Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 361 of 378
Found at i:108220119 original size:6 final size:6
Alignment explanation
Indices: 108220108--108220137 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
108220098 TACAAGCCTG
108220108 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
108220138 ATCACCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCTCC
Found at i:108220148 original size:18 final size:18
Alignment explanation
Indices: 108220109--108220149 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
108220099 ACAAGCCTGC
* * *
108220109 TCTCCCTCTCCCTCTCCC
1 TCTCCCTCTCCATCACCA
108220127 TCTCCCTCTCCATCACCA
1 TCTCCCTCTCCATCACCA
108220145 TCTCC
1 TCTCC
108220150 TACATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.61, G:0.00, T:0.32
Consensus pattern (18 bp):
TCTCCCTCTCCATCACCA
Found at i:108225021 original size:170 final size:171
Alignment explanation
Indices: 108224716--108225057 Score: 659
Period size: 170 Copynumber: 2.0 Consensus size: 171
108224706 TCATGAGCTA
108224716 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
108224781 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
108224846 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
108224887 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
*
108224952 -AAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCACCGCTTTGA
66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
*
108225016 GTAGAAAGGCAAAGAGAAGAGTAGGCATGGAGAAAAATGGG
131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
108225057 C
1 C
108225058 AGTGATCACT
Statistics
Matches: 169, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
170 104 0.62
171 65 0.38
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (171 bp):
CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
Found at i:108226238 original size:15 final size:15
Alignment explanation
Indices: 108226213--108226245 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
108226203 ATTTATATAT
108226213 AAAAAAA-AAAAGAA
1 AAAAAAAGAAAAGAA
*
108226227 AAGAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
108226242 AAAA
1 AAAA
108226246 GGAATGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:108233815 original size:13 final size:13
Alignment explanation
Indices: 108233797--108233823 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108233787 TGAAAGGGGA
108233797 TTTGATTTTGATT
1 TTTGATTTTGATT
108233810 TTTGATTTTGATT
1 TTTGATTTTGATT
108233823 T
1 T
108233824 GAGCAGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTGATTTTGATT
Found at i:108244585 original size:72 final size:74
Alignment explanation
Indices: 108244397--108244594 Score: 185
Period size: 72 Copynumber: 2.7 Consensus size: 74
108244387 TCCTTTATTT
* * *
108244397 TTTTAATAAAAATCATAAAAAT-TATATATATATATATAAAAAGATCATAAAAATTATGAAAAAG
1 TTTTAA-AAAAATTATAAAAATCT-TA-AAATAT-TATAAAAAGAT-ATAAAAATCATGAAAAAG
108244461 TTATTAAAAATATA
61 TTATTAAAAATATA
* * * *
108244475 TTTTAAAAAAATTATAAAAATCTTAAGAGATTGT-AAAAGATATAAACAATCAT-AAATA-TTAT
1 TTTTAAAAAAATTATAAAAATCTTAAAATATTATAAAAAGATATAAA-AATCATGAAAAAGTTAT
108244537 TAAAAATAT-
65 TAAAAATATA
* * *
108244546 TTTATACAAACA-TATAAAAA-CTTTAAAATATTATAAAAAGTTATAAAAA
1 TTT-TAAAAAAATTATAAAAATC-TTAAAATATTATAAAAAGATATAAAAA
108244595 CTATTGAATT
Statistics
Matches: 103, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
70 1 0.01
71 22 0.21
72 30 0.29
73 9 0.09
74 12 0.12
75 2 0.02
76 4 0.04
77 16 0.16
78 7 0.07
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (74 bp):
TTTTAAAAAAATTATAAAAATCTTAAAATATTATAAAAAGATATAAAAATCATGAAAAAGTTATT
AAAAATATA
Found at i:108250871 original size:75 final size:75
Alignment explanation
Indices: 108250788--108250954 Score: 193
Period size: 75 Copynumber: 2.3 Consensus size: 75
108250778 TCCTCATTGA
** * * * **
108250788 AATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACATACATTTCACAACTCAGT
108250852 ATGGATTTCGT
65 ATGGATTTCGT
* *
108250863 AATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACATATATTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACATACATTTCACAACTCAGTA
108250928 TGGA--T-G-
66 TGGATTTCGT
*
108250934 -ACACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
108250955 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
70 20 0.25
72 1 0.01
73 1 0.01
74 3 0.04
75 56 0.69
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (75 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACATACATTTCACAACTCAGTA
TGGATTTCGT
Found at i:108250952 original size:35 final size:35
Alignment explanation
Indices: 108250789--108250954 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
108250779 CCTCATTGAA
** * *
108250789 ATACCATACCTACATTTTTCAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* **
108250824 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTCG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--T-G
* *
108250862 TAATACCATACCTACATTTCACAGCTCAGTATGGATA
1 --ATACCATACCTACATTTCACAACTCAGTATGGATG
* *
108250899 ATACCATACATATATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
*
108250934 ACACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
108250955 CTTTGCCATG
Statistics
Matches: 108, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.03
35 75 0.69
38 1 0.01
40 29 0.27
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:108258182 original size:6 final size:6
Alignment explanation
Indices: 108258174--108258283 Score: 51
Period size: 6 Copynumber: 17.8 Consensus size: 6
108258164 AGACTGAGCC
* * * ** **
108258174 TGAAGC TGAAGA TGAAGA TGAA-A GTGAAGA TGAGGT TGGGGA TGGGGA
1 TGAAGA TGAAGA TGAAGA TGAAGA -TGAAGA TGAAGA TGAAGA TGAAGA
* * * * * *
108258222 TGAAGA TGAGGATGA TGGAGA AGAAGA CGAAGA AGAAGA AGAAGA CGAAGA
1 TGAAGA TGA--A-GA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA
*
108258273 CGAAGA TGAAG
1 TGAAGA TGAAG
108258284 CCGACGCCGA
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
5 1 0.01
6 77 0.91
7 2 0.02
8 1 0.01
9 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.40, T:0.13
Consensus pattern (6 bp):
TGAAGA
Found at i:108258246 original size:3 final size:3
Alignment explanation
Indices: 108258240--108258283 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
108258230 AGGATGATGG
* * * *
108258240 AGA AGA AGA CGA AGA AGA AGA AGA AGA CGA AGA CGA AGA TGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
108258284 CCGACGCCGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.57, C:0.07, G:0.34, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:108258255 original size:12 final size:12
Alignment explanation
Indices: 108258240--108258283 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
108258230 AGGATGATGG
108258240 AGAAGAAGACGA
1 AGAAGAAGACGA
*
108258252 AGAAGAAGAAGA
1 AGAAGAAGACGA
*
108258264 AGACGAAGACGA
1 AGAAGAAGACGA
*
108258276 AGATGAAG
1 AGAAGAAG
108258284 CCGACGCCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.34, T:0.02
Consensus pattern (12 bp):
AGAAGAAGACGA
Found at i:108260525 original size:31 final size:31
Alignment explanation
Indices: 108260490--108260569 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
108260480 TATTTTTCAT
* * *
108260490 TTGCTTCAATTTCTATGCTTATTCC-CTGTTA
1 TTGCTTCAATTTCCATGCTTATACCTC-CTTA
*
108260521 TTGCTTCAATTTCCATGATTATACCTCCTTA
1 TTGCTTCAATTTCCATGCTTATACCTCCTTA
108260552 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
