TGTAATGGAATAGAGGCGTAATAGCAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAATCATGTGTTTGGTTGAA
53309160 TG
1 TG
53309162 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.41
45 25 0.57
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAATCATGTGTTTGGTTGAA
Found at i:53309176 original size:39 final size:42
Alignment explanation
Indices: 53309071--53309180 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 42
53309061 GGAATAGAAG
53309071 TGTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGC-AATCAATTGTTTGGTT--A
*
53309116 TGTAATGGAATAGAGGCGTAATAGCAATC-TTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATAGCAATCAAT-TGTTTGGTTA
*
53309156 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGCGTAATAGCA
53309181 TAATGGAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
39 22 0.35
40 2 0.03
43 2 0.03
44 11 0.18
45 25 0.40
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (42 bp):
TGTAATGGAATAGAGGCGTAATAGCAATCAATTGTTTGGTTA
Found at i:53309343 original size:16 final size:16
Alignment explanation
Indices: 53309306--53309347 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53309296 TTAATCATAT
*
53309306 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
53309322 TT-AAATATATTATAA
1 TTAAAATATATTATAA
53309337 TTAAAATATAT
1 TTAAAATATAT
53309348 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:53309354 original size:14 final size:14
Alignment explanation
Indices: 53309315--53309356 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
53309305 TTTAAACATA
*
53309315 ATTATTATTAAATAT
1 ATTATAATTAAA-AT
53309330 ATTATAATTAAAAT
1 ATTATAATTAAAAT
53309344 A-TATAATTTAAAA
1 ATTATAA-TTAAAA
53309357 AAATTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATTAAAAT
Found at i:53309438 original size:66 final size:65
Alignment explanation
Indices: 53309366--53309563 Score: 195
Period size: 66 Copynumber: 3.2 Consensus size: 65
53309356 AAAATTCTTA
53309366 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAA
1 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-ATAATTTAA
53309431 C
65 C
* ** * * * * *
53309432 ATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATTTAATAAT-ATTCTTA
1 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAATAATT-TAA
53309486 -
65 C
*
53309486 ATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAA
1 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-ATAATTTAA
53309551 C
65 C
*
53309552 ATAATTATTATT
1 ATAATTAATATT
53309564 AAATATATTA
Statistics
Matches: 99, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
54 13 0.13
55 8 0.08
56 8 0.08
57 8 0.08
58 3 0.03
59 4 0.04
61 4 0.04
62 3 0.03
63 8 0.08
64 8 0.08
65 8 0.08
66 24 0.24
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (65 bp):
ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAATAATTTAAC
Found at i:53309465 original size:16 final size:16
Alignment explanation
Indices: 53309422--53309467 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
53309412 ACTATAAAAG
*
53309422 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
53309438 ATTATT-AAATATATT
1 ATAATTAAAATATATT
53309453 ATAATTAAAATATAT
1 ATAATTAAAATATAT
53309468 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:53309497 original size:16 final size:15
Alignment explanation
Indices: 53309472--53309501 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53309462 ATATATAATT
53309472 TAATAATATTCTTAA
1 TAATAATATTCTTAA
53309487 TAATCAATATTCTTA
1 TAAT-AATATTCTTA
53309502 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATATTCTTAA
Found at i:53309585 original size:16 final size:16
Alignment explanation
Indices: 53309541--53309613 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
53309531 TACTATAAAA
*
53309541 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
53309557 TATTATT-AAATATAT
1 TATAATTAAAATATAT
53309572 TATAATTAAAATATAT
1 TATAATTAAAATATAT
*
53309588 AATTTAA-TAAAAT-TAT
1 --TATAATTAAAATATAT
53309604 TAATAATTAA
1 T-ATAATTAA
53309614 TATTCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.28
16 18 0.39
17 6 0.13
18 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:53309587 original size:18 final size:18
Alignment explanation
Indices: 53309566--53309613 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
53309556 TTATTATTAA
53309566 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
53309584 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
53309601 -TAT-TAATAATTAA
1 ATATATTATAATTAA
53309614 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:53309660 original size:120 final size:120
Alignment explanation
Indices: 53309304--53309630 Score: 593
Period size: 120 Copynumber: 2.7 Consensus size: 120
53309294 ATTTAATCAT
*
53309304 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAAAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
53309369 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
53309425 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAATATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
53309490 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
53309545 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
53309610 TTAATATTCTTATAT-AATTTA
66 TTAATATTCTTATATGAATTTA
53309631 ATAAAACAAT
Statistics
Matches: 199, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 6 0.03
120 189 0.95
121 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:53316293 original size:25 final size:25
Alignment explanation
Indices: 53316265--53316330 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
53316255 TTAAACGACG
53316265 AACTTACTAAGCTTTACGAAAACTT
1 AACTTACTAAGCTTTACGAAAACTT
53316290 AACTTACTAAGCTTTACGAAAACTT
1 AACTTACTAAGCTTTACGAAAACTT
53316315 AACTTACTAAGCTTTA
1 AACTTACTAAGCTTTA
53316331 TTGTTTAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
AACTTACTAAGCTTTACGAAAACTT
Found at i:53335217 original size:89 final size:89
Alignment explanation
Indices: 53334198--53335202 Score: 1654
Period size: 89 Copynumber: 11.3 Consensus size: 89
53334188 GCAGCAGTGG
* * * * * *
53334198 AGCAGGTTGAAAGATAACAGATATTGTCTTCATGTACTAGAGTGAAGTACATCAGAGATACCAGA
1 AGCAGG-TCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
*
53334263 TCTTGCCTTCCCATACTGGTGGTGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* *
53334288 AGCAGGTTGAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AGCAGG-TCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
53334353 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
53334378 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
53334443 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
53334467 AGCAGGTCAAAGAAAGA-AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AGCAGGTCAAAGAAA-ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
53334531 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* *
53334556 AGCAGGTCAAATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
*
53334621 CTTGCCTTCCCATACTGGTGGTGA
66 CTTGCCTTCCCATACTGGTGGCGA
* * * *
53334645 AGTAGGTCAAAGAAAGCAGATATTGTCTTCAAGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
53334710 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* * *
53334734 AGCAGGTCAAATAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
53334799 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
