Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 103 of 214
Found at i:30447124 original size:54 final size:54
Alignment explanation
Indices: 30447037--30447226 Score: 231
Period size: 54 Copynumber: 3.5 Consensus size: 54
30447027 TCGTTAACTG
* *
30447037 TACCGAAATACCCTCGATAGGTAAAATTATCGAAATACTCTCGATGGGTAAAAT
1 TACCAAAATACCCTCGATGGGTAAAATTATCGAAATACTCTCGATGGGTAAAAT
*
30447091 TACCAAAATACCCTCGATGGGTAAAATTATCGAAATACTCTCGATGGATAAAAT
1 TACCAAAATACCCTCGATGGGTAAAATTATCGAAATACTCTCGATGGGTAAAAT
* * * * *
30447145 TA-CAGAAATACTCTCGATGGATAAAATTATCGAAATAC-CCCTAATGGGTAAATT
1 TACCA-AAATACCCTCGATGGGTAAAATTATCGAAATACTCTC-GATGGGTAAAAT
* * * *
30447199 TACTATAATACCCCCGTTAGGGTAAAAT
1 TACCAAAATACCCTCGAT-GGGTAAAAT
30447227 GACTGCTAGG
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.03
54 104 0.89
55 9 0.08
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (54 bp):
TACCAAAATACCCTCGATGGGTAAAATTATCGAAATACTCTCGATGGGTAAAAT
Found at i:30447196 original size:27 final size:27
Alignment explanation
Indices: 30447040--30447182 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
30447030 TTAACTGTAC
* *
30447040 CGAAATACCCTCGATAGGTAAAATTAT
1 CGAAATACTCTCGATGGGTAAAATTAT
*
30447067 CGAAATACTCTCGATGGGTAAAATTAC
1 CGAAATACTCTCGATGGGTAAAATTAT
* *
30447094 CAAAATACCCTCGATGGGTAAAATTAT
1 CGAAATACTCTCGATGGGTAAAATTAT
*
30447121 CGAAATACTCTCGATGGATAAAATTA-
1 CGAAATACTCTCGATGGGTAAAATTAT
*
30447147 CAGAAATACTCTCGATGGATAAAATTAT
1 C-GAAATACTCTCGATGGGTAAAATTAT
30447175 CGAAATAC
1 CGAAATAC
30447183 CCCTAATGGG
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
CGAAATACTCTCGATGGGTAAAATTAT
Found at i:30447380 original size:27 final size:27
Alignment explanation
Indices: 30447350--30447401 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30447340 AGTACTATTT
30447350 CTGGTGGCTCTGCCACA-ATTACTGTTA
1 CTGGTGGCTCTGCCACATA-TACTGTTA
*
30447377 CTGGTGGCTTTGCCACATATACTGT
1 CTGGTGGCTCTGCCACATATACTGT
30447402 GCTGGCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATACTGTTA
Found at i:30457731 original size:40 final size:40
Alignment explanation
Indices: 30457569--30457729 Score: 214
Period size: 40 Copynumber: 4.0 Consensus size: 40
30457559 CACACCCGAA
** * *
30457569 AAAAGCTCATAAAAGTTGGTCCAACCGAAACACGCCAAAC
1 AAAAGCTCATAAGTGCTGATCCAACCGAAACACGCCAAAC
* *
30457609 AAAAGCTCATAAGTGTTGATCCAACCAAAACACGCCAAAC
1 AAAAGCTCATAAGTGCTGATCCAACCGAAACACGCCAAAC
* *
30457649 AAAAGCTCATAAGTTCTGATCTAACCGAAACACGCCAAAC
1 AAAAGCTCATAAGTGCTGATCCAACCGAAACACGCCAAAC
* * * *
30457689 AGAAGCTTATAAGAGCTGATCCAACTGAAACACGCCAAAC
1 AAAAGCTCATAAGTGCTGATCCAACCGAAACACGCCAAAC
30457729 A
1 A
30457730 GAGAGTATAA
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (40 bp):
AAAAGCTCATAAGTGCTGATCCAACCGAAACACGCCAAAC
Found at i:30464755 original size:27 final size:26
Alignment explanation
Indices: 30464740--30464807 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
30464730 ATTAAGTCCT
30464740 CACACTCAGTGCTATATAATCAACTCG
1 CACACTCAGTGCTATAT-ATCAACTCG
*
30464767 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTCAGTGCTATAT-ATC-AACTCG
*
30464795 CACACTTAGTGCT
1 CACACTCAGTGCT
30464808 GTACAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (26 bp):
CACACTCAGTGCTATATATCAACTCG
Found at i:30464801 original size:28 final size:28
Alignment explanation
Indices: 30464740--30464835 Score: 131
Period size: 28 Copynumber: 3.4 Consensus size: 28
30464730 ATTAAGTCCT
*
30464740 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
30464767 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * *
30464795 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCTATATAA-TCAAACTCG
30464824 CACACTTAGTGC
1 CACACTTAGTGC
30464836 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.32
28 23 0.37
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:30478976 original size:23 final size:21
Alignment explanation
Indices: 30478942--30478993 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
30478932 AATACAAAAA
* *
30478942 TAAAAAACTAAAACTATTAGGTT
1 TAAAAAAATAAAAATATTA--TT
*
30478965 TAAAAAAATAAAAATCTTATT
1 TAAAAAAATAAAAATATTATT
30478986 TAAAAAAA
1 TAAAAAAA
30478994 AGAAGTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
23 16 0.62
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAAAAAATAAAAATATTATT
Found at i:30482837 original size:22 final size:22
Alignment explanation
Indices: 30482812--30482855 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30482802 TACTCAAGGT
30482812 ATGATCATATGCAATTTTACCA
1 ATGATCATATGCAATTTTACCA
*
30482834 ATGATCATATGCGATTTTACCA
1 ATGATCATATGCAATTTTACCA
30482856 GGTGACACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
ATGATCATATGCAATTTTACCA
Found at i:30483340 original size:21 final size:21
Alignment explanation
Indices: 30483316--30483357 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30483306 AAAATCATGG
*
30483316 CTACGAACTAAATTACAAACA
1 CTACCAACTAAATTACAAACA
*
30483337 CTACCAAGTAAATTACAAACA
1 CTACCAACTAAATTACAAACA
30483358 TGCATGGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (21 bp):
CTACCAACTAAATTACAAACA
Found at i:30483465 original size:138 final size:138
Alignment explanation
Indices: 30483210--30483486 Score: 482
Period size: 138 Copynumber: 2.0 Consensus size: 138
30483200 GGTTTACATC
* *
30483210 ATTATAAACATGCATGGGTCCTCCCACAAACCAGTTACCAAAATAAGAAACCATGAAATAGTTAT
1 ATTACAAACATGCATGGGTCCTCCCACAAACCAATTACCAAAATAAGAAACCATGAAATAGTTAT
30483275 GCTTGAAAAGCTCCAAAACTAGTCATCCAAGAAAATCATGGCTACGAACTAAATTACAAACACTA
66 GCTTGAAAAGCTCCAAAACTAGTCATCCAAGAAAATCATGGCTACGAACTAAATTACAAACACTA
30483340 CCAAGTAA
131 CCAAGTAA
* * *
30483348 ATTACAAACATGCATGGGTCCTCCCTCAAACCAATTAGCAAAATAAGAAACTATGAAATAGTTAT
1 ATTACAAACATGCATGGGTCCTCCCACAAACCAATTACCAAAATAAGAAACCATGAAATAGTTAT
* *
30483413 GCTTGAAAAGCTCCAACACTAGTCATCCAAGAAAATCATGGCTACGAGCTAAATTACAAACACTA
66 GCTTGAAAAGCTCCAAAACTAGTCATCCAAGAAAATCATGGCTACGAACTAAATTACAAACACTA
*
30483478 CTAAGTAA
131 CCAAGTAA
30483486 A
1 A
30483487 AGAAGCAGTG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.22
Consensus pattern (138 bp):
ATTACAAACATGCATGGGTCCTCCCACAAACCAATTACCAAAATAAGAAACCATGAAATAGTTAT
GCTTGAAAAGCTCCAAAACTAGTCATCCAAGAAAATCATGGCTACGAACTAAATTACAAACACTA
CCAAGTAA
Found at i:30490363 original size:16 final size:17
Alignment explanation
Indices: 30490342--30490374 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30490332 AAAATATTAT
30490342 AATATTA-ATAAATTTA
1 AATATTATATAAATTTA
*
30490358 AATATTATTTAAATTTA
1 AATATTATATAAATTTA
30490375 CTTCATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTATATAAATTTA
Found at i:30491382 original size:40 final size:38
Alignment explanation
Indices: 30491332--30491709 Score: 134
Period size: 41 Copynumber: 10.2 Consensus size: 38
30491322 TATAGTTTAG
* * *
30491332 ATTAGAATTTTGTATGAATATTTTAAATTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGT-AA-TGTTGTATGAAT
*
30491372 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * *
30491410 ATTGTAATTATTTTAT-AATTAAATTTGTATTTATAGTT-T-TG--G
1 ATTATAATT-TTGTATGAA-T--A-TTGTA---AT-GTTGTATGAAT
* *
30491452 ATTAGTAATTTTTTGTATAAATATTGTAATTTTGTATGAAT
1 ATTA-TAA--TTTTGTATGAATATTGTAATGTTGTATGAAT
*
30491493 ATTATAAATTTT-T-TG--TA-TG-AATATTG--T-AAT
1 ATTAT-AATTTTGTATGAATATTGTAATGTTGTATGAAT
* * * *
30491523 ATTATAGTTTTGTATGAATATTGCAAT-TTTTTTG--T
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * * *
30491558 A-T-GAATATTG--T-AATTTTGTAATTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* *
30491591 ATTAT-ATTTT-TTTG--TA-TG-AATATTG--T-AAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* *
30491620 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAA---TGTTGTATGAAT
*
30491661 ATTATAATTTTTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAA---TTTTGTATGAATATTGTAATGTTGTATGAAT
*
30491702 ATTGTAAT
1 ATTATAAT
30491710 ATTATAATTT
Statistics
Matches: 257, Mismatches: 31, Indels: 102
0.66 0.08 0.26
Matches are distributed among these distances:
29 13 0.05
30 24 0.09
31 12 0.05
32 6 0.02
33 19 0.07
34 15 0.06
35 10 0.04
36 1 0.00
37 3 0.01
38 30 0.12
39 15 0.06
40 23 0.09
41 39 0.15
42 9 0.04
43 3 0.01
44 25 0.10
45 7 0.03
46 3 0.01
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:30491415 original size:49 final size:46
Alignment explanation
Indices: 30491332--30491833 Score: 375
Period size: 49 Copynumber: 10.6 Consensus size: 46
30491322 TATAGTTTAG
* * *
30491332 ATTAGAATTTTGTATGAATATTTTAAATTT-T-TG--TA-TG-AAT
1 ATTATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
* *
30491372 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATT
1 ATTATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAA-T
*** * * * * * *
30491419 ATTTTATAATTAAATTTGTAT-TTATAGTTTTGGATTAGTAATTTTTTGTATAAAT
1 A--TTATAATTTTGTATGAATATTGTAATTTTGTA-T-G-AA--TATTG--T-AAT
* *
30491474 ATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGT-AA--TTTTGTATGAATATTGTAAT
* *
30491523 ATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAA---TTTTGTATGAATATTGTAAT
* * * *
30491572 TTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTA--ATTTTGTATGAATATTGTAAT
* *
30491620 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTATAAT
1 ATTATAATTTTGTATGAATATTGTAA---TTTTGTATGAATATTGTAAT
*
30491669 -TT-T--TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
*
30491710 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAA---TTTTGTATGAATATTGTAAT
* * **
30491759 ATTGTAATTTTGTATGAATATTGTAA-TGTG-GGGATATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAATTTTGTATGA-ATATTGTAAT
*
30491804 ATTGTAATTTTTTGTATGAATATTGTAATT
1 ATTATAA--TTTTGTATGAATATTGTAATT
30491834 ATTTTATAAT
Statistics
Matches: 373, Mismatches: 50, Indels: 70
0.76 0.10 0.14
Matches are distributed among these distances:
40 25 0.07
41 19 0.05
42 4 0.01
43 1 0.00
44 17 0.05
45 30 0.08
46 15 0.04
47 22 0.06
48 55 0.15
49 141 0.38
50 2 0.01
51 2 0.01
52 4 0.01
53 16 0.04
54 6 0.02
55 5 0.01
56 3 0.01
57 6 0.02
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (46 bp):
ATTATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
Found at i:30491539 original size:27 final size:24
Alignment explanation
Indices: 30491481--30491785 Score: 286
Period size: 27 Copynumber: 12.8 Consensus size: 24
30491471 AATATTGTAA
*
30491481 TTTTGTATGAATATTATAA-A-TT
1 TTTTGTATGAATATTGTAATATTT