108260570 CTTACAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.47
Consensus pattern (31 bp):
TTGCTTCAATTTCCATGCTTATACCTCCTTA
Found at i:108262083 original size:3 final size:3
Alignment explanation
Indices: 108262077--108262102 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108262067 CATATTATTA
108262077 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
108262103 ATGAAGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:108267365 original size:18 final size:19
Alignment explanation
Indices: 108267323--108267365 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
108267313 CAGTTTCTTT
*
108267323 TTTTTTTTTTACTTTTTTG
1 TTTTTTTTTTACTGTTTTG
**
108267342 ACTTTTTTTTA-TGTTTTG
1 TTTTTTTTTTACTGTTTTG
108267360 TTTTTT
1 TTTTTT
108267366 ATGTTTATTT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTTACTGTTTTG
Found at i:108267480 original size:21 final size:20
Alignment explanation
Indices: 108267456--108267517 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
108267446 TTAAATATAT
108267456 ATTTTGAAATTATTTTTTAAA
1 ATTTT-AAATTATTTTTTAAA
108267477 ATTTTAAATATTATTTTTT-AA
1 ATTTT-AA-ATTATTTTTTAAA
*
108267498 ATATTAAATATATTTTTTAA
1 ATTTTAAAT-TATTTTTTAA
108267518 TAATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 10 0.28
21 14 0.39
22 10 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTAAATTATTTTTTAAA
Found at i:108267490 original size:22 final size:22
Alignment explanation
Indices: 108267456--108267590 Score: 96
Period size: 22 Copynumber: 5.8 Consensus size: 22
108267446 TTAAATATAT
*
108267456 ATTTTGAA-ATTATTTTTTAAA
1 ATTTTAAATATTATTTTTTAAA
108267477 ATTTTAAATATTATTTTTT-AA
1 ATTTTAAATATTATTTTTTAAA
*
108267498 ATATTAAATA-TATTTTTTAATA
1 ATTTTAAATATTATTTTTTAA-A
* * *
108267520 ATATAAAATATTTAAATATTTTAAA
1 ATTTTAAATA-TT--ATTTTTTAAA
* *
108267545 CTTTTAAATTTGCTATTAGTTTTATAA
1 ATTTTAAATAT--TATT--TTTTA-AA
108267572 TATTTTAAATATTATTTTT
1 -ATTTTAAATATTATTTTT
108267591 GACTCAAAAC
Statistics
Matches: 90, Mismatches: 11, Indels: 23
0.73 0.09 0.19
Matches are distributed among these distances:
20 8 0.09
21 19 0.21
22 20 0.22
24 7 0.08
25 7 0.08
26 18 0.20
27 2 0.02
28 9 0.10
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTAAATATTATTTTTTAAA
Found at i:108267530 original size:20 final size:20
Alignment explanation
Indices: 108267462--108267532 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
108267452 ATATATTTTG
*
108267462 AAAT-TATTTTTTAAAATTTT
1 AAATATATTTTTTAAAA-TAT
108267482 AAATATTATTTTTT-AAATATT
1 AAATA-TATTTTTTAAAATA-T
108267503 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
108267524 AAA-ATATTT
1 AAATATATTT
108267533 AAATATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
20 19 0.42
21 14 0.31
22 12 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATATTTTTTAAAATAT
Found at i:108267671 original size:45 final size:45
Alignment explanation
Indices: 108267621--108267710 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
108267611 AAAAAAATAA
*
108267621 TGATTTAAAAGATTTAGGGACCTATTATGAAATTTTTCCATTTTT
1 TGATTTAAAAGATTTAGGAACCTATTATGAAATTTTTCCATTTTT
*
108267666 TGATTTAAAAGATTTAGGAACCTATTATGCAATTTTTCCATTTTT
1 TGATTTAAAAGATTTAGGAACCTATTATGAAATTTTTCCATTTTT
108267711 GAATGGCTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (45 bp):
TGATTTAAAAGATTTAGGAACCTATTATGAAATTTTTCCATTTTT
Found at i:108268116 original size:2 final size:2
Alignment explanation
Indices: 108268109--108268148 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
108268099 CTAATATGAT
108268109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108268149 GATTTACGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108269055 original size:20 final size:20
Alignment explanation
Indices: 108269000--108269060 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
108268990 TATGTTTATT
108269000 TAAAATATATATATTAAAAAG
1 TAAAA-ATATATATTAAAAAG
* *
108269021 TAAAAATTTAAATTAAAAAG
1 TAAAAATATATATTAAAAAG
108269041 TAAAAATATATATTATAAAA
1 TAAAAATATATATTA-AAAA
108269061 TCACATCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAATATATATTAAAAAG
Found at i:108269532 original size:20 final size:20
Alignment explanation
Indices: 108269509--108269573 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
108269499 ATAATTTTTT
108269509 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
108269529 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
108269549 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
108269569 AATTT
1 AATTT
108269574 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:108269544 original size:40 final size:41
Alignment explanation
Indices: 108269500--108269584 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
108269490 GTGTTGGTTA
*
108269500 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
*
108269540 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
108269581 TAAT
1 TAAT
108269585 ATATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:108269595 original size:40 final size:40
Alignment explanation
Indices: 108269508--108269595 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
108269498 TATAATTTTT
* * *
108269508 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
*
108269548 TAATTTTAGTACACATTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
108269588 TATTTTTA
1 TAATTTTA
108269596 ATAGATAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:108273615 original size:22 final size:22
Alignment explanation
Indices: 108273589--108273632 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
108273579 AAAAACCCAA
108273589 AAACA-AAGAATCCTCAAAATGT
1 AAACACAA-AATCCTCAAAATGT
* *
108273611 AAACACAAAATTCTCTAAATGT
1 AAACACAAAATCCTCAAAATGT
108273633 GTTATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (22 bp):
AAACACAAAATCCTCAAAATGT
Found at i:108278720 original size:44 final size:44
Alignment explanation
Indices: 108278671--108278791 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
108278661 ATTAGGTAGT
* * *
108278671 ACAAAATTAGTTGAAAACTCTAGAAGAGATAATTATTTGATAGC
1 ACAAAATTAGTTGAAAACTCTAAAAGAGATAATCATTCGATAGC
* *
108278715 ACAAAATTAGTTGAAAGCT-TCAAAAGAGATAATCATTCGGTAGC
1 ACAAAATTAGTTGAAAACTCT-AAAAGAGATAATCATTCGATAGC
**
108278759 ACAAAATTAGTTGAAATTTCTAAAAGAGATAAT
1 ACAAAATTAGTTGAAAACTCTAAAAGAGATAAT
108278792 ATACCAATAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.97
45 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (44 bp):
ACAAAATTAGTTGAAAACTCTAAAAGAGATAATCATTCGATAGC
Found at i:108280964 original size:30 final size:30
Alignment explanation
Indices: 108280930--108280987 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
108280920 AATTGTTTTT
* *
108280930 TGATAATATTGCTTGTGGTGAATGAAATTA
1 TGATAATATTGCTTGTGATAAATGAAATTA
*
108280960 TGATAATGTTGCTTGTGATAAATGAAAT
1 TGATAATATTGCTTGTGATAAATGAAAT
108280988 GAGAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
TGATAATATTGCTTGTGATAAATGAAATTA
Found at i:108290986 original size:21 final size:21
Alignment explanation
Indices: 108290962--108291001 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
108290952 TACCACCTAT
* *
108290962 GGTATCGCGATATCCACTTTG
1 GGTATCACGATACCCACTTTG
108290983 GGTATCACGATACCCACTT
1 GGTATCACGATACCCACTT
108291002 GCCAAGGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (21 bp):
GGTATCACGATACCCACTTTG