** * *
53334823 AGCAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTAGCGTGAAGTATATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
* *
53334888 CTTGACTTCCCATATTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* * *
53334912 AGTAGGTCAAA-AAAAGCAGACCTTGTCTTCATGTACTGGCATGAAGTAGATCAGAGATACCAGA
1 AGCAGGTCAAAGAAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
53334976 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* *
53335001 AGCAAGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
53335066 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
53335090 AGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
53335155 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
53335179 AGCAGATCGAAGAAAACAGATCTT
1 AGCAGGTCAAAGAAAACAGATCTT
53335203 ACCTTCCCAT
Statistics
Matches: 866, Mismatches: 45, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
88 3 0.00
89 767 0.89
90 96 0.11
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
CTTGCCTTCCCATACTGGTGGCGA
Found at i:53335275 original size:89 final size:89
Alignment explanation
Indices: 53335177--53336009 Score: 1073
Period size: 89 Copynumber: 9.4 Consensus size: 89
53335167 TACTGGTGGC
* * * ** * *
53335177 GAAGCAGATCGAAGAAAACAGATCTTACCTTCCCATACTGGTGCCGAAGCAGATCGAAGAAAACA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
53335242 GATCTTGTCTTCATGTACTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * * * *
53335266 GAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATATTGGTGGCGAAACAGATCGAATAAAACA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
53335331 GATCTTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * *
53335355 GAAGTAGATCAAAGATAACAGATCTTGTCTTTCCATACTGGTGGTGAAACAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
53335420 GATCTTGTCTTCATGTACTGGCAT
66 GATCTTGTCTTCATGTACTGGCGT
* *
53335444 GAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
53335509 GATCTTGTCTTCATGTACTGGCAT
66 GATCTTGTCTTCATGTACTGGCGT
* *
53335533 GAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
53335598 GATCTTGTCTTCATGTACTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* *
53335622 GAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA-G--AAA
* * * *
53335687 ACGGATCTTATCTTCATGTACTGTCGT
63 GCAGATCTTGTCTTCATGTACTGGCGT
* *
53335714 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCG
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
53335779 GATCTTGTC-TCATGTATTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * * *** * * * * *
53335802 GAAGTAGATCGAAGAAAACGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCG
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
* * *
53335866 GATATTATCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * *** * * *
53335890 GAAGTAGATCGAGGA-AAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGAAAGC
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGC
* * *
53335953 AAATCTTGTCTTCATGTATTGGCAT
65 AGATCTTGTCTTCATGTACTGGCGT
*
53335978 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTC
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTC
53336010 ATGTATTGGC
Statistics
Matches: 687, Mismatches: 51, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
87 30 0.04
88 168 0.24
89 404 0.59
90 1 0.00
91 1 0.00
92 83 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (89 bp):
GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
GATCTTGTCTTCATGTACTGGCGT
Found at i:53335280 original size:178 final size:178
Alignment explanation
Indices: 53334207--53336081 Score: 1506
Period size: 178 Copynumber: 10.5 Consensus size: 178
53334197 GAGCAGGTTG
* * * * *
53334207 AAAGATAA-CAGATATTGTCTTCATGTACTAGAGTGAAGTACATCAGAGATACCAGATCTTGCCT
1 AAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCT
* * * * * *
53334271 TCCCATACTGGTGGTGAAGCAGGTTGAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
65 TCCCATACTGGTGGTGAAGTA-GATCAAAGAAAACAGATCTTGTCTTCATATACTGGTGTGAAGT
* * * * * *
53334336 AGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTC
129 AGATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* *
53334386 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * * * *
53334451 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGA-AGATCTTGTCTTCATGTACTGGCGTGAAGTA
66 CCCATACTGGTGGTGAAGTAGATCAAAGAAA-ACAGATCTTGTCTTCATATACTGGTGTGAAGTA
* * * * * *
53334515 GATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTC
130 GATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* *
53334564 AAATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * * *
53334629 CCCATACTGGTGGTGAAGTAGGTCAAAGAAAGCAGATATTGTCTTCA-AGTACTGGCGTGAAGTA
66 CCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATA-TACTGGTGTGAAGTA
* * * * * *
53334693 GATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTC
130 GATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* * *
53334742 AAATAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * * ** * * * *
53334807 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTAGCGTGAAGTAT
66 CCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGTGTGAAGTAG
* * * * * *
53334872 ATCAGAGATACCAGATCTTGACTTCCCATATTGGTGGCGAAGTAGGTC
131 ATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* * * *
53334920 AAAAAAAGCAGACCTTGTCTTCATGTACTGGCATGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * *
53334985 CCCATACTGGTGGCGAAGCA-AGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCT-TGAAGT
66 CCCATACTGGTGGTGAAGTAGA-TCAAAGAAAACAGATCTTGTCTTCATATACTGG-TGTGAAGT
* * * * * *
53335048 AGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTC
129 AGATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
53335098 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * * ** ** * *
53335163 CCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTACCTTCCCATACTGGTGCCGAAGCA
66 CCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGTG-TGAAGTA
* ** *
53335228 GATC-GAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
130 GATCAG-AGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* *** * * * **
53335276 AAAGATAA-CAGATCTTGCCTTCCCATATTGGTGGCGAAACAGATC-GA-ATAAAACAGATCTTG
1 AAAGA-AAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAGAGAT--AACAGATCTTG
* *** * * * *
53335338 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTTC-CATACTGGTGGTG
62 CCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTC-TTCATATACTGGT-GTG
** * ** **
53335401 AAACAGATC-GAAGAAAGCAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATC
125 AAGTAGATCAG-AGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* *** * * **
53335454 AAAGGTAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATC-GAAGA-AAGCAGATCTTG
1 AAA-GAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAG-AGATAA-CAGATCTTG
* *** ** ** ** *
53335516 TCTTCATGTACTGG-CATGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGA
62 CCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGT-GTGA
** * ** *
53335580 AACAGATC-GAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
126 AGTAGATCAG-AGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* *** * * * * *
53335632 AAAGGTAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAAACGGATCTT
1 AAA-GAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC--A-GAGATAACAGATCTT