30491503 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
30491528 AGTTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
*
30491552 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAATATT-T
30491577 AATTTTGTATGAATA-T-T-ATATTT
1 --TTTTGTATGAATATTGTAATATTT
30491600 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
30491625 AATTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
*
30491649 TTTTGTATGAATATTATAAT-TTT
1 TTTTGTATGAATATTGTAATATTT
30491672 TTTT-TATGAATATTGT-A-A---
1 TTTTGTATGAATATTGTAATATTT
*
30491690 TGTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATT-T
*
30491715 AATTTTGTATGAATATTG-CA-ATTT
1 --TTTTGTATGAATATTGTAATATTT
30491739 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTGTAATATT-T
30491764 AATTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
30491786 GTGGGGATAT
Statistics
Matches: 237, Mismatches: 13, Indels: 61
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.01
19 12 0.05
20 1 0.00
21 15 0.06
22 77 0.32
23 13 0.05
24 18 0.08
25 14 0.06
26 4 0.02
27 80 0.34
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (24 bp):
TTTTGTATGAATATTGTAATATTT
Found at i:30491565 original size:90 final size:89
Alignment explanation
Indices: 30491460--30491764 Score: 416
Period size: 90 Copynumber: 3.3 Consensus size: 89
30491450 GGATTAGTAA
*
30491460 TTTTTTGTATAAATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAT
1 TTTTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGTAATAT
*
30491525 TATAGTTTTGTATGAATATTGCAAT
65 TATAATTTTGTATGAATATTGCAAT
*
30491550 TTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATT
1 TTTTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATT
30491615 GTAATATTATAATTTTGTATGAATATTGCAAT
58 GTAATATTATAATTTTGTATGAATATTGCAAT
* * * *
30491647 TTTTTTGTATGAATATTATAATTTTTTTTTATGAATATTGTAA--TGTTGTATGAATATTGTAAT
1 TTTTTTGTATGAATATTGTAA---TTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
30491710 ATTATAATTTTGTATGAATATTGCAAT
63 ATTATAATTTTGTATGAATATTGCAAT
*
30491737 TTTTTTGTATGAATATTGTAATATTGTA
1 TTTTTTGTATGAATATTGTAATTTTGTA
30491765 ATTTTGTATG
Statistics
Matches: 193, Mismatches: 11, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
87 5 0.03
89 5 0.03
90 76 0.39
91 2 0.01
92 18 0.09
95 2 0.01
96 2 0.01
97 60 0.31
98 23 0.12
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (89 bp):
TTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATATT
ATAATTTTGTATGAATATTGCAAT
Found at i:30491731 original size:19 final size:19
Alignment explanation
Indices: 30491617--30491709 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 19
30491607 TGAATATTGT
30491617 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
30491636 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
*
30491658 AATATTATAATTTTTTTTTATG
1 AATATTATAA---TTTTGTATG
* *
30491680 AATATTGTAATGTTGTATG
1 AATATTATAATTTTGTATG
*
30491699 AATATTGTAAT
1 AATATTATAAT
30491710 ATTATAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
19 26 0.43
22 34 0.57
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:30491737 original size:19 final size:19
Alignment explanation
Indices: 30491715--30491764 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
30491705 GTAATATTAT
30491715 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGC
*
30491734 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGC
*
30491756 AATATTGTA
1 AATTTTGTA
30491765 ATTTTGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 8 0.31
22 18 0.69
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
AATTTTGTATGAATATTGC
Found at i:30491785 original size:19 final size:19
Alignment explanation
Indices: 30491337--30491709 Score: 147
Period size: 19 Copynumber: 20.2 Consensus size: 19
30491327 TTTAGATTAG
*
30491337 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
30491356 AAATTTTTGTATGAATATTAT
1 -AA-TTTTGTATGAATATTGT
*
30491377 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
30491396 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
30491415 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
30491438 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
*
30491458 AATTTTTTGTATAAATATTGT
1 AA--TTTTGTATGAATATTGT
*
30491479 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
30491498 AAATTTT-T-TG--TA-TG-
1 -AATTTTGTATGAATATTGT
* *
30491512 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
30491528 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
30491547 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
30491561 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
30491577 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
*
30491596 -ATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
30491609 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
30491625 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
30491644 AATTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
*
30491666 AATTTTTTTTTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
30491688 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
30491707 AAT
1 AAT
30491710 ATTATAATTT
Statistics
Matches: 266, Mismatches: 44, Indels: 87
0.67 0.11 0.22
Matches are distributed among these distances:
13 8 0.03
14 15 0.06
15 9 0.03
16 21 0.08
17 3 0.01
18 13 0.05
19 96 0.36
20 23 0.09
21 24 0.09
22 43 0.16
23 7 0.03
24 3 0.01
25 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:30492031 original size:38 final size:38
Alignment explanation
Indices: 30491981--30492062 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
30491971 CATATAAAGT
30491981 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
* *
30492019 TTATAAATAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
30492057 TTATAA
1 TTATAA
30492063 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:30493232 original size:6 final size:6
Alignment explanation
Indices: 30493221--30493270 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
30493211 TCATGCACCG
* * *
30493221 GAGCCA GAGCCA GAGCCA GAGCCA GCGCCA GAGCCG GAGCCA GACCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
30493269 GA
1 GA
30493271 ACCACATTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.30, C:0.36, G:0.34, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:30495615 original size:12 final size:12
Alignment explanation
Indices: 30495598--30495624 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30495588 ATTCCGAAGT
30495598 ATATATATATAC
1 ATATATATATAC
30495610 ATATATATATAC
1 ATATATATATAC
30495622 ATA
1 ATA
30495625 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:30496138 original size:27 final size:27
Alignment explanation
Indices: 30496107--30496284 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30496097 TAAATTGTAC
30496107 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
30496134 TGCACTAAATGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30496160 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30496188 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30496216 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30496243 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30496270 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30496285 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30496221 original size:82 final size:81
Alignment explanation
Indices: 30496108--30496263 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30496098 AAATTGTACA
* *
30496108 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAATGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTA-GCACTAAGTG
30496172 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30496189 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTAGCACTAAGTG
*
30496254 TGCGAGTTGA
65 TGCGAATTGA
30496264 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30496275 original size:82 final size:81
Alignment explanation
Indices: 30496104--30496284 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30496094 GATTAAATTG
* *
30496104 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAATGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGATGCACTAA
30496169 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
30496185 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAATGTGCGAAATGAATACGAT-GCACT
* **
30496249 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30496267 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30496285 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30496295 original size:27 final size:27
Alignment explanation
Indices: 30496189--30496295 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
30496179 TGACCATGCG
* * * *
30496189 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30496217 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30496244 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30496271 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30496296 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30503706 original size:12 final size:12
Alignment explanation
Indices: 30503689--30503715 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30503679 CCATTCCGAA
30503689 ATATATATATAC
1 ATATATATATAC
30503701 ATATATATATAC
1 ATATATATATAC
30503713 ATA
1 ATA
30503716 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:30504163 original size:27 final size:27
Alignment explanation
Indices: 30504132--30504309 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
30504122 TAAATTGTAC
30504132 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30504159 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30504185 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30504213 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30504241 AGCACTAAGTGTGCGATTTGA-TAACGT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
* * *
30504268 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30504295 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30504310 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30504273 original size:82 final size:81
Alignment explanation
Indices: 30504133--30504288 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
30504123 AAATTGTACA
* *
30504133 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
30504198 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
