Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 150 of 187
Found at i:45218496 original size:13 final size:13
Alignment explanation
Indices: 45218478--45218505 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45218468 TGAACCCGAG
45218478 AACCAAAACCCAA
1 AACCAAAACCCAA
45218491 AACCAAAACCCAA
1 AACCAAAACCCAA
45218504 AA
1 AA
45218506 ACTGGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (13 bp):
AACCAAAACCCAA
Found at i:45218835 original size:12 final size:12
Alignment explanation
Indices: 45218815--45218844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45218805 AATATTGTTT
*
45218815 TAATGAATTTAA
1 TAATTAATTTAA
45218827 TAATTAATTTAA
1 TAATTAATTTAA
45218839 TAATTA
1 TAATTA
45218845 TCTAGATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TAATTAATTTAA
Found at i:45218929 original size:31 final size:30
Alignment explanation
Indices: 45218829--45218930 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 30
45218819 GAATTTAATA
* *
45218829 ATTAATTTAATAATTATCTAGATAGT-TTTT
1 ATTAATTTAAT-ATTATATAGATAATATTTT
* * **
45218859 GATTAATTTAATATGA-ATACGA-GATATTAA
1 -ATTAATTTAATATTATATA-GATAATATTTT
45218889 ATTTAATTTAATATTTATATAGATAATATTTT
1 A-TTAATTTAATA-TTATATAGATAATATTTT
45218921 ATTAATTTAA
1 ATTAATTTAA
45218931 AATTGATGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
29 4 0.07
30 18 0.33
31 24 0.44
32 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (30 bp):
ATTAATTTAATATTATATAGATAATATTTT
Found at i:45219543 original size:43 final size:43
Alignment explanation
Indices: 45219445--45220382 Score: 1749
Period size: 43 Copynumber: 21.9 Consensus size: 43
45219435 TTACAAACAA
**
45219445 AAGCGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
** *
45219487 AAATGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219530 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219572 AAGCCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAG-CGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219616 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219659 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219702 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219745 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219788 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219831 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219874 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219917 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45219960 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220003 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220046 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220089 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220132 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220175 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220218 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
45220261 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
*
45220303 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTAC
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* * * *
45220345 AAGCGCCGCTAAAGAACATATTCTTTAGTGGCGCTTTT
1 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTT
45220383 ATACAAAAAC
Statistics
Matches: 883, Mismatches: 9, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
42 123 0.14
43 748 0.85
44 12 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
Found at i:45224551 original size:16 final size:17
Alignment explanation
Indices: 45224530--45225407 Score: 76
Period size: 18 Copynumber: 49.7 Consensus size: 17
45224520 TGATATATAT
*
45224530 TTATGTA-TTAAGTAAA
1 TTATGTAGTTAAGTAAG
* *
45224546 TTATGTAAGTTATGTACG
1 TTATGT-AGTTAAGTAAG
*
45224564 TGTAT-AAGTTAAGTAAG
1 T-TATGTAGTTAAGTAAG
45224581 TTATGTA-TTAAGTAAG
1 TTATGTAGTTAAGTAAG
* *
45224597 TTATGTAAGTTATGAAAG
1 TTATGT-AGTTAAGTAAG
*
45224615 TAATGTA-TGTAATGTAAG
1 TTATGTAGT-TAA-GTAAG
45224633 -T-TGTAAGTTATTATGT-A-
1 TTATGT-AGTTA--A-GTAAG
*
45224650 TTATGTAAGTTATGTAAG
1 TTATGT-AGTTAAGTAAG
*
45224668 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45224686 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
*
45224705 -T-TGTAAGTTAAGTGTA-
1 TTATGT-AGTTAAGT-AAG
*
45224721 TTATGTAAGTTGTAAGTTA-
1 TTATGT-AG-T-TAAGTAAG
*
45224740 TTATGTA-TTATGTAAG
1 TTATGTAGTTAAGTAAG
45224756 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45224774 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45224790 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45224808 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45224827 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45224845 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45224861 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45224879 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45224898 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45224916 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45224932 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45224950 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45224969 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45224987 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225003 