Found at i:108295033 original size:39 final size:40
Alignment explanation
Indices: 108294975--108295145 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 40
108294965 GGACTAAGAT
* * *
108294975 CCGAAGGCGTTCGTACGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
*
108295014 CCGAAGGCATTTGTGCGAGTTAATAAATTCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
108295053 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
108295093 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
108295133 CCGAAGGCATTTG
1 CCGAAGGCATTTG
108295146 AGCTAGTCGT
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 70 0.59
40 42 0.35
41 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:108295168 original size:79 final size:79
Alignment explanation
Indices: 108294998--108295153 Score: 192
Period size: 79 Copynumber: 2.0 Consensus size: 79
108294988 TACGAGTTAA
* *
108294998 TAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATTCGGGTTAAGCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCA
* *
108295062 TTTGTGCGAGTTAC
66 TTTGAGCGAGTCAC
* * *
108295076 TAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAG
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAG
*
108295139 GCATTTGAGCTAGTC
63 GCATTTGAGCGAGTC
108295154 GTTATATCCG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 14 0.21
79 26 0.39
80 26 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCA
TTTGAGCGAGTCAC
Found at i:108298719 original size:51 final size:51
Alignment explanation
Indices: 108298654--108298773 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
108298644 CTCAAACTTA
* *
108298654 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTGAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTGAACAAGAG
* * * *
108298705 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAGCAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTGAACAAGAG
*
108298756 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
108298774 TAACTTAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTGAACAAGAG
Found at i:108299933 original size:16 final size:16
Alignment explanation
Indices: 108299914--108299952 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
108299904 AATTTTTCCC
*
108299914 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
108299930 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
108299946 TCTTTCC
1 TTTTTCC
108299953 CCTGCTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:108300014 original size:18 final size:18
Alignment explanation
Indices: 108299977--108300021 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
108299967 CGTTTCATCC
*
108299977 TTTCTTTTTCTATTCTTT
1 TTTCTTTTTCTATTCCTT
108299995 TTTCTTTTT-TATTCCCTT
1 TTTCTTTTTCTATT-CCTT
*
108300013 TTACTTTTT
1 TTTCTTTTT
108300022 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:108300028 original size:2 final size:2
Alignment explanation
Indices: 108300021--108300063 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
108300011 TTTTACTTTT
108300021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108300062 TA
1 TA
108300064 ATAACTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108308534 original size:2 final size:2
Alignment explanation
Indices: 108308527--108308567 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
108308517 CTTTCACCAA
108308527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108308568 TTAAGCTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108309394 original size:33 final size:33
Alignment explanation
Indices: 108309356--108309422 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
108309346 TCTGAAAGTT
*
108309356 AAAAATTTCAGCCAAAAGCAGCTTGTTCTGCAC
1 AAAAATTTCAGCCAAAAGCAACTTGTTCTGCAC
108309389 AAAAATTTCAGCCAAAAGCAACTTGTTCTGCAC
1 AAAAATTTCAGCCAAAAGCAACTTGTTCTGCAC
108309422 A
1 A
108309423 GTTTTTCTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (33 bp):
AAAAATTTCAGCCAAAAGCAACTTGTTCTGCAC
Found at i:108309976 original size:31 final size:30
Alignment explanation
Indices: 108309941--108310012 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
108309931 AAATTTTTAA
*
108309941 TTTAGTCATTAATGTTTTAGATTATTTCTAT
1 TTTAGTCATT-ACGTTTTAGATTATTTCTAT
* *
108309972 TTTAGTAACTTACGTTTTAGATTGTTTCTAT
1 TTTAGTCA-TTACGTTTTAGATTATTTCTAT
108310003 TTTAGTCATT
1 TTTAGTCATT
108310013 CTTCATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.06
31 32 0.89
32 2 0.06
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTAGTCATTACGTTTTAGATTATTTCTAT
Found at i:108314247 original size:23 final size:23
Alignment explanation
Indices: 108314221--108314264 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
108314211 TGGAAACTTA
108314221 ATTTGGTATAATAGTTTCATCTC
1 ATTTGGTATAATAGTTTCATCTC
*
108314244 ATTTGTTATAATAGTTTCATC
1 ATTTGGTATAATAGTTTCATC
108314265 AGGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTTGGTATAATAGTTTCATCTC
Found at i:108318695 original size:3 final size:3
Alignment explanation
Indices: 108318682--108318712 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
108318672 TCTCCAAGGT
*
108318682 TTC TAC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
108318713 CCCGCTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:108321769 original size:27 final size:24
Alignment explanation
Indices: 108321692--108321755 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
108321682 CTGTTGCTGA
108321692 TGCAGCTGCTGCTGTTCCTCATAT
1 TGCAGCTGCTGCTGTTCCTCATAT
108321716 TGCAGCTGCTGCTGTTCCTCATAT
1 TGCAGCTGCTGCTGTTCCTCATAT
108321740 TGCAGCTGCTGCTGTT
1 TGCAGCTGCTGCTGTT
108321756 GTTGATCACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.11, C:0.28, G:0.23, T:0.38
Consensus pattern (24 bp):
TGCAGCTGCTGCTGTTCCTCATAT
Found at i:108324373 original size:20 final size:22
Alignment explanation
Indices: 108324343--108324389 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
108324333 CAAAAGTTAC
108324343 AAAATAATTCAAA-ATAATTTT
1 AAAATAATTCAAACATAATTTT
*
108324364 AAAA-AATTCAAACCTAATTTT
1 AAAATAATTCAAACATAATTTT
108324385 AAAAT
1 AAAAT
108324390 TTAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAATTCAAACATAATTTT
Found at i:108324417 original size:17 final size:17
Alignment explanation
Indices: 108324379--108324420 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
108324369 ATTCAAACCT
*
108324379 AATTT-TAAAATTTAAA
1 AATTTATAAAATTCAAA
*
108324395 ATATTTATAAAATTCCAA
1 A-ATTTATAAAATTCAAA
108324413 AATTTATA
1 AATTTATA
108324421 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 10 0.45
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTATAAAATTCAAA
Found at i:108327677 original size:19 final size:18
Alignment explanation
Indices: 108327649--108327688 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
108327639 ACGAAATTTT
108327649 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
108327668 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
108327686 AAT
1 AAT
108327689 AATACTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:108327805 original size:15 final size:15
Alignment explanation
Indices: 108327787--108327815 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108327777 ATATTTATAA
108327787 AATTATTATTATTAT
1 AATTATTATTATTAT
108327802 AATTATTATTATTA
1 AATTATTATTATTA
108327816 GATAGGGAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:108327832 original size:2 final size:2
Alignment explanation
Indices: 108327825--108327867 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
108327815 AGATAGGGAA
108327825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108327867 A
1 A
108327868 AAAGTATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108327843 original size:64 final size:64
Alignment explanation
Indices: 108327715--108327851 Score: 145
Period size: 64 Copynumber: 2.1 Consensus size: 64
108327705 TTGAAAAATT
** * *
108327715 TTTATGAAAATTATTATTATTATTTACTGTATTATTGATATTTGAAATTTTTATTATTAGATATA
1 TTTAT-AAAATTATTATTATTATTTACTGTATTATTGATATGGGAAATATATATTATTAGATATA
*
108327780 TTTATAAAATTATTATTATTATAATTA-T-TATTATTAGATA-GGGAAATATATATATATATATA
1 TTTATAAAATTATTATTATTAT--TTACTGTATTATT-GATATGGGAAATATATAT-TAT-TAGA
108327842 TATA
61 TATA
*
108327846 TATATA
1 TTTATA
108327852 TATATATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
64 33 0.54
65 13 0.21
66 15 0.25
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (64 bp):
TTTATAAAATTATTATTATTATTTACTGTATTATTGATATGGGAAATATATATTATTAGATATA
Found at i:108328772 original size:17 final size:17
Alignment explanation
Indices: 108328736--108328773 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
108328726 TCATTTTTTT
*
108328736 TTCTCTTCTCTTTTTCA
1 TTCTCTTCTCTTTTTAA
108328753 TTCTCTTGCTC-TTTTAA
1 TTCTCTT-CTCTTTTTAA
108328770 TTCT
1 TTCT
108328774 TCAAGTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.08, C:0.26, G:0.03, T:0.63
Consensus pattern (17 bp):
TTCTCTTCTCTTTTTAA
Found at i:108330118 original size:20 final size:20
Alignment explanation
Indices: 108330075--108330122 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
108330065 GCCGTTTTGT
108330075 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
108330095 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
108330114 TAT-GGCCAA
1 TATGGGCCAA
108330123 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:108332475 original size:19 final size:20
Alignment explanation
Indices: 108332432--108332525 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 20
108332422 CATGTTTGCT
* *
108332432 TTCCGTTTAGCTCTTACGAGC
1 TTCCGTTTAGCACTT-CGGGC
108332453 TTCCGTTTAGC-CTTCGGGC
1 TTCCGTTTAGCACTTCGGGC
108332472 TTCCGTTTAGCACTT-GTGTGC
1 TTCCGTTTAGCACTTCG-G-GC
*
108332493 TTCAG-TTAGC-CTTCGGGC
1 TTCCGTTTAGCACTTCGGGC
108332511 TTCCGTTTAGCACTT
1 TTCCGTTTAGCACTT
108332526 ATGTGCTTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.09
19 25 0.39
20 16 0.25
21 17 0.27
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.39
Consensus pattern (20 bp):
TTCCGTTTAGCACTTCGGGC
Found at i:108332513 original size:39 final size:39
Alignment explanation
Indices: 108332432--108332552 Score: 170
Period size: 39 Copynumber: 3.1 Consensus size: 39
108332422 CATGTTTGCT
* * * *
108332432 TTCCGTTTAGCTCTTACGAGCTTCCGTTTAGCCTTCGGGC
1 TTCCGTTTAGCACTTATGTGCTTCAG-TTAGCCTTCGGGC
*
108332472 TTCCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGC
1 TTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGC
* *
108332511 TTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGC
1 TTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGC
108332550 TTC
1 TTC
108332553 AGATCACGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 52 0.71
40 21 0.29
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (39 bp):
TTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGC
Found at i:108339727 original size:47 final size:47
Alignment explanation
Indices: 108339663--108339773 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
108339653 GACATTGAGT
*
108339663 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
108339710 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
108339757 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
108339774 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:108346981 original size:47 final size:47
Alignment explanation
Indices: 108346917--108347027 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
108346907 GACATTGAGT
*
108346917 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
108346964 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
108347011 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
108347028 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:108350965 original size:50 final size:50
Alignment explanation
Indices: 108350881--108351045 Score: 199
Period size: 50 Copynumber: 3.3 Consensus size: 50
108350871 CTAAATGACC
* * *
108350881 TTGTGTATTCGGCCATA-AAGGTATGCACAAATGTGATATTATATTTGAAT
1 TTGTATATTCGGCCATATAA-GTAAGCACATATGTGATATTATATTTGAAT
* *
108350931 TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTG-AT
1 TTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAAT
* * * * *
108350980 CTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTGTATTTGATT
1 -TTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAAT
*
108351031 TTGTATATTTGGCCA
1 TTGTATATTCGGCCA
108351046 AATGAGTGGT
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 2 0.02
50 92 0.95
51 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (50 bp):
TTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAAT
Found at i:108351199 original size:26 final size:26
Alignment explanation
Indices: 108351169--108351220 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
108351159 TTTTTGAAAT
108351169 GTTTATTTGCTTATGACTTACTAAGC
1 GTTTATTTGCTTATGACTTACTAAGC
108351195 GTTTATTTGCTTATGACTTACTAAGC
1 GTTTATTTGCTTATGACTTACTAAGC
108351221 TAAGTTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (26 bp):
GTTTATTTGCTTATGACTTACTAAGC
Found at i:108351638 original size:21 final size:21
Alignment explanation
Indices: 108351614--108351656 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
108351604 AATGGTAGTG
*
108351614 TAAATATGTTTGTATGTTTGC
1 TAAATATGTTTGTATCTTTGC
108351635 TAAATATGTTTGTATCTTTGC
1 TAAATATGTTTGTATCTTTGC
108351656 T
1 T
108351657 TGTAGATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.53
Consensus pattern (21 bp):
TAAATATGTTTGTATCTTTGC
Found at i:108355724 original size:16 final size:16
Alignment explanation
Indices: 108355700--108355730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108355690 TAAAAAAATA
108355700 AATACATCAATCTATC
1 AATACATCAATCTATC
*
108355716 AATATATCAATCTAT
1 AATACATCAATCTAT
108355731 ACAAGTCTCT
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:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
AATACATCAATCTATC
Found at i:108363218 original size:25 final size:25
Alignment explanation
Indices: 108363189--108363241 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
108363179 ATCACCTTAC
108363189 TATCAATAATCCAATTATACATACA
1 TATCAATAATCCAATTATACATACA
108363214 TATCAATAATCCAATTATACATACA
1 TATCAATAATCCAATTATACATACA
108363239 TAT
1 TAT
108363242 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (25 bp):
TATCAATAATCCAATTATACATACA
Found at i:108363245 original size:2 final size:2
Alignment explanation
Indices: 108363238--108363273 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
108363228 TTATACATAC
108363238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108363274 TTGTATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108368453 original size:44 final size:45
Alignment explanation
Indices: 108368398--108368500 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
108368388 TATCTTTGAC
* * ** *
108368398 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATATTATAAT
** *
108368442 ATGGACTTACATGGCTCAATCCCATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATA-TTATAAT
108368488 ATGGACTTACATG
1 ATGGACTTACATG
108368501 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATATTATAAT
Found at i:108373411 original size:32 final size:33
Alignment explanation
Indices: 108373374--108373435 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
108373364 TTTTTATTAC
* *
108373374 CCAAAATATTAATTAATT-AATTAATTTAATGA
1 CCAAAAAATTAATTAATTAAATTAAATTAATGA
108373406 CCAAAAAATTAATTAATTAAATTAAATTAA
1 CCAAAAAATTAATTAATTAAATTAAATTAA
108373436 CTAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (33 bp):
CCAAAAAATTAATTAATTAAATTAAATTAATGA
Found at i:108373435 original size:14 final size:14
Alignment explanation
Indices: 108373411--108373443 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
108373401 AATGACCAAA
*
108373411 AAATT-AATTAATT
1 AAATTAAATTAACT
108373424 AAATTAAATTAACT
1 AAATTAAATTAACT
108373438 AAATTA
1 AAATTA
108373444 TTTTCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTAAATTAACT
Found at i:108375849 original size:14 final size:16
Alignment explanation
Indices: 108375820--108375851 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
108375810 CTTTAAATTG
108375820 TTCTATTATGTAAAAT
1 TTCTATTATGTAAAAT
108375836 TTCTATT-T-TAAAAT
1 TTCTATTATGTAAAAT
108375850 TT
1 TT
108375852 TCTTTATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTATTATGTAAAAT
Found at i:108375893 original size:34 final size:30
Alignment explanation
Indices: 108375834--108375934 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 30
108375824 ATTATGTAAA
* *
108375834 ATTTCTATTTTAAAATTT-TCTTTATACATGT
1 ATTTTTATTTTAAAATTTAT-ATTATACAT-T
*
108375865 ATTTTTGTTTTCAAAATTTATACATTATACATT
1 ATTTTTATTTT-AAAATTTAT--ATTATACATT
* *
108375898 ATATATTATTTTAAAATTTATATTATGCATT
1 AT-TTTTATTTTAAAATTTATATTATACATT
108375929 ATTTTT
1 ATTTTT
108375935 TTATATATAG
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.05
31 20 0.34
32 7 0.12
33 13 0.22
34 16 0.27
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTTTATTTTAAAATTTATATTATACATT
Found at i:108375917 original size:33 final size:33
Alignment explanation
Indices: 108375839--108375919 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
108375829 GTAAAATTTC
* *
108375839 TATTTTAAAATTT-T-CTTTATACATGTATTTT
1 TATTTTAAAATTTATACATTATACATGTATTAT
*
108375870 TGTTTTCAAAATTTATACATTATACAT-TATATAT
1 TATTTT-AAAATTTATACATTATACATGTAT-TAT
108375904 TATTTTAAAATTTATA
1 TATTTTAAAATTTATA
108375920 TTATGCATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 5 0.12
32 7 0.17
33 14 0.33
34 16 0.38
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (33 bp):
TATTTTAAAATTTATACATTATACATGTATTAT
Found at i:108379994 original size:46 final size:46
Alignment explanation
Indices: 108379934--108380161 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
108379924 TTTGACATGA
* * * * * * *
108379934 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** * *
108379980 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
108380026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
108380072 TGCCATGGTATCTTTCAACCATGGTCTTACACACTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
108380118 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
108380162 AGAGCACACT
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 162 0.98
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:108384229 original size:24 final size:24
Alignment explanation
Indices: 108384166--108384229 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 24
108384156 ATGAAATGTT
* *
108384166 ATAAAATTATGTATTTGACGCTTTC
1 ATAAAATTAAGTATTTGAC-CTTTA
108384191 ATAAAAATTAA--ATTTGA-CTTTA
1 AT-AAAATTAAGTATTTGACCTTTA
108384213 ACTAAAATTAAGTATTT
1 A-TAAAATTAAGTATTT
108384230 AAATTTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 13 0.39
23 1 0.03
24 10 0.30
25 2 0.06
26 7 0.21
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
ATAAAATTAAGTATTTGACCTTTA
Found at i:108384856 original size:6 final size:6
Alignment explanation
Indices: 108384845--108384874 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
108384835 CTTGTATTTT
108384845 TTGTAA TTGTAA -TGTAA TTGTAA TTGTAA T
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA T
108384875 CTAAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TTGTAA
Found at i:108384862 original size:11 final size:12
Alignment explanation
Indices: 108384845--108384874 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
108384835 CTTGTATTTT
108384845 TTGTAATTGTAA
1 TTGTAATTGTAA
108384857 -TGTAATTGTAA
1 TTGTAATTGTAA
108384868 TTGTAAT
1 TTGTAAT
108384875 CTAAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TTGTAATTGTAA
Found at i:108384986 original size:18 final size:20
Alignment explanation
Indices: 108384952--108384990 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
108384942 AATATAACAA
108384952 TAATTAAAATATTTTATAAT
1 TAATTAAAATATTTTATAAT
108384972 TAATT-AAAT-TTTTATAAT
1 TAATTAAAATATTTTATAAT
108384990 T
1 T
108384991 TTTAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTAAAATATTTTATAAT
Found at i:108391849 original size:21 final size:21
Alignment explanation
Indices: 108391811--108391851 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108391801 TTGTTAAGGG
*
108391811 TTTAGGGTTCACGGTTCATGA
1 TTTAGGGTTCACGATTCATGA
108391832 TTTAGGGTTCGA-GATTCATG
1 TTTAGGGTTC-ACGATTCATG
108391852 GTTCAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (21 bp):
TTTAGGGTTCACGATTCATGA
Found at i:108392417 original size:43 final size:43
Alignment explanation
Indices: 108392346--108392474 Score: 233
Period size: 43 Copynumber: 3.0 Consensus size: 43
108392336 TACATTTGAT
*
108392346 TGTTTTTTATATTATTGTA-TCATATTACAATAATATTATATA
1 TGTTTTTTATATTATTGTATTCACATTACAATAATATTATATA
108392388 TGTTTTTTATATTATTGTATTCACATTACAATAATATTATATA
1 TGTTTTTTATATTATTGTATTCACATTACAATAATATTATATA
*
108392431 TGTTTTTTATATTATTGTATTCACATCACAATAATATTATATA
1 TGTTTTTTATATTATTGTATTCACATTACAATAATATTATATA
108392474 T
1 T
108392475 TAGTAAAATT
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 19 0.23
43 65 0.77
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (43 bp):
TGTTTTTTATATTATTGTATTCACATTACAATAATATTATATA
Found at i:108392533 original size:23 final size:21
Alignment explanation
Indices: 108392507--108392550 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
108392497 ATTAAAGATG
*
108392507 AAATTATATTTTGTATTTACATT
1 AAATTATACTTT-TA-TTACATT
108392530 AAATTATACTTTTATTACATT
1 AAATTATACTTTTATTACATT
108392551 TTCAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 2 0.10
23 11 0.55
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
AAATTATACTTTTATTACATT
Found at i:108392789 original size:24 final size:24
Alignment explanation
Indices: 108392744--108392789 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
108392734 TAATATTTTA
*
108392744 ATTATGTTCAATAATTAGAATAAT
1 ATTATGTTCAATAAATAGAATAAT
*
108392768 ATTATTTTACAATAAATA-AATA
1 ATTATGTT-CAATAAATAGAATA
108392790 CGTAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTATGTTCAATAAATAGAATAAT
Found at i:108395632 original size:38 final size:38
Alignment explanation
Indices: 108395577--108395650 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
108395567 AAAAATTATT
* *
108395577 TTAATTTTATAATATTAT-TATATATTGATATAATTTCC
1 TTAATTTTATAAGATTATAAATAT-TTGATATAATTTCC
*
108395615 TTAATTTTATAAGATTATAAATATTTGATTTAATTT
1 TTAATTTTATAAGATTATAAATATTTGATATAATTT
108395651 TTTTTGGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 28 0.88
39 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (38 bp):
TTAATTTTATAAGATTATAAATATTTGATATAATTTCC
Found at i:108401094 original size:21 final size:21
Alignment explanation
Indices: 108401051--108401096 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
108401041 AAAAAATTGT
* *
108401051 AAAATTTTATAAAAACCATCA
1 AAAAATTTATAAAAACCAACA
**
108401072 AAAAATTTATAAAATGCAACA
1 AAAAATTTATAAAAACCAACA
108401093 AAAA
1 AAAA
108401097 GACCCTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATTTATAAAAACCAACA
Found at i:108401308 original size:10 final size:10
Alignment explanation
Indices: 108401293--108401322 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
108401283 TTTTACAAAT
108401293 TTTACATTTC
1 TTTACATTTC
108401303 TTTACATTTC
1 TTTACATTTC
108401313 TTTATCATTT
1 TTTA-CATTT
108401323 TCTTATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTACATTTC
Found at i:108401408 original size:20 final size:19
Alignment explanation
Indices: 108401360--108401412 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
108401350 TTTTTCTATA
*
108401360 TTTCTAATATTTTATATTTT
1 TTTCTAAT-TTTTATATCTT
108401380 TTTAC-AATTTTTATAATCTT
1 TTT-CTAATTTTTAT-ATCTT
108401400 TTTCTAATTTTTA
1 TTTCTAATTTTTA
108401413 ACAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 7 0.24
20 21 0.72
21 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTAATTTTTATATCTT
Found at i:108406236 original size:11 final size:12
Alignment explanation
Indices: 108406217--108406246 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
108406207 ATCGGTCTCA
108406217 TTCTTTTTTTTC
1 TTCTTTTTTTTC
108406229 TT-TTTTTTTTC
1 TTCTTTTTTTTC
108406240 TTCTTTT
1 TTCTTTT
108406247 CTACTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:108406924 original size:10 final size:10
Alignment explanation
Indices: 108406911--108406942 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
108406901 ATTAATCACT
108406911 TTTAATATTA
1 TTTAATATTA
108406921 TTTAATATTA
1 TTTAATATTA
108406931 TTTAATATTA
1 TTTAATATTA
108406941 TT
1 TT
108406943 ATATTTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTAATATTA
Found at i:108406925 original size:20 final size:20
Alignment explanation
Indices: 108406902--108406942 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
108406892 TATTATTAAA
108406902 TTAATCACT-TTTAATATTAT
1 TTAAT-ACTATTTAATATTAT
*
108406922 TTAATATTATTTAATATTAT
1 TTAATACTATTTAATATTAT
108406942 T
1 T
108406943 ATATTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATACTATTTAATATTAT
Found at i:108406947 original size:25 final size:24
Alignment explanation
Indices: 108406919--108406966 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
108406909 CTTTTAATAT
108406919 TATTTAATATTATTTAATATTATTA
1 TATTTAATATTATTT-ATATTATTA
*
108406944 TATTTACTATTATTTATATTATT
1 TATTTAATATTATTTATATTATT
108406967 CTTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTAATATTATTTATATTATTA
Found at i:108406949 original size:15 final size:16
Alignment explanation
Indices: 108406929--108406963 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
108406919 TATTTAATAT
108406929 TATTTAATATTA-TTA
1 TATTTAATATTATTTA
*
108406944 TATTTACTATTATTTA
1 TATTTAATATTATTTA
108406960 TATT
1 TATT
108406964 ATTCTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAATATTATTTA
Found at i:108406957 original size:10 final size:9
Alignment explanation
Indices: 108406915--108406975 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
108406905 ATCACTTTTA
108406915 ATATTATTT
1 ATATTATTT
108406924 AATATTATTT
1 -ATATTATTT
108406934 A-A-TA-TT
1 ATATTATTT
108406940 AT-TATATTT
1 ATAT-TATTT
108406949 ACTATTATTT
1 A-TATTATTT
108406959 ATATTATTCT
1 ATATTATT-T
108406969 -TATTATT
1 ATATTATT
108406976 ACGATTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 3 0.07
9 18 0.41
10 17 0.39
11 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTATTT
Found at i:108406972 original size:25 final size:25
Alignment explanation
Indices: 108406918--108406972 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
108406908 ACTTTTAATA
108406918 TTATTTAATATTATTTAATATTATT
1 TTATTTAATATTATTTAATATTATT
* *
108406943 ATATTTACTATTATTT-ATATTATT
1 TTATTTAATATTATTTAATATTATT
108406967 CTTATT
1 -TTATT
108406973 ATTACGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTAATATTATTTAATATTATT
Found at i:108406975 original size:12 final size:11
Alignment explanation
Indices: 108406910--108406976 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 11
108406900 AATTAATCAC
*
108406910 TTTTAATATTA
1 TTTTATTATTA
*
108406921 -TTTAATATTA
1 TTTTATTATTA
108406931 TTTAATATTATTA
1 TTT--TATTATTA
*
108406944 TATTTACTATTA
1 T-TTTATTATTA
108406956 -TTTA-TATTA
1 TTTTATTATTA
108406965 TTCTTATTATTA
1 TT-TTATTATTA
108406977 CGATTAATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
9 5 0.11
10 15 0.32
11 5 0.11
12 12 0.26
13 8 0.17
14 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:108407114 original size:24 final size:24
Alignment explanation
Indices: 108407071--108407134 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
108407061 TTCTAACATG
* * *
108407071 TATATACTATGTAAATATTT-TAA
1 TATATATTATGTATACATTTCTAA
*
108407094 TACTATATTATGTATACATTTCTTA
1 TA-TATATTATGTATACATTTCTAA
*
108407119 TATATATTACGTATAC
1 TATATATTATGTATAC
108407135 GTATCTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 28 0.82
25 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (24 bp):
TATATATTATGTATACATTTCTAA
Found at i:108407273 original size:2 final size:2
Alignment explanation
Indices: 108407266--108407308 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
108407256 AATACTATGT
108407266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108407307 TA
1 TA
108407309 AATTTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:108407677 original size:2 final size:2
Alignment explanation
Indices: 108407670--108407711 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
108407660 TTTTAAACAC
108407670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108407711 T
1 T
108407712 GCATATTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108408474 original size:28 final size:28
Alignment explanation
Indices: 108408442--108408499 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
108408432 CCTTTTTAGT
108408442 AAAATCGCAAGTCGATTTTCAAATTTTC
1 AAAATCGCAAGTCGATTTTCAAATTTTC
*
108408470 AAAATCGCAAGTCGGTTTTCAAATTTTC
1 AAAATCGCAAGTCGATTTTCAAATTTTC
108408498 AA
1 AA
108408500 TAAATTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (28 bp):
AAAATCGCAAGTCGATTTTCAAATTTTC
Found at i:108419359 original size:2 final size:2
Alignment explanation
Indices: 108419310--108419340 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
108419300 GGTATTTAAA
*
108419310 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108419341 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108420001 original size:15 final size:15
Alignment explanation
Indices: 108419974--108420015 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
108419964 TTTGGGGTAG
108419974 GTTTTTCTTTTTCTTT
1 GTTTTT-TTTTTCTTT
108419990 -TTCTTTTTTTTCTTT
1 GTT-TTTTTTTTCTTT
108420005 GTTTTTTTTTT
1 GTTTTTTTTTT
108420016 GGGTTAGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.86
Consensus pattern (15 bp):
GTTTTTTTTTTCTTT
Found at i:108421822 original size:79 final size:76
Alignment explanation
Indices: 108421731--108421923 Score: 298
Period size: 79 Copynumber: 2.5 Consensus size: 76
108421721 TTCTGTTTTC
*
108421731 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGG-AATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTTCAATTT
108421795 CTATCTTTAAAAAA
66 CTATCTTT---AAA
* *
108421809 AAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTTCAATT
1 AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTTCAATT
*
108421874 TCTATCTTTCAA
65 TCTATCTTTAAA
*
108421886 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
108421924 GGGCCACATG
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
76 35 0.32
77 4 0.04
78 2 0.02
79 47 0.44
80 20 0.19
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAATTTTCAATTT
CTATCTTTAAA
Found at i:108422024 original size:92 final size:89
Alignment explanation
Indices: 108421886--108422278 Score: 409
Period size: 88 Copynumber: 4.4 Consensus size: 89
108421876 TATCTTTCAA
* *
108421886 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGC-CACATGCCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCCGAGGTATTTTC-AA
*
108421950 ATTCTGTTTTTCAATTTCTGTTTCTTC
64 ATTCTGTTTTTCAATTTATGTTT-TTC
* *
108421977 TAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTC-AA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTTCAAA
* * *
108422041 TTGATGTTTTTTCAGTTTATGCTTTTC
65 TT-CTG-TTTTTCAATTTATGTTTTTC
** * * * * *
108422068 AAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTTACATGTCGAGGTTTTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTTCAAAT
* *
108422133 TCTGTTTTTCAAATTAT-TTTGTC
66 TCTGTTTTTCAATTTATGTTTTTC
* * * * * * *
108422156 AAAAGTCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTTCAAAT
* * *
108422221 TTTGTTTTT-AATGTCTGTTTTT-
66 TCTGTTTTTCAATTTATGTTTTTC
* * **
108422243 AAAGATTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
108422279 TTAGGATCAC
Statistics
Matches: 250, Mismatches: 45, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
87 7 0.03
88 95 0.38
89 11 0.04
90 59 0.24
91 11 0.04
92 67 0.27
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCCGAGGTATTTTCAAAT
TCTGTTTTTCAATTTATGTTTTTC
Found at i:108423967 original size:15 final size:16
Alignment explanation
Indices: 108423947--108423981 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
108423937 CTTTTAATAT
108423947 TATTTAATATTA-TTA
1 TATTTAATATTATTTA
*
108423962 TATTTACTATTATTTA
1 TATTTAATATTATTTA
108423978 TATT
1 TATT
108423982 ATTCTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAATATTATTTA
Found at i:108424341 original size:2 final size:2
Alignment explanation
Indices: 108424334--108424371 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
108424324 ACTACTATGT
108424334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108424372 AATTTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108424428 original size:21 final size:21
Alignment explanation
Indices: 108424404--108424451 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
108424394 TACGTATTAT
* *
108424404 TATTATATCTATTTTTATCCC
1 TATTATATCTATTATTATACC
*
108424425 TATTATATTTATTATTATACC
1 TATTATATCTATTATTATACC
108424446 TATTAT
1 TATTAT
108424452 TTTCACTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATATCTATTATTATACC
Found at i:108424440 original size:33 final size:34
Alignment explanation
Indices: 108424400--108424474 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
108424390 TATGTACGTA
* * *
108424400 TTATTATTATATCTATT-TTTATCCCTATTAT-AT
1 TTATTATTATACCTATTATTT-TCACTATTATCAC
108424433 TTATTATTATACCTATTATTTTCACTATTATCAC
1 TTATTATTATACCTATTATTTTCACTATTATCAC
108424467 TTATTATT
1 TTATTATT
108424475 TTATTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (34 bp):
TTATTATTATACCTATTATTTTCACTATTATCAC
Found at i:108424461 original size:21 final size:20
Alignment explanation
Indices: 108424418--108424477 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
108424408 ATATCTATTT
* *
108424418 TTATCCCTATTATATTTATTA
1 TTATACCTATTAT-TTTACTA
108424439 TTATACCTATTATTTTCACTA
1 TTATACCTATTATTTT-ACTA
*
108424460 TTATCACTTATTATTTTA
1 TTAT-ACCTATTATTTTA
108424478 TTTTAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.09
21 20 0.59
22 11 0.32
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATACCTATTATTTTACTA
Found at i:108424551 original size:2 final size:2
Alignment explanation
Indices: 108424544--108424578 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108424534 ACATTTATTT
108424544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108424579 TATGTATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108424670 original size:25 final size:25
Alignment explanation
Indices: 108424623--108424670 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
108424613 TTTACTATCT
* **
108424623 TATGTATACATTTTGAATGCTATGC
1 TATGTATACATTTTAAACACTATGC
*
108424648 TATGTATATATTTTAAACACTAT
1 TATGTATACATTTTAAACACTAT
108424671 TTATATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (25 bp):
TATGTATACATTTTAAACACTATGC
Found at i:108424677 original size:2 final size:2
Alignment explanation
Indices: 108424672--108424705 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
108424662 AAACACTATT
108424672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108424706 GCATATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:108426695 original size:15 final size:15
Alignment explanation
Indices: 108426656--108426697 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
108426646 ATTTGGTAAA
108426656 CTGAAAAATTAAGTG
1 CTGAAAAATTAAGTG
*
108426671 CTAAAAAATTAAGTG
1 CTGAAAAATTAAGTG
* *
108426686 TTGAATAATTAA
1 CTGAAAAATTAA
108426698 ACATGGACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (15 bp):
CTGAAAAATTAAGTG
Found at i:108433526 original size:28 final size:28
Alignment explanation
Indices: 108433486--108433583 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 28
108433476 AATAATTTCG
*
108433486 CACACACACAGTGCCTTACACCCGATCT
1 CACACACATAGTGCCTTACACCCGATCT
** *
108433514 CACACACATAGTGCTCGGTTA-A--TAATTT
1 CACACACATAGTGC-C--TTACACCCGATCT
*
108433542 CGCACACATAGTGCCTTACACCCGATCT
1 CACACACATAGTGCCTTACACCCGATCT
*
108433570 -AGCATACATAGTGC
1 CA-CACACATAGTGC
108433584 TCGATTAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 43 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (28 bp):
CACACACATAGTGCCTTACACCCGATCT
Found at i:108433564 original size:56 final size:56
Alignment explanation
Indices: 108433476--108433609 Score: 207
Period size: 56 Copynumber: 2.4 Consensus size: 56
108433466 ATATTCCCTA
* *
108433476 AATAATTTCGCACACACACAGTGCCTTACACCCGATCTCA-CACACATAGTGCTCGGTT
1 AATAATTTCG--CACACATAGTGCCTTACACCCGATCT-AGCACACATAGTGCTCGATT
*
108433534 AATAATTTCGCACACATAGTGCCTTACACCCGATCTAGCATACATAGTGCTCGATT
1 AATAATTTCGCACACATAGTGCCTTACACCCGATCTAGCACACATAGTGCTCGATT
108433590 AATAATTTCGCACACATAGT
1 AATAATTTCGCACACATAGT
108433610 ACATATATTC
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
55 1 0.01
56 61 0.85
58 10 0.14
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (56 bp):
AATAATTTCGCACACATAGTGCCTTACACCCGATCTAGCACACATAGTGCTCGATT
Found at i:108433606 original size:28 final size:27
Alignment explanation
Indices: 108433516--108433609 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
108433506 CCCGATCTCA
108433516 CACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTGCTC-GTTAATAATTTCG
** * *
108433544 CACACATAGTGC-C-TTACACCCGATCTAG
1 CACACATAGTGCTCGTTA-A--TAATTTCG
*
108433572 CATACATAGTGCTCGATTAATAATTTCG
1 CACACATAGTGCTCG-TTAATAATTTCG
108433600 CACACATAGT
1 CACACATAGT
108433610 ACATATATTC
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 40 0.80
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (27 bp):
CACACATAGTGCTCGTTAATAATTTCG
Found at i:108443869 original size:25 final size:24
Alignment explanation
Indices: 108443839--108443905 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
108443829 GCTATAGTTA
108443839 ATGGTTTTGATATGATGGTTGATTT
1 ATGGTTTTGAT-TGATGGTTGATTT
108443864 ATGGTTTTGATT--TGGTTGATTT
1 ATGGTTTTGATTGATGGTTGATTT
* *
108443886 ATGATTTTAATCTGATGGTT
1 ATGGTTTTGAT-TGATGGTT
108443906 TATGGTCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 19 0.51
23 1 0.03
24 1 0.03
25 16 0.43
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.54
Consensus pattern (24 bp):
ATGGTTTTGATTGATGGTTGATTT
Found at i:108447031 original size:2 final size:2
Alignment explanation
Indices: 108447026--108447058 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
108447016 ACACACACGC
108447026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108447059 ACCCACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108452203 original size:16 final size:16
Alignment explanation
Indices: 108452169--108452208 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
108452159 AAATGGTTAA
* *
108452169 TTATCTAATTAATTTT
1 TTATCTAATTAAATAT
*
108452185 TTATTTAATTAAATAT
1 TTATCTAATTAAATAT
108452201 TTATCTAA
1 TTATCTAA
108452209 AATTTAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTAATTAAATAT
Found at i:108452443 original size:3 final size:3
Alignment explanation
Indices: 108452437--108452478 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
108452427 TAGAAATTTA
108452437 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
108452479 GATGCAACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:108452459 original size:19 final size:19
Alignment explanation
Indices: 108452435--108452475 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
108452425 TATAGAAATT
108452435 TAAATAATAATAATAATAA
1 TAAATAATAATAATAATAA
108452454 TAAATAATAATAATAATAA
1 TAAATAATAATAATAATAA
108452473 TAA
1 TAA
108452476 TAAGATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATAATAATAATAATAA
Found at i:108453618 original size:20 final size:21
Alignment explanation
Indices: 108453581--108453619 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
108453571 TATTTTTCGA
108453581 TAAAATATTAAGAATATTATT
1 TAAAATATTAAGAATATTATT
108453602 TAAAAT-TTAA-AATTATTA
1 TAAAATATTAAGAA-TATTA
108453620 CTAATGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TAAAATATTAAGAATATTATT
Found at i:108454791 original size:30 final size:30
Alignment explanation
Indices: 108454706--108454791 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
108454696 TATTTTATTA
* * *
108454706 TTAATTTTGTTATTATTTTAAAAGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCACTTG
108454736 TTAATTTTGTTATTATTTTAAAGGCACTTG
1 TTAATTTTGTTATTATTTTAAAGGCACTTG
*
108454766 TTAATTTTGTTATTATTTTAGAGGCA
1 TTAATTTTGTTATTATTTTAAAGGCA
108454792 TTTGCTTGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCACTTG
Found at i:108459098 original size:34 final size:31
Alignment explanation
Indices: 108459060--108459128 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 31
108459050 AGTAGTTGTA
*
108459060 TTATAAAGACGTAATTTTTGTACGTAAAATTATC
1 TTATAAAGACATAA--TTT-TACGTAAAATTATC
* *
108459094 TTATAAAGATATAATTTTATGTAAAATTATC
1 TTATAAAGACATAATTTTACGTAAAATTATC
108459125 TTAT
1 TTAT
108459129 TAAACAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 17 0.53
32 3 0.09
34 12 0.38
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (31 bp):
TTATAAAGACATAATTTTACGTAAAATTATC
Found at i:108461482 original size:13 final size:13
Alignment explanation
Indices: 108461464--108461488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108461454 TCTAACTTGA
108461464 TTAAGCTTATATT
1 TTAAGCTTATATT
108461477 TTAAGCTTATAT
1 TTAAGCTTATAT
108461489 ATATTTAAAC
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAGCTTATATT
Found at i:108469153 original size:18 final size:19
Alignment explanation
Indices: 108469120--108469155 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
108469110 CAAATGAATA
*
108469120 ATTTCTCATTTTCATTTTC
1 ATTTCTCATTTCCATTTTC
108469139 ATTTC-CATTTCCATTTT
1 ATTTCTCATTTCCATTTT
108469156 GAGAAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTCTCATTTCCATTTTC
Found at i:108470701 original size:25 final size:25
Alignment explanation
Indices: 108470667--108470720 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
108470657 TGTTATACTT
108470667 CATGAATACATGAAAACCCCATTTG
1 CATGAATACATGAAAACCCCATTTG
*
108470692 CATGAATACATGAAAACCTCATTTG
1 CATGAATACATGAAAACCCCATTTG
108470717 CATG
1 CATG
108470721 CATGCAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (25 bp):
CATGAATACATGAAAACCCCATTTG
Found at i:108472932 original size:43 final size:44
Alignment explanation
Indices: 108472871--108472963 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
108472861 TCCTAATTGG
108472871 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
108472914 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
108472958 -AAAATA
1 GAAAATA
108472964 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:108473007 original size:19 final size:18
Alignment explanation
Indices: 108472985--108473024 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
108472975 TGAATAAAAC
108472985 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
* *
108473004 TTATCTATCTAAATAAAT
1 TTATCTACCCAAATAAAT
108473022 TTA
1 TTA
108473025 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:108475852 original size:7 final size:7
Alignment explanation
Indices: 108475840--108475867 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
108475830 AAAGGATGTT
108475840 ACATGAA
1 ACATGAA
108475847 ACATGAA
1 ACATGAA
108475854 ACATGAA
1 ACATGAA
108475861 ACATGAA
1 ACATGAA
108475868 TACTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
ACATGAA
Found at i:108479781 original size:43 final size:44
Alignment explanation
Indices: 108479720--108479812 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
108479710 TCCTAATTGG
*
108479720 GAAAATAGTTCCCTTATTCTAATAAGCTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
108479763 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
108479807 -AAAATA
1 GAAAATA
108479813 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:108479856 original size:19 final size:18
Alignment explanation
Indices: 108479834--108479873 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
108479824 TGAATAAAAC
108479834 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
108479853 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
108479871 TTA
1 TTA
108479874 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Done.