30504214 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATAACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAAT-ACGAT-GCACTAAG
*
30504277 TGTGCGAGTTGA
63 TGTGCGAATTGA
30504289 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 18 0.27
82 49 0.73
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30504300 original size:82 final size:81
Alignment explanation
Indices: 30504129--30504309 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
30504119 GATTAAATTG
* *
30504129 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30504194 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
30504210 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATAACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAAT-ACGAT-GCAC
* **
30504273 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
30504292 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30504310 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30511452 original size:43 final size:43
Alignment explanation
Indices: 30511393--30511554 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
30511383 GTACTATTTG
*
30511393 GGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATATT
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATT
* *
30511436 GGGCCTCGAGTCTAGCAGGCTATAATGCCGGTGAGTTAATATT
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATT
* ** *
30511479 GGGCTTTGAGCCTAGCAGGCTATAATGTTGGTGAGTTAATATC
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATT
*
30511522 GGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
30511555 ATGAGTTCAG
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 10 0.09
43 96 0.91
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATT
Found at i:30515383 original size:42 final size:43
Alignment explanation
Indices: 30515269--30515506 Score: 349
Period size: 43 Copynumber: 5.6 Consensus size: 43
30515259 AGAACTCCAT
* *
30515269 AGAGCCTCGGACACTATCGGCAACCTAGGCCCCTGGTCGTGCG
1 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
*
30515312 -GAAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTCCG
1 AG-AGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
*
30515355 AGAGCCTCGGG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
* * *
30515397 GGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
* *
30515439 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCATGC-
1 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
30515481 AGGAGCCTCGGGCACCATCGGCAACC
1 A-GAGCCTCGGGCACCATCGGCAACC
30515507 AGTTTTGTTC
Statistics
Matches: 179, Mismatches: 11, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
42 80 0.45
43 98 0.55
44 1 0.01
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (43 bp):
AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
Found at i:30515413 original size:85 final size:85
Alignment explanation
Indices: 30515269--30515506 Score: 363
Period size: 85 Copynumber: 2.8 Consensus size: 85
30515259 AGAACTCCAT
*
30515269 AGAGCCTC-GGACACTATCGGCAACCTAGGCCCCTGGTCGTGCGGAAGCCTCGGGCACCATCGGC
1 AGAGCCTCGGGAC-C-ATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
30515333 AACCTAGGCCCCTGGTCGTCCG
64 AACCTAGGCCCCTGGTCGTCCG
* *
30515355 AGAGCCTCGGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTTGGGCACCATCGGC-A
1 AGAGCCTCGGGACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
* *
30515419 CCTAGGCCCTTGGTCGTGCG
66 CCTAGGCCCCTGGTCGTCCG
* * *
30515439 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCATGCAGGAGCCTCGGGCACCATCGGCA
1 AGAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
30515504 ACC
65 ACC
30515507 AGTTTTGTTC
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 29 0.21
85 94 0.68
86 12 0.09
87 4 0.03
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (85 bp):
AGAGCCTCGGGACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
CCTAGGCCCCTGGTCGTCCG
Found at i:30516293 original size:20 final size:20
Alignment explanation
Indices: 30516270--30516327 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
30516260 TAGCTCGTCC
* *
30516270 AGCTCACAACCAGCTCAGCA
1 AGCTCACATCCAGCTCAACA
**
30516290 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
30516310 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
30516328 TTCCAGCTCG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:30519476 original size:42 final size:42
Alignment explanation
Indices: 30519326--30519487 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
30519316 CATACCAATA
* * ** * *
30519326 CCATATCCCAGATATGGTCTTACATGGGATCTCATATCAATA
1 CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
* ** *
30519368 CCAATAGCCCAGCTATGGTCTTACACG-ATTCTCATATCGATG
1 CC-ATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
* *
30519410 CCATATCCCAAACATGGTCTTACACGAAATCTCATAGCGATG
1 CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
30519452 CCATATCCCAAATATGGTCTTACACGTAAA-CTCATA
1 CCATATCCCAAATATGGTCTTACACG-AAATCTCATA
30519488 ACCCTAATGT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 20 0.19
42 59 0.57
43 24 0.23
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
CCATATCCCAAATATGGTCTTACACGAAATCTCATATCGATG
Found at i:30521212 original size:42 final size:42
Alignment explanation
Indices: 30521166--30521287 Score: 124
Period size: 41 Copynumber: 2.9 Consensus size: 42
30521156 ATGACTTTGT
* *
30521166 TATGAGATTTCATGTAAGACCATGTCTGGGATAGGGCATCGA
1 TATGAGATATCATGTAAGACCATGTCTGGGATAGGGCATCAA
* * *
30521208 TATGAGA-ATCGTGTAAGACCATAG-CTGGGCTATTGGCATCAA
1 TATGAGATATCATGTAAGACCAT-GTCTGGGATA-GGGCATCAA
** * *
30521250 TATGAGATCCCATGTAAGACCATATTTGGGA-AGGGCAT
1 TATGAGATATCATGTAAGACCATGTCTGGGATAGGGCAT
30521288 TGGTATGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 25 0.39
42 23 0.36
43 16 0.25
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (42 bp):
TATGAGATATCATGTAAGACCATGTCTGGGATAGGGCATCAA
Found at i:30524060 original size:45 final size:45
Alignment explanation
Indices: 30523953--30524075 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
30523943 CGATGCTGAT
* * * *
30523953 GTCCCAGACAG-GGTCTTACATGTAATCACATATATCGATGCCAAT
1 GTCCCAGAC-GTGGTCTTACACGAAAACACATATATCGATGCCAAC
* * * *
30523998 GCCCCCGACATGTTCTTACACGAAAACACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
30524043 GTCCCAGACGTGGTCTTACACGAAAACACATAT
1 GTCCCAGACGTGGTCTTACACGAAAACACATAT
30524076 CGAAATCCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
Found at i:30532490 original size:45 final size:45
Alignment explanation
Indices: 30532439--30532526 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
30532429 CGAATCAATA
* * * *
30532439 CGATGCCGATGTCCCAAAAATGGTCTTACACGTAACCACATATAT
1 CGATGCCAATGTCCCAAAAATCGTCTTACACGAAAACACATATAT
**
30532484 CGATGCCAATGTCCCAAATGTCGTCTTACACGAAAACACATAT
1 CGATGCCAATGTCCCAAAAATCGTCTTACACGAAAACACATAT
30532527 TGGAAGCCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (45 bp):
CGATGCCAATGTCCCAAAAATCGTCTTACACGAAAACACATATAT
Found at i:30533396 original size:25 final size:26
Alignment explanation
Indices: 30533368--30533422 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
30533358 TTAATTTTTG
30533368 TTATATT-ATAACATATATTAA-CGTA
1 TTATATTAATAACATAT-TTAATCGTA
* *
30533393 TTAT-TTAATTACATATTTAATCTTA
1 TTATATTAATAACATATTTAATCGTA
30533418 TTATA
1 TTATA
30533423 AAATATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (26 bp):
TTATATTAATAACATATTTAATCGTA
Found at i:30536548 original size:20 final size:20
Alignment explanation
Indices: 30536519--30536571 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
30536509 TGTTATATGG
*
30536519 ATGAAGTACTGTTTAAACGA
1 ATGAATTACTGTTTAAACGA
* *
30536539 ATGAGTTACT-TTT-ATCGA
1 ATGAATTACTGTTTAAACGA
30536557 ATGAATTACTGTTTA
1 ATGAATTACTGTTTA
30536572 TATGATTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 13 0.48
19 6 0.22
20 8 0.30
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (20 bp):
ATGAATTACTGTTTAAACGA
Found at i:30536571 original size:19 final size:19
Alignment explanation
Indices: 30536503--30536572 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
30536493 TACACGGATA
*
30536503 AATTACTGTTATAT-GGATG
1 AATTACTGTT-TATCGAATG
* *
30536522 AAGTACTGTTTAAACGAATG
1 AATTACTGTTT-ATCGAATG
*
30536542 AGTTACT-TTTATCGAATG
1 AATTACTGTTTATCGAATG
30536560 AATTACTGTTTAT
1 AATTACTGTTTAT
30536573 ATGATTGAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.34
19 18 0.44
20 9 0.22
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (19 bp):
AATTACTGTTTATCGAATG
Found at i:30543336 original size:52 final size:50
Alignment explanation
Indices: 30543253--30543351 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 50
30543243 TGCCAAATAA
*
30543253 ATAGCTGAAGCTATATCAATCTTGCTAACTAAGTGGCAATAAATATATATAT
1 ATAGCTGAAGCTATATCAATCTCGCTAACTAAGT-GCAA-AAATATATATAT
* *
30543305 ATAGCTGAAGCTATCTCAATCTCGC-ACACTAAGTGTAAAAATATATA
1 ATAGCTGAAGCTATATCAATCTCGCTA-ACTAAGTGCAAAAATATATA
30543352 GCCGACACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 9 0.21
51 4 0.09
52 30 0.70
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (50 bp):
ATAGCTGAAGCTATATCAATCTCGCTAACTAAGTGCAAAAATATATATAT
Found at i:30564921 original size:13 final size:13
Alignment explanation
Indices: 30564905--30564929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30564895 TATTTTAAAT
30564905 TATGTTTTTATGC
1 TATGTTTTTATGC
30564918 TATGTTTTTATG
1 TATGTTTTTATG
30564930 GTAATGCTTT
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TATGTTTTTATGC
Found at i:30566714 original size:23 final size:23
Alignment explanation
Indices: 30566681--30566762 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
30566671 GAGCTGATGG
* *
30566681 ACAGTAAGCTCTATTAAGTTGAA
1 ACAGTAAGCTCTAATAAGCTGAA
* *
30566704 ACGGTAAGCTCTAATGAGCTGAA
1 ACAGTAAGCTCTAATAAGCTGAA
*
30566727 ACAGTAAGCTCATAA-AAGGTGAGA
1 ACAGTAAGCTC-TAATAAGCTGA-A
30566751 ACAGTAAGCTCT
1 ACAGTAAGCTCT
30566763 TACGAGCTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 35 0.70
24 15 0.30
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTAATAAGCTGAA
Found at i:30573749 original size:29 final size:29
Alignment explanation
Indices: 30573707--30573764 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30573697 AATTCCTCAG
30573707 CCCATTTCACCTAATCCTTAAAATTTTTT
1 CCCATTTCACCTAATCCTTAAAATTTTTT