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225021 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225040 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45225058 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225074 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225092 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225111 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45225129 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225145 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225163 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225182 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45225200 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225216 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225234 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225253 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45225271 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225287 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225305 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225324 TTATGTAAGTTAAATGT-A-
1 TTATGT-AGTT-AA-GTAAG
45225342 TTATGTAAGTT--GTAAG
1 TTATGT-AGTTAAGTAAG
*
45225358 TTAAATGTA-TTATGTAAG
1 TT--ATGTAGTTAAGTAAG
*
45225376 TTAT-TATGTATTATGTAAG
1 TTATGTA-G--TTAAGTAAG
45225395 TTATGTAAGTTAA
1 TTATGT-AGTTAA
45225408 ATGTATTATG
Statistics
Matches: 676, Mismatches: 28, Indels: 314
0.66 0.03 0.31
Matches are distributed among these distances:
14 18 0.03
15 34 0.05
16 98 0.14
17 33 0.05
18 268 0.40
19 171 0.25
20 45 0.07
21 9 0.01
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (17 bp):
TTATGTAGTTAAGTAAG
Found at i:45224558 original size:25 final size:25
Alignment explanation
Indices: 45224530--45225585 Score: 324
Period size: 25 Copynumber: 44.3 Consensus size: 25
45224520 TGATATATAT
*
45224530 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45224555 TTATGTACGTGT-A-TAAGTTAAGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
45224581 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
45224606 TTATG-A--AAGTAA-TGTATGTAA-
1 TTATGTATTAAGTAAGT-TATGTAAG
* *
45224627 TGTAAGT-TGTAAGTTA-TTATGT-A-
1 T-TATGTAT-TAAGTAAGTTATGTAAG
*
45224650 TTATGTAAGTTATGTAAGTTA---AA-
1 TTATGT-A-TTAAGTAAGTTATGTAAG
*
45224673 TGTAT-TATGTAAGTTA-TTATGT-A-
1 T-TATGTAT-TAAGTAAGTTATGTAAG
*
45224696 TTATGTAAGTT--GTAAGTTAAGT--G
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
45224719 -TAT-TATGTAAGT-TG-TAAGTTA-
1 TTATGTAT-TAAGTAAGTTATGTAAG
*
45224740 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45224765 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224790 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224811 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45224836 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224861 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224882 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45224907 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224932 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45224953 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45224978 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225003 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225024 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225049 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225074 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225095 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225120 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225145 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225166 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225191 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225216 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225237 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225262 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225287 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225308 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225333 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225358 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225379 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225404 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225429 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225450 TTATGTATTATGTAAG-T-TGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
45225473 TTAAGTGTATTATGTAAG-T-TGTAAG
1 TT-A-TGTATTAAGTAAGTTATGTAAG
*
45225498 TTATTATGTATTATGTAAG-T-TGTAAG
1 ---TTATGTATTAAGTAAGTTATGTAAG
*
45225524 TTATTATGTATTATGTAAGTTATGTAAG
1 ---TTATGTATTAAGTAAGTTATGTAAG
* *
45225552 TTAAATGTATTATGTAGGTTATGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
45225579 TTGTGTA
1 TTATGTA
45225586 AGAGATTTAA
Statistics
Matches: 889, Mismatches: 19, Indels: 246
0.77 0.02 0.21
Matches are distributed among these distances:
19 141 0.16
20 8 0.01
21 29 0.03
22 64 0.07
23 39 0.04
24 43 0.05
25 321 0.36
26 67 0.08
27 168 0.19
28 9 0.01
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:45224721 original size:71 final size:71
Alignment explanation
Indices: 45224597--45225567 Score: 1632
Period size: 71 Copynumber: 13.5 Consensus size: 71
45224587 ATTAAGTAAG
* *
45224597 TTATGTAAGTTATGAAAG-T-AATGTATGTAATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TTATGTAAGTTATGTAAGTTAAATGTAT-T-ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGT
*
45224660 TATGTAAGT-
63 TAT-TATGTA
* * *
45224669 TAAATGT-A-TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAGTGTATTATGTAAGTT
1 T-TATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATG---TAT-T-A--T
45224732 GTAAGTTATTATGTA
57 GTAAGTTATTATGTA
45224747 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45224812 TATGTA
66 TATGTA
45224818 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45224883 TATGTA
66 TATGTA
45224889 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45224954 TATGTA
66 TATGTA
45224960 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225025 TATGTA
66 TATGTA
45225031 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225096 TATGTA
66 TATGTA
45225102 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225167 TATGTA
66 TATGTA
45225173 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225238 TATGTA
66 TATGTA
45225244 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225309 TATGTA
66 TATGTA
45225315 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225380 TATGTA
66 TATGTA
45225386 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
45225451 TATGTA
66 TATGTA
* *
45225457 TTATGTAAG-T-TGTAAGTTAAGTGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATG---TAT-T-A--TG
45225520 TAAGTTATTATGTA
58 TAAGTTATTATGTA
45225534 TTATGTAAGTTATGTAAGTTAAATGTATTATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTA
45225568 GGTTATGTAA
Statistics
Matches: 863, Mismatches: 12, Indels: 41
0.94 0.01 0.04
Matches are distributed among these distances:
69 33 0.04
70 4 0.00
71 674 0.78
72 20 0.02
73 9 0.01
74 11 0.01
75 5 0.01
76 1 0.00
77 33 0.04
78 40 0.05
79 33 0.04
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (71 bp):
TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAT
TATGTA
Found at i:45225611 original size:18 final size:18
Alignment explanation
Indices: 45225561--45225621 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
45225551 GTTAAATGTA
*
45225561 TTATGTAGGTTATGTAAG
1 TTATGTAGGTTATTTAAG
* * **
45225579 TTGTGTAAGAGATTTAAG
1 TTATGTAGGTTATTTAAG
*
45225597 TTATGTAGGTTATTTAGG
1 TTATGTAGGTTATTTAAG
45225615 TTATGTA
1 TTATGTA
45225622 AGTTTTGTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (18 bp):
TTATGTAGGTTATTTAAG
Found at i:45249758 original size:9 final size:9
Alignment explanation
Indices: 45249744--45249886 Score: 65
Period size: 9 Copynumber: 14.8 Consensus size: 9
45249734 GGCTTTCACG
45249744 AATTTTTAT
1 AATTTTTAT
45249753 AATTTTTTAT
1 AA-TTTTTAT
*
45249763 GATTTTTAT
1 AATTTTTAT
45249772 AATTTTTAT
1 AATTTTTAT
*
45249781 ATATTTTTTTT
1 A-A-TTTTTAT
*
45249792 TATTTTTAT
1 AATTTTTAT
*
45249801 GATTTTCTTAT
1 -AATTT-TTAT
*
45249812 CATTTTTA-
1 AATTTTTAT
* *
45249820 AATAATCTAT
1 AAT-TTTTAT
45249830 AATTTCTTA-
1 AATTT-TTAT
*
45249839 AATTAATGTTTT
1 AATT--T-TTAT
*
45249851 AATTATTTAC
1 AATT-TTTAT
*
45249861 AATTTTCAAT
1 AATTTT-TAT
*
45249871 AACTTTTAT
1 AATTTTTAT
45249880 AATTTTT
1 AATTTTT
45249887 TTTTTAAAAA
Statistics
Matches: 99, Mismatches: 23, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
8 2 0.02
9 45 0.45
10 33 0.33
11 15 0.15
12 4 0.04
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:45249769 original size:19 final size:19
Alignment explanation
Indices: 45249745--45249806 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
45249735 GCTTTCACGA
45249745 ATTTTTATAATTTTTTATG
1 ATTTTTATAATTTTTTATG
45249764 ATTTTTATAATTTTTATAT-
1 ATTTTTATAATTTTT-TATG
**
45249783 ATTTTT-TTTTATTTTTATG
1 ATTTTTATAAT-TTTTTATG
45249802 ATTTT
1 ATTTT
45249807 CTTATCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 5 0.13
19 30 0.79
20 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (19 bp):
ATTTTTATAATTTTTTATG
Found at i:45249816 original size:20 final size:19
Alignment explanation
Indices: 45249746--45249819 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
45249736 CTTTCACGAA
45249746 TTTTTATAATTTTTTATGA-
1 TTTTTATAA-TTTTTATGAT
*
45249765 TTTTTATAATTTTTATATAT
1 TTTTTATAATTTTTAT-GAT
* *
45249785 TTTTTTTTATTTTTATGAT
1 TTTTTATAATTTTTATGAT
*
45249804 TTTCTTATCATTTTTA
1 TTT-TTATAATTTTTA
45249820 AATAATCTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 7 0.15
19 15 0.33
20 24 0.52
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATAATTTTTATGAT
Found at i:45249817 original size:29 final size:28
Alignment explanation
Indices: 45249746--45249818 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
45249736 CTTTCACGAA
45249746 TTTTTATAATTTTTTATGATTTTTATAAT
1 TTTTTAT-ATTTTTTATGATTTTTATAAT
* * *
45249775 TTTTATATATTTTTTTTTATTTTTATGAT
1 TTTT-TATATTTTTTATGATTTTTATAAT
45249804 TTTCTTATCATTTTT
1 TTT-TTAT-ATTTTT
45249819 AAATAATCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 28 0.74
30 10 0.26
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTTATATTTTTTATGATTTTTATAAT
Found at i:45252283 original size:9 final size:9
Alignment explanation
Indices: 45252271--45252329 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
45252261 AAATTTAAAA
45252271 AATATTTTT
1 AATATTTTT
45252280 AATATTTTT
1 AATATTTTT
* *
45252289 AACACTTTT
1 AATATTTTT
45252298 AA-ATTTTT
1 AATATTTTT
*
45252306 AAATAAATTTT
1 -AAT-ATTTTT
45252317 -ATATTTTT
1 AATATTTTT
45252325 -ATATT
1 AATATT
45252330 AAAAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 15 0.36
9 22 0.52
11 5 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
AATATTTTT
Found at i:45265005 original size:5 final size:5
Alignment explanation
Indices: 45264995--45265021 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45264985 AAATATATTT
45264995 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
45265022 ATTCCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:45268147 original size:41 final size:41
Alignment explanation
Indices: 45268098--45268236 Score: 208
Period size: 41 Copynumber: 3.4 Consensus size: 41
45268088 ATATGATTGA
* *
45268098 CACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACGAG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
*
45268139 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACAAG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
* * *
45268180 CACTAAGTGTGCGAAACCAAGTAATTATGTT-AATAACGGG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
*
45268220 CACTAAGTGTGCAAAAC
1 CACTAAGTGTGCGAAAC
45268237 GGAGATCAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 23 0.26
41 67 0.74
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
Found at i:45272246 original size:264 final size:265
Alignment explanation
Indices: 45271766--45272271 Score: 888
Period size: 264 Copynumber: 1.9 Consensus size: 265
45271756 TTCTCCCACT
*
45271766 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAGATTTCAAGAATGATGATACAACAGT
1 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
* * * *
45271831 CCTAGTGGCATTCTTACCTAATTTACATGTCATGCTTTCAGTATATGCATGACATGTTATGAAAA
66 CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
45271896 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
131 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
* *
45271961 TTCCACAATTTTTCGTTTAAGGGAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
196 CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
45272026 TTACA
261 TTACA
*
45272031 CAATATTTT-AAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAATAGT
1 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
* * *
45272095 CCTAGTAGCATTCTTACCTAATCTATATGACATGCTTTCAGTATATGCATGACATGCTATGATAG
66 CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
*
45272160 TTTTATAATATTCACATTCATTTAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
131 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
*
45272225 CTCCACAATTTTTCGTTTAAGGAAAAAACCGAAGAAGTGAATGTGAA
196 CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAA
45272272 TAGTGCACCA
Statistics
Matches: 228, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
264 219 0.96
265 9 0.04
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (265 bp):
CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
TTACA
Found at i:45275080 original size:23 final size:23
Alignment explanation
Indices: 45275050--45275097 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45275040 TATCATCTGT
* *
45275050 TTTATGATATGAGATTAGTCTTA
1 TTTATGATATGAGATCACTCTTA
45275073 TTTATGATATGAGATCACTCTTA
1 TTTATGATATGAGATCACTCTTA
45275096 TT
1 TT
45275098 GGATTAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (23 bp):
TTTATGATATGAGATCACTCTTA
Found at i:45282937 original size:19 final size:20
Alignment explanation
Indices: 45282913--45282963 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
45282903 CCAATCATAT
45282913 GTATCGATACCTT-TGTAAA
1 GTATCGATACCTTGTGTAAA
**
45282932 GTATCGATACCTTGGTGTAGG
1 GTATCGATACCTT-GTGTAAA
45282953 GTATCGATACC
1 GTATCGATACC
45282964 AAATTGGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
GTATCGATACCTTGTGTAAA
Found at i:45285388 original size:23 final size:23
Alignment explanation
Indices: 45285362--45285429 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
45285352 TGTTATTGAT
45285362 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
**
45285385 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
45285408 CAGTGGTAGCTTCGGCTACATA
1 CAGTGGTAGCTTCGGCTACATA
45285430 TTAGTGTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:45286030 original size:24 final size:27
Alignment explanation
Indices: 45285984--45286033 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 27
45285974 ATAAAAATTA
45285984 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
45286011 ACCAAAATA-T-T-ACTTTTTTTATT
1 ACCAAAATATTATAACTTTTTTTATT
45286034 ATTTACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.52
25 1 0.04
26 1 0.04
27 9 0.39
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:45286150 original size:27 final size:27
Alignment explanation
Indices: 45286120--45286171 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45286110 GGTCAATCAC
45286120 ATTGGCCGCACCAAAGGTGCCAAAGAG
1 ATTGGCCGCACCAAAGGTGCCAAAGAG
** *
45286147 ATTGGTGGCACCAATGGTGCCAAAG
1 ATTGGCCGCACCAAAGGTGCCAAAG
45286172 TGATGGACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCCGCACCAAAGGTGCCAAAGAG
Found at i:45286277 original size:19 final size:19
Alignment explanation
Indices: 45286250--45286319 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
45286240 TCAACTCATT
*
45286250 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
45286269 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
45286287 -TTTACATTTAATAACTCTA
1 TTTTA-ATTTAATAACTCTA
45286306 TTTTAATTTAATAA
1 TTTTAATTTAATAA
45286320 ACTATTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.09
18 12 0.27
19 25 0.56
20 4 0.09
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:45286300 original size:37 final size:37
Alignment explanation
Indices: 45286255--45286325 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
45286245 TCATTTTTTT
45286255 ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
45286292 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
45286326 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
Found at i:45286572 original size:19 final size:19
Alignment explanation
Indices: 45286545--45286666 Score: 89
Period size: 19 Copynumber: 6.8 Consensus size: 19
45286535 TCAACTCATT
*
45286545 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
* **
45286564 TTTTAATTTGATAA-AATA
1 TTTTAATTTAATAACTCTA
* *
45286582 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
45286601 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
*
45286619 -TTTAA-TT-AGAA-T-T-
1 TTTTAATTTAATAACTCTA
* * *
45286632 CTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
45286651 TTTTAATTTAATAACT
1 TTTTAATTTAATAACT
45286667 ATTAAGTAAT
Statistics
Matches: 76, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
14 4 0.05
15 5 0.07
16 5 0.07
17 6 0.08
18 17 0.22
19 39 0.51
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:45286595 original size:37 final size:37
Alignment explanation
Indices: 45286550--45286620 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
45286540 TCATTTTTTT
*
45286550 ATTTAATAACTCTATTTTAATTTGATAAAATATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
*
45286587 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
45286621 TAATTAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:45286925 original size:18 final size:19
Alignment explanation
Indices: 45286888--45286927 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45286878 TCAACTCATT
* *
45286888 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
45286907 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
45286925 TTT
1 TTT
45286928 ACATAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:45287219 original size:330 final size:331
Alignment explanation
Indices: 45286291--45287257 Score: 1469
Period size: 343 Copynumber: 2.9 Consensus size: 331
45286281 AAACTATTTA
* *
45286291 CATTTAATAACTCTATTTTAATTTAATAAACTATTAAGTAATACTTAAT-TTTTTAAAAATTAAA
1 CATTTAATAACTCTATTTTAATTTAATAAA-AATTAAGTAATACTTAATGTTATT--AAATTAAA
* *
45286355 ATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTGAGGACTTGACATGC
63 ATAGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGC
* * *
45286420 AAATTTACCATTTTGAATTTTGAAAGTGAATTGCTGTTGCTGTGCGCACTAAAATTGAAATGTGG
128 AAATTTACCATTTTAAATTTTGAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTGAAATGTGA
* *
45286485 CTAATTTCCTTCTAATCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCA-TTTTTT
193 CTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTT
* * * **
45286549 TATTTAATAACTCTATTTTAATTTGATAAAATATTCT-CATTTAATAACT-CTATTTTAATTTAA
258 TATTTAATAACTCTATTTTAATTTAAGAAACTATT-TACA--TAA-AACTGC-A----AA--TGG
*
45286612 TAAACTATTTAATTAGAATTCTCT
312 T---C-ACTTAATTAGAATTCTCT
** * *
45286636 CATTTAATAACTCTATTTTAATTTAATAACTATTAAGTAATACTTAATTTTTTTAAATTAAAATA
1 CATTTAATAACTCTATTTTAATTTAATAAAAATTAAGTAATACTTAATGTTATTAAATTAAAATA
* *
45286701 GAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTGAGGACTTGACATGCAAA
66 GAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAA
* * *
45286766 TTTACCATTTTGAATTTTGAAAGTGAATTGCTGTTGCTGTGCGCACTAAAATTGAAATGTGGCTA
131 TTTACCATTTTAAATTTTGAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTGAAATGTGACTA
* *
45286831 ATTTCCTTCTAATCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCA-TTTTTTTAT
196 ATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTTAT
*
45286895 TTAATAACTCTATTTTAATTTAATAAACTATTTACATAAAACTGCAAATGGTCACTTAATTAGAA
261 TTAATAACTCTATTTTAATTTAAGAAACTATTTACATAAAACTGCAAATGGTCACTTAATTAGAA
45286960 TTCTCT
326 TTCTCT
*
45286966 CATTTAATAACTCTATTTTAATTTAA-AAAAATTAAGTATTACTTAATAGTTATTAAATTAAAAT
1 CATTTAATAACTCTATTTTAATTTAATAAAAATTAAGTAATACTTAAT-GTTATTAAATTAAAAT
45287030 AGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAA
65 AGAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAA
45287095 ATTTACCATTTTAAATTTTGAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTGAAATGTGACT
130 ATTTACCATTTTAAATTTTGAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTGAAATGTGACT
45287160 AATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTTA
195 AATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTTA
45287225 TTTAATAACTCTATTTTAATTTAAGAAACTATT
260 TTTAATAACTCTATTTTAATTTAAGAAACTATT
45287258 CTCATTTTTT
Statistics
Matches: 598, Mismatches: 19, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
329 18 0.03
330 236 0.39
331 41 0.07
334 2 0.00
336 2 0.00
340 5 0.01
341 4 0.01
342 1 0.00
343 237 0.40
344 18 0.03
345 34 0.06
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (331 bp):
CATTTAATAACTCTATTTTAATTTAATAAAAATTAAGTAATACTTAATGTTATTAAATTAAAATA
GAGTTATTAAATGAGAGAATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAA
TTTACCATTTTAAATTTTGAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTGAAATGTGACTA
ATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTCATTTTTTTTAT
TTAATAACTCTATTTTAATTTAAGAAACTATTTACATAAAACTGCAAATGGTCACTTAATTAGAA
TTCTCT
Found at i:45291479 original size:46 final size:46
Alignment explanation
Indices: 45291429--45291518 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
45291419 GGTAACACAC
*
45291429 ATATGACAAGGTCA-TTGGAAAAAGCAGTTGGACGAATTGCTTTCGT
1 ATATGACAAGGTCATTTGG-AAAAGCAGTTAGACGAATTGCTTTCGT
*
45291475 ATATGATAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTC
1 ATATGACAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTC
45291519 ATAAAGAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 37 0.90
47 4 0.10
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (46 bp):
ATATGACAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTCGT
Found at i:45293851 original size:24 final size:24
Alignment explanation
Indices: 45293742--45293853 Score: 82
Period size: 25 Copynumber: 4.6 Consensus size: 24
45293732 GTACATGTAT
* ** *
45293742 GCTCATACAAGCAAAAAACGGTAA
1 GCTCATACGAGCTGAAATCGGTAA
* * *
45293766 GCTCCTCCGAGCTAGATATCGGTAA
1 GCTCATACGAGCT-GAAATCGGTAA
* *
45293791 GCTCATACGAGTTGTGAATCGGTAA
1 GCTCATACGAGCTG-AAATCGGTAA
* * *
45293816 GTTC-TGATGAGCTGAAATCGGAAA
1 GCTCAT-ACGAGCTGAAATCGGTAA
45293840 GCTCATACGAGCTG
1 GCTCATACGAGCTG
45293854 TGGTGTGTTT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
24 29 0.45
25 36 0.55
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:45298795 original size:31 final size:30
Alignment explanation
Indices: 45298751--45298864 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 30
45298741 TTAATATGAG
* * *
45298751 ATATTTAATTTAATTTAATATTTTTCTAAAT
1 ATATTTTA-TTAATTTAATATTTATCTAGAT
* * *
45298782 AGTATTTTATTAATTTAATATTAATAT-GAG
1 A-TATTTTATTAATTTAATATTTATCTAGAT
**
45298812 ATATTAAATTTAATTTAATATTTATCTAGAT
1 ATATTTTA-TTAATTTAATATTTATCTAGAT
*
45298843 AATATTTTATTATTTTAATATT
1 -ATATTTTATTAATTTAATATT
45298865 AATGTGATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.08
30 18 0.28
31 30 0.46
32 12 0.18
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (30 bp):
ATATTTTATTAATTTAATATTTATCTAGAT
Found at i:45298809 original size:61 final size:61
Alignment explanation
Indices: 45298738--45298867 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
45298728 ATTTATCTAG
* * *
45298738 ATATTAATATGAGATATTTAATTTAATTTAATATTTTTCTAAATAGTATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
* *
45298799 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTATTTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
45298860 ATATTAAT
1 ATATTAAT
45298868 GTGATTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (61 bp):
ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
Found at i:45303345 original size:16 final size:17
Alignment explanation
Indices: 45303311--45303345 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45303301 TTTGTCTTTG
*
45303311 AATTTTTGGTGAGATTA
1 AATTTTTGGTGAGACTA
45303328 AATTTTTGGTG-GACTA
1 AATTTTTGGTGAGACTA
45303344 AA
1 AA
45303346 ATGTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (17 bp):
AATTTTTGGTGAGACTA
Found at i:45304641 original size:41 final size:41
Alignment explanation
Indices: 45304604--45304681 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
45304594 GAAGGCTTAT
*
45304604 TGCCAGTGAAATAATTCAGACTCTATGTCTAGCAGGCTGGA
1 TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCTGGA
* *
45304645 TGCCGGTGAAACAATTCAGACTCTATGTCTGGCAGGC
1 TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGC
45304682 CAAAAGCCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCTGGA
Found at i:45304691 original size:41 final size:41
Alignment explanation
Indices: 45304609--45304693 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
45304599 CTTATTGCCA
* *** *
45304609 GTGAAATAATTCAGACTCTATGTCTAGCAGGCTGGATGCCG
1 GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
*
45304650 GTGAAACAATTCAGACTCTATGTCTGGCAGGCCAAAAGCCG
1 GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
45304691 GTG
1 GTG
45304694 TACTGAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
Found at i:45314088 original size:22 final size:22
Alignment explanation
Indices: 45314063--45314114 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
45314053 AGAATAAAGA
*
45314063 AAAATATATATATAGAAATTAT
1 AAAATATATATATAGAAAGTAT
* *
45314085 -AAA-ATATGTATGGAAAGTAT
1 AAAATATATATATAGAAAGTAT
45314105 AAAATATATA
1 AAAATATATA
45314115 CGTACATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.58
21 6 0.25
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (22 bp):
AAAATATATATATAGAAAGTAT
Found at i:45314969 original size:15 final size:15
Alignment explanation
Indices: 45314935--45314974 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
45314925 TTATTTATTT
*
45314935 TAGTAAA-ATAAAAA
1 TAGTAAACAAAAAAA
45314949 TA-TAAACAAAAAAA
1 TAGTAAACAAAAAAA
45314963 TAGTAAACAAAA
1 TAGTAAACAAAA
45314975 GTAAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 10 0.43
15 9 0.39
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (15 bp):
TAGTAAACAAAAAAA
Found at i:45317906 original size:55 final size:55
Alignment explanation
Indices: 45317845--45317955 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
45317835 TTGTCTTAAT
* *
45317845 TGTTGGAATACTGCTTCTTTTAAATAT-ATTTTTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTAAAT-TGATTGTTTATATGTTTAAATCGACTGTTA
** *
45317900 TGTTGGAATACTGCTTCTTTTGGATTGATTGTTTATATGTTTAAATTGACTGTTA
1 TGTTGGAATACTGCTTCTTTTAAATTGATTGTTTATATGTTTAAATCGACTGTTA
45317955 T
1 T
45317956 AGCACTTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 49 0.98
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.52
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTAAATTGATTGTTTATATGTTTAAATCGACTGTTA
Found at i:45321687 original size:5 final size:5
Alignment explanation
Indices: 45321677--45321702 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45321667 TAAATATATA
45321677 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
45321703 TTAGTATAAT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:45322434 original size:20 final size:20
Alignment explanation
Indices: 45322378--45322437 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
45322368 AGACAGATCA
45322378 TATTGAATTAATCAATTTTAT
1 TATTGAATTAATCAATTTT-T
* ** * *
45322399 GATT-TCTTATTTAATTTTT
1 TATTGAATTAATCAATTTTT
45322418 TATTGAATTAATCAATTTTT
1 TATTGAATTAATCAATTTTT
45322438 AGTGAATTTT
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
19 4 0.14
20 21 0.75
21 3 0.11
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTGAATTAATCAATTTTT
Found at i:45325456 original size:22 final size:23
Alignment explanation
Indices: 45325398--45325442 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45325388 ATGCAATCTT
*
45325398 ATATATGA-TATGTAATCTTAGA
1 ATATATGATTCTGTAATCTTAGA
45325420 ATATATGATTCTGTAATCTTAGA
1 ATATATGATTCTGTAATCTTAGA
45325443 GATTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (23 bp):
ATATATGATTCTGTAATCTTAGA
Found at i:45326446 original size:29 final size:31
Alignment explanation
Indices: 45326414--45326480 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
45326404 AAATTAATAT
45326414 TTCATGTATAAAATCACACA-AAAT-CAAAA
1 TTCATGTATAAAATCACACATAAATCCAAAA
* * * *
45326443 TTCATGTATAACATTACATATTAATCCAAAA
1 TTCATGTATAAAATCACACATAAATCCAAAA
45326474 TTCATGT
1 TTCATGT
45326481 TTAATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.53
30 3 0.09
31 12 0.38
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.33
Consensus pattern (31 bp):
TTCATGTATAAAATCACACATAAATCCAAAA
Found at i:45326515 original size:19 final size:19
Alignment explanation
Indices: 45326471--45326516 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
45326461 TATTAATCCA
*
45326471 AAATTCATGTTTAATTTTG
1 AAATTCTTGTTTAATTTTG
45326490 AAATTCTTGTTTAATTTTG
1 AAATTCTTGTTTAATTTTG
45326509 AAATTCTT
1 AAATTCTT
45326517 CCTTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (19 bp):
AAATTCTTGTTTAATTTTG
Found at i:45334588 original size:48 final size:48
Alignment explanation
Indices: 45334528--45334682 Score: 166
Period size: 62 Copynumber: 2.9 Consensus size: 48
45334518 CCAATGTACC
45334528 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATT
* *
45334576 TAATTTATATTACAAAACTAATATTACAAAGTTTGTTTCAAGTTTTAATGTTGTAATGTATT
1 TAATTTATATTAC--AA--AGT-TT-----G----TTCCAAGTTTTAATGTTGTAATGTATT
45334638 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
45334683 TGTAATGTTG
Statistics
Matches: 89, Mismatches: 4, Indels: 28
0.74 0.03 0.23
Matches are distributed among these distances:
48 36 0.40
50 2 0.02
52 3 0.03
53 2 0.02
57 2 0.02
58 3 0.03
60 2 0.02
62 39 0.44
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (48 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATT
Found at i:45334610 original size:62 final size:62
Alignment explanation
Indices: 45334534--45334653 Score: 231
Period size: 62 Copynumber: 1.9 Consensus size: 62
45334524 TACCTAATTT
45334534 ATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATTACAAAACTA
1 ATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATTACAAAACTA
*
45334596 ATATTACAAAGTTTGTTTCAAGTTTTAATGTTGTAATGTATTTAATTTATATTACAAA
1 ATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATTACAAA
45334654 GTTTGTTCCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (62 bp):
ATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTATATTACAAAACTA
Found at i:45334682 original size:8 final size:8
Alignment explanation
Indices: 45334669--45334704 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
45334659 TTCCAAGTTT
45334669 TAATGTTG
1 TAATGTTG
45334677 TAATGTTG
1 TAATGTTG
45334685 TAATGTTG
1 TAATGTTG
45334693 TAATGTTG
1 TAATGTTG
45334701 TAAT
1 TAAT
45334705 ATTGCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (8 bp):
TAATGTTG
Found at i:45336520 original size:4 final size:4
Alignment explanation
Indices: 45336505--45336541 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
45336495 TAATAGAACT
*
45336505 AGTA AATA AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
45336542 TAATAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (4 bp):
AGTA
Found at i:45336610 original size:23 final size:23
Alignment explanation
Indices: 45336567--45336610 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45336557 TAATAAAAGG
*
45336567 CTAATAATAAAAATATTAATAAA
1 CTAATAATAAAAATATCAATAAA
*
45336590 CTAATATTAAACAA-ATCAATA
1 CTAATAATAAA-AATATCAATA
45336611 GAAAACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
CTAATAATAAAAATATCAATAAA
Found at i:45340095 original size:12 final size:12
Alignment explanation
Indices: 45340078--45340102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45340068 TTATAATATT
45340078 TATAAAATAAAA
1 TATAAAATAAAA
45340090 TATAAAATAAAA
1 TATAAAATAAAA
45340102 T
1 T
45340103 TTTAAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAAAATAAAA
Found at i:45340204 original size:23 final size:24
Alignment explanation
Indices: 45340178--45340234 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
45340168 TCTTAATTTA
45340178 TCTCAT-AAATTCCA-ACTCAATGG
1 TCTCATCAAATTCCATA-TCAATGG
45340201 TCTCATTCACAAATTCCATATCAATGG
1 TCTCA-T--CAAATTCCATATCAATGG
45340228 TCTCATC
1 TCTCATC
45340235 TTTTACCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 5 0.17
24 2 0.07
26 1 0.03
27 20 0.69
28 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (24 bp):
TCTCATCAAATTCCATATCAATGG
Found at i:45341672 original size:40 final size:40
Alignment explanation
Indices: 45341595--45341728 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
45341585 AGCGGCACTT
* * *
45341595 TTAGCGGCGTTTGGAGCAAAAACGCTGCTAAAGAGTGAGCA
1 TTAGCGGCGTTT-AAGCAAAAGCGCCGCTAAAGAGTGAGCA
*
45341636 TTAGCGGCGTTTAAGTAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
* *
45341676 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
*
45341716 TTAGCAGCGTTTA
1 TTAGCGGCGTTTA
45341729 TAAAAAACGC
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 73 0.86
41 12 0.14
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
Found at i:45341962 original size:115 final size:114
Alignment explanation
Indices: 45341676--45342728 Score: 1681
Period size: 115 Copynumber: 9.3 Consensus size: 114
45341666 AGAGTGAGCA
** * *
45341676 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* * * *
45341741 CAAATAATACACCCAGACGGTGCCGTTCTGTGGCCTTTGGGGGG-GGAA
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
* *
45341789 ATAGTGGCGTTTATTGTAAAGCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45341854 GAAATAATACTCCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGGAGGAC
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTT-GGGGGGAGGAC
*
45341904 TTAGTGGCGTTTATTGTAAAGCGCTGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45341969 GAAATAATACTCCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGGAGGAC
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTT-GGGGGGAGGAC
* * *
45342019 TTAGTGGCGTTTATTGTAAACCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45342084 CAAATAATACACCCAAACGGTGTCGTTTTGTGGCCTTTGGGGGG-GGAC
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
45342132 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45342197 CAAATAATACACCCAGACGGTGCCATTTTGTGGCCTTT-GGGGGA-GAA
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
*
45342244 TTGGTGGCGTTTATTGTAAAGCGCCGCTAAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCT-AAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
* * *
45342309 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-AGGGG-GGAC
65 GCAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
*
45342357 CTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45342422 GAAATAATACTCCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGGAGGAC
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTT-GGGGGGAGGAC
45342472 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* *
45342537 GAAATAATACTCCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGGAGGAC
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTT-GGGGGGAGGAC
45342587 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
* * * *
45342652 CAAATAATACACCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGG-GCA-
66 CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
*
45342699 TTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
45342729 TCTAGGTGTT
Statistics
Matches: 883, Mismatches: 49, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
112 134 0.15
113 301 0.34
114 22 0.02
115 426 0.48
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (114 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCG
CAAATAATACACCCAAACGGTGCCATTTTGTGGCCTTTGGGGGGAGGAC
Found at i:45342768 original size:568 final size:567
Alignment explanation
Indices: 45341679--45342728 Score: 1906
Period size: 568 Copynumber: 1.9 Consensus size: 567
45341669 GTGAGCATTA
*
45341679 GTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGCAGCGTTTATAAAAAACGