Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 208 of 313
Found at i:63912525 original size:9 final size:9
Alignment explanation
Indices: 63912508--63912884 Score: 199
Period size: 9 Copynumber: 43.4 Consensus size: 9
63912498 TATGTATTAA
*
63912508 GTAAATTAT
1 GTAAGTTAT
63912517 GTAAGTTAT
1 GTAAGTTAT
63912526 GTACA-TGTA-
1 GTA-AGT-TAT
63912535 -TAAGTTAT
1 GTAAGTTAT
63912543 GTAAGTTAT
1 GTAAGTTAT
*
63912552 GT-A-TTAA
1 GTAAGTTAT
*
63912559 GTAAGCTAT
1 GTAAGTTAT
*
63912568 GTAAGTTGT
1 GTAAGTTAT
63912577 GT-A-TTAT
1 GTAAGTTAT
63912584 GTAAGTTAT
1 GTAAGTTAT
63912593 GTAAGTTAT
1 GTAAGTTAT
** *
63912602 CAAAGTAAT
1 GTAAGTTAT
*
63912611 GTATGTTAT
1 GTAAGTTAT
*
63912620 GTAAGTTGT
1 GTAAGTTAT
*
63912629 GT-AG-AAT
1 GTAAGTTAT
*
63912636 GTAAGCTAT
1 GTAAGTTAT
63912645 GTAAGTTAT
1 GTAAGTTAT
63912654 GTAAGTTAT
1 GTAAGTTAT
**
63912663 GTAAAG-GGT
1 GT-AAGTTAT
*
63912672 GCATAATGTAAT
1 G--TAA-GTTAT
63912684 -TAAGTTAT
1 GTAAGTTAT
63912692 GTAAGTTAT
1 GTAAGTTAT
63912701 G--AGTTAT
1 GTAAGTTAT
63912708 GTAAGTTAT
1 GTAAGTTAT
*
63912717 GT-A-TAAT
1 GTAAGTTAT
*
63912724 GTACGTTAT
1 GTAAGTTAT
* *
63912733 GTATAATATTAA
1 G--TAA-GTTAT
** *
63912745 AAAAATTAT
1 GTAAGTTAT
*
63912754 GTAAGTTGT
1 GTAAGTTAT
*
63912763 GT-A-TAAT
1 GTAAGTTAT
63912770 GTAAGTTAT
1 GTAAGTTAT
*
63912779 GTAAGTAAT
1 GTAAGTTAT
*
63912788 GT--CTTAT
1 GTAAGTTAT
*
63912795 GTAAGTTGT
1 GTAAGTTAT
*
63912804 GT-A-TAAT
1 GTAAGTTAT
*
63912811 GTTAGTTAT
1 GTAAGTTAT
*
63912820 -CAGAGTTAT
1 GTA-AGTTAT
*
63912829 G-CA-TTAT
1 GTAAGTTAT
63912836 GTAAGTTAT
1 GTAAGTTAT
63912845 GTAAGTTAT
1 GTAAGTTAT
*
63912854 GTAAGTTGT
1 GTAAGTTAT
*
63912863 TTAAGTTAT
1 GTAAGTTAT
*
63912872 GTAAGTAAT
1 GTAAGTTAT
63912881 GTAA
1 GTAA
63912885 TATATACTTA
Statistics
Matches: 276, Mismatches: 58, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
7 46 0.17
8 22 0.08
9 190 0.69
10 10 0.04
11 4 0.01
12 4 0.01
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:63912528 original size:25 final size:25
Alignment explanation
Indices: 63912497--63912601 Score: 122
Period size: 25 Copynumber: 4.2 Consensus size: 25
63912487 TGATATATAT
63912497 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* *
63912522 TTATGTA-CATGTATAAGTTATGTAAG
1 TTATGTATTAAGTA-AA-TTATGTAAG
**
63912548 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
63912573 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
63912598 TTAT
1 TTAT
63912602 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
24 4 0.06
25 42 0.63
26 17 0.25
27 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:63912625 original size:18 final size:18
Alignment explanation
Indices: 63912508--63912884 Score: 199
Period size: 16 Copynumber: 21.7 Consensus size: 18
63912498 TATGTATTAA
*
63912508 GTAAATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
63912526 GTACA-TGTA--TAAGTTAT
1 GTA-AGT-TATGTAAGTTAT
*
63912543 GTAAGTTATGT-A-TTAA
1 GTAAGTTATGTAAGTTAT
* *
63912559 GTAAGCTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
63912577 GT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
** *
63912593 GTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTAT
* *
63912611 GTATGTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
63912629 GT-AG-AATGTAAGCTAT
1 GTAAGTTATGTAAGTTAT
63912645 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
** *
63912663 GTAAAG-GGTGCATAATGTAAT
1 GT-AAGTTATG--TAA-GTTAT
63912684 -TAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
63912701 G--AGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
63912717 GT-A-TAATGTACGTTAT
1 GTAAGTTATGTAAGTTAT
* *** *
63912733 GTATAATATTAAAAAAATTAT
1 G--TAA-GTTATGTAAGTTAT
* *
63912754 GTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTAT
*
63912770 GTAAGTTATGTAAGTAAT
1 GTAAGTTATGTAAGTTAT
* *
63912788 GT--CTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
63912804 GT-A-TAATGTTAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
63912820 -CAGAGTTATG-CA-TTAT
1 GTA-AGTTATGTAAGTTAT
63912836 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
63912854 GTAAGTTGTTTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
63912872 GTAAGTAATGTAA
1 GTAAGTTATGTAA
63912885 TATATACTTA
Statistics
Matches: 270, Mismatches: 57, Indels: 64
0.69 0.15 0.16
Matches are distributed among these distances:
16 115 0.43
17 30 0.11
18 94 0.35
19 13 0.05
20 6 0.02
21 12 0.04
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:63912645 original size:25 final size:25
Alignment explanation
Indices: 63912508--63912656 Score: 131
Period size: 25 Copynumber: 5.8 Consensus size: 25
63912498 TATGTATTAA
* *
63912508 GTAAATTATGTAAGTTATGTA-CAT
1 GTAAGTTATGTAAGTTATGTAGAAT
*
63912532 GTATAAGTTATGTAAGTTATGTATTAA-
1 G--TAAGTTATGTAAGTTATGTA-GAAT
* * **
63912559 GTAAGCTATGTAAGTTGTGTATTAT
1 GTAAGTTATGTAAGTTATGTAGAAT
**
63912584 GTAAGTTATGTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTAT-GTAG-AAT
* *
63912611 GTATGTTATGTAAGTTGTGTAGAAT
1 GTAAGTTATGTAAGTTATGTAGAAT
*
63912636 GTAAGCTATGTAAGTTATGTA
1 GTAAGTTATGTAAGTTATGTA
63912657 AGTTATGTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
24 3 0.03
25 55 0.55
26 22 0.22
27 19 0.19
28 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTAGAAT
Found at i:63912665 original size:52 final size:51
Alignment explanation
Indices: 63912508--63912719 Score: 172
Period size: 52 Copynumber: 4.2 Consensus size: 51
63912498 TATGTATTAA
* * * *
63912508 GTAAATTATGTAAGTTATGTACATGTATAAGTTATGTAAGTTATGT-A-TTAA
1 GTAAGTTATGTAAGTTGTGTAAATG--TAAGTTATGTAAGTTATGTAAGTTAT
* * ** *
63912559 GTAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAAT
1 GTAAGTTATGTAAGTTGTGTA-AATGTAAGTTATGTAAGTTATGTAAGTTAT
* *
63912611 GTATGTTATGTAAGTTGTGTAGAATGTAAGCTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTGTGTA-AATGTAAGTTATGTAAGTTATGTAAGTTAT
** * **
63912663 GTAAAG-GGTG-CA-TAATGT-AAT-TAAGTTATGTAAGTTATG--AGTTAT
1 GT-AAGTTATGTAAGTTGTGTAAATGTAAGTTATGTAAGTTATGTAAGTTAT
63912708 GTAAGTTATGTA
1 GTAAGTTATGTA
63912720 TAATGTACGT
Statistics
Matches: 129, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 3 0.02
45 10 0.08
47 17 0.13
48 3 0.02
50 21 0.16
51 20 0.16
52 53 0.41
53 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (51 bp):
GTAAGTTATGTAAGTTGTGTAAATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:63912796 original size:25 final size:25
Alignment explanation
Indices: 63912750--63912806 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
63912740 ATTAAAAAAA
**
63912750 TTATGTAAGTTGTGTATAATGTAAG
1 TTATGTAAGTAATGTATAATGTAAG
* *
63912775 TTATGTAAGTAATGTCTTATGTAAG
1 TTATGTAAGTAATGTATAATGTAAG
*
63912800 TTGTGTA
1 TTATGTA
63912807 TAATGTTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTAATGTATAATGTAAG
Found at i:63912819 original size:25 final size:25
Alignment explanation
Indices: 63912768--63912883 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
63912758 GTTGTGTATA
*
63912768 ATGTAAGTTATGTAAGTAATGT--CTT
1 ATGTAAGTTATGT-A-TAATGTAAGTT
* *
63912793 ATGTAAGTTGTGTATAATGTTAGTT
1 ATGTAAGTTATGTATAATGTAAGTT
* * *
63912818 AT-CAGAGTTATGCATTATGTAAGTT
1 ATGTA-AGTTATGTATAATGTAAGTT
*
63912843 ATGTAAGTTATGTA-AGTTGTTTAAGTT
1 ATGTAAGTTATGTATA-ATG--TAAGTT
*
63912870 ATGTAAGTAATGTA
1 ATGTAAGTTATGTA
63912884 ATATATACTT
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
23 6 0.08
24 2 0.03
25 44 0.61
26 1 0.01
27 19 0.26
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.44
Consensus pattern (25 bp):
ATGTAAGTTATGTATAATGTAAGTT
Found at i:63912836 original size:41 final size:42
Alignment explanation
Indices: 63912591--63912847 Score: 134
Period size: 41 Copynumber: 6.0 Consensus size: 42
63912581 TATGTAAGTT
*
63912591 ATGTAAGTTAT-CAAAGTAATGT-ATGTTATGTAAGTTGTGTAGA
1 ATGTAAGTTATGC-AAGTAATGTCA--TTATGTAAGTTGTGTATA
* * * * * *
63912634 ATGTAAGCTATGTAAGTTATGTAAGTTATGTAAAG-GGTGCATA
1 ATGTAAGTTATGCAAGTAATGTCA-TTATGT-AAGTTGTGTATA
* * *
63912677 ATGTAATTAAGTTATGTAAGTTATG--AGTTATGTAAGTTATGTATA
1 ATG----TAAGTTATGCAAGTAATGTCA-TTATGTAAGTTGTGTATA
* * * ****
63912722 ATGTACGTTATGTATAATATTAAAAAAATTATGTAAGTTGTGTATA
1 ATGTAAGTTATG---CA-AGTAATGTCATTATGTAAGTTGTGTATA
*
63912768 ATGTAAGTTATGTAAGTAATGTC-TTATGTAAGTTGTGTATA
1 ATGTAAGTTATGCAAGTAATGTCATTATGTAAGTTGTGTATA
* * *
63912809 ATGTTAGTTAT-CAGAGTTATG-CATTATGTAAGTTATGTA
1 ATGTAAGTTATGCA-AGTAATGTCATTATGTAAGTTGTGTA
63912848 AGTTATGTAA
Statistics
Matches: 170, Mismatches: 28, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.01
41 57 0.34
42 4 0.02
43 34 0.20
44 8 0.05
45 19 0.11
46 28 0.16
47 18 0.11
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (42 bp):
ATGTAAGTTATGCAAGTAATGTCATTATGTAAGTTGTGTATA
Found at i:63912962 original size:13 final size:13
Alignment explanation
Indices: 63912944--63913002 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
63912934 CAAATTTTAG
*
63912944 TAAGTAATGTATT
1 TAAGTAATATATT
*
63912957 TAAGTAATTTATT
1 TAAGTAATATATT
63912970 TAAGTAATATATT
1 TAAGTAATATATT
*
63912983 CAAGTAATATATT
1 TAAGTAATATATT
*
63912996 AAAGTAA
1 TAAGTAA
63913003 ATTTTAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:63914436 original size:13 final size:13
Alignment explanation
Indices: 63914420--63914460 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
63914410 CATTTACTAT
63914420 ATTCATTAAGAAA
1 ATTCATTAAGAAA
63914433 ATTCATTCAA-AAA
1 ATTCATT-AAGAAA
*
63914446 ATTCATTTAGAAA
1 ATTCATTAAGAAA