** *** * * ** *
53335696 ATCTTCATGTACT-GTCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCG
61 GCCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGT-GTG
* * ** * *
53335760 AAGTAGATC-GAAGAAAGCGGATCTTGTC-TCATGTATTGG-CGTGAAGTAGATC
125 AAGTAGATCAG-AGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* * * * * * **
53335812 GAAGAAAACGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC-GAAGA-AAGCGGATATTATC
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG-AGATAA-CAGATCTTGCC
*** * * * * * * *
53335875 TTCATGTATTGG-CGTGAAGTAGATCGAGGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGT
64 TTCCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGTGTGAAGT
* * ** * **
53335939 AGATC-GAAGAAAGCAAATCTTGTCTTCATGTATTGG-CATGAAGTAGATC
129 AGATCAG-AGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
* * * * * * *
53335988 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAGAGCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * *
53336053 CCCATATTGGTGGCGAAGTAGATCGAAGA
66 CCCATACTGGTGGTGAAGTAGATCAAAGA
53336082 TACAAGTCTT
Statistics
Matches: 1517, Mismatches: 143, Indels: 74
0.87 0.08 0.04
Matches are distributed among these distances:
175 31 0.02
176 142 0.09
177 25 0.02
178 1016 0.67
179 162 0.11
180 45 0.03
181 93 0.06
182 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
CCCATACTGGTGGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATACTGGTGTGAAGTAG
ATCAGAGAAACCAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATC
Found at i:53335280 original size:267 final size:266
Alignment explanation
Indices: 53334207--53335855 Score: 1497
Period size: 267 Copynumber: 6.2 Consensus size: 266
53334197 GAGCAGGTTG
* * * * *
53334207 AAAGATAACAGATATTGTCTTCATGTACTAGAGTGAAGTACATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
* *
53334272 CCCATACTGGTGGTGAAGCAGGTTGAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTA
66 CCCATACTGGTGGCGAAGCAGG-TCAAAGA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTA
* * *
53334337 GATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAACAGATCTT
129 GATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTT
*** * * * * *
53334402 GTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGA
194 GTCTTCCCATACTGGTGCGAAGTAGATCAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCGA
*
53334467 AGCAGGTC
259 AGCAGATC
53334475 AAAGAAAGA-AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCT
1 AAAGAAA-ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCT
*
53334539 TCCCATACTGGTGGCGAAGCAGGTCAAATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
65 TCCCATACTGGTGGCGAAGCAGGTCAAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTA
* * * * *
53334604 GATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGTGAAGTAGGTCAAAGAAAGCAGATATT
129 GATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTT
* * * * * *
53334669 GTCTT-CAAGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCG
194 GTCTTCCCA-TACTGGTGCGAAGTAGATCAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCG
*
53334733 AAGCAGGTC
258 AAGCAGATC
* * *
53334742 AAATAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
* * *
53334807 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTAGCGTGAAGTAT
66 CCCATACTGGTGGCGAAGCAGGTCAAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* * * * *
53334872 ATCAGAGATACCAGATCTTGACTTCCCATATTGGTGGCGAAGTAGGTCAAA-AAAAGCAGACCTT
130 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA-CAGATCTT
*** *** * * *
53334936 GTCTTCATGTACTGGCATGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGA
194 GTCTTCCCATACTGGTGCGAAGTAGATCAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCGA
53335001 AGCA-AGTC
259 AGCAGA-TC
*
53335009 AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
53335074 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGCAGGTCAAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* * *
53335139 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTA
130 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTG
* * * * ** *
53335204 CCTTCCCATACTGGTGCCGAAGCAGATC-GAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTG
195 TCTTCCCATACTGGTG-CGAAGTAGATCAG-AGAAACCAGATCTTGCCTTCACATACTGGTCGCG
*
53335267 AAGTAGATC
258 AAGCAGATC
* * *** * * * ** * *
53335276 AAAGATAACAGATCTTGCCTTCCCATATTGGTGGCGAAACAGATC-GA-ATAAAACAGATCTTGT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAGAGAT--ACCAGATCTTGC
*** * * * * * *
53335339 CTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTTCCA--TACTGGTGGTG
63 CTTCCCATACTGGTGGCGAAGCAGGTCAAAGA-AACAGATCTTGTC-TT-CATGTACTGG-CGTG
** * *** *** **
53335401 AAACAGATC-GAAGA-AAGCAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAGGTAAC
124 AAGTAGATCAG-AGATAA-CAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAAC
** * * **
53335463 AGATCTTGTCTTCCCATACTGGTGGCGAAACAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
187 AGATCTTGTCTTCCCATACTGGT-GCGAAGTAGATCAG-AGAAACCAGATCTTGCCTTCACATAC
** *
53335527 TGG-CATGAAGTAGATC
250 TGGTCGCGAAGCAGATC
** *** * * ** * * *
53335543 AAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATC-GAAGAAAGCAGATCTTGTC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAG-AGATACCAGATCTTGCC
*** * * * * * *** * *
53335607 TTCATGTACTGG-CGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAG
64 TTCCCATACTGGTGGCGAAGCAGGTCAAA-GAAACAGATCTTGTCTTCATGTACTGG-CGTGAAG
* * * ** *** * * *
53335671 TAGATCGAAGGAAAAAACGGATCTTATCTTCATGTACT-GTCGTGAAGTAGATCAAAGATAACAG
127 TAGATC--A-GAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAG
* * * ** *
53335735 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-GAAGAAAGCGGATCTTGTC-TCATGTATTG
189 ATCTTGTCTTCCCATACTGGT-GCGAAGTAGATCAG-AGAAACCAGATCTTGCCTTCACATACTG
* *
53335798 G-CGTGAAGTAGATC
252 GTCGCGAAGCAGATC
* * *
53335812 GAAGAAAACGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
53335856 GAAGAAAGCG
Statistics
Matches: 1211, Mismatches: 138, Indels: 64
0.86 0.10 0.05
Matches are distributed among these distances:
265 1 0.00
266 9 0.01
267 864 0.71
268 191 0.16
269 50 0.04
270 93 0.08
271 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (266 bp):
AAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
CCCATACTGGTGGCGAAGCAGGTCAAAGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGA
TCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTGT
CTTCCCATACTGGTGCGAAGTAGATCAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCGAAG
CAGATC
Found at i:53341335 original size:27 final size:27
Alignment explanation
Indices: 53341278--53341336 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
53341268 TCTCTCAACA
* * *
53341278 AAAATTACAAATATATATATAATTTTT
1 AAAATTACAAATATATATAAAAATTTC
*
53341305 AAAATT-CAAAATATTTATAAAAATTTC
1 AAAATTAC-AAATATATATAAAAATTTC
53341332 AAAAT
1 AAAAT
53341337 ATATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTACAAATATATATAAAAATTTC
Found at i:53341615 original size:17 final size:17
Alignment explanation
Indices: 53341590--53341622 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53341580 ACAATTTCAC
53341590 TCAACTCCATGTTATAA
1 TCAACTCCATGTTATAA
*
53341607 TCAATTCCATGTTATA
1 TCAACTCCATGTTATA
53341623 GCTATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (17 bp):
TCAACTCCATGTTATAA
Found at i:53364812 original size:15 final size:15
Alignment explanation
Indices: 53364792--53364820 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53364782 AAACAGTCTC
53364792 ATGAACATCAGCCTT
1 ATGAACATCAGCCTT
53364807 ATGAACATCAGCCT
1 ATGAACATCAGCCT
53364821 CCCTAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
ATGAACATCAGCCTT
Found at i:53370053 original size:19 final size:19
Alignment explanation
Indices: 53370031--53370071 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
53370021 CATTTTAGAG
*
53370031 TTAAAATAAA-ATTATTTTT
1 TTAAAA-AAACATTATCTTT
53370050 TTAAAAAAACATTATCTTT
1 TTAAAAAAACATTATCTTT
53370069 TTA
1 TTA
53370072 CTTTGCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAAAAACATTATCTTT
Found at i:53370402 original size:28 final size:27
Alignment explanation
Indices: 53370358--53370433 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 27
53370348 TTTTTAGACG
* *
53370358 TTTAAAAATTATTTTTTTAATTTTATT
1 TTTAAAAATTAATTTTTTAATTTTAAT
*
53370385 TTTAAAAATTTAATTTTTTACTTTTAAT
1 TTTAAAAA-TTAATTTTTTAATTTTAAT
* *
53370413 TTCAAAAATTAATTCTTTAAT
1 TTTAAAAATTAATTTTTTAAT
53370434 AATTGAAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAAAAATTAATTTTTTAATTTTAAT
Found at i:53370999 original size:27 final size:27
Alignment explanation
Indices: 53370938--53370999 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
53370928 CTAACTGATA
*
53370938 GGCGGCACCAATGGTGTCATTCCCATG
1 GGCGGCACCAATGGTGCCATTCCCATG
** *
53370965 GGTAGCACCGATGGTGCCATTCCCATG
1 GGCGGCACCAATGGTGCCATTCCCATG
53370992 GGCGGCAC
1 GGCGGCAC
53371000 TAGTTGTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (27 bp):
GGCGGCACCAATGGTGCCATTCCCATG
Found at i:53371330 original size:16 final size:16
Alignment explanation
Indices: 53371292--53371335 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
53371282 AGTAAAAAAC
* *
53371292 TAGTATTA-TTATGGT
1 TAGTATTATTTTTAGT
53371307 TAGTTATTATTTTTAGT
1 TAG-TATTATTTTTAGT
53371324 TAGTATTATTTT
1 TAGTATTATTTT
53371336 GAGTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (16 bp):
TAGTATTATTTTTAGT
Found at i:53376862 original size:11 final size:11
Alignment explanation
Indices: 53376846--53376871 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53376836 CTTATGATTG
53376846 AATTGTATCCA
1 AATTGTATCCA
53376857 AATTGTATCCA
1 AATTGTATCCA
53376868 AATT
1 AATT
53376872 AAGTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (11 bp):
AATTGTATCCA
Found at i:53379616 original size:285 final size:284
Alignment explanation
Indices: 53379106--53380056 Score: 1618
Period size: 285 Copynumber: 3.3 Consensus size: 284
53379096 GCATGTTGAA
53379106 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
53379171 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAAATTTAGTGTG-TTTTTAAATTAA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATT-AATTTAGTGTGTTTTTTAAATTAA
* *
53379235 TTTAGTGTAAAAAAACGCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
130 TTTAGTGTAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
*
53379300 CAGTAAAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
195 CAAT-AAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
*
53379365 TTTGTCTTAATTATTTCTGAATTTTT
259 TTTGTATTAATTATTTCTGAATTTTT
* *
53379391 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
53379456 GTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
*
53379521 TTAGTGTAAAAAAACCCTTATTCCTGCCATTTGCTCATATTATTTTCCCGAATTTTATTACTTTC
131 TTAGTGTAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTTC
*
53379586 AATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTAAATTTTGTTTGAAATAT
196 AATAAAAAAA-TTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATAT
*
53379651 TTGTATTAATTATTTCTAAATTTTT
260 TTGTATTAATTATTTCTGAATTTTT
** * * *
53379676 AAAAATTTTAGTATAATACTCTTACTTCGGCCATTTCTTTGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
53379741 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAATGTGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
* * * *
53379806 TTAGTGTAAGAAAAA-CTTTATTCATGTCATTTGCTCGTATTATTTTCCCAAATTTTATTACTTT
131 TTAGTGTAA-AAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
*
53379870 CAATAAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATAT
195 CAATAAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATAT
53379935 TTGTATTAATTATTTCTGAATTTTT
260 TTGTATTAATTATTTCTGAATTTTT
* * * * *
53379960 AAAAAAATTTGTAAAACACTCTTACCTCAGCCATATCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
53380025 CTTTAAAAAATTTCATAATTTCTAATTTTATA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATA
53380057 TTTTTACTTT
Statistics
Matches: 627, Mismatches: 36, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
284 182 0.29
285 440 0.70
286 5 0.01
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (284 bp):
AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
TTAGTGTAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTTC
AATAAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATT
TGTATTAATTATTTCTGAATTTTT
Found at i:53380519 original size:14 final size:14
Alignment explanation
Indices: 53380492--53380581 Score: 85
Period size: 14 Copynumber: 6.3 Consensus size: 14
53380482 TCTCATCTCA
* *
53380492 TTTCCTTTTGTTTC
1 TTTCTTTTTCTTTC
*
53380506 GTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
53380520 TTT-TTTCTTCTTCTCC
1 TTTCTTT-TTCTT-T-C
*
53380536 TTTCCTTTTCTTTC
1 TTTCTTTTTCTTTC
*
53380550 CTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
53380564 TTTCTTTCTTC-TTC
1 TTTCTTT-TTCTTTC
53380578 TTTC
1 TTTC
53380582 CCTCTCCTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.05
14 44 0.70
15 5 0.08
16 9 0.14
17 2 0.03
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:53380540 original size:44 final size:44
Alignment explanation
Indices: 53380462--53380578 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 44
53380452 CCCTCTTCTT
* *
53380462 CTTCTTCTTC-TTCTTTTTT-TTCTCATCTCATTTCCTTTTGTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCT--TCTCATTTCCTTTTCTTTC
* *
53380506 GTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCATTTCCTTTTCTTTC
53380550 CTTCTTTTTCTTTCTTTCTTTCTTCTTCT
1 CTTCTTTTTCTTTCTTT-TTTCTTCTTCT
53380579 TTCCCTCTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
44 41 0.63
45 20 0.31
46 4 0.06
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (44 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTTCTCATTTCCTTTTCTTTC
Found at i:53380590 original size:48 final size:44
Alignment explanation
Indices: 53380428--53380578 Score: 145
Period size: 44 Copynumber: 3.5 Consensus size: 44
53380418 AAAAATTATC
* * *
53380428 TTTT-TTTCTTTTTT-TTCCT-TCCTCCCCTCTTC-TT-CTTCT
1 TTTTCTTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCCTTCT
* * * * *
53380467 TCTTC-TTCTTTTTT-TTCTCATCTCATTTCCTTTTGTTTCGTTCT
1 TTTTCTTTCTTTTTTCTTCT--TCTCCTCTCCTTTTCTTTCCTTCT
*
53380511 TTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCCTTCT
53380555 TTTTCTTTCTTTCTTTCTTCTTCT
1 TTTTCTTTCTTT-TTTCTTCTTCT
53380579 TTCCCTCTCC
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
39 15 0.16
41 1 0.01
42 8 0.09
43 2 0.02
44 41 0.45
45 20 0.22
46 4 0.04
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.69
Consensus pattern (44 bp):
TTTTCTTTCTTTTTTCTTCTTCTCCTCTCCTTTTCTTTCCTTCT
Found at i:53381843 original size:13 final size:13
Alignment explanation
Indices: 53381817--53381865 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
53381807 ATCTCGTTAC
**
53381817 ATAAAAAAGAAAA
1 ATAAAAAATTAAA
53381830 ATAAAAAATTAAA
1 ATAAAAAATTAAA
53381843 ACT-AAAAATCTAAA
1 A-TAAAAAAT-TAAA
53381857 ATAAAAAAT
1 ATAAAAAAT
53381866 AGTAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:53384751 original size:21 final size:21
Alignment explanation
Indices: 53384718--53384757 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53384708 ATATATTGTT
*
53384718 TATATATAGTATACGTATGCA
1 TATATATAGTATACATATGCA
**
53384739 TATATATTTTATACATATG
1 TATATATAGTATACATATG
53384758 TTCTTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
TATATATAGTATACATATGCA
Found at i:53384898 original size:19 final size:20
Alignment explanation
Indices: 53384860--53384899 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
53384850 CGTATAAATC
* *
53384860 TATATTTTTTAATACTTACT
1 TATATTTTTTAACACATACT
53384880 TATA-TTTTTAACACATACT
1 TATATTTTTTAACACATACT
53384899 T
1 T
53384900 TCTAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTTTTAACACATACT
Found at i:53401081 original size:13 final size:14
Alignment explanation
Indices: 53401063--53401100 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
53401053 TTTTTATAAT
53401063 TCTTCATAATA-TA
1 TCTTCATAATATTA
*
53401076 TCTTCAAAATATTA
1 TCTTCATAATATTA
*
53401090 TATTCATAATA
1 TCTTCATAATA
53401101 AATAGGGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCATAATATTA
Found at i:53402785 original size:3 final size:3
Alignment explanation
Indices: 53402766--53402815 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
53402756 AATTTATTTC
* * *
53402766 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53402812 ATA A
1 ATA A
53402816 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:53402794 original size:18 final size:18
Alignment explanation
Indices: 53402766--53402812 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
53402756 AATTTATTTC
53402766 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
53402783 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
53402801 ATAATAA-AATAA
1 ATAATAATAATAA
53402813 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:53405102 original size:42 final size:42
Alignment explanation
Indices: 53405038--53405120 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
53405028 TATCTTGAGT
*
53405038 AGGGCTTGAGTTATGTAATTGAAATTGGAAAATAACATATAC
1 AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATAC
* *
53405080 AGGGGTTGAGTTATGTAATTGAAATTAGAAAATAGCATATA
1 AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATA
53405121 TTGGTTATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (42 bp):
AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATAC
Found at i:53406692 original size:30 final size:30
Alignment explanation
Indices: 53406652--53406736 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
53406642 GAATAAGTTT
* *
53406652 CTCACACAAGCTGACATTATATCAGGGTTG
1 CTCACACAAGCTGACATTATATCAAGATTG
* * *
53406682 TTCTCACAAGCAGACATTA-ATTCAAGATTG
1 CTCACACAAGCTGACATTATA-TCAAGATTG
* *
53406712 CTCACACAAGATGAAATTATATCAA
1 CTCACACAAGCTGACATTATATCAA
53406737 TGAGATCCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATCAAGATTG
Found at i:53413162 original size:36 final size:36
Alignment explanation
Indices: 53413113--53413199 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
53413103 GGATGAGCGC
* * *
53413113 ATCAGTTAGAATAGATCCGAAAAGCTGCTAAACGAA
1 ATCAGTCAGAATAGATCCGAAAAGCTACTAAACAAA
* ** * *
53413149 ATCAGTCAAAATAGATTTGAAAGGTTACTAAACAAA
1 ATCAGTCAGAATAGATCCGAAAAGCTACTAAACAAA
53413185 ATCAGTCAGAATAGA
1 ATCAGTCAGAATAGA
53413200 CTCAAAAGGC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCGAAAAGCTACTAAACAAA
Found at i:53413208 original size:36 final size:36
Alignment explanation
Indices: 53413132--53413213 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
53413122 AATAGATCCG
* * * *
53413132 AAAA-GCTGCTAAACGAAATCAGTCAAAATAGATTT
1 AAAAGGCTACTAAACAAAATCAGTCAAAATAGACTC
* * *
53413167 GAAAGGTTACTAAACAAAATCAGTCAGAATAGACTC
1 AAAAGGCTACTAAACAAAATCAGTCAAAATAGACTC
53413203 AAAAGGCTACT
1 AAAAGGCTACT
53413214 GAACTGAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 3 0.08
36 34 0.92
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (36 bp):
AAAAGGCTACTAAACAAAATCAGTCAAAATAGACTC
Found at i:53416903 original size:80 final size:80
Alignment explanation
Indices: 53416770--53416929 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
53416760 ATTTATGAAG
*
53416770 TTTACATTGTTTATAAAATCCATGAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
1 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
53416835 GATTAATTAAATTCT
66 GATTAATTAAATTCT
*
53416850 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTTTTATGAGGGATTAACGAGTGGACGTGT
1 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
53416915 GATTAATTAAATTCT
66 GATTAATTAAATTCT
53416930 ATGTAGGGTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (80 bp):
TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
GATTAATTAAATTCT
Found at i:53420652 original size:51 final size:50
Alignment explanation
Indices: 53420372--53420758 Score: 427
Period size: 50 Copynumber: 7.7 Consensus size: 50
53420362 TCACTCGATA
* *
53420372 CACGTAGTAGCCTTCACATAGTACTAGACACGTGATCAAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
53420422 CACGTAGTAGCCTTCACATAGTACTACACACATGATCAGGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
53420472 TACATAGTAGCCTTCAAATAGTACTATACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * *
53420522 CATGTAGTAGCCTTCACTTAGTACTACACACGTGATCAAGTTTTACGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * * *** **
53420572 CACATAGTAGCCTTCACTTAGTACTACACATGTAATCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
* * * * *
53420623 CACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * * *
53420674 CACATTGTAGCCTTCACTTAGTACTACACATGTGA-CAATTATTTATCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
*
53420725 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
53420759 TTCACCGATA
Statistics
Matches: 277, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.00
49 4 0.01
50 172 0.62
51 97 0.35
52 1 0.00
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:53424174 original size:49 final size:48
Alignment explanation
Indices: 53424118--53424263 Score: 222
Period size: 49 Copynumber: 3.0 Consensus size: 48
53424108 TTTATTTTCT
53424118 CGATGCCATAGTCCAA-TAATGGTCTTACACATAATCACATATCACATAC
1 CGATGCCATAGTCCAACT-ATGGTCTTACAC-TAATCACATATCACATAC
*
53424167 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAGTCCAACTATGGTCTTACAC-TAATCACATATCACATAC
*
53424216 CGATGCCATAGTCCAACTATGGTCTTATACTGAATCACATTATCACAT
1 CGATGCCATAGTCCAACTATGGTCTTACACT-AATCACA-TATCACAT
53424264 TTTCACATGT
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
48 1 0.01
49 80 0.89
50 9 0.10
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (48 bp):
CGATGCCATAGTCCAACTATGGTCTTACACTAATCACATATCACATAC
Found at i:53426386 original size:50 final size:50
Alignment explanation
Indices: 53426328--53426710 Score: 421
Period size: 50 Copynumber: 7.6 Consensus size: 50
53426318 TCGATACACG
* *
53426328 TAGTAGCCTTCACATAGTACTAGACACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
* *
53426378 TAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGGTTTACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
* *
53426428 TAGTAGCCTTCAAATAGTACTATACACGTGATCAAGTTTTACGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
* * *
53426478 TAGTAGCCTTCACTTAGTACTACACACATGATCAAGTTTTACGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
** * * * *** *
53426528 TAGTAGCCTTCATTTAGTACTACACATGTAACCATCATTTATCGATTCACGA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCAC-A
* * *
53426580 -AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT-CGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACA
* * * * * * * *
53426630 TTGTAGCCTCCACTTAGTACTACACATGTGA-CCATTATTTATCGGTACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCACA
*
53426681 TAGTAGCCTTCACAGAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
53426711 TTCACCGATA
Statistics
Matches: 279, Mismatches: 46, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 172 0.62
51 99 0.35
52 2 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
Found at i:53432649 original size:3 final size:3
Alignment explanation
Indices: 53432641--53432673 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
53432631 ATAGACAATG
53432641 ATA ATA ATA ATA GATA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
53432674 GTGAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:53437415 original size:42 final size:40
Alignment explanation
Indices: 53437356--53437475 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 40
53437346 ATAATTTTTG
53437356 GGCCTTTAGCGGCGTTTTTTTATAAAGCGCCGCTAATGCTC
1 GGCCTTTAGCGGCGTTTTTTTA-AAAGCGCCGCTAATGCTC
* * *
53437397 TGGCCTTCAGCGGCG-TTTTTGAAGAAGCGCTG-TAATGCTC
1 -GGCCTTTAGCGGCGTTTTTTTAA-AAGCGCCGCTAATGCTC
* *
53437437 GGTCTTTTAGCGGCATTTTTTTGGAAAAGCGCCGCTAAT
1 GG-CCTTTAGCGGCGTTTTTTT--AAAAGCGCCGCTAAT
53437476 AATAAAATCT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
39 2 0.03
40 18 0.28
41 18 0.28
42 20 0.31
43 6 0.09
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (40 bp):
GGCCTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTC
Found at i:53440956 original size:15 final size:15
Alignment explanation
Indices: 53440915--53440957 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53440905 ACCACCAATT
53440915 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
*
53440930 TG-TTTCGGTTTCTAC
1 TGTTTTC-ATTTCTAC
*
53440945 TGTTTTCTTTTCT
1 TGTTTTCATTTCT
53440958 CTTATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.07, C:0.19, G:0.12, T:0.63
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:53441598 original size:15 final size:16
Alignment explanation
Indices: 53441578--53441609 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
53441568 ATAACTTATT
53441578 AATATATAT-TTTAAA
1 AATATATATCTTTAAA
53441593 AATATATATCTTTAAA
1 AATATATATCTTTAAA
53441609 A
1 A
53441610 TTTAATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATATCTTTAAA
Found at i:53441625 original size:28 final size:26
Alignment explanation
Indices: 53441594--53441720 Score: 110
Period size: 22 Copynumber: 5.1 Consensus size: 26
53441584 TATTTTAAAA
53441594 ATATATATCTTTAAAATTT-A-A-TAT
1 ATATATAT-TTTAAAATTTAATATTAT
*
53441618 GTATATATTTTAAAATTTAAT-TTAT
1 ATATATATTTTAAAATTTAATATTAT
*
53441643 ATATATGTTTTGAAAATTTAATATATAT
1 ATATATATTTT-AAAATTTAATAT-TAT
* * *
53441671 ACATATACTTTCAAATTTTAAT-TTAT
1 ATATATA-TTTTAAAATTTAATATTAT
53441697 AT-T-T-TTTTAAAATTTAATA-TAT
1 ATATATATTTTAAAATTTAATATTAT
53441719 AT
1 AT
53441721 TTTTAATATA
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
22 17 0.20
23 10 0.12
24 9 0.11
25 13 0.15
26 14 0.16
27 2 0.02
28 17 0.20
29 3 0.04
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATATTTTAAAATTTAATATTAT
Found at i:53441659 original size:49 final size:50
Alignment explanation
Indices: 53441594--53441720 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
53441584 TATTTTAAAA
* *
53441594 ATATATATCTTTAAAATTTAATATGTAT-ATAT-TTT-AAAATTTAATTT
1 ATATATATTTTTAAAATTTAATATATATAATATATTTCAAAATTTAATTT
*
53441641 ATATATATGTTTTGAAAATTTAATATATATACATATACTTTCAAATTTTAATTT
1 ATATATAT-TTTT-AAAATTTAATATATATA-ATATA-TTTCAAAATTTAATTT
53441695 ATAT-T-TTTTTAAAATTTAATATATAT
1 ATATATATTTTTAAAATTTAATATATAT
53441721 TTTTAATATA
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
47 8 0.11
48 3 0.04
49 15 0.21
50 16 0.23
51 8 0.11
52 1 0.01
53 4 0.06
54 15 0.21
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (50 bp):
ATATATATTTTTAAAATTTAATATATATAATATATTTCAAAATTTAATTT
Found at i:53441741 original size:54 final size:55
Alignment explanation
Indices: 53441619--53441748 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 55
53441609 ATTTAATATG
* *
53441619 TATATATTTTAAAATTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
1 TATAAATTTTAAATTTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
* *
53441674 TAT-ACTTTCAAATTTTAATTTATAT-T-T-TTTT-AAAATTTAATATATATTTTTA-A
1 TATAAATTTTAAATTTTAATTTATATATATGTTTTGAAAATTTAATATATA----TACA
53441727 TATAAATTTTAAATTTT-ATTTA
1 TATAAATTTTAAATTTTAATTTA
53441749 ACGTAAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
50 15 0.23
51 4 0.06
52 1 0.02
53 10 0.16
54 31 0.48
55 3 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (55 bp):
TATAAATTTTAAATTTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
Found at i:53441813 original size:13 final size:11
Alignment explanation
Indices: 53441715--53441810 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
53441705 AAAATTTAAT
53441715 ATATATTTTTA
1 ATATATTTTTA
*
53441726 ATATAAATTTTA
1 ATAT-ATTTTTA
*
53441738 A-ATTTTATTTA
1 ATATATT-TTTA
** **
53441749 ACGTAAATTT-
1 ATATATTTTTA
53441759 ATATATTTTTAA
1 ATATATTTTT-A
*
53441771 CATATATTTCTA
1 -ATATATTTTTA
***
53441783 CCGTATTTTTA
1 ATATATTTTTA
53441794 ATATATTTTTA
1 ATATATTTTTA
53441805 ATATAT
1 ATATAT
53441811 ATTGAAAATT
Statistics
Matches: 60, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
10 7 0.12
11 35 0.58
12 9 0.15
13 9 0.15
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:53441846 original size:28 final size:28
Alignment explanation
Indices: 53441815--53441906 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
53441805 ATATATATTG
53441815 AAAATTTAATATATATGTATATACTTCT
1 AAAATTTAATATATATGTATATACTTCT
*
53441843 AAAA-TT--TA-ATA--TATATA-TT-G
1 AAAATTTAATATATATGTATATACTTCT
53441863 AAAATTTAATATATATGTATATACTTCT
1 AAAATTTAATATATATGTATATACTTCT
53441891 AAAATTTAATATATAT
1 AAAATTTAATATATAT
53441907 TTTTAAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 6 0.11
23 2 0.04
24 6 0.11
25 2 0.04
26 6 0.11
27 4 0.07
28 20 0.37
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (28 bp):
AAAATTTAATATATATGTATATACTTCT
Found at i:53441857 original size:48 final size:48
Alignment explanation
Indices: 53441805--53441926 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
53441795 TATATTTTTA
53441805 ATATATATTGAAAATTTAATATATATGTATATACTTCTAAAATTTAAT
1 ATATATATTGAAAATTTAATATATATGTATATACTTCTAAAATTTAAT
53441853 ATATATATTGAAAATTTAATATATATGTATATACTTCTAAAATTTAAT
1 ATATATATTGAAAATTTAATATATATGTATATACTTCTAAAATTTAAT
* * *
53441901 ATATATTTTTAAAATTTAATTTATAT
1 ATATATATTGAAAATTTAATATATAT
53441927 TTTTAATATA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (48 bp):
ATATATATTGAAAATTTAATATATATGTATATACTTCTAAAATTTAAT
Found at i:53441926 original size:20 final size:20
Alignment explanation
Indices: 53441832--53441932 Score: 85
Period size: 20 Copynumber: 4.7 Consensus size: 20
53441822 AATATATATG
* *
53441832 TATATACTTCTAAAATTTAA
1 TATATATTTTTAAAATTTAA
* *
53441852 TATATATATTGAAAATTTAATA
1 TATATATTTTTAAAATTT-A-A
53441874 TATATGTATATACTTCTAAAATTTAA
1 TATA--TAT-T--TT-TAAAATTTAA
53441900 TATATATTTTTAAAATTTAA
1 TATATATTTTTAAAATTTAA
*
53441920 TTTATATTTTTAA
1 TATATATTTTTAA
53441933 TATAATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
20 36 0.55
21 3 0.05
22 5 0.08
23 1 0.02
24 6 0.09
26 5 0.08
27 3 0.05
28 7 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATATTTTTAAAATTTAA
Found at i:53441940 original size:12 final size:12
Alignment explanation
Indices: 53441915--53441950 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
53441905 ATTTTTAAAA
*
53441915 TTTAATTTATATT
1 TTTAATATA-ATT
53441928 TTTAATATAATT
1 TTTAATATAATT
53441940 TTTAATATAAT
1 TTTAATATAAT
53441951 ACGTACACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATATAATT
Found at i:53441940 original size:18 final size:19
Alignment explanation
Indices: 53441892--53441940 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
53441882 TATACTTCTA
* *
53441892 AAATTTAATATATATTTTT
1 AAATATAATTTATATTTTT
*
53441911 AAAATTTAATTTATATTTTT
1 -AAATATAATTTATATTTTT
53441931 -AATATAATTT
1 AAATATAATTT
53441941 TTAATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 9 0.33
20 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATATAATTTATATTTTT
Found at i:53442002 original size:25 final size:24
Alignment explanation
Indices: 53441972--53442590 Score: 139
Period size: 25 Copynumber: 25.5 Consensus size: 24
53441962 ATACACAACA
*
53441972 TACATAACTTACATAATATTGAACT
1 TACATAACTTACATAATAAT-AACT
* * *
53441997 CACATAATTTTCATAATACATAACT
1 TACATAACTTACATAATA-ATAACT
* * *
53442022 TACTTAATTTTCATAATAAATAACT
1 TACATAACTTACATAAT-AATAACT
53442047 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATA-ATAACT
* *
53442072 TACATAA-TATACA-ACTTACATAATT
1 TACATAACT-TACATA-ATA-ATAACT
*
53442097 TTCATAA--TACATAACTTACATAA-T
1 TACATAACTTACATAA--TA-ATAACT
* *
53442121 GT---TGAACTCACATAATTTTCATAA--
1 -TACAT-AACTTACATAA---TAATAACT
* *
53442145 TACATAACTTACTTAATTTTCATAA--
1 TACATAACTTACATAA---TAATAACT
*
53442170 TAAATAACTTACATAACTTACATAA--
1 TACATAACTTACATAA--TA-ATAACT
*
53442195 TACATAACTTACATAATATACAACT
1 TACATAACTTACATAATA-ATAACT
* *
53442220 TACATAATTTTCATAATACATAACT
1 TACATAACTTACATAATA-ATAACT
* * * *
53442245 TACATAATGTTGA-ACTCA-CATAATT
1 TACATAA-CTT-ACA-TAATAATAACT
*
53442270 TTCATAA--TACATAACT--T-ACT
1 TACATAACTTACATAA-TAATAACT
*
53442290 TA-AT---TTTCATAATA-AATAACT
1 TACATAACTTACAT-A-ATAATAACT
53442311 TACATAACTTACATAATAAT-A--
1 TACATAACTTACATAATAATAACT
*
53442332 TAC--AACTTACATAATTTTCATAA--
1 TACATAACTTACATAA---TAATAACT
*
53442355 TACATAACTTACATAATATTGAACT
1 TACATAACTTACATAATAAT-AACT
* * * *
53442380 CACATAATTTTCATAATACATAGCT
1 TACATAACTTACATAATA-ATAACT
* * *
53442405 TACTTAATTTTCATAATAAATAACT
1 TACATAACTTACATAAT-AATAACT
53442430 TACATAACTTACATAACTTACATAA-T
1 TACATAACTTACATAA--TA-ATAACT
*
53442456 ATAC--AACTTACATAATTTTCATAA--
1 -TACATAACTTACATAA---TAATAACT
**
53442480 TACATAACTTACATAATGTTGAACT
1 TACATAACTTACATAATAAT-AACT
* * * *
53442505 CACATAATTTTCATAAAACATAACT
1 TACATAACTTACATAATA-ATAACT
* *
53442530 TACTTAACTTTCATAATAAATAACT
1 TACATAACTTACATAAT-AATAACT
53442555 TACATAA--TACATAACTTAAATAACT
1 TACATAACTTACATAA--T-AATAACT
*
53442580 TACATAGCTTA
1 TACATAACTTA
53442591 ATTATACTTA
Statistics
Matches: 460, Mismatches: 71, Indels: 124
0.70 0.11 0.19
Matches are distributed among these distances:
18 4 0.01
19 14 0.03
20 5 0.01
21 12 0.03
22 12 0.03
23 31 0.07
24 11 0.02
25 343 0.75
26 16 0.03
27 12 0.03
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
TACATAACTTACATAATAATAACT
Found at i:53442022 original size:41 final size:41
Alignment explanation
Indices: 53441971--53442577 Score: 523
Period size: 41 Copynumber: 14.4 Consensus size: 41
53441961 CATACACAAC
* *
53441971 ATACATAACTTACATAATATTGAACTCACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * * *
53442012 ATACATAACTTACTTAATTTTCATAATAAATAACTTACATAACTTACATA
1 ATACATAACTTACATAA---T-AT--T---CAACTTACATAATTTTCATA
*
53442062 ATACATAACTTACATAATATACAACTTACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * *
53442103 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * * *
53442144 ATACATAACTTACTTAATTTTCATAATAAATAACTTACATAACTTACATA
1 ATACATAACTTACATAA---T-AT--T---CAACTTACATAATTTTCATA
*
53442194 ATACATAACTTACATAATATACAACTTACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * *
53442235 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * * **
53442276 ATACATAACTTACTTAATTTTC-A--TA-ATAAATAAC-T-
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
53442311 -TACATAACTTACATAATAATATACAACTTACATAATTTTCATA
1 ATACATAACTTACATAAT-AT-T-CAACTTACATAATTTTCATA
* *
53442354 ATACATAACTTACATAATATTGAACTCACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * * * * * *
53442395 ATACATAGCTTACTTAATTTTCATA-ATAAATAACTTACATA
1 ATACATAACTTACATAATATTCA-ACTTACATAATTTTCATA
*
53442436 ACTTACATAACTTACATAATATACAACTTACATAATTTTCATA
1 A--TACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * *
53442479 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATA
1 ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
* * * * * *
53442520 AAACATAACTTACTTAACT-TTCATA-ATAAATAACTTACATA
1 ATACATAACTTACATAA-TATTCA-ACTTACATAATTTTCATA
*
53442561 ATACATAACTTAAATAA
1 ATACATAACTTACATAA
53442578 CTTACATAGC
Statistics
Matches: 457, Mismatches: 75, Indels: 68
0.76 0.12 0.11
Matches are distributed among these distances:
34 16 0.04
35 1 0.00
36 2 0.00
37 7 0.02
38 2 0.00
40 3 0.01
41 293 0.64
42 6 0.01
43 33 0.07
44 19 0.04
45 3 0.01
46 4 0.01
47 4 0.01
50 64 0.14
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (41 bp):
ATACATAACTTACATAATATTCAACTTACATAATTTTCATA
Found at i:53442045 original size:66 final size:66
Alignment explanation
Indices: 53441975--53442563 Score: 631
Period size: 66 Copynumber: 9.2 Consensus size: 66
53441965 CACAACATAC
53441975 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
53442040 A
66 A
* * * * * *
53442041 ATAACTTACATAACTTACAT-AA-T-ACATAACTTACATAATATACAACTTACATAATTTTCATA
1 ATAACTTACATAA--TA-TTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATA
*
53442103 ATAC
63 ATAA
*
53442107 ATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
53442172 A
66 A
* * * * * *
53442173 ATAACTTACATAACTTACAT-AA-T-ACATAACTTACATAATATACAACTTACATAATTTTCATA
1 ATAACTTACATAA--TA-TTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATA
*
53442235 ATAC
63 ATAA
*
53442239 ATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
53442304 A
66 A
* * *
53442305 ATAACTTACATAA-CTT--ACAT-A-ATAA---T-ATACA-AC-TTAC--A-TA-ATTTTCATAA
1 ATAACTTACATAATATTGAAC-TCACATAATTTTCATA-ATACATAACTTACTTAATTTTCATAA
*
53442355 TAC
64 TAA
*
53442358 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAGCTTACTTAATTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
53442423 A
66 A
* * * * * *
53442424 ATAACTTAC-----A-T-AACTTACATAACTTACATAATATACAACTTACATAATTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
*
53442482 C
66 A
* * *
53442483 ATAACTTACATAATGTTGAACTCACATAATTTTCATAAAACATAACTTACTTAACTTTCATAATA
1 ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
53442548 A
66 A
53442549 ATAACTTACATAATA
1 ATAACTTACATAATA
53442564 CATAACTTAA
Statistics
Matches: 428, Mismatches: 59, Indels: 72
0.77 0.11 0.13
Matches are distributed among these distances:
53 25 0.06
54 3 0.01
55 2 0.00
56 3 0.01
57 7 0.02
58 5 0.01
59 51 0.12
60 3 0.01
61 6 0.01
62 6 0.01
63 5 0.01
64 8 0.02
65 6 0.01
66 287 0.67
67 2 0.00
68 7 0.02
69 2 0.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (66 bp):
ATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATA
A
Found at i:53442118 original size:132 final size:130
Alignment explanation
Indices: 53441971--53442585 Score: 1010
Period size: 132 Copynumber: 4.8 Consensus size: 130
53441961 CATACACAAC
*
53441971 ATACATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
53442036 AATAAATAACTTACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCA
66 AATAAATAACTTACATAA--TACATAATACATAACTTACATAATATACAACTTACATAATTTTCA
53442101 TA
129 TA
53442103 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
53442168 AATAAATAACTTACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCA
66 AATAAATAACTTACATAA--TACATAATACATAACTTACATAATATACAACTTACATAATTTTCA
53442233 TA
129 TA
53442235 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
53442300 AATAAATAACTTACAT-A-AC-T--TAC---A--TA-ATAATATACAACTTACATAATTTTCATA
66 AATAAATAACTTACATAATACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
* *
53442354 ATACATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAGCTTACTTAATTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
53442419 AATAAATAACTTACAT-A-AC-T--TACATAACTTACATAATATACAACTTACATAATTTTCATA
66 AATAAATAACTTACATAATACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
* *
53442479 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAAAACATAACTTACTTAACTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
*
53442544 AATAAATAACTTACATAATACATAACTTAAATAACTTACATA
66 AATAAATAACTTACATAATACATAA--TACATAACTTACATA
53442586 GCTTAATTAT
Statistics
Matches: 462, Mismatches: 8, Indels: 26
0.93 0.02 0.05
Matches are distributed among these distances:
119 114 0.25
120 2 0.00
122 2 0.00
124 2 0.00
125 108 0.23
126 1 0.00
127 3 0.01
128 3 0.01
131 1 0.00
132 226 0.49
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (130 bp):
ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
AATAAATAACTTACATAATACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
Found at i:53442330 original size:28 final size:28
Alignment explanation
Indices: 53442298--53442361 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
53442288 CTTAATTTTC
*
53442298 ATAATAAATAACTTACATAACTTACATA
1 ATAATAAACAACTTACATAACTTACATA
* * *
53442326 ATAATATACAACTTACATAATTTTCATA
1 ATAATAAACAACTTACATAACTTACATA
53442354 ATACATAA
1 ATA-ATAA
53442362 CTTACATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATAAACAACTTACATAACTTACATA
Found at i:53442434 original size:34 final size:34
Alignment explanation
Indices: 53442396--53442486 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
53442386 ATTTTCATAA
* * * * *
53442396 TACATAGCTTACTTAATTTTCATAATAAATAACT
1 TACATAACTTACATAACTTACATAATAAACAACT
*
53442430 TACATAACTTACATAACTTACATAATATACAACT
1 TACATAACTTACATAACTTACATAATAAACAACT
* *
53442464 TACATAATTTTCATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
53442487 CTTACATAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 7 0.14
34 42 0.86
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAATAAACAACT
Found at i:53448109 original size:66 final size:66
Alignment explanation
Indices: 53448003--53448151 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
53447993 GCAAATTACA
* *
53448003 CAACTTAAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTTAAGC
1 CAACTTAAAGCAGATGCAGCATCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCAAGC
53448067 TG
65 TG
* *
53448069 CAACTTAAAGCAGATGCAGCAGT-GAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGC
1 CAACTTAAAGCAGATGCAGCA-TCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAAGC
53448133 TG
65 TG
* *
53448135 CAGCTTAAAGTAGATGC
1 CAACTTAAAGCAGATGC
53448152 GACAGCGAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
66 70 0.93
67 5 0.07
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (66 bp):
CAACTTAAAGCAGATGCAGCATCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAAGCT
G
Found at i:53448667 original size:44 final size:43
Alignment explanation
Indices: 53448503--53448776 Score: 198
Period size: 43 Copynumber: 6.4 Consensus size: 43
53448493 CGTGTTTTAA
* * *****
53448503 AAAAACGTCGCTAAA-GTCAGGGTCTTTAGCGGCGTTTGAAAG
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTCC
* * ** * * * *
53448545 AAAAGCGTCATTAAAGGTCAAGGTCTTTAGCGGTGTTTGTT-G
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTCC
*
53448587 AAAAACCGCCGCTAAAGGTCA-GGTTTTTTAGCGGCGTTTTTTCC
1 AAAAA-CGCCGCTAAAGGTCATGG-TCTTTAGCGGCGTTTTTTCC
* * * *
53448631 ACAATCGCCGCTAAAAGGTCATGGTCTTTA-CGGGCGTTTGTTGC
1 AAAAACGCCGCT-AAAGGTCATGGTCTTTAGC-GGCGTTTTTTCC
* **
53448675 AAAAACGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTTTGGC
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTCC
** * ** *
53448718 -AAAGTGCCGCTATAGGTCATGACCTTTAGCGGCGTTTATTTCT
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TTTCC
*
53448761 AAAAACGTCGCTAAAG
1 AAAAACGCCGCTAAAG
53448777 TTAGCGACGC
Statistics
Matches: 184, Mismatches: 38, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
42 50 0.27
43 85 0.46
44 47 0.26
45 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTCC
Found at i:53452493 original size:19 final size:20
Alignment explanation
Indices: 53452461--53452498 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
53452451 TAAAGCTTAA
*
53452461 TTTAAATATATAAACTATAT
1 TTTAAACATATAAACTATAT
*
53452481 TTTAAACAT-TAAAGTATA
1 TTTAAACATATAAACTATA
53452499 ATCATTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTAAACATATAAACTATAT
Found at i:53457573 original size:20 final size:20
Alignment explanation
Indices: 53457550--53457588 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53457540 CCACGTGACA
53457550 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
53457570 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
53457589 TGGTCCCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:53459109 original size:46 final size:46
Alignment explanation
Indices: 53459006--53459258 Score: 406
Period size: 46 Copynumber: 5.6 Consensus size: 46
53458996 TACGTATGAT
* * *
53459006 CACTAATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
53459049 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
53459095 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTTAAAACTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
53459141 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
53459187 CACTTATCACTTTGCCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
53459233 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
53459259 AGTACTCAAA
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 9 0.05
44 5 0.03
45 28 0.14
46 152 0.78
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Done.