30573736 CCCATTTCACCTAATCCTTAAAATTTTTT
1 CCCATTTCACCTAATCCTTAAAATTTTTT
30573765 TACCACATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (29 bp):
CCCATTTCACCTAATCCTTAAAATTTTTT
Found at i:30580140 original size:21 final size:21
Alignment explanation
Indices: 30580099--30580145 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30580089 CCTTCTATTT
* *
30580099 TGTTTTGTTTCTTTGTTATTA
1 TGTTTTGTTTCTTTATAATTA
30580120 TGTTTTG-TTCTTATATAATTA
1 TGTTTTGTTTCTT-TATAATTA
30580141 T-TTTT
1 TGTTTT
30580146 AATCTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (21 bp):
TGTTTTGTTTCTTTATAATTA
Found at i:30584028 original size:12 final size:12
Alignment explanation
Indices: 30584011--30584037 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30584001 TTATGGCAAA
30584011 TGACATATAAGT
1 TGACATATAAGT
30584023 TGACATATAAGT
1 TGACATATAAGT
30584035 TGA
1 TGA
30584038 TTAAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (12 bp):
TGACATATAAGT
Found at i:30601580 original size:12 final size:12
Alignment explanation
Indices: 30601563--30601589 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30601553 ATTCCGAAGT
30601563 ATATATATATAC
1 ATATATATATAC
30601575 ATATATATATAC
1 ATATATATATAC
30601587 ATA
1 ATA
30601590 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:30602101 original size:27 final size:27
Alignment explanation
Indices: 30602071--30602196 Score: 171
Period size: 27 Copynumber: 4.6 Consensus size: 27
30602061 AAATTGTACA
30602071 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
30602098 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * *
30602125 GCACTAAGTGTGCGAATTGACCATGTG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
30602152 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
30602180 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
30602197 GACCCCTATC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 62 0.72
28 24 0.28
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:30606792 original size:24 final size:21
Alignment explanation
Indices: 30606761--30606815 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
30606751 AATGCCTACT
30606761 TTTTTTCTTCTTTTCCTTCCTTC
1 TTTTTTCTTC--TTCCTTCCTTC
*
30606784 TTTTCTTCTGCTTCCTTCCTTC
1 TTTT-TTCTTCTTCCTTCCTTC
*
30606806 TTCTTTCTTC
1 TTTTTTCTTC
30606816 CGTTTTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.18
22 14 0.50
23 4 0.14
24 5 0.18
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTCTTCTTCCTTCCTTC
Found at i:30606798 original size:22 final size:21
Alignment explanation
Indices: 30606763--30606807 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
30606753 TGCCTACTTT
*
30606763 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
30606784 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
30606806 TT
1 TT
30606808 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:30606922 original size:27 final size:26
Alignment explanation
Indices: 30606873--30607001 Score: 159
Period size: 27 Copynumber: 4.8 Consensus size: 26
30606863 AAAATCACAG
* * *
30606873 CATTGGCACCTTCTAATATGGCACCAC
1 CATTGGCGCCTCCAAATA-GGCACCAC
* *
30606900 CATTGGCGCCTGCTACATAGGCACCAC
1 CATTGGCGCCT-CCAAATAGGCACCAC
*
30606927 CATTGGCGCCTCCAAATAAGCACCAC
1 CATTGGCGCCTCCAAATAGGCACCAC
30606953 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCT-CCAAATAGGCACCAC
*
30606980 CATTGGAGCCTTCCAAATAGGC
1 CATTGGCGCC-TCCAAATAGGC
30607002 GCCAATACCA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
26 23 0.26
27 62 0.70
28 4 0.04
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (26 bp):
CATTGGCGCCTCCAAATAGGCACCAC
Found at i:30606954 original size:53 final size:54
Alignment explanation
Indices: 30606893--30606998 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 54
30606883 TTCTAATATG
* * * *
30606893 GCACCACCATTGGCGCCTGCTACATAGGCACCACCATTGGCGCC-TCCAAATAA
1 GCACCACCATTGGCGCCTCCCAAATAGGCACCACCATTGGAGCCTTCCAAATAA
30606946 GCACCACCATTGGCGCCTCCCAAATAGGCACCACCATTGGAGCCTTCCAAATA
1 GCACCACCATTGGCGCCTCCCAAATAGGCACCACCATTGGAGCCTTCCAAATA
30606999 GGCGCCAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 40 0.83
54 8 0.17
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (54 bp):
GCACCACCATTGGCGCCTCCCAAATAGGCACCACCATTGGAGCCTTCCAAATAA
Found at i:30606956 original size:26 final size:27
Alignment explanation
Indices: 30606887--30607001 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
30606877 GGCACCTTCT
* *
30606887 AATATGGCACCACCATTGGCGCCTGCTA
1 AATA-GGCACCACCATTGGCGCCTCCCA
*
30606915 CATAGGCACCACCATTGGCGCCT-CCA
1 AATAGGCACCACCATTGGCGCCTCCCA
*
30606941 AATAAGCACCACCATTGGCGCCTCCCA
1 AATAGGCACCACCATTGGCGCCTCCCA
* *
30606968 AATAGGCACCACCATTGGAGCCTTCCA
1 AATAGGCACCACCATTGGCGCCTCCCA
30606995 AATAGGC
1 AATAGGC
30607002 GCCAATACCA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 23 0.29
27 53 0.67
28 3 0.04
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (27 bp):
AATAGGCACCACCATTGGCGCCTCCCA
Found at i:30610358 original size:23 final size:23
Alignment explanation
Indices: 30610332--30610401 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
30610322 AAAAATAGAT
30610332 TGGAAGGTCTAAAATTATACTAA
1 TGGAAGGTCTAAAATTATACTAA
* * *
30610355 TGGAAGAG---AAAA-AATA-GAT
1 TGGAAG-GTCTAAAATTATACTAA
30610374 TGGAAGGTCTAAAATTATACTAA
1 TGGAAGGTCTAAAATTATACTAA
30610397 TGGAA
1 TGGAA
30610402 TTATGTCTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 1 0.03
19 7 0.20
20 3 0.09
21 8 0.23
22 3 0.09
23 12 0.34
24 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (23 bp):
TGGAAGGTCTAAAATTATACTAA
Found at i:30610376 original size:42 final size:42
Alignment explanation
Indices: 30610317--30610401 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
30610307 TAGAATAGAT
30610317 AGAGAAAAAATAGATTGGAAGGTCTAAAATTATACTAATGGA
1 AGAGAAAAAATAGATTGGAAGGTCTAAAATTATACTAATGGA
30610359 AGAGAAAAAATAGATTGGAAGGTCTAAAATTATACTAATGGA
1 AGAGAAAAAATAGATTGGAAGGTCTAAAATTATACTAATGGA
30610401 A
1 A
30610402 TTATGTCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.24
Consensus pattern (42 bp):
AGAGAAAAAATAGATTGGAAGGTCTAAAATTATACTAATGGA
Found at i:30610387 original size:19 final size:19
Alignment explanation
Indices: 30610323--30610388 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
30610313 AGATAGAGAA
30610323 AAAATAGATTGGAAGGTCT
1 AAAATAGATTGGAAGGTCT
* **
30610342 AAAATTATACTAATGGAAGAG-AA
1 AAAA-TAGA-T--TGGAAG-GTCT
30610365 AAAATAGATTGGAAGGTCT
1 AAAATAGATTGGAAGGTCT
30610384 AAAAT
1 AAAAT
30610389 TATACTAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 3 0.09
21 2 0.06
22 3 0.09
23 10 0.29
24 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (19 bp):
AAAATAGATTGGAAGGTCT
Found at i:30618552 original size:48 final size:48
Alignment explanation
Indices: 30618472--30618569 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
30618462 CGTTGGTCCG
* *
30618472 ATGCTACGACATTGGGCCTCAACACATGTACTTCTACTACTTCTTTCC
1 ATGCTACAACATTGGGCCTCAACACATATACTTCTACTACTTCTTTCC
* *
30618520 ATGCTACAACATTGGGCCTCAGCACGTATACTTCTACTACTTCTTTCC
1 ATGCTACAACATTGGGCCTCAACACATATACTTCTACTACTTCTTTCC
30618568 AT
1 AT
30618570 TTAATCCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (48 bp):
ATGCTACAACATTGGGCCTCAACACATATACTTCTACTACTTCTTTCC
Found at i:30623946 original size:43 final size:43
Alignment explanation
Indices: 30623884--30623996 Score: 190
Period size: 43 Copynumber: 2.6 Consensus size: 43
30623874 TCCCAGGCAC
* *
30623884 GGTCTTACATGGAAATCTCATATCGATGCCAATAGCCCAACTAT
1 GGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAACTAT
*
30623928 GGTCTTACACGAAATCTCAAATCGAAGCCAATAGCCCAACTAT
1 GGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAACTAT
30623971 GGTCTTACACGAAATCTCAAATCGAT
1 GGTCTTACACGAAATCTCAAATCGAT
30623997 ATTGGAACAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 56 0.86
44 9 0.14
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAACTAT
Found at i:30629524 original size:15 final size:17
Alignment explanation
Indices: 30629484--30629521 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
30629474 TTTAAGACTT
30629484 TGAAAACTATAGAATTG
1 TGAAAACTATAGAATTG
30629501 TGAAAACTATAG-ATTG
1 TGAAAACTATAGAATTG
30629517 TGAAA
1 TGAAA
30629522 CTAAAGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (17 bp):
TGAAAACTATAGAATTG
Found at i:30633963 original size:15 final size:17
Alignment explanation
Indices: 30633929--30633965 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
30633919 TCAAATCATA
30633929 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
*
30633946 ATAATT-ACCATA-ATT
1 ATAATTAACCAAATATT
30633961 ATAAT
1 ATAAT
30633966 AATGGTCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:30640304 original size:65 final size:65
Alignment explanation
Indices: 30640231--30640367 Score: 274
Period size: 65 Copynumber: 2.1 Consensus size: 65
30640221 AGCATGAATA
30640231 TGTGAAAAATATGGAAAGTTAAACATATGTGTTAAAATGGCCATATCACATGCATGGGGTGGGAT
1 TGTGAAAAATATGGAAAGTTAAACATATGTGTTAAAATGGCCATATCACATGCATGGGGTGGGAT
30640296 TGTGAAAAATATGGAAAGTTAAACATATGTGTTAAAATGGCCATATCACATGCATGGGGTGGGAT
1 TGTGAAAAATATGGAAAGTTAAACATATGTGTTAAAATGGCCATATCACATGCATGGGGTGGGAT
30640361 TGTGAAA
1 TGTGAAA
30640368 GGAAGAAGCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 72 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (65 bp):
TGTGAAAAATATGGAAAGTTAAACATATGTGTTAAAATGGCCATATCACATGCATGGGGTGGGAT
Found at i:30644230 original size:19 final size:20
Alignment explanation
Indices: 30644195--30644232 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
30644185 AATCATATCT
30644195 TCTAAGATTTACATATCTTA
1 TCTAAGATTTACATATCTTA
*
30644215 TCTAAGA-TTGCATATCTT
1 TCTAAGATTTACATATCTT
30644233 CGAAGATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (20 bp):
TCTAAGATTTACATATCTTA
Found at i:30648930 original size:56 final size:50
Alignment explanation
Indices: 30648718--30648957 Score: 243
Period size: 50 Copynumber: 4.7 Consensus size: 50
30648708 TAATAATAAC
* * *
30648718 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGT-TTCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * ** *
30648765 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * ** *
30648817 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGCCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* *
30648867 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGTACCTCTCATAACCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT---TG
*
30648923 ATGCCAATGCAATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
30648958 AGATCTCTTT
Statistics
Matches: 159, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.21
50 81 0.51
51 2 0.01
52 4 0.03
53 2 0.01
56 35 0.22
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:30663300 original size:22 final size:25
Alignment explanation
Indices: 30663246--30663300 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 25
30663236 CAAACTTTAT
30663246 TTAATAATATGTTTTGAAATAATAAA
1 TTAA-AATATGTTTTGAAATAATAAA
*
30663272 TTAAAATAT-TTTTG-AATAA-AAG
1 TTAAAATATGTTTTGAAATAATAAA
30663294 TTAAAAT
1 TTAAAAT
30663301 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 9 0.32
23 5 0.18
24 5 0.18
25 5 0.18
26 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
TTAAAATATGTTTTGAAATAATAAA
Found at i:30667695 original size:29 final size:29
Alignment explanation
Indices: 30667622--30667697 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 29
30667612 ATCAAAAAAA
30667622 TTTCTTCTCTCAA-TTTCTCCCAACAGTTT
1 TTTCTTCTCT-AATTTTCTCCCAACAGTTT
30667651 TTTCTTCTACT-ATTTTCTCCCAACA-TCTT
1 TTTCTTCT-CTAATTTTCTCCCAACAGT-TT
30667680 TTTCTTCTCTAATTTTCT
1 TTTCTTCTCTAATTTTCT
30667698 TTCCAACACA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.09
29 37 0.86
30 2 0.05
ACGTcount: A:0.16, C:0.29, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTCTTCTCTAATTTTCTCCCAACAGTTT
Found at i:30674185 original size:25 final size:25
Alignment explanation
Indices: 30674152--30674205 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
30674142 TGACAAAAAC
* *
30674152 AAAATCTAATCTAAAAA-GAAAAGA
1 AAAACCTAAGCTAAAAATGAAAAGA
30674176 GAAAACCTAAGCTAAAAATGAAAAGA
1 -AAAACCTAAGCTAAAAATGAAAAGA
30674202 AAAA
1 AAAA
30674206 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAACCTAAGCTAAAAATGAAAAGA
Found at i:30676888 original size:97 final size:96
Alignment explanation
Indices: 30676776--30677098 Score: 318
Period size: 97 Copynumber: 3.3 Consensus size: 96
30676766 TGCCGATTCA
* *
30676776 ATGTCCCAGACATGGTCTTACACTGGCACTCATCTGGTGCCGATGTCATGTCCCAGACATGGTCT
1 ATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGGTGCCGATGCCATGTCCCAGACATGGTCT
* **
30676841 TACACTGACTCTCCTTTGCCCGTGTCGATAAC
66 TACACTGACTCTCCTATGCCCGTG-CGATGCC
*
30676873 ATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GGTCTATGCCGATGCCATGTCCCAGACATG
1 ATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGG----TGCCGATGCCATGTCCCAGACATG
* * * *
30676937 GTCTTACACTGGCACT-C-AT-CTCGAGCAGATGCC
62 GTCTTACACTGACTCTCCTATGCCCGTGC-GATGCC
* * * * * *
30676970 ATATCCCAGACATGGTCTTACACTGACTCTCCTCTGTCTGTACCGATGCCATGTCCTAGACATGC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCCTCTG---GTGCCGATGCCATGTCCCAGACATGG
* *
30677035 TCTTACACT-AGCAT-TCCTCA-GTCTGTGCCGATGCC
63 TCTTACACTGA-C-TCTCCT-ATGCCCGTG-CGATGCC
30677070 ATGTCCCAGACATGGTCTTACACTGGCAC
1 ATGTCCCAGACATGGTCTTACACTGGCAC
30677099 ACTCACTGCC
Statistics
Matches: 184, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
96 3 0.02
97 103 0.56
98 3 0.02
99 1 0.01
100 72 0.39
101 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.28
Consensus pattern (96 bp):
ATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGGTGCCGATGCCATGTCCCAGACATGGTCT
TACACTGACTCTCCTATGCCCGTGCGATGCC
Found at i:30676905 original size:50 final size:50
Alignment explanation
Indices: 30676765--30677098 Score: 383
Period size: 50 Copynumber: 6.8 Consensus size: 50
30676755 TCGTATATCG
* * *
30676765 GTGCCGATTCAATGTCCCAGACATGGTCTTACACTGGCACTCATCTG---
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
* * * * * *
30676812 GTGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTTTGCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
* ** * *
30676862 GTGTCGATAACATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
* *
30676912 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
* * * * *
30676959 GAGCAGATGCCATATCCCAGACATGGTCTTACACTGACTCTCCTCTGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
* * * * * *
30677009 GTACCGATGCCATGTCCTAGACATGCTCTTACACTAGCATTCCTCAGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
30677059 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
30677099 ACTCACTGCC
Statistics
Matches: 235, Mismatches: 46, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
47 78 0.33
48 2 0.01
49 2 0.01
50 153 0.65
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.28
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTGTCT
Found at i:30677033 original size:147 final size:147
Alignment explanation
Indices: 30676766--30677098 Score: 495
Period size: 147 Copynumber: 2.3 Consensus size: 147
30676756 CGTATATCGG
* * * * * * *
30676766 TGCCGATTCAATGTCCCAGACATGGTCTTACACTGGCACTCATCTGGTGCCGATGTCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCAGATGCCATATCCCA
* ** *
30676831 GACATGGTCTTACACTGACTCTCCTTTGCCCGTGTCGATAACATGTCCCAGACATGGTCTTACAC
66 GACATGGTCTTACACTGACTCTCCTCTGCCCGTACCGATAACATGTCCCAGACATGCTCTTACAC
*
30676896 TAGCACTCCTCGGTCTA
131 TAGCACTCCTCAGTCTA
30676913 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCAGATGCCATATCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCAGATGCCATATCCCA
* * ** *
30676978 GACATGGTCTTACACTGACTCTCCTCTGTCTGTACCGATGCCATGTCCTAGACATGCTCTTACAC
66 GACATGGTCTTACACTGACTCTCCTCTGCCCGTACCGATAACATGTCCCAGACATGCTCTTACAC
* *
30677043 TAGCATTCCTCAGTCTG
131 TAGCACTCCTCAGTCTA
30677060 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
30677099 ACTCACTGCC
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
147 167 1.00
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.28
Consensus pattern (147 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCAGATGCCATATCCCA
GACATGGTCTTACACTGACTCTCCTCTGCCCGTACCGATAACATGTCCCAGACATGCTCTTACAC
TAGCACTCCTCAGTCTA
Found at i:30681429 original size:141 final size:141
Alignment explanation
Indices: 30681225--30681480 Score: 494
Period size: 141 Copynumber: 1.8 Consensus size: 141
30681215 TTGGAAACTC
* *
30681225 TTGGAAAAATTTAGAAAATTTTTGTCAAAACAGGGGTCACACACTCGTGTGGTTTTGAAGTTGGC
1 TTGGAAAAATTTAGAAAATTTTTGTCAAAACAGGGGTCACACACTCATGTGGTTTGGAAGTTGGC
30681290 TATTTTCCAAGCCAATTCCCCACTCTAAAACACAAACTCTCCTGTATCCATTTCATCAACATGTA
66 TATTTTCCAAGCCAATTCCCCACTCTAAAACACAAACTCTCCTGTATCCATTTCATCAACATGTA
30681355 TCATACTATAA
131 TCATACTATAA
30681366 TTGGAAAAATTTAGAAAATTTTTGTCAAAACAGGGGTCACACACTCATGTGGTTTGGAAGTTGGC
1 TTGGAAAAATTTAGAAAATTTTTGTCAAAACAGGGGTCACACACTCATGTGGTTTGGAAGTTGGC
30681431 TATTTTCCAAGCCAATTCCCCACTCTAAAACACAAACTCTCCTGTATCCA
66 TATTTTCCAAGCCAATTCCCCACTCTAAAACACAAACTCTCCTGTATCCA
30681481 ATTTTGCTTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 113 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (141 bp):
TTGGAAAAATTTAGAAAATTTTTGTCAAAACAGGGGTCACACACTCATGTGGTTTGGAAGTTGGC
TATTTTCCAAGCCAATTCCCCACTCTAAAACACAAACTCTCCTGTATCCATTTCATCAACATGTA
TCATACTATAA
Found at i:30682923 original size:47 final size:48
Alignment explanation
Indices: 30682856--30683042 Score: 205
Period size: 50 Copynumber: 3.8 Consensus size: 48
30682846 TCGTATATCG
* *
30682856 GTGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACTCATCT-T
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCT
* * * *
30682903 GAGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATCTGCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCT--CT
* ** * *
30682953 GTGCTGATGCCATGTCCCAGATGTGGTCTTAAACTAGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC--TCT
* * *
30683003 GTGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
30683043 ACTCACTACC
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 41 0.36
50 73 0.63
52 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCT
Found at i:30683035 original size:100 final size:97
Alignment explanation
Indices: 30682856--30683037 Score: 247
Period size: 97 Copynumber: 1.8 Consensus size: 97
30682846 TCGTATATCG
* * *
30682856 GTGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTTGAGCCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCACTCATCTTGAGCCGATGCCATGTCCC
30682921 AGACATGGTCTTACACTAACTCTCATCTGCCC
66 AGACATGGTCTTACACTAACTCTCATCTGCCC
* ** * * *
30682953 GTGCTGATGCCATGTCCCAGATGTGGTCTTAAACTAGCACTCCTCGGTCTGTGCTGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCACTCATC--T-TGAGCCGATGCCATGT
*
30683018 CCTAGACATGGTCTTACACT
63 CCCAGACATGGTCTTACACT
30683038 GGCACACTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
97 38 0.53
99 1 0.01
100 33 0.46
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.29
Consensus pattern (97 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCACTCATCTTGAGCCGATGCCATGTCCC
AGACATGGTCTTACACTAACTCTCATCTGCCC
Found at i:30692191 original size:13 final size:14
Alignment explanation
Indices: 30692164--30692192 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30692154 CAAAAATTAT
30692164 AATTAAAGTAAAAG
1 AATTAAAGTAAAAG
30692178 AATTAAAG-AAAAG
1 AATTAAAGTAAAAG
30692191 AA
1 AA
30692193 AGATAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (14 bp):
AATTAAAGTAAAAG
Found at i:30694107 original size:20 final size:21
Alignment explanation
Indices: 30694068--30694107 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30694058 ATTTTTCTAT
**
30694068 CACTTCAATTTTTGCTCTGTC
1 CACTTCAATTCCTGCTCTGTC
30694089 CACTTCAATTCCT-CTCTGT
1 CACTTCAATTCCTGCTCTGT
30694108 GATATCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.45
Consensus pattern (21 bp):
CACTTCAATTCCTGCTCTGTC
Found at i:30698335 original size:281 final size:279
Alignment explanation
Indices: 30697495--30698353 Score: 1594
Period size: 279 Copynumber: 3.1 Consensus size: 279
30697485 AGTTGAAATA
*
30697495 AAAAAATAAGTTAAAATAGTGTCCTAAAAAATAAATTATATATATGTATAGATAAATAAAATGAT
1 AAAAAA-AA-TTAAAATAGGGTCCTAAAAAATAAATTATATATATGTATAGATAAATAAAATGAT
*
30697560 GTAATAATATATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGAT
64 GTAATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGAT
*
30697625 ATAAAATAGTATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAAT
129 ATAAAATAATATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAAT
30697690 TTATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATAT
194 TTATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATAT
*
30697755 CAGTAGCAATAATGTGATAAT
259 CAGTAGTAATAATGTGATAAT
30697776 AAAAAAAATTAAAATAGGGTCCTAAAAAATAAATTATATATATGTATAGATAAATAAAATGATGT
1 AAAAAAAATTAAAATAGGGTCCTAAAAAATAAATTATATATATGTATAGATAAATAAAATGATGT
*
30697841 AATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATATATAT
66 AATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGATAT
30697906 AAAATAATATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAATTT
131 AAAATAATATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAATTT
30697971 ATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATATCA
196 ATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATATCA
*
30698036 GTAGTAATAATATGATAAT
261 GTAGTAATAATGTGATAAT
30698055 AAAAAAAATTAAAATAGGGTCCTAAAAAATAAATTATATATATATGTATAGATAAATAAAATGAT
1 AAAAAAAATTAAAATAGGGTCCTAAAAAATAAA-T-TATATATATGTATAGATAAATAAAATGAT
30698120 GTAATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGAT
64 GTAATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGAT
30698185 ATAAAATAATATTGTATAAAAATATT-AAAACCTAAAATAATATTACATAATAACATAAAATAAT
129 ATAAAATAATATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAAT
30698249 TTATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATAT
194 TTATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATAT
30698314 CAGTAGTAATAATGGTGATAAT
259 CAGTAGTAATAAT-GTGATAAT
30698336 AATAAAAAATTAATAATA
1 AA-AAAAAATTAA-AATA
30698354 ATAGATTAAT
Statistics
Matches: 565, Mismatches: 8, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
279 298 0.53
280 119 0.21
281 134 0.24
282 10 0.02
283 4 0.01
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (279 bp):
AAAAAAAATTAAAATAGGGTCCTAAAAAATAAATTATATATATGTATAGATAAATAAAATGATGT
AATAATGTATTATATACTCGTATATGTTTTAATAAAATGATTTAATATAAGTTGTATATAGATAT
AAAATAATATTGTATAAAAATATTAAAAACCTAAAATAATATTACATAATAACATAAAATAATTT
ATATACGTAAATAATGGCAATTAAATATACAAACTAATATAATAACAATATCAATAATAATATCA
GTAGTAATAATGTGATAAT
Found at i:30698369 original size:14 final size:14
Alignment explanation
Indices: 30698332--30698370 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
30698322 ATAATGGTGA
*
30698332 TAATAATAAAAAAT
1 TAATAATAATAAAT
*
30698346 TAATAATAATAGAT
1 TAATAATAATAAAT
30698360 TAATAATAATA
1 TAATAATAATA
30698371 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:30700014 original size:44 final size:44
Alignment explanation
Indices: 30699966--30700078 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
30699956 TCAATCTATT
* *
30699966 CCACTGCAACCTC-GGAGAGATAAGATTTGCTTCT-TCGGTCTGCC
1 CCACTGCAACCTCAGG-GAGATAAGAATTG-TTCTCTCAGTCTGCC
** * * * *
30700010 CCACTGTGACTTCAGGGGGATAAGAATTGTTTTCTCAGTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGAATTGTTCTCTCAGTCTGCC
30700054 CCACTGCAACCTCAGGGAGATAAGA
1 CCACTGCAACCTCAGGGAGATAAGA
30700079 CCTAATGCGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.05
44 50 0.91
45 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (44 bp):
CCACTGCAACCTCAGGGAGATAAGAATTGTTCTCTCAGTCTGCC
Found at i:30700266 original size:217 final size:216
Alignment explanation
Indices: 30699879--30700335 Score: 600
Period size: 217 Copynumber: 2.1 Consensus size: 216
30699869 CAATCTGTTG
* * *
30699879 TACTGCAACTTTAGAGAGATAAGATCCATGGTTTTAATCCACTCCACTAGAACTTCAGGGAGATA
1 TACTGCAAC-TTAGAGAGATAAGATCCATGATTTTAATCCACTCCACTACAACTTCAAGGAGATA
* * *
30699944 GGATTATCGACTTCAATCTATTCCACTGCAACCTCGGAGAGATAAGATTTGCTTCTTCGGTCTGC
65 GGATTATCGACTTCAATCTACTCCACTGCAACCTCGGAGAGATAAGATTTGCATCTTCGATCTGC
** * * * *
30700009 CCCACTGTGACTTCAGGGGGATAAGAATTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGA
130 CCCACTGCAACTTCAGAGAGATAAGAACTGTTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
*
30700074 TAAGA-CCTAATGCGATCCACTT
195 TAAGAGCC-AATGCGATCCACTC
* * *
30700096 TACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTACAACTTCAAGGAGATA
1 TACTGCAACTT-AGAGAGATAAGATCCATGATTTTAATCCACTCCACTACAACTTCAAGGAGATA
* * * *
30700161 GGATTATCGGCTTC-TTCTGCTCTACTGCAACCTCAGG-GAGATAAGATTTGCCATCTTCGATCT
65 GGATTATCGACTTCAATCTACTCCACTGCAACCTC-GGAGAGATAAGATTTG-CATCTTCGATCT
* * **
30700224 GTCCCACTGCAACTTCAGAGAGATAAGACCTGTTTACTCAGTCTGCTCCGTTGCAACCTCAGGGA
128 GCCCCACTGCAACTTCAGAGAGATAAGAACTGTTTACTCAGTCTGCTCCACTGCAACCTCAGGGA
30700289 GATAAGAGCCAATGCGATCCACTC
193 GATAAGAGCCAATGCGATCCACTC
*
30700313 TACCGCAAACTT-GA-AGATAAGAT
1 TACTGC-AACTTAGAGAGATAAGAT
30700336 TCACCGTCTT
Statistics
Matches: 210, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
215 9 0.04
216 33 0.16
217 161 0.77
218 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (216 bp):
TACTGCAACTTAGAGAGATAAGATCCATGATTTTAATCCACTCCACTACAACTTCAAGGAGATAG
GATTATCGACTTCAATCTACTCCACTGCAACCTCGGAGAGATAAGATTTGCATCTTCGATCTGCC
CCACTGCAACTTCAGAGAGATAAGAACTGTTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
AAGAGCCAATGCGATCCACTC
Found at i:30700716 original size:128 final size:128
Alignment explanation
Indices: 30700321--30700939 Score: 954
Period size: 128 Copynumber: 4.8 Consensus size: 128
30700311 TCTACCGCAA
* * * *
30700321 ACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAATATCTATAA
1 ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
* * * *
30700386 TTTCCCAATCTTTTCCACTACTGACCAGGGATATAGGACTTGTGGCTTAAATCTTCTTCCTTAC
66 TTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
* *
30700450 ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAATATATGTAA
1 ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
30700515 TTTCCAAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
66 TTTCC-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
* * * *
30700579 ACTTAAAGATAAGATTCGCTGTCTTCGATCTGCTCTGCTATTGCTTAGGGAGACAAGATCTGTAA
1 ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
*
30700644 TTTCCAACCTATTCCACTGCTGACCAGGGATATAGAACTTGTGGCTTAAATCTGCTTCCTTAC
66 TTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
* * *
30700707 TCTTGAAGATAAGATTTGCCG-CTTTCGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTA
1 ACTTGAAGATAAGATTCGCCGTC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTA
30700771 ATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
65 ATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
* * * * *
30700835 TCTTGAAGATAAGATTTGCC-ACTTTCGATCTGCTTCGCTACTACTTAGGGAGACAAGATCTGTA
1 ACTTGAAGATAAGATTCGCCGTC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTA
* * *
30700899 ATTTCCAACCTATTCCATTGCTGACTAGGGATATAAGACTT
65 ATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
30700940 ATGATTTCAT
Statistics
Matches: 460, Mismatches: 27, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
127 1 0.00
128 277 0.60
129 182 0.40
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (128 bp):
ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA
TTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTAC
Found at i:30703169 original size:19 final size:19
Alignment explanation
Indices: 30703121--30703170 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 19
30703111 GACTTTGACT
* *
30703121 TTGATTTTTCTTTTTCTTC
1 TTGATTTTGCTTTTTCATC
*
30703140 TT--TTTTG-TTTTTGATC
1 TTGATTTTGCTTTTTCATC
30703156 TTGATTTTGCTTTTT
1 TTGATTTTGCTTTTT
30703171 TTTTGGGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 9 0.36
17 4 0.16
18 5 0.20
19 7 0.28
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.74
Consensus pattern (19 bp):
TTGATTTTGCTTTTTCATC
Found at i:30707834 original size:23 final size:22
Alignment explanation
Indices: 30707808--30707855 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
30707798 ATTAAAAACC
30707808 TAAAATAATATTACATA-ATAACA
1 TAAAATAAT-TTACATACATAA-A
*
30707831 TAAAATAATTTATATACATAAA
1 TAAAATAATTTACATACATAAA
30707853 TAA
1 TAA
30707856 TGGCAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAATTTACATACATAAA
Found at i:30728842 original size:15 final size:16
Alignment explanation
Indices: 30728822--30728859 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
30728812 TATGGTAGCT
30728822 ATAAAATAGTCT-AAA
1 ATAAAATAGTCTAAAA
*
30728837 ATAAAATATTCTAAAA
1 ATAAAATAGTCTAAAA
30728853 ATAAAAT
1 ATAAAAT
30728860 TAGTAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAAATAGTCTAAAA
Found at i:30730610 original size:58 final size:58
Alignment explanation
Indices: 30730516--30730660 Score: 191
Period size: 58 Copynumber: 2.5 Consensus size: 58
30730506 ATAACCGACA
*
30730516 ACCATAGCATCTTTCATCTATGGTCTTACACCGTATACCTTAGACATTTTACCTTGCC
1 ACCATTGCATCTTTCATCTATGGTCTTACACCGTATACCTTAGACATTTTACCTTGCC
** * * * **
30730574 ACCATTGCATCTTTCATCTATGGTCTTACATTGTATATCTTATACCTTTTACCTTGTT
1 ACCATTGCATCTTTCATCTATGGTCTTACACCGTATACCTTAGACATTTTACCTTGCC
* * *
30730632 GCCATTGCGTCTTTCATCCATGGTCTTAC
1 ACCATTGCATCTTTCATCTATGGTCTTAC
30730661 TCCATTACCA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (58 bp):
ACCATTGCATCTTTCATCTATGGTCTTACACCGTATACCTTAGACATTTTACCTTGCC
Found at i:30746283 original size:50 final size:50
Alignment explanation
Indices: 30746215--30746326 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
30746205 AGATATTTAG
* * * *
30746215 TCTTATCGCCTTGACATTGCAATGGAAAAGATTGAAGCCACAACGGCGAA
1 TCTTATCTCCCTGGCATTGCAACGGAAAAGATTGAAGCCACAACGGCGAA
* * * ** * *
30746265 TCTTATTTCCCTGGCATTGTAGCGGAGCAGATTGAAGTCACGACGGCGAA
1 TCTTATCTCCCTGGCATTGCAACGGAAAAGATTGAAGCCACAACGGCGAA
30746315 TCTTATCTCCCT
1 TCTTATCTCCCT
30746327 AGCGTTAAGG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (50 bp):
TCTTATCTCCCTGGCATTGCAACGGAAAAGATTGAAGCCACAACGGCGAA
Found at i:30746733 original size:267 final size:267
Alignment explanation
Indices: 30746228--30746769 Score: 769
Period size: 267 Copynumber: 2.0 Consensus size: 267
30746218 TATCGCCTTG
* * * *
30746228 ACATTGCAATGGAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGC
1 ACATTGCAATGGAAAAGACTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGTAACAGAGC
* * *
30746293 AGATTGAAGTCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGCTGAAGTGGAG
66 AAATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGCTAAAGTGGAG
*
30746358 CGAATTAAGGCTGTGGGCAGCAAATCCTATCTCTTTAGCATTACAGTCGAACAGATTGAAACCAC
131 CGAATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCATTACAGTCGAACAGATTGAAACCAC
* * * * * *
30746423 GACGGTGAATATTACTCCCCTGATGGTGTAGTGGAATAGATTGAAGCTACGATAGCGAATCTTGT
196 AACGGTGAATATTACTCCCCTGACGGTGTAGCGGAACAGATTGAAGCCACGACAGCGAATCTTGT
*
30746488 TTCCTCA
261 TTCCCCA
** * * * *
30746495 ACATTGCAATTTAAAAGACTGAAGCCGCGACGGCGAGTCTTACTTCCCTGGCGTTGTAACAGAGC
1 ACATTGCAATGGAAAAGACTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGTAACAGAGC
*
30746560 AAATTGAAGCCACGACGGCGAATCTTATCTCCCTAGTGTTAAGGCTTGGATTAGCTAAAGTGGAG
66 AAATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGCTAAAGTGGAG
* * * * *
30746625 CGGATTAAAGCTGTGGGCAGCGAATTCTATCTCTTTAGCATTACAGTGGAGCAGATTGAAACCAC
131 CGAATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCATTACAGTCGAACAGATTGAAACCAC
* * * * * * *
30746690 AACGGTGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACGGTGAATCTTGT
196 AACGGTGAATATTACTCCCCTGACGGTGTAGCGGAACAGATTGAAGCCACGACAGCGAATCTTGT
*
30746755 TTCCCCG
261 TTCCCCA
30746762 ACATTGCA
1 ACATTGCA
30746770 GATGACAAAT
Statistics
Matches: 240, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
267 240 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (267 bp):
ACATTGCAATGGAAAAGACTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGTAACAGAGC
AAATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGCTAAAGTGGAG
CGAATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCATTACAGTCGAACAGATTGAAACCAC
AACGGTGAATATTACTCCCCTGACGGTGTAGCGGAACAGATTGAAGCCACGACAGCGAATCTTGT
TTCCCCA
Found at i:30748444 original size:30 final size:28
Alignment explanation
Indices: 30748408--30748474 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
30748398 TACATATGTA
* *
30748408 TATATTTATATTTTTTTATGAATATTTTT
1 TATATTTAT-TTTTTTAATAAATATTTTT
30748437 CTATATTTCATTTTTTTAATAAATATTTTT
1 -TATATTT-ATTTTTTTAATAAATATTTTT
30748467 T-TATTTAT
1 TATATTTAT
30748475 CCGTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 2 0.06
28 5 0.15
29 1 0.03
30 24 0.71
31 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (28 bp):
TATATTTATTTTTTTAATAAATATTTTT
Found at i:30748464 original size:15 final size:14
Alignment explanation
Indices: 30748415--30748470 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
30748405 GTATATATTT
*
30748415 ATATTTTTTTATGA
1 ATATTTTTTTATAA
* *
30748429 ATATTTTTCTATAT
1 ATATTTTTTTATAA
*
30748443 TTCATTTTTTTAATAA
1 AT-ATTTTTTT-ATAA
30748459 ATATTTTTTTAT
1 ATATTTTTTTAT
30748471 TTATCCGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
14 14 0.42
15 15 0.45
16 4 0.12
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (14 bp):
ATATTTTTTTATAA
Found at i:30753223 original size:62 final size:62
Alignment explanation
Indices: 30753126--30753250 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
30753116 TTCGCCGTTC
* * *
30753126 TATCTTTGCTCTTAAAGTTTTTGCATAAAGACATTAGGTTAATAGTTTAGTTTAAGAAATTT
1 TATCTTTGCTCTTAAAGTTTTTGCATAAAGACATTAGATTAATAGTTAAATTTAAGAAATTT
* * *
30753188 TATCTTTGGTTTTAATGTTTTTGCATAAAGACATTAGATTAATAGTTAAATTTAAGAAATTT
1 TATCTTTGCTCTTAAAGTTTTTGCATAAAGACATTAGATTAATAGTTAAATTTAAGAAATTT
30753250 T
1 T
30753251 CTATGATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (62 bp):
TATCTTTGCTCTTAAAGTTTTTGCATAAAGACATTAGATTAATAGTTAAATTTAAGAAATTT
Found at i:30756425 original size:25 final size:26
Alignment explanation
Indices: 30756378--30756426 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
30756368 TTTTTCTTTT
*
30756378 CTTTTCATTTTAAGATTAGATTTTCC
1 CTTTTCATTTTAAGAATAGATTTTCC
* *
30756404 CTTTTC-TTTTTAGAATATATTTT
1 CTTTTCATTTTAAGAATAGATTTT
30756427 ATTTTTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (26 bp):
CTTTTCATTTTAAGAATAGATTTTCC
Found at i:30758406 original size:5 final size:5
Alignment explanation
Indices: 30758395--30758430 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
30758385 TATTTAAATT
* *
30758395 AAAAG AAGAG AAAAG AAATG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
30758431 GAGAAAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:30758410 original size:10 final size:10
Alignment explanation
Indices: 30758395--30758437 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
30758385 TATTTAAATT
30758395 AAAAGAAGAG
1 AAAAGAAGAG
30758405 AAAAGAA-ATG
1 AAAAGAAGA-G
*
30758415 AAAAGAAAAG
1 AAAAGAAGAG
30758425 AAAAG-AGAG
1 AAAAGAAGAG
30758434 AAAA
1 AAAA
30758438 CAAAGAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 21 0.70
11 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAAGAAGAG
Found at i:30758418 original size:20 final size:20
Alignment explanation
Indices: 30758390--30758430 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30758380 TTAATTATTT
* *
30758390 AAATTAAAAGAAGAGAAAAG
1 AAATGAAAAGAAAAGAAAAG
30758410 AAATGAAAAGAAAAGAAAAG
1 AAATGAAAAGAAAAGAAAAG
30758430 A
1 A
30758431 GAGAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
AAATGAAAAGAAAAGAAAAG
Found at i:30759151 original size:5 final size:5
Alignment explanation
Indices: 30759141--30759166 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30759131 TGAGCATTCG
30759141 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
30759167 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:30760204 original size:9 final size:9
Alignment explanation
Indices: 30760190--30760226 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30760180 TATAGTTTGA
30760190 TATTCGAAT
1 TATTCGAAT
30760199 TATTCGAAT
1 TATTCGAAT
*
30760208 TATTCGAGT
1 TATTCGAAT
*
30760217 TATTTGAAT
1 TATTCGAAT
30760226 T
1 T
30760227 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30760756 original size:11 final size:11
Alignment explanation
Indices: 30760742--30760777 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
30760732 GATAATCACT
30760742 TTAATAGTAAA
1 TTAATAGTAAA
30760753 TTAATA--AAA
1 TTAATAGTAAA
30760762 -TAATAGTAAA
1 TTAATAGTAAA
30760772 TTAATA
1 TTAATA
30760778 AAATATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.23
9 3 0.14
10 3 0.14
11 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:30760757 original size:20 final size:20
Alignment explanation
Indices: 30760708--30760776 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
30760698 CAACTATAAT
*
30760708 TAAACTTAATCACTTTAATAT
1 TAAA-TTAATCACTTTAATAG
30760729 TAAGA-TAATCACTTTAATAG
1 TAA-ATTAATCACTTTAATAG
***
30760749 TAAATTAAT-AAAATAATAG
1 TAAATTAATCACTTTAATAG
30760768 TAAATTAAT
1 TAAATTAAT
30760777 AAAATATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 17 0.40
20 21 0.50
21 3 0.07
22 1 0.02
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (20 bp):
TAAATTAATCACTTTAATAG
Found at i:30760767 original size:19 final size:19
Alignment explanation
Indices: 30760743--30760782 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30760733 ATAATCACTT
30760743 TAATAGTAAATTAATAAAA
1 TAATAGTAAATTAATAAAA
30760762 TAATAGTAAATTAATAAAA
1 TAATAGTAAATTAATAAAA
30760781 TA
1 TA
30760783 TTGTTAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAATAGTAAATTAATAAAA
Found at i:30762454 original size:15 final size:15
Alignment explanation
Indices: 30762434--30762463 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30762424 TATGCATGCA
30762434 AAATATAAAAGACAT
1 AAATATAAAAGACAT
30762449 AAATATAAAAGACAT
1 AAATATAAAAGACAT
30762464 TATAGTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:30763926 original size:23 final size:22
Alignment explanation
Indices: 30763872--30763922 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
30763862 AATAAAAACA
30763872 AAAACATATGTATAAAATATAT
1 AAAACATATGTATAAAATATAT
* **
30763894 ATAAGCATATGTATACTATATAT
1 A-AAACATATGTATAAAATATAT
30763917 AAAACA
1 AAAACA
30763923 ATATATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAACATATGTATAAAATATAT
Found at i:30763972 original size:3 final size:3
Alignment explanation
Indices: 30763959--30764000 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
30763949 GCGCATGAAT
*
30763959 ATA AAA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
30764001 GATACAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30764520 original size:229 final size:229
Alignment explanation
Indices: 30764248--30764704 Score: 905
Period size: 229 Copynumber: 2.0 Consensus size: 229
30764238 ATCAATAAAT
30764248 AAATTATACACAAATCAACAAAATAAGAACGCAAGAGAGAGAGAAATTTGAGTAAATACTCTTAA
1 AAATTATACACAAATCAACAAAATAAGAACGCAAGAGAGAGAGAAATTTGAGTAAATACTCTTAA
30764313 GAATTATTATTACTCCCCACTTCCGTCCTTTACAATGAAGGGAGAGGCATCTATTTATAGTTGAG
66 GAATTATTATTACTCCCCACTTCCGTCCTTTACAATGAAGGGAGAGGCATCTATTTATAGTTGAG
*
30764378 CCTCCCAAAATCCAACGGTACAGATTAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAAT
131 CATCCCAAAATCCAACGGTACAGATTAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAAT
30764443 TAAATCTCTAAGATCATATCTTCTAAGATTGTAA
196 TAAATCTCTAAGATCATATCTTCTAAGATTGTAA
30764477 AAATTATACACAAATCAACAAAATAAGAACGCAAGAGAGAGAGAAATTTGAGTAAATACTCTTAA
1 AAATTATACACAAATCAACAAAATAAGAACGCAAGAGAGAGAGAAATTTGAGTAAATACTCTTAA
30764542 GAATTATTATTACTCCCCACTTCCGTCCTTTACAATGAAGGGAGAGGCATCTATTTATAGTTGAG
66 GAATTATTATTACTCCCCACTTCCGTCCTTTACAATGAAGGGAGAGGCATCTATTTATAGTTGAG
30764607 CATCCCAAAATCCAACGGTACAGATTAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAAT
131 CATCCCAAAATCCAACGGTACAGATTAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAAT
30764672 TAAATCTCTAAGATCATATCTTCTAAGATTGTA
196 TAAATCTCTAAGATCATATCTTCTAAGATTGTA
30764705 TATCATATCT
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 227 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (229 bp):
AAATTATACACAAATCAACAAAATAAGAACGCAAGAGAGAGAGAAATTTGAGTAAATACTCTTAA
GAATTATTATTACTCCCCACTTCCGTCCTTTACAATGAAGGGAGAGGCATCTATTTATAGTTGAG
CATCCCAAAATCCAACGGTACAGATTAATTACATCAACGGCTAAGATTAAAAGGTATCTACAAAT
TAAATCTCTAAGATCATATCTTCTAAGATTGTAA
Found at i:30764717 original size:19 final size:19
Alignment explanation
Indices: 30764678--30764746 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
30764668 AAATTAAATC
30764678 TCTAAGA-T-CATATC-T-
1 TCTAAGATTGCATATCATA
*
30764693 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
30764712 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
30764731 TTTAAGATTGCATATC
1 TCTAAGATTGCATATC
30764747 CTTGAAGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
15 7 0.16
16 1 0.02
17 5 0.11
18 1 0.02
19 31 0.69
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30764864 original size:13 final size:14
Alignment explanation
Indices: 30764846--30764877 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
30764836 ATAATTTTGG
30764846 ATTTTG-TTTTATT
1 ATTTTGTTTTTATT
30764859 ATTTTGTTTTTATT
1 ATTTTGTTTTTATT
30764873 ATTTT
1 ATTTT
30764878 TTTATGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
ATTTTGTTTTTATT
Found at i:30770191 original size:27 final size:27
Alignment explanation
Indices: 30770161--30770338 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30770151 ATATTGAGTC
* * * *
30770161 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30770188 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30770215 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30770243 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30770270 CGCACACTTAGTGC-ATCATACTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30770297 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30770324 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30770339 GTACAATTTC
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30770300 original size:82 final size:81
Alignment explanation
Indices: 30770182--30770337 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30770172 TGCTATATAA
* *
30770182 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30770247 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30770264 TCAATTCGCACACTTAGTGC-ATCATACTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30770328 CACTTAGTGC
65 CACTTAGTGC
30770338 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30777422 original size:51 final size:50
Alignment explanation
Indices: 30777320--30777510 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 50
30777310 TGTGAAAATA
* ** * ** *
30777320 AGGTATAAGACCATGTAAGAGAGGCACCATGACATATACAGATATCG-TATG
1 AGGTATAAGACCATGTGAGAGAGG-TTCATGGCATCCACATATAT-GATATG
30777371 AGGTATAAGACCATGTGAGAGAGGTTGCATGGCATCCACATATATGATATG
1 AGGTATAAGACCATGTGAGAGAGGTT-CATGGCATCCACATATATGATATG
* **
30777422 AGGTATAAGACCATGTGAGAGAGGCTTCATGTCATTTACATATATGATATG
1 AGGTATAAGACCATGTGAGAGAGG-TTCATGGCATCCACATATATGATATG
* * *
30777473 AGGTGTAAGACCATGTGAGAAATGTTCAATGGCATCCA
1 AGGTATAAGACCATGTGAGAGAGGTTC-ATGGCATCCA
30777511 TTGTGTTAGT
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
50 4 0.03
51 114 0.95
52 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (50 bp):
AGGTATAAGACCATGTGAGAGAGGTTCATGGCATCCACATATATGATATG
Found at i:30777505 original size:102 final size:102
Alignment explanation
Indices: 30777320--30777510 Score: 269
Period size: 102 Copynumber: 1.9 Consensus size: 102
30777310 TGTGAAAATA
30777320 AGGTATAAGACCATGTAAGAGAGGCACCATGACATATACAGATATCGTATGAGGTATAAGACCAT
1 AGGTATAAGACCATGTAAGAGAGGCACCATGACATATACAGATATCGTATGAGGTATAAGACCAT
*
30777385 GTGAGAGAGGTTGCATGGCATCCACATATATGATATG
66 GTGAGAAAGGTTGCATGGCATCCACATATATGATATG
* ** * * * *
30777422 AGGTATAAGACCATGTGAGAGAGGCTTCATGTCATTTACATATAT-GATATGAGGTGTAAGACCA
1 AGGTATAAGACCATGTAAGAGAGGCACCATGACATATACAGATATCG-TATGAGGTATAAGACCA
*
30777486 TGTGAGAAATGTT-CAATGGCATCCA
65 TGTGAGAAAGGTTGC-ATGGCATCCA
30777511 TTGTGTTAGT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 2 0.03
102 76 0.97
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (102 bp):
AGGTATAAGACCATGTAAGAGAGGCACCATGACATATACAGATATCGTATGAGGTATAAGACCAT
GTGAGAAAGGTTGCATGGCATCCACATATATGATATG
Found at i:30778856 original size:30 final size:30
Alignment explanation
Indices: 30778815--30778882 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
30778805 TGAGACTAAG
* * *
30778815 AGGAGATCTATATGCCTAGGTAAAATCGAA
1 AGGAGAACTATATGCCTAGGTAAAACCAAA
*
30778845 AGGAGAACTATATGCCTAGGTGAAACCAAA
1 AGGAGAACTATATGCCTAGGTAAAACCAAA
30778875 AGGAGAAC
1 AGGAGAAC
30778883 CTACATGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (30 bp):
AGGAGAACTATATGCCTAGGTAAAACCAAA
Found at i:30781318 original size:14 final size:13
Alignment explanation
Indices: 30781290--30781319 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30781280 TACTTTTGAG
30781290 AAATGCTTTAAAA
1 AAATGCTTTAAAA
*
30781303 AAATGCTTTGAAA
1 AAATGCTTTAAAA
30781316 AAAT
1 AAAT
30781320 AATTTTGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (13 bp):
AAATGCTTTAAAA
Found at i:30783363 original size:92 final size:92
Alignment explanation
Indices: 30783191--30783380 Score: 256
Period size: 92 Copynumber: 2.1 Consensus size: 92
30783181 GTTGCATTTA
* * * * *
30783191 GTACTTGTACTTTAATAAAATATTCAATGTAGTACATGTACTTTGAAAATGTCCAATGTGGTATC
1 GTACCTGTACTTTAATAAAATATCCAATGTAGTACATATACTTTGAAAATGTCCAATATGGTACC
* *
30783256 TGAACCATCAGTATGTGTTTTCTTATG
66 TGAACCATCAATATGTGTTTTATTATG
* * *
30783283 GTACCTGTGCTTTCATAAAATATCCAATGT-GATACCTATACTTTGAAAATGTCCAATATGGTAC
1 GTACCTGTACTTTAATAAAATATCCAATGTAG-TACATATACTTTGAAAATGTCCAATATGGTAC
*
30783347 CTGAACTATCAATATGTGTTTTATTATG
65 CTGAACCATCAATATGTGTTTTATTATG
*
30783375 ATACCT
1 GTACCT
30783381 AGTATTATCA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 84 0.99
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (92 bp):
GTACCTGTACTTTAATAAAATATCCAATGTAGTACATATACTTTGAAAATGTCCAATATGGTACC
TGAACCATCAATATGTGTTTTATTATG
Found at i:30789841 original size:19 final size:18
Alignment explanation
Indices: 30789804--30789884 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
30789794 ATAAAACATG
30789804 AAAATATAAATATCATAA
1 AAAATATAAATATCATAA
* *
30789822 AAAATATGAATGTACATAA
1 AAAATATAAATAT-CATAA
*
30789841 AATATATAAACTAT-A-AA
1 AAAATATAAA-TATCATAA
* *
30789858 AATAATAT-GATATGATAA
1 AA-AATATAAATATCATAA
30789876 TAAAATATA
1 -AAAATATA
30789885 TACGTACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.06
17 6 0.12
18 23 0.47
19 15 0.31
20 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATATAAATATCATAA
Found at i:30790018 original size:12 final size:15
Alignment explanation
Indices: 30789983--30790015 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30789973 AATAATATAC
30789983 AATATAATAATAATT
1 AATATAATAATAATT
30789998 AATATAATAA-AATT
1 AATATAATAATAATT
30790012 AATA
1 AATA
30790016 ATATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATAATAATAATT
Found at i:30791592 original size:10 final size:11
Alignment explanation
Indices: 30791517--30791588 Score: 65
Period size: 11 Copynumber: 6.1 Consensus size: 11
30791507 AATTATAAAA
*
30791517 TAATTAAATTA
1 TAATTAAATTT
30791528 TAATTAAATTAT
1 TAATTAAATT-T
30791540 TAACATGTCAAATTT
1 T-A-AT-T-AAATTT
30791555 TAATTAAATTT
1 TAATTAAATTT
30791566 ATAATTAAATTT
1 -TAATTAAATTT
*
30791578 TGATT-AATTT
1 TAATTAAATTT
30791588 T
1 T
30791589 GATTTATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.11
11 20 0.38
12 13 0.25
13 3 0.06
14 3 0.06
15 3 0.06
16 5 0.09
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATTAAATTT
Found at i:30798252 original size:48 final size:48
Alignment explanation
Indices: 30798181--30798285 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
30798171 ACGGGAAGTC
*
30798181 CGATGTCGCAACATAGAGAACATAATAAAGAAAGTACGAAACTACCTT
1 CGATGTCGCAACATAGAGAACATAATAAAGAAAGTACAAAACTACCTT
* ** *
30798229 CGATGTTGCAACATAGAGAACATAATGGAGAAAGTACAAAACTGCCTT
1 CGATGTCGCAACATAGAGAACATAATAAAGAAAGTACAAAACTACCTT
30798277 CGATGTCGC
1 CGATGTCGC
30798286 GACACTGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (48 bp):
CGATGTCGCAACATAGAGAACATAATAAAGAAAGTACAAAACTACCTT
Found at i:30802635 original size:13 final size:12
Alignment explanation
Indices: 30802586--30802641 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 12
30802576 TGTTAATAGG
*
30802586 GGAAAATGAAAT
1 GGAAAATAAAAT
30802598 GGAAAAATAAAAT
1 GG-AAAATAAAAT
30802611 GGAAAGATAAAAT
1 GGAAA-ATAAAAT
*
30802624 TGAAAATGAAAAT
1 GGAAAAT-AAAAT
*
30802637 AGAAA
1 GGAAA
30802642 CCAAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 7 0.18
13 31 0.82
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (12 bp):
GGAAAATAAAAT
Found at i:30808265 original size:13 final size:12
Alignment explanation
Indices: 30808216--30808271 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 12
30808206 TGTTAATAGG
*
30808216 GGAAAATGAAAT
1 GGAAAATAAAAT
30808228 GGAAAAATAAAAT
1 GG-AAAATAAAAT
30808241 GGAAAGATAAAAT
1 GGAAA-ATAAAAT
*
30808254 TGAAAATGAAAAT
1 GGAAAAT-AAAAT
*
30808267 AGAAA
1 GGAAA
30808272 CCAAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 7 0.18
13 31 0.82
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (12 bp):
GGAAAATAAAAT
Found at i:30824327 original size:26 final size:26
Alignment explanation
Indices: 30824293--30824365 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
30824283 TGGCTATTCA
30824293 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* *
30824318 GAGCTTCCTGATTAAAGGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* * *
30824344 AAACTTCCTGATT-ATGGCTCTT
1 GAGCTTCCTGATTAAAGGCTCTT
30824366 ATGAGTTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCGT
Found at i:30836890 original size:44 final size:43
Alignment explanation
Indices: 30836840--30836934 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
30836830 TTTTTTGTGT
30836840 ATTATATACGTATTT-TATTATGTTAATATATGATAAAGCTGTTA
1 ATTATATACGT-TTTCT-TTATGTTAATATATGATAAAGCTGTTA
** * *
30836884 ATTATATTGGTTTTCCTTTTTTTTAATATATGATAAAGCTGTTA
1 ATTATATACGTTTT-CTTTATGTTAATATATGATAAAGCTGTTA
30836928 ATTATAT
1 ATTATAT
30836935 TGGTTTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 41 0.91
45 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.52
Consensus pattern (43 bp):
ATTATATACGTTTTCTTTATGTTAATATATGATAAAGCTGTTA
Found at i:30836935 original size:44 final size:44
Alignment explanation
Indices: 30836862--30836951 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
30836852 TTTTATTATG
30836862 TTAATATATGATAAAGCTGTTAATTATATTGGTTTTCCTTTTTT
1 TTAATATATGATAAAGCTGTTAATTATATTGGTTTTCCTTTTTT
30836906 TTAATATATGATAAAGCTGTTAATTATATTGGTTTTCCTTTTTT
1 TTAATATATGATAAAGCTGTTAATTATATTGGTTTTCCTTTTTT
30836950 TT
1 TT
30836952 TAAGCTTAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (44 bp):
TTAATATATGATAAAGCTGTTAATTATATTGGTTTTCCTTTTTT
Found at i:30837364 original size:20 final size:20
Alignment explanation
Indices: 30837339--30837379 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30837329 TCATATTAGA
30837339 ATACTAGATTTCCTTACACT
1 ATACTAGATTTCCTTACACT
30837359 ATACTAGATTTCCTTACACT
1 ATACTAGATTTCCTTACACT
30837379 A
1 A
30837380 GGTTCTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (20 bp):
ATACTAGATTTCCTTACACT
Done.