63914459 AT
1 AT
63914461 CTCGCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (13 bp):
ATTCATTAAGAAA
Found at i:63914591 original size:60 final size:60
Alignment explanation
Indices: 63914501--63914624 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
63914491 CACAAAATTC
* *
63914501 ATTC-GGGCAACTGCTAAATAAACAATTTATACCTAAATCCCTCATACACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
*
63914560 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCGAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
63914620 ATTCA
1 ATTCA
63914625 CAAAATTCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (60 bp):
ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
Found at i:63919973 original size:21 final size:20
Alignment explanation
Indices: 63919949--63919987 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
63919939 GTTAAAAATA
63919949 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
63919970 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
63919988 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:63921667 original size:21 final size:21
Alignment explanation
Indices: 63921628--63921667 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63921618 CTTAAATTTT
* *
63921628 AAAATCTTAAAAAGCAAAAAA
1 AAAATCCTAAAAAGAAAAAAA
*
63921649 AAAATCCTAAAAATAAAAA
1 AAAATCCTAAAAAGAAAAA
63921668 CACATGAATT
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:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATCCTAAAAAGAAAAAAA
Found at i:63923174 original size:22 final size:22
Alignment explanation
Indices: 63923148--63923217 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
63923138 ACCGATCTAA
*
63923148 TTTTAAAGATTTAATAGAACAT
1 TTTTAAAGATTTAACAGAACAT
* *
63923170 TTTTAGAAG--TTAACA-ATCTAA
1 TTTTA-AAGATTTAACAGAAC-AT
63923191 TTTTAAAGATTTAACAGAACAT
1 TTTTAAAGATTTAACAGAACAT
63923213 TTTTA
1 TTTTA
63923218 GAAGTTAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.13
21 11 0.29
22 17 0.45
23 5 0.13
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
TTTTAAAGATTTAACAGAACAT
Found at i:63923182 original size:21 final size:21
Alignment explanation
Indices: 63923158--63923227 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
63923148 TTTTAAAGAT
*
63923158 TTAATAGAACATTTTTAGAAG
1 TTAACAGAACATTTTTAGAAG
* *
63923179 TTAACA-ATCTAATTTTA-AAG
1 TTAACAGAAC-ATTTTTAGAAG
63923199 ATTTAACAGAACATTTTTAGAAG
1 --TTAACAGAACATTTTTAGAAG
63923222 TTAACA
1 TTAACA
63923228 TTTTGTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.13
21 17 0.44
22 12 0.31
23 5 0.13
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (21 bp):
TTAACAGAACATTTTTAGAAG
Found at i:63923190 original size:43 final size:43
Alignment explanation
Indices: 63923142--63923227 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
63923132 TTTATCACCG
*
63923142 ATCTAATTTTAAAGATTTAATAGAACATTTTTAGAAGTTAACA
1 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
63923185 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
1 ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
63923228 TTTTGTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (43 bp):
ATCTAATTTTAAAGATTTAACAGAACATTTTTAGAAGTTAACA
Found at i:63923890 original size:23 final size:23
Alignment explanation
Indices: 63923863--63923912 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
63923853 TTTTTGATGT
* *
63923863 ATTATATATATATATATTTAAA-A
1 ATTATATAAATATA-ATATAAAGA
63923886 ATTATATAAATATAATATAAAGA
1 ATTATATAAATATAATATAAAGA
63923909 ATTA
1 ATTA
63923913 ATACGGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTATATAAATATAATATAAAGA
Found at i:63924259 original size:19 final size:19
Alignment explanation
Indices: 63924235--63924300 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 19
63924225 AAATTAATAA
63924235 ATAATAATATTTTAAAATT
1 ATAATAATATTTTAAAATT
* *
63924254 ATAAT-ATGTTTTTAAATT
1 ATAATAATATTTTAAAATT
63924272 AATACA-ATATATTCTTAAAATT
1 -ATA-ATA-ATATT-TTAAAATT
63924294 ATAATAA
1 ATAATAA
63924301 CTAGATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
18 11 0.30
19 8 0.22
20 3 0.08
21 8 0.22
22 7 0.19
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATATTTTAAAATT
Found at i:63926331 original size:16 final size:17
Alignment explanation
Indices: 63926310--63926341 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
63926300 CAACATTAGA
63926310 GAATAAAA-AGTTGGAT
1 GAATAAAATAGTTGGAT
63926326 GAATAAAATAGTTGGA
1 GAATAAAATAGTTGGA
63926342 ATGATTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (17 bp):
GAATAAAATAGTTGGAT
Found at i:63929836 original size:22 final size:22
Alignment explanation
Indices: 63929792--63929833 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63929782 CATTTCATTT
*
63929792 TTCTATTATTCTCTCTTGTTTA
1 TTCTATAATTCTCTCTTGTTTA
63929814 TTCTATAATTCTCT-TTGTTT
1 TTCTATAATTCTCTCTTGTTT
63929834 TATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (22 bp):
TTCTATAATTCTCTCTTGTTTA
Found at i:63929866 original size:19 final size:19
Alignment explanation
Indices: 63929833--63929897 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
63929823 TCTCTTTGTT
63929833 TTATAATA-A-TTTTAAAA
1 TTATAATATATTTTTAAAA
*
63929850 TTATAATATGTTTTT-AAA
1 TTATAATATATTTTTAAAA
*
63929868 TTAATACGATATATTCTTAAAA
1 TT-ATA--ATATATTTTTAAAA
63929890 TTATAATA
1 TTATAATA
63929898 ACTAGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.21
18 5 0.13
19 10 0.26
21 11 0.28
22 5 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (19 bp):
TTATAATATATTTTTAAAA
Found at i:63929868 original size:18 final size:17
Alignment explanation
Indices: 63929833--63929898 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 17
63929823 TCTCTTTGTT
63929833 TTATAATAATTTTAAAA
1 TTATAATAATTTTAAAA
* *
63929850 TTATAATATGTTTTTAAA
1 TTATAATA-ATTTTAAAA
63929868 TTAATACGATATATTCTTAAAA
1 TT-ATA--ATA-ATT-TTAAAA
63929890 TTATAATAA
1 TTATAATAA
63929899 CTAGATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.20
18 10 0.25
19 6 0.15
21 9 0.22
22 7 0.17
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATAATAATTTTAAAA
Found at i:63929968 original size:23 final size:23
Alignment explanation
Indices: 63929938--63930018 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
63929928 TGTCAACCGT
*
63929938 TAATTATAAATAAATTTATATTA
1 TAATTATAAATAAATTTATCTTA
63929961 TAATTATATTAA-ATAATTGTCATCTGT-
1 TAATTATA--AATA-AATT-T-ATCT-TA
*
63929988 TGATTATAAATAAATTTATCTTA
1 TAATTATAAATAAATTTATCTTA
63930011 TAATTATA
1 TAATTATA
63930019 TTGAATAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
22 1 0.02
23 19 0.40
24 2 0.04
25 12 0.26
26 2 0.04
27 10 0.21
28 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
TAATTATAAATAAATTTATCTTA
Found at i:63930106 original size:15 final size:17
Alignment explanation
Indices: 63930074--63930106 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63930064 ATATATTCAA
63930074 ATGAAATACAATAAACT
1 ATGAAATACAATAAACT
63930091 ATGAAAT-CAA-AAACT
1 ATGAAATACAATAAACT
63930106 A
1 A
63930107 AAATAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
ATGAAATACAATAAACT
Found at i:63933074 original size:17 final size:16
Alignment explanation
Indices: 63933054--63933115 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
63933044 CCGTATAATT
63933054 ATATAAATTATATAAAA
1 ATATAAATTATA-AAAA
*
63933071 ATATTTAATTATAAAAA
1 ATA-TAAATTATAAAAA
*
63933088 TATAAAAATTATAAAATA
1 -ATATAAATTATAAAA-A
*
63933106 ATTTAAATTA
1 ATATAAATTA
63933116 AAACATGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATTATAAAAA
Found at i:63933352 original size:24 final size:25
Alignment explanation
Indices: 63933320--63933370 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
63933310 GTGAAATTAC
* *
63933320 AAAATTAAATTATTTCCATGTTCAA
1 AAAATAAAATTATTTCCATATTCAA
* *
63933345 AAAATAAAATTCTTTCCTTATTCAA
1 AAAATAAAATTATTTCCATATTCAA
63933370 A
1 A
63933371 TGCTTAACGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAATAAAATTATTTCCATATTCAA
Found at i:63938980 original size:30 final size:30
Alignment explanation
Indices: 63938931--63939007 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 30
63938921 TATACTAAAT
*
63938931 ATAATAATAAAATAATAATAATATCTCATTAAA
1 ATAATAATAAAATAAT-AT-ATATCTAATT-AA
* *
63938964 ATACTAATAAAATAATATTTATCTAATTAA
1 ATAATAATAAAATAATATATATCTAATTAA
*
63938994 ATAATCATAAAATA
1 ATAATAATAAAATA
63939008 TTAAAATATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 14 0.36
31 8 0.21
32 2 0.05
33 15 0.38
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAATAATAAAATAATATATATCTAATTAA
Found at i:63946481 original size:9 final size:10
Alignment explanation
Indices: 63946458--63946482 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63946448 CCATAATTAT
63946458 TTTTTTATAA
1 TTTTTTATAA
63946468 TTTTTTATAA
1 TTTTTTATAA
63946478 TTTTT
1 TTTTT
63946483 CAAAGTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:63946825 original size:23 final size:22
Alignment explanation
Indices: 63946782--63946825 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
63946772 TTGTAAGTCG
63946782 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
63946805 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
63946826 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:63946935 original size:45 final size:45
Alignment explanation
Indices: 63946871--63946963 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
63946861 ACAGATACTT
* * *
63946871 GGTGGATTTAGCATATAGCAACCACCTCATTAATCAATGATGTCC
1 GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
* * *
63946916 GGTGGAATTAGCACATAGCAACCACTTTACTAATCAATGATGTTC
1 GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
63946961 GGT
1 GGT
63946964 TCACATAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (45 bp):
GGTGGAATTAGCACATAGCAACCACCTCACTAATCAATGATGTCC
Found at i:63947027 original size:51 final size:50
Alignment explanation
Indices: 63946969--63947155 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 50
63946959 TCGGTTCACA
* *
63946969 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCG-TACACG
* * * ** *
63947020 TAGTAGCCTGCACATAGTACTACACCCGTGATCGA-AACTATTCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACTA-TCCGTACACG
* * * * *
63947071 TAGTAGCCTGCACATCGTACTACACATGCGACC-TATC-ATTCCTGCACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTA-TCC-GTACACG
63947121 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
63947156 CACTTTCACT
Statistics
Matches: 109, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 4 0.04
50 36 0.33
51 64 0.59
52 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGTACACG
Found at i:63947151 original size:101 final size:102
Alignment explanation
Indices: 63946967--63947151 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
63946957 GTTCGGTTCA
* * *
63946967 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGCA
*
63947032 CATAGTACTACACCCGTGATCGAAACTATTCGGTATG
66 CATAGTACTACACACGTGATCGAAACTATTCGGTATG
*
63947069 CATAGTAGCCTGCACATCGTACTACACATGCGACCTATCA-T-TCCTG-CACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCC-GACACACGTAGTAGCCTG
63947131 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
63947152 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 38 0.50
102 35 0.46
103 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATTCGGTATG
Found at i:63952028 original size:39 final size:39
Alignment explanation
Indices: 63951963--63952057 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
63951953 ATGATTTTTC
* ** *
63951963 GAGTATTGTGACATATTCTTTAATGTTATGTGATTATAT
1 GAGTATTGTGATATATGATTTAATGTTAGGTGATTATAT
63952002 GAGTATTGTGATATATGATTGT-ATGTTAGGTGATTATAT
1 GAGTATTGTGATATATGATT-TAATGTTAGGTGATTATAT
* *
63952041 -ATGTAATATGATATATG
1 GA-GTATTGTGATATATG
63952058 CTTGATAGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.02
39 46 0.96
40 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (39 bp):
GAGTATTGTGATATATGATTTAATGTTAGGTGATTATAT
Found at i:63952627 original size:223 final size:223
Alignment explanation
Indices: 63952232--63952677 Score: 736
Period size: 223 Copynumber: 2.0 Consensus size: 223
63952222 TTAAAGCTCA
* * * *
63952232 CCTACTTCCTTCTTAAACTTTGTAGATTAGTTGTGTGCAGTATGATCTGTGTGGCTTTCTGAAGG
1 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCAGTATGATCTATGTGGCTTTCTGAAGG
63952297 GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
66 GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
* * * *
63952362 AGGCAATGTGGTAGTCTTTGTGCTAATATTTGATATGATATTTCGAGTTGTTTCCATGATTTAAT
131 AGGAAATGTGGTAGTCTTTGTGCTAATATTGGATATGATATTTCGAGTTGTCTCCATGAGTTAAT
63952427 TGTTATTAGGATTTTGAGATTTGTTTCG
196 TGTTATTAGGATTTTGAGATTTGTTTCG
*
63952455 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCTAGTGTGAGT-TATGTGGCTTTCT-AA
1 CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGC-AGTATGA-TCTATGTGGCTTTCTGAA
*
63952518 GGGGTGATCCAAGGAAGTACATTTTCGTTATTCGTAGGTGTTTATTATTTGGTTATGTTT-GGGA
64 -GGGTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGA
* *
63952582 ATAAGGAAATGTGGTAGTCTTTGTGCTAATATTGGATATGATATTTTGTGTTGTCTCCATGAGTT
128 ATAAGGAAATGTGGTAGTCTTTGTGCTAATATTGGATATGATATTTCGAGTTGTCTCCATGAGTT
63952647 AATTGTTATTAGGATTTTGAGATTTGTTTCG
193 AATTGTTATTAGGATTTTGAGATTTGTTTCG
63952678 TAACATGATG
Statistics
Matches: 208, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
223 131 0.63
224 76 0.37
225 1 0.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (223 bp):
CCTACTCCCTTCTTAAACTTTGCAGATTAATTGTGTGCAGTATGATCTATGTGGCTTTCTGAAGG
GTGATCCAAGGAAGTACATTTTCGTTATCCGTAGGTGTTTATTATTTGGTTATGTTTGGGGAATA
AGGAAATGTGGTAGTCTTTGTGCTAATATTGGATATGATATTTCGAGTTGTCTCCATGAGTTAAT
TGTTATTAGGATTTTGAGATTTGTTTCG
Found at i:63958492 original size:17 final size:17
Alignment explanation
Indices: 63958444--63958496 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
63958434 TGTCCTCAAG
63958444 CAAACTAAA-TG-AAAA
1 CAAACTAAACTGAAAAA
*
63958459 CAAAATAAAAACT-AAAAA
1 CAAACT--AAACTGAAAAA
63958477 CAAACTAAACTGAAAAA
1 CAAACTAAACTGAAAAA
63958494 CAA
1 CAA
63958497 GAAATAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 11 0.35
18 10 0.32
ACGTcount: A:0.70, C:0.15, G:0.04, T:0.11
Consensus pattern (17 bp):
CAAACTAAACTGAAAAA
Found at i:63968306 original size:16 final size:16
Alignment explanation
Indices: 63968273--63968306 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63968263 TGGCACTGTT
* *
63968273 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
63968289 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
63968305 AA
1 AA
63968307 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:63971133 original size:21 final size:21
Alignment explanation
Indices: 63971107--63971147 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63971097 AGACGAGCAA
* *
63971107 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63971128 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63971148 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:63976758 original size:19 final size:19
Alignment explanation
Indices: 63976723--63976781 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 19
63976713 TTTTAGATAA
*
63976723 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
63976741 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
63976759 TAAAAATTATTTTGAATTATT
1 TATAAA-TATTTTGAATT-TT
63976780 TA
1 TA
63976782 GTAATTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 15 0.43
19 15 0.43
20 1 0.03
21 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:63994739 original size:11 final size:11
Alignment explanation
Indices: 63994723--63994765 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
63994713 TCCACTATTG
63994723 TTTAGAATTTT
1 TTTAGAATTTT
63994734 TTTAGAATTTT
1 TTTAGAATTTT
63994745 TTT-GAATATTT
1 TTTAGAAT-TTT
*
63994756 TGTAG-ATTTT
1 TTTAGAATTTT
63994766 AAATTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.24
11 21 0.72
12 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (11 bp):
TTTAGAATTTT
Found at i:63995142 original size:19 final size:18
Alignment explanation
Indices: 63995098--63995139 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
63995088 TCAAAAAATA
* *
63995098 ATTTTTAAAAATTATATT
1 ATTTTTAAAAATGATAAT
*
63995116 ATTTTTAAAAATGCTAAT
1 ATTTTTAAAAATGATAAT
63995134 ATTTTT
1 ATTTTT
63995140 TAATATTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAAATGATAAT
Found at i:63995619 original size:19 final size:20
Alignment explanation
Indices: 63995578--63995643 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 20
63995568 TATTTTTCAA
* *
63995578 TAAAATATTAAAAATATCATT
1 TAAAATATTAAAATTAT-TTT
63995599 TAAAAT-TTAAAATTATTTT
1 TAAAATATTAAAATTATTTT
* *
63995618 T--AATGTTAAAATTTATTAT
1 TAAAATATTAAAA-TTATTTT
63995637 TAAAATA
1 TAAAATA
63995644 AAATTGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 10 0.27
20 9 0.24
21 9 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATATTAAAATTATTTT
Found at i:63995645 original size:18 final size:19
Alignment explanation
Indices: 63995624--63995659 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
63995614 TTTTTAATGT
*
63995624 TAAAATT-TATTATTAAAA
1 TAAAATTGTAATATTAAAA
63995642 TAAAATTGTAATATTAAA
1 TAAAATTGTAATATTAAA
63995660 TAATTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATTGTAATATTAAAA
Found at i:64008826 original size:38 final size:40
Alignment explanation
Indices: 64008783--64008862 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 40
64008773 CAAAAATTAA
64008783 AAAATT-AAAATAATTT-TAAAAAGTT-CAAAA-TATTTTTT
1 AAAATTAAAAAT-ATTTATAAAAA-TTCCAAAATTATTTTTT
64008821 AAAATTAAAAATATTTATAAAAATTCCAAAATTTATTTTTT
1 AAAATTAAAAATATTTATAAAAATTCCAAAA-TTATTTTTT
64008862 A
1 A
64008863 GAAAATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
38 12 0.32
39 16 0.43
41 9 0.24
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (40 bp):
AAAATTAAAAATATTTATAAAAATTCCAAAATTATTTTTT
Found at i:64008844 original size:19 final size:17
Alignment explanation
Indices: 64008782--64008845 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 17
64008772 ACAAAAATTA
64008782 AAAAATTAAAATAATTTT
1 AAAAATTAAAAT-ATTTT
64008800 AAAAAGTTCAAAATATTTTT
1 AAAAA-TT-AAAATA-TTTT
*
64008820 TAAAATTAAAAATATTTAT
1 AAAAATT-AAAATATTT-T
64008839 AAAAATT
1 AAAAATT
64008846 CCAAAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.21
19 18 0.46
20 13 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAATATTTT
Found at i:64011295 original size:17 final size:17
Alignment explanation
Indices: 64011275--64011314 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
64011265 AGAAGAGAAA
*
64011275 GAAAAGAGAGAGCGAAG
1 GAAAAGAGAAAGCGAAG
*
64011292 GAAAAGAGAAAGGGAAG
1 GAAAAGAGAAAGCGAAG
*
64011309 AAAAAG
1 GAAAAG
64011315 GGATTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.03, G:0.38, T:0.00
Consensus pattern (17 bp):
GAAAAGAGAAAGCGAAG
Found at i:64011507 original size:21 final size:21
Alignment explanation
Indices: 64011480--64011531 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
64011470 GTTATAAATG
64011480 TTATTTTTTATGTTATTTTAT
1 TTATTTTTTATGTTATTTTAT
* ** * *
64011501 TTGTTTTAGATTTTATTTTTT
1 TTATTTTTTATGTTATTTTAT
64011522 TTATTTTTTA
1 TTATTTTTTA
64011532 AGGTATTATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (21 bp):
TTATTTTTTATGTTATTTTAT
Found at i:64011515 original size:16 final size:16
Alignment explanation
Indices: 64011494--64011524 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64011484 TTTTTATGTT
64011494 ATTTTATTTGTTTTAG
1 ATTTTATTTGTTTTAG
*
64011510 ATTTTATTTTTTTTA
1 ATTTTATTTGTTTTA
64011525 TTTTTTAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
ATTTTATTTGTTTTAG
Found at i:64011530 original size:16 final size:16
Alignment explanation
Indices: 64011480--64011531 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
64011470 GTTATAAATG
* *
64011480 TTATTTTTTATGTTATT
1 TTATTTTTTTTATT-TT
* **
64011497 TTATTTGTTTTAGATT
1 TTATTTTTTTTATTTT
64011513 TTATTTTTTTTATTTT
1 TTATTTTTTTTATTTT
64011529 TTA
1 TTA
64011532 AGGTATTATT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TTATTTTTTTTATTTT
Found at i:64014107 original size:38 final size:38
Alignment explanation
Indices: 64014019--64014099 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
64014009 ACCATCTTAT
*
64014019 TACTCCACTCCTCCCAGCCCAGCCTGTATCCACCGCAG
1 TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
** *
64014057 TACTCCACTCCTCCTGGCCCGGCCTATATCCACCGCAG
1 TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
64014095 TACTC
1 TACTC
64014100 TTCTCCTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.17, C:0.48, G:0.14, T:0.21
Consensus pattern (38 bp):
TACTCCACTCCTCCCAGCCCAGCCTATATCCACCGCAG
Found at i:64014478 original size:48 final size:48
Alignment explanation
Indices: 64014344--64014511 Score: 177
Period size: 48 Copynumber: 3.5 Consensus size: 48
64014334 ATGCAAAAAT
* *
64014344 ACAAACTTTGTAATTTTAATTAGATTAATTGCAAC----AAACTCTAG-
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACT-TGGA
* *
64014388 ACAAACTTTGT-ATTTAATTAATTGAGATTCATCGCAACATTAAAACTTGGA
1 ACAAACTTTGTAATTT-A--AATT-AGATTAATTGCAACATTAAAACTTGGA
* **
64014439 ATAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACGAGGA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
*
64014487 ACAAACTTTGTAATATAAATTAGAT
1 ACAAACTTTGTAATTTAAATTAGAT
64014512 ACATTGGAGT
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.04
44 11 0.11
46 4 0.04
47 12 0.12
48 46 0.45
49 4 0.04
50 2 0.02
51 16 0.16
52 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (48 bp):
ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAACTTGGA
Found at i:64018372 original size:109 final size:109
Alignment explanation
Indices: 64018130--64018359 Score: 312
Period size: 109 Copynumber: 2.1 Consensus size: 109
64018120 AGTTACTAAC
* * *
64018130 AAAATAAATTTAAAAAATAATAAAAGATTACATTCATAACCTAACAAATCACAATGAACATTAAA
1 AAAATAAA-TTAAAAAATAAAAAAAAATTACATTCATAACCTAACAAATCACAATAAACATTAAA
*
64018195 CTAAACAAACAATTAACCTAATCACAAAATTAGTAACAAAATAACTTT
65 CTAAACAAACAATT-A--TAATCACAAAATTACTAACAAAATAACTTT
*
64018243 AAAAT-AATTTAAAAAT--AAAAAAATTACATTCATAACCTAACAAATCACAATAAACATTAAAC
1 AAAATAAATTAAAAAATAAAAAAAAATTACATTCATAACCTAACAAATCACAATAAACATTAAAC
* *
64018305 TAAACAAACAATT-T-AT-A-ATAGTTACTAACAAAATAACTTT
66 TAAACAAACAATTATAATCACAAAATTACTAACAAAATAACTTT
64018345 AAAATAAATTAAAAA
1 AAAATAAATTAAAAA
64018360 CAACATAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
102 25 0.23
103 9 0.08
104 2 0.02
105 1 0.01
109 56 0.52
111 8 0.07
112 2 0.02
113 5 0.05
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (109 bp):
AAAATAAATTAAAAAATAAAAAAAAATTACATTCATAACCTAACAAATCACAATAAACATTAAAC
TAAACAAACAATTATAATCACAAAATTACTAACAAAATAACTTT
Found at i:64027906 original size:107 final size:107
Alignment explanation
Indices: 64027720--64027939 Score: 404
Period size: 107 Copynumber: 2.1 Consensus size: 107
64027710 TCGATTTAGA
* * *
64027720 TGAATTAATCATGGAAAAGGAACTCAACTATGTTGAGGACCTATTGGAACAAATTTTGACATCAG
1 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
*
64027785 ACCCTCCAAGTGATGAAAAGGATTTAATCTGCAATCCTGCTT
66 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
64027827 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
1 TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
64027892 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
66 ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
64027934 TGAATC
1 TGAATC
64027940 TTTGGAGTTA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (107 bp):
TGAATCAATCATGGAAAAGGAACTCAACTATGTTGAGAACCCATTGGAACAAATTTTGACATCAG
ACCCTCCAAGTGATGAAAAGGATTTAATCCGCAATCCTGCTT
Found at i:64034875 original size:77 final size:77
Alignment explanation
Indices: 64034743--64034887 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 77
64034733 AAATTTTTAA
* * ** **
64034743 TATTTTTGACAGATTTGCACAAAGGGCGAAAAACGGCTCAGTAGACACTGCTAGAAGTGCAAAAT
1 TATTTTCGACAGATTTGCACAAAGGGCGAAAAAAGGCTCACAAGACACTGCTAGAAGCACAAAAT
64034808 CGAGAATTTGAT
66 CGAGAATTTGAT
** *
64034820 TATTTTCGACAGATTTGCACAAAGGGC-AAAAAGAGGCTCGACAAG-CTTTGTTAGAAGCACAAA
1 TATTTTCGACAGATTTGCACAAAGGGCGAAAAA-AGGCTC-ACAAGACACTGCTAGAAGCACAAA
64034883 ATCGA
64 ATCGA
64034888 AAAGTAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
76 5 0.09
77 49 0.86
78 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (77 bp):
TATTTTCGACAGATTTGCACAAAGGGCGAAAAAAGGCTCACAAGACACTGCTAGAAGCACAAAAT
CGAGAATTTGAT
Found at i:64040274 original size:104 final size:104
Alignment explanation
Indices: 64040094--64040777 Score: 1237
Period size: 104 Copynumber: 6.6 Consensus size: 104
64040084 TAACCGTTAT
* * ** *
64040094 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040159 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64040198 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040263 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64040302 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040367 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64040406 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040471 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
64040510 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040575 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
64040614 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
64040679 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
64040719 TGGTGGATCA-CGCACAT-AGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCAC-TCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
64040778 TTATATACAA
Statistics
Matches: 568, Mismatches: 9, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
104 496 0.87
105 70 0.12
106 2 0.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTCAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:64041147 original size:30 final size:30
Alignment explanation
Indices: 64041113--64041170 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
64041103 CCACCCAACT
64041113 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
*** * *
64041143 TTTTGCGTAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
64041171 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:64052623 original size:17 final size:16
Alignment explanation
Indices: 64052596--64052655 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
64052586 AAAAGTTACA
64052596 AAATAAAAAATATAAT
1 AAATAAAAAATATAAT
* *
64052612 AATTATAAAAATATTAT
1 AAATA-AAAAATATAAT
* *
64052629 AAATAAAAAATAAAAA
1 AAATAAAAAATATAAT
*
64052645 AAATAGAAAAT
1 AAATAAAAAAT
64052656 TACAAAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 22 0.61
17 14 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAATAAAAAATATAAT
Found at i:64052639 original size:40 final size:40
Alignment explanation
Indices: 64052595--64052670 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
64052585 GAAAAGTTAC
* * *
64052595 AAAATAAAAAATATA-ATAATTATAAAAATATTATAAATAA
1 AAAATAAAAAAAATAGAAAATTACAAAAATA-TATAAATAA
64052635 AAAATAAAAAAAATAGAAAATTACAAAAATATATAA
1 AAAATAAAAAAAATAGAAAATTACAAAAATATATAA
64052671 TTATTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (40 bp):
AAAATAAAAAAAATAGAAAATTACAAAAATATATAAATAA
Found at i:64052648 original size:16 final size:16
Alignment explanation
Indices: 64052595--64052665 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
64052585 GAAAAGTTAC
*
64052595 AAAATAAAAAATATAA
1 AAAATAAAAAATAAAA
* * **
64052611 TAATTATAAAAATATTA
1 AAAATA-AAAAATAAAA
*
64052628 TAAATAAAAAATAAAA
1 AAAATAAAAAATAAAA
* * *
64052644 AAAATAGAAAATTACA
1 AAAATAAAAAATAAAA
64052660 AAAATA
1 AAAATA
64052666 TATAATTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
16 30 0.68
17 14 0.32
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (16 bp):
AAAATAAAAAATAAAA
Found at i:64052730 original size:21 final size:21
Alignment explanation
Indices: 64052669--64052730 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
64052659 AAAAATATAT
*
64052669 AATTATTATAATTTTTAAAAATAA
1 AATTATTA-AATTATT--AAATAA
* **
64052693 AATTA-CAAAAAATTAAATAA
1 AATTATTAAATTATTAAATAA
64052713 AATTATTAAATTATTAAA
1 AATTATTAAATTATTAAA
64052731 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 11 0.37
21 9 0.30
22 4 0.13
23 1 0.03
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTATTAAATTATTAAATAA
Found at i:64053175 original size:28 final size:26
Alignment explanation
Indices: 64053126--64053207 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 26
64053116 CTTAATGTAA
* *
64053126 TTTTTATTATGTTATATTATTTTTTTAT
1 TTTTTATTAT-TTA-AATATTTTTTTAG
64053154 TTTTTATTACTTTAAATAATTTTTTATAG
1 TTTTTATTA-TTTAAAT-ATTTTTT-TAG
* *
64053183 TTTTTAATAATTTTAATATTTTTTT
1 TTTTT-ATTATTTAAATATTTTTTT
64053208 CCTAGGAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.07
28 26 0.57
29 14 0.30
30 3 0.07
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTTATTATTTAAATATTTTTTTAG
Found at i:64053178 original size:29 final size:28
Alignment explanation
Indices: 64053145--64053207 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
64053135 TGTTATATTA
* * *
64053145 TTTTTTTATTTTTTATTACTTTAAATAAT
1 TTTTTTTAGTTTTTAATAATTTAAAT-AT
* *
64053174 TTTTTATAGTTTTTAATAATTTTAATAT
1 TTTTTTTAGTTTTTAATAATTTAAATAT
64053202 TTTTTT
1 TTTTTT
64053208 CCTAGGAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTTTTAGTTTTTAATAATTTAAATAT
Found at i:64054361 original size:45 final size:44
Alignment explanation
Indices: 64054297--64054385 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 44
64054287 TGTAATCAAT
64054297 CAACATAAAGCATCAAAATGTAAGCTCTAGGGGGGGGGGGGGGAA
1 CAACATAAAGCATCAAAATGTAAGCTCT-GGGGGGGGGGGGGGAA
64054342 CAACATAAAGCATCAAAATGTAAGCTCTGGGGGGGGGGGGGGAA
1 CAACATAAAGCATCAAAATGTAAGCTCTGGGGGGGGGGGGGGAA
64054386 TCACAACAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 16 0.36
45 28 0.64
ACGTcount: A:0.35, C:0.13, G:0.38, T:0.13
Consensus pattern (44 bp):
CAACATAAAGCATCAAAATGTAAGCTCTGGGGGGGGGGGGGGAA
Found at i:64056239 original size:2 final size:2
Alignment explanation
Indices: 64056232--64056263 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64056222 TTCAGAGTTT
64056232 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64056264 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:64057565 original size:24 final size:24
Alignment explanation
Indices: 64057502--64057553 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
64057492 TTTCTTGAAG
* * *
64057502 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
64057526 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
64057550 ATTT
1 ATTT
64057554 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:64061878 original size:24 final size:24
Alignment explanation
Indices: 64061844--64061895 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
64061834 TTTCTAGAAA
* *
64061844 ATTTAGTATTTA-TGAGTATAATAT
1 ATTTAGCATTTAGT-AGCATAATAT
64061868 ATTTAGCATTTAGTAGCATAATAT
1 ATTTAGCATTTAGTAGCATAATAT
64061892 ATTT
1 ATTT
64061896 GACTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTAGTAGCATAATAT
Found at i:64078527 original size:7 final size:7
Alignment explanation
Indices: 64078515--64078543 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
64078505 AAGCATAAGA
64078515 TATTTAT
1 TATTTAT
64078522 TATTTAT
1 TATTTAT
64078529 TATTTAT
1 TATTTAT
64078536 TA-TTAT
1 TATTTAT
64078542 TA
1 TA
64078544 AATTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:64079303 original size:22 final size:24
Alignment explanation
Indices: 64079278--64079322 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
64079268 ATATGGCAAA
64079278 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
64079300 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
64079323 AACTTAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:64083371 original size:13 final size:13
Alignment explanation
Indices: 64083353--64083377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64083343 TTTTATATTT
64083353 ATAATTTTTTTTA
1 ATAATTTTTTTTA
64083366 ATAATTTTTTTT
1 ATAATTTTTTTT
64083378 CAAAAAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATAATTTTTTTTA
Found at i:64088890 original size:129 final size:128
Alignment explanation
Indices: 64088705--64088969 Score: 397
Period size: 130 Copynumber: 2.1 Consensus size: 128
64088695 TTCTTATTGA
* *
64088705 TTGATTTAGCTGTTCTTAGTTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTC-AATT
1 TTGATTTTGCTGTTCTTAGCTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAATT
* *
64088769 AAAATGGGTTTGTTTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
66 AAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
* * *
64088832 TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGTTCAAA
1 TTGATTTTGCTGTTCTTAGCTCTTT--AAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAA
* * * * *
64088897 TTTAAATGGGTTTGTCTGTTTTTACTTTTTTTGTACTGTTTGATTCTTATTGATTGCTCATTTTT
64 TTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
64088962 TTGATTTT
1 TTGATTTT
64088970 ACTATTTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 23 0.19
129 32 0.26
130 68 0.55
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (128 bp):
TTGATTTTGCTGTTCTTAGCTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAATT
AAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
Found at i:64092569 original size:49 final size:49
Alignment explanation
Indices: 64092509--64092643 Score: 234
Period size: 49 Copynumber: 2.8 Consensus size: 49
64092499 GATAATAACA
* *
64092509 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
64092558 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
* *
64092607 TACCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGA
64092644 GTTCTCATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (49 bp):
TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
Found at i:64092683 original size:50 final size:50
Alignment explanation
Indices: 64092509--64092854 Score: 288
Period size: 50 Copynumber: 6.8 Consensus size: 50
64092499 GATAATAACA
* * * ** * * *
64092509 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * * *
64092558 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
64092607 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
64092657 TTCCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
64092707 TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
64092757 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* * *
64092813 TGCCAATGCCATGTCTCAGACATAGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
64092855 TTACCCAAAT
Statistics
Matches: 257, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.00
49 88 0.34
50 123 0.48
51 1 0.00
53 5 0.02
56 39 0.15
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:64096879 original size:26 final size:26
Alignment explanation
Indices: 64096843--64096893 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
64096833 CTCAAGCATA
64096843 CTTGCAGAGTCTGACAAATTCACGTG
1 CTTGCAGAGTCTGACAAATTCACGTG
*
64096869 CTTGTAGAGTCTGACAAATTCACGT
1 CTTGCAGAGTCTGACAAATTCACGT
64096894 TCATACTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
CTTGCAGAGTCTGACAAATTCACGTG
Found at i:64098958 original size:40 final size:40
Alignment explanation
Indices: 64098940--64099253 Score: 438
Period size: 40 Copynumber: 7.8 Consensus size: 40
64098930 AGGTGACCAT
64098940 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
*
64098980 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
** *
64099020 ATCCGGGTTAAGTTCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
64099060 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
64099100 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
** *
64099140 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAA
** * *
64099180 ATCCGGGTTAAG-TCCCGAAGGCAATTGTGCGAGTTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-A
* * *
64099221 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGT
64099254 AGCTATATCC
Statistics
Matches: 255, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 252 0.99
41 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
Found at i:64099114 original size:120 final size:120
Alignment explanation
Indices: 64098901--64099269 Score: 498
Period size: 120 Copynumber: 3.1 Consensus size: 120
64098891 TTGAATGATG
* * * * * *
64098901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
64098965 TGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
65 TGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
*
64099021 TCCGGGTTAAGTTCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
64099086 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
* ** *
64099141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
* * * * *
64099205 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATA
65 TGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTA-CTAAA
64099261 TCC-GGTTAA
1 TCCGGGTTAA
64099270 ATTTCGAAGG
Statistics
Matches: 226, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
119 10 0.04
120 207 0.92
121 9 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:64099260 original size:40 final size:39
Alignment explanation
Indices: 64098901--64099253 Score: 431
Period size: 40 Copynumber: 8.8 Consensus size: 39
64098891 TTGAATGATG
* * * * *
64098901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGA-GTTACTAAA
*
64098941 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
* *
64098981 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
*
64099021 TCCGGGTTAAGTTCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
*
64099061 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
*
64099101 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
* *
64099141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACTAAA
* * *
64099181 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACTA-AA
* *
64099222 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGT
64099254 AGCTATATCC
Statistics
Matches: 286, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.00
40 275 0.96
41 10 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:64106543 original size:40 final size:39
Alignment explanation
Indices: 64106459--64106643 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
64106449 TTGAATGATG
* * * *
64106459 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64106499 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
64106539 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64106578 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
64106619 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
64106644 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64106595 original size:79 final size:81
Alignment explanation
Indices: 64106459--64106643 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
64106449 TTGAATGATG
* *
64106459 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
64106523 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
64106538 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
64106600 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
64106618 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64106644 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:64106665 original size:79 final size:79
Alignment explanation
Indices: 64106512--64106676 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
64106502 GGACTAAGAT
* * **
64106512 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
64106577 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
64106591 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
64106654 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
64106670 CCGAAGG
1 CCGAAGG
64106677 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:64117846 original size:40 final size:40
Alignment explanation
Indices: 64117802--64118071 Score: 441
Period size: 40 Copynumber: 6.7 Consensus size: 40
64117792 GCAAACACAT
* * *
64117802 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64117842 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
64117882 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCACGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64117922 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64117962 TTGCCTTCGGGTCATAGCCCGGATATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCATAA
64118004 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64118044 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
64118072 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 177 0.82
42 38 0.18
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:64118870 original size:127 final size:127
Alignment explanation
Indices: 64118644--64118896 Score: 497
Period size: 127 Copynumber: 2.0 Consensus size: 127
64118634 TCACTTGCCA
*
64118644 TTAATTTTCCCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTAGGTTTG
1 TTAATTTTCCCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTAGGCTTG
64118709 GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTGTTTGACTATTCTGACCG
66 GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTGTTTGACTATTCTGACCG
64118771 TTAATTTTCCCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTAGGCTTG
1 TTAATTTTCCCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTAGGCTTG
64118836 GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTGTTTGACTATTCTGACC
66 GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTGTTTGACTATTCTGACC
64118897 ACTCTTCACT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (127 bp):
TTAATTTTCCCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTAGGCTTG
GCCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTGTTTGACTATTCTGACCG
Found at i:64125507 original size:4 final size:4
Alignment explanation
Indices: 64125498--64125523 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
64125488 AAATAATAGG
64125498 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
64125524 AATAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:64135073 original size:81 final size:81
Alignment explanation
Indices: 64134966--64135194 Score: 334
Period size: 81 Copynumber: 2.8 Consensus size: 81
64134956 GGTATAACAG
* * * * * *
64134966 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTTATTTTGGTCATTTTTCCC
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCC
* *
64135031 TATAGGGG-TATTTCGA
66 T-GAGGGGATAATTCGA
* *
64135047 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTATCCTGTGGGGGTAATTCGGTCATTTTACCC
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCC
64135112 TGAGGGGATAATTCGA
66 TGAGGGGATAATTCGA
* *
64135128 TCATTTTACCCTGTGGGGGTAATTCAGTCATTTTACCTTATGGGGGTAATTCGGTCATTTTACCC
1 TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCC
64135193 TG
66 TG
64135195 TAAGAGTAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
80 5 0.04
81 128 0.96
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (81 bp):
TCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTACCC
TGAGGGGATAATTCGA
Found at i:64135203 original size:27 final size:27
Alignment explanation
Indices: 64134965--64135214 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
64134955 GGGTATAACA
* *
64134965 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
* * * *
64134992 GTCATTTTACCCTATGGGGTTATTTTG
1 GTCATTTTACCCTGTGGGGGTAATTCG
* * * *
64135019 GTCATTTTTCCCTATAGGGGTATTTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
*
64135046 ATCATTTTACCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
*
64135073 GTCATTTTATCCTGTGGGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
* *
64135100 GTCATTTTACCCTGAGGGGATAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
* *
64135127 ATCATTTTACCCTGTGGGGGTAATTCA
1 GTCATTTTACCCTGTGGGGGTAATTCG
* *
64135154 GTCATTTTACCTTATGGGGGTAATTCG
1 GTCATTTTACCCTGTGGGGGTAATTCG
** * *
64135181 GTCATTTTACCCTGTAAGAGTAATTCA
1 GTCATTTTACCCTGTGGGGGTAATTCG
64135208 GTCATTT
1 GTCATTT
64135215 ATCAACCTCT
Statistics
Matches: 193, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTGTGGGGGTAATTCG
Found at i:64140163 original size:18 final size:20
Alignment explanation
Indices: 64140135--64140171 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
64140125 TGAAAATTGG
64140135 TAAATAATATTTTT-GAAAA
1 TAAATAATATTTTTAGAAAA
64140154 TAAA-AATATTTTTAGAAA
1 TAAATAATATTTTTAGAAA
64140172 CATTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAATAATATTTTTAGAAAA
Found at i:64154282 original size:6 final size:6
Alignment explanation
Indices: 64154247--64154288 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
64154237 TTAAAATAAA
*
64154247 TAAAAT TAAAGAT TAAAGAT TAAAAC TAAAAT TAAAAT TAAA
1 TAAAAT TAAA-AT TAAA-AT TAAAAT TAAAAT TAAAAT TAAA
64154289 TCAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:64166624 original size:29 final size:29
Alignment explanation
Indices: 64166582--64166637 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
64166572 TTTGCCAAGA
64166582 TTTATGCATGAATTGGGTGCGATTTTAAG
1 TTTATGCATGAATTGGGTGCGATTTTAAG
*
64166611 TTTATGCATGAATTGGGTGTGATTTTA
1 TTTATGCATGAATTGGGTGCGATTTTA
64166638 TGATCATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.45
Consensus pattern (29 bp):
TTTATGCATGAATTGGGTGCGATTTTAAG
Found at i:64199059 original size:15 final size:15
Alignment explanation
Indices: 64199014--64199080 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
64199004 TCACTCAATT
*
64199014 TTTCTTTTTCA-TCTT
1 TTTC-TTTTCATTCTC
*
64199029 TTTCTTTTC-TT-GC
1 TTTCTTTTCATTCTC
64199042 TTTCTTTTCATTCTC
1 TTTCTTTTCATTCTC
* * *
64199057 TTTTTTTTGAATTTTC
1 TTTCTTTT-CATTCTC
64199073 TTTCTTTT
1 TTTCTTTT
64199081 TTTCATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
13 9 0.22
14 8 0.20
15 12 0.29
16 12 0.29
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTCTTTTCATTCTC
Found at i:64199082 original size:19 final size:20
Alignment explanation
Indices: 64199028--64199100 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 20
64199018 TTTTTCATCT
**
64199028 TTTTCTTTTCTTGCTTTC--
1 TTTTCTTTTCTTTTTTTCAA
* *
64199046 TTTTCATTCTCTTTTTTTTGAA
1 TTTTC-TTTTC-TTTTTTTCAA
*
64199068 TTTTC-TTTCTTTTTTTCAT
1 TTTTCTTTTCTTTTTTTCAA
64199087 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
64199101 GTATTTTCGC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 5 0.12
19 17 0.40
20 16 0.37
22 5 0.12
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTCAA
Found at i:64199094 original size:35 final size:36
Alignment explanation
Indices: 64199033--64199108 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
64199023 CATCTTTTTC
64199033 TTTTCTTGCTTTCTTTTCATTCTCTTTT-TTTTGAA
1 TTTTCTTGCTTTCTTTTCATTCTCTTTTCTTTTGAA
* * *
64199068 TTTTCTTTCTTT-TTTTCATTTTTCTTTTCTTTTGTA
1 TTTTCTTGCTTTCTTTTCA-TTCTCTTTTCTTTTGAA
64199104 TTTTC
1 TTTTC
64199109 GCTCTTTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 6 0.17
35 19 0.53
36 11 0.31
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.74
Consensus pattern (36 bp):
TTTTCTTGCTTTCTTTTCATTCTCTTTTCTTTTGAA
Found at i:64199096 original size:20 final size:19
Alignment explanation
Indices: 64199013--64199100 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 19
64199003 TTCACTCAAT
*
64199013 TTTTCTTTTTCATCTTTTTC
1 TTTTCTTTTT-TTCTTTTTC
**
64199033 TTTTCTTGCTTTC-TTTTC
1 TTTTCTTTTTTTCTTTTTC
*
64199051 ATTCTCTTTTTTT-TGAATTTTC
1 -TTTTCTTTTTTTCT---TTTTC
64199073 -TTTCTTTTTTTCATTTTTC
1 TTTTCTTTTTTTC-TTTTTC
64199092 TTTTCTTTT
1 TTTTCTTTT
64199101 GTATTTTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
18 5 0.09
19 16 0.30
20 26 0.49
22 6 0.11
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTTTTCTTTTTC
Found at i:64199115 original size:36 final size:34
Alignment explanation
Indices: 64199041--64199116 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 34
64199031 TCTTTTCTTG
**
64199041 CTTTCTTTTCATTCTCTTTTTTTTGAATTTTCTTT
1 CTTT-TTTTCATTCTCTTTTTTTTGAATTTTCGCT
* *
64199076 CTTTTTTTCATTTTTCTTTTCTTTTGTATTTTCGCT
1 CTTTTTTTCA-TTCTCTTTT-TTTTGAATTTTCGCT
64199112 CTTTT
1 CTTTT
64199117 CTTTTTCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 6 0.17
35 12 0.34
36 17 0.49
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.72
Consensus pattern (34 bp):
CTTTTTTTCATTCTCTTTTTTTTGAATTTTCGCT
Found at i:64202368 original size:34 final size:34
Alignment explanation
Indices: 64202325--64202397 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
64202315 TTGTGCATGC
*
64202325 ACCTAGCTTAAATGCTTCCATCCACATTTGGCCA
1 ACCTAGCTTAAATGCTTCCATCCACATTCGGCCA
64202359 ACCTAGCTTAAATGCTTCCATCCACATTCGGCCA
1 ACCTAGCTTAAATGCTTCCATCCACATTCGGCCA
64202393 ACCTA
1 ACCTA
64202398 CACAACATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.27, C:0.34, G:0.11, T:0.27
Consensus pattern (34 bp):
ACCTAGCTTAAATGCTTCCATCCACATTCGGCCA
Found at i:64205094 original size:23 final size:22
Alignment explanation
Indices: 64205060--64205102 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
64205050 CTAACGGAAG
*
64205060 GGAAAGGATGTGGACATATCGA
1 GGAAAGGATGTGAACATATCGA
64205082 GGAAAGAGATGTGAACATATC
1 GGAAAG-GATGTGAACATATC
64205103 AAACAGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.09, G:0.33, T:0.19
Consensus pattern (22 bp):
GGAAAGGATGTGAACATATCGA
Found at i:64210011 original size:22 final size:22
Alignment explanation
Indices: 64209985--64210031 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
64209975 AAATTATATG
64209985 TTTTAATTCATAATATAA-TTAA
1 TTTTAATTCAT-ATATAATTTAA
* *
64210007 TTTTAATTTATATCTAATTTAA
1 TTTTAATTCATATATAATTTAA
64210029 TTT
1 TTT
64210032 GGTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAATTCATATATAATTTAA
Found at i:64213771 original size:19 final size:18
Alignment explanation
Indices: 64213746--64213785 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
64213736 AAATTTATCT
64213746 TTCCTGCTGACTTTGTGA
1 TTCCTGCTGACTTTGTGA
64213764 TNTCCTGCTGACTTTGTGA
1 T-TCCTGCTGACTTTGTGA
64213783 TTC
1 TTC
64213786 TAGACTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.45
Consensus pattern (18 bp):
TTCCTGCTGACTTTGTGA
Found at i:64218114 original size:25 final size:24
Alignment explanation
Indices: 64218054--64218119 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
64218044 CTCCTAAATT
*
64218054 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTAT-TAATTTTTCAA
* *
64218079 TTTATTGAATTATTAATATTTT-ATA
1 TTAATTAAATTATTAAT-TTTTCA-A
*
64218104 TTAATTAAATTTTTAA
1 TTAATTAAATTATTAA
64218120 GAAAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAATTAAATTATTAATTTTTCAA
Found at i:64223855 original size:16 final size:16
Alignment explanation
Indices: 64223813--64223858 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
64223803 TAGATGTGAC
64223813 ACTATAGACTT-TG-AA
1 ACTATAGA-TTGTGAAA
*
64223828 ATTATAGAATTGTGAAA
1 ACTATAG-ATTGTGAAA
64223845 ACTATAGATTGTGA
1 ACTATAGATTGTGA
64223859 GACTATAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 8 0.31
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (16 bp):
ACTATAGATTGTGAAA
Found at i:64223865 original size:15 final size:15
Alignment explanation
Indices: 64223803--64223865 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
64223793 AAGTGTTCTT
*
64223803 TAGA-TGTGACACTA
1 TAGATTGTGAAACTA
*
64223817 TAGACTT-TGAAATTA
1 TAGA-TTGTGAAACTA
64223832 TAGAATTGTGAAAACTA
1 TAG-ATTGTG-AAACTA
*
64223849 TAGATTGTGAGACTA
1 TAGATTGTGAAACTA
64223864 TA
1 TA
64223866 AGAAACTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.10
15 18 0.45
16 10 0.25
17 8 0.20
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (15 bp):
TAGATTGTGAAACTA
Found at i:64231080 original size:22 final size:21
Alignment explanation
Indices: 64231052--64231099 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
64231042 AGGAGGAAGC
*
64231052 TATGTGGCAGTTTAACTGCAAT
1 TATGTGGCAG-TTAACGGCAAT
* *
64231074 TATGTGGCCGTTATCGGCAAT
1 TATGTGGCAGTTAACGGCAAT
64231095 TATGT
1 TATGT
64231100 AGTGGTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (21 bp):
TATGTGGCAGTTAACGGCAAT
Found at i:64234153 original size:79 final size:82
Alignment explanation
Indices: 64234042--64234226 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
64234032 GCTACTCGTT
* * *
64234042 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64234105 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
64234122 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64234185 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64234202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64234227 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64234226 original size:40 final size:40
Alignment explanation
Indices: 64234023--64234226 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64234013 CGGAATTTAA
** *
64234023 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
64234063 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64234103 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64234142 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64234182 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64234222 CCGGA
1 CCGGA
64234227 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64241397 original size:50 final size:50
Alignment explanation
Indices: 64241302--64241488 Score: 151
Period size: 50 Copynumber: 3.8 Consensus size: 50
64241292 TATTGAGACT
* * * * *
64241302 ATGAGAGGTCCCATGTAAGACCGTGTCTGGGACATGGCGTTGGCACTGAG
1 ATGACAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACTGAG
* * *
64241352 ATGACAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGACAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACTGAG
* ** * * * * * * * *
64241402 ATGAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCAGT-AC
1 ATGACAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACTGAG
* * ** *
64241451 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGACAGGTCCCACGTAAGACCATGTCTGGGACATGGC
64241489 TTTGGCATGT
Statistics
Matches: 108, Mismatches: 29, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
49 31 0.29
50 77 0.71
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGACAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACTGAG
Found at i:64241406 original size:100 final size:99
Alignment explanation
Indices: 64241301--64241488 Score: 223
Period size: 100 Copynumber: 1.9 Consensus size: 99
64241291 TTATTGAGAC
** * * * * * * * ** *
64241301 TATGAGAGGTCCCATGTAAGACCGTGTCTGGGACATGGCGTTGGCACTGAGATGACAGGTCCCCC
1 TATGAGAACTCCCATGTAAGACCATATATGGGACATGGCATTGGCACT-ACAGGAAACATCCCAC
64241366 GTAAGACCATGTCTGGGACATGGCATGGGCACCGA
65 GTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* * * *
64241401 TATGAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCAGTACAGGAAACATCCCATG
1 TATGAGAACTCCCATGTAAGACCATATATGGGACATGGCATTGGCACTACAGGAAACATCCCACG
64241466 TAAGACCATGTCTGGGACATGGC
66 TAAGACCATGTCTGGGACATGGC
64241489 TTTGGCATGT
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
99 33 0.46
100 39 0.54
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (99 bp):
TATGAGAACTCCCATGTAAGACCATATATGGGACATGGCATTGGCACTACAGGAAACATCCCACG
TAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:64242629 original size:24 final size:24
Alignment explanation
Indices: 64242602--64242650 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
64242592 TATATATGAG
*
64242602 TCTAATTTTAGAGAAATTTAGGGA
1 TCTAATTTTAGAGAAATTTAAGGA
*
64242626 TCTAATTTTAGGGAAATTTAAGGA
1 TCTAATTTTAGAGAAATTTAAGGA
64242650 T
1 T
64242651 AGCTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (24 bp):
TCTAATTTTAGAGAAATTTAAGGA
Found at i:64248740 original size:16 final size:15
Alignment explanation
Indices: 64248707--64248748 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
64248697 AGATGATAAT
64248707 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
64248723 TATTTATTATAATATA
1 TATTAATTATAAT-TA
64248739 TATTAATTAT
1 TATTAATTAT
64248749 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:64248750 original size:19 final size:22
Alignment explanation
Indices: 64248705--64248751 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
64248695 ATAGATGATA
64248705 ATTATTAATATATAATTATATTT
1 ATTA-TAATATATAATTATATTT
64248728 ATTATAATATAT-ATTA-A-TT
1 ATTATAATATATAATTATATTT
64248747 ATTAT
1 ATTAT
64248752 CAGCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 1 0.04
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATAATATATAATTATATTT
Found at i:64249308 original size:25 final size:25
Alignment explanation
Indices: 64249279--64249334 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
64249269 CTCCGAAATT
*
64249279 TTAATTTAATTATCTAAT-TTTTCAA
1 TTAATTGAATTAT-TAATATTTTCAA
**
64249304 TTAATTGAATTATTAATATTTTTTA
1 TTAATTGAATTATTAATATTTTCAA
64249329 TTAATT
1 TTAATT
64249335 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTAATTGAATTATTAATATTTTCAA
Found at i:64252592 original size:12 final size:12
Alignment explanation
Indices: 64252575--64252600 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64252565 TTCAAAGAGC
64252575 TTATTTTGATGT
1 TTATTTTGATGT
64252587 TTATTTTGATGT
1 TTATTTTGATGT
64252599 TT
1 TT
64252601 TATGGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTATTTTGATGT
Found at i:64253268 original size:50 final size:50
Alignment explanation
Indices: 64253157--64253453 Score: 308
Period size: 50 Copynumber: 5.8 Consensus size: 50
64253147 ATTTGGGTAA
* *
64253157 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
64253213 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
64253263 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
64253313 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * ** * **
64253363 AGAACTCCCATGTAAAACCATATCTGGGATATGGCATTGGCA-ATACAAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
64253412 AAACATCCCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
64253454 TGTTATTATC
Statistics
Matches: 207, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 37 0.18
50 126 0.61
53 3 0.01
55 1 0.00
56 40 0.19
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:64261923 original size:13 final size:14
Alignment explanation
Indices: 64261905--64261933 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
64261895 AAAATTGCTT
64261905 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
64261918 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
64261932 AA
1 AA
64261934 GCAACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:64266774 original size:49 final size:50
Alignment explanation
Indices: 64266670--64266851 Score: 240
Period size: 55 Copynumber: 3.5 Consensus size: 50
64266660 AGCCGATCAA
* * *
64266670 AAAACAAACAATGAAGCATAATTAAAAACACCACTTTATTTCTGAATGCAAC
1 AAAACAATCAATGAAGCATAAATAAAAACA--ACTTTATTTATGAATGCAAC
64266722 AAAACAATCAATGAAGCATAAAT-AAAACAACTTTATTTATGAATGCAAC
1 AAAACAATCAATGAAGCATAAATAAAAACAACTTTATTTATGAATGCAAC
*
64266771 AAAACAATCAATGAAGCATAAATAAAGAAAACACAACTTTATTTATGAATGCAAG
1 AAAACAATCAATGAAGCATAAAT----AAAA-ACAACTTTATTTATGAATGCAAC
* *
64266826 AAAACATTCAATGAAACATAAATAAA
1 AAAACAATCAATGAAGCATAAATAAA
64266852 CAAAAACACA
Statistics
Matches: 118, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
49 42 0.36
51 9 0.08
52 21 0.18
54 3 0.03
55 43 0.36
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (50 bp):
AAAACAATCAATGAAGCATAAATAAAAACAACTTTATTTATGAATGCAAC
Found at i:64267955 original size:19 final size:19
Alignment explanation
Indices: 64267917--64267956 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
64267907 ATATTATGAA
* *
64267917 TAACCAAATTAAAATTAAT
1 TAACCAAAATAAAATAAAT
*
64267936 TAACCAAAATAACATAAAT
1 TAACCAAAATAAAATAAAT
64267955 TA
1 TA
64267957 TCTAAAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (19 bp):
TAACCAAAATAAAATAAAT
Found at i:64270460 original size:5 final size:5
Alignment explanation
Indices: 64270443--64270475 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
64270433 CCATTTACAT
*
64270443 TTTTG TTTT- TTTTG TTTTG TCTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
64270476 TTAAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:64271630 original size:24 final size:24
Alignment explanation
Indices: 64271575--64271631 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
64271565 TTCAGGTTCT
* *
64271575 TCAATAGCAATTTGAATAGGTGCC
1 TCAACAGCAAGTTGAATAGGTGCC
** * *
64271599 TCGGCAGCAAGTTGAGTGGGTGCC
1 TCAACAGCAAGTTGAATAGGTGCC
64271623 TCAACAGCA
1 TCAACAGCA
64271632 GCTCGAGTGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
TCAACAGCAAGTTGAATAGGTGCC
Found at i:64275945 original size:15 final size:15
Alignment explanation
Indices: 64275925--64275961 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
64275915 AACCATGCAC
64275925 CTTCTCATTACCAAA
1 CTTCTCATTACCAAA
64275940 CTTCTCATTACCAAA
1 CTTCTCATTACCAAA
64275955 CTTCTCA
1 CTTCTCA
64275962 CAACAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (15 bp):
CTTCTCATTACCAAA
Found at i:64280790 original size:70 final size:70
Alignment explanation
Indices: 64280052--64280792 Score: 636
Period size: 70 Copynumber: 10.6 Consensus size: 70
64280042 TATAATATCG
* * ** * * * *
64280052 GCTGGGAACGTAAGCTCATGCTAACTGTTTAGGAGGCTACGGTATTGAACCTGTGAGCCTTAAAA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280117 TACCA
66 TACCA
* * * * * * * *
64280122 GCTAGGAGCGTAAGCTCACACTAACTATTTTGGAGGCTACGATATTGAACCTGCGAGCCTTAGGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280187 TACCA
66 TACCA
* * * * * * * * *
64280192 GTTGGGAACATAAGCTCGCGTTAACTATTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAGGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
*
64280257 TATCA
66 TACCA
** ** * * * *
64280262 ATTGGGAATGTAGGTTCGCGCTAACTTTTTTAGAAGCTGCGGTATTGAACCTGCGAGCCTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
*
64280327 TATCA
66 TACCA
** ** ** * * * * *
64280332 ATTGGGAATGTAGGCTCATGCTAACTTTTTTAGAAGCTGCGGTATTGAACCTGCAAGCTTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
*
64280397 TGCCA
66 TACCA
** * * ** * ** * * * *
64280402 ATTGGGAGTGTAAGCTCGCTTTAATTGTTTTAAAGGCTACGGTATTGGACCTGCAAGCCTTAGGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280467 TACCA
66 TACCA
* * * * *
64280472 GCTGGGAGCGTAGGCTCACGCTAACTATTTTGGAGGCTGAGGTATTAAACCTGCGATCCTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280537 TACCA
66 TACCA
* * * * * **
64280542 GCTGGGAGCGTAAGCTCGCGCTAACTGTGTTGAAGGTTGCGATATTGAACCTATGAGCCTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280607 TACCA
66 TACCA
* ** * * ** * **
64280612 GCTAGGAGTATAGGCTCGCGCTAACTGTTTTGAAGGTTGTTGTATTGAACTTGTAAGCCTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
64280677 TACCA
66 TACCA
* * ** * ** *
64280682 GCTAGGAGCGTAGGCTCGCACTAACTGTTTTTTAGGCTGCAGTATTGAATTTGCAAGCCTTAAGA
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
*
64280747 TATCA
66 TACCA
* * *
64280752 ACTAGGAGCGTAGGCTCGTGCTAACTGTTTTGGAGGCTGCG
1 GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCG
64280793 TGATAGGGGG
Statistics
Matches: 559, Mismatches: 112, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 559 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (70 bp):
GCTGGGAGCGTAGGCTCGCGCTAACTGTTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGA
TACCA
Found at i:64282450 original size:70 final size:70
Alignment explanation
Indices: 64282318--64282621 Score: 288
Period size: 70 Copynumber: 4.4 Consensus size: 70
64282308 ACTCGTATCA
* * * * * ** *
64282318 CTGCGATATTGAACCTGGGAGCCTTAATATACCAGCTCGGAGTATAAG-TCGCGCTAACTGTTTT
1 CTGCGGTATTGAACCTGCGAGCCTTAAGATATCAGCTGGGAGCGTAAGCTCGCGCTAACTGTTTG
*
64282382 GGAGA
66 GGAGG
* * * ** * *
64282387 CTACGGTATTGAACCTACAATACTTAAAATATCAGTTGGGAGCGTAAGCTCGCGCTAACTGTTTG
1 CTGCGGTATTGAACCTGCGAGCCTTAAGATATCAGCTGGGAGCGTAAGCTCGCGCTAACTGTTTG
64282452 GGAGG
66 GGAGG
** * * * *
64282457 CTGCAATATTGAACCTGCGAGCCTTATGATATCAACTAGGAGCGT-AGACTCGCACTAACTGTTT
1 CTGCGGTATTGAACCTGCGAGCCTTAAGATATCAGCTGGGAGCGTAAG-CTCGCGCTAACTGTTT
64282521 GGGAGG
65 GGGAGG
* * * * * *
64282527 CTGTGGTATTGAACCTGTGAGCCTTAGGATATTAGCTGGGAGCGTAAGCTCGCGCTAATTGTTTT
1 CTGCGGTATTGAACCTGCGAGCCTTAAGATATCAGCTGGGAGCGTAAGCTCGCGCTAACTGTTTG
**
64282592 CTAGG
66 GGAGG
** *
64282597 CTGTAGTATTGAACTTGCGAGCCTT
1 CTGCGGTATTGAACCTGCGAGCCTT
64282622 TAATCGTCAA
Statistics
Matches: 188, Mismatches: 44, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
69 37 0.20
70 149 0.79
71 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (70 bp):
CTGCGGTATTGAACCTGCGAGCCTTAAGATATCAGCTGGGAGCGTAAGCTCGCGCTAACTGTTTG
GGAGG
Found at i:64283122 original size:22 final size:22
Alignment explanation
Indices: 64283097--64283141 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
64283087 AAATGCAAAG
64283097 ACAATAAAATATTAGGTTGAAC
1 ACAATAAAATATTAGGTTGAAC
64283119 ACAATAAAATATTAGGTTGAAC
1 ACAATAAAATATTAGGTTGAAC
64283141 A
1 A
64283142 GTGTACCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (22 bp):
ACAATAAAATATTAGGTTGAAC
Found at i:64287653 original size:13 final size:13
Alignment explanation
Indices: 64287635--64287677 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
64287625 TTGATTTTAC
64287635 CTAAATATTATCA
1 CTAAATATTATCA
*
64287648 CTAAATA--AT-T
1 CTAAATATTATCA
64287658 CTAAATATTATCA
1 CTAAATATTATCA
64287671 CTAAATA
1 CTAAATA
64287678 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:64287665 original size:23 final size:23
Alignment explanation
Indices: 64287635--64287686 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
64287625 TTGATTTTAC
64287635 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
64287658 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
64287681 CAAAAT
1 CTAAAT
64287687 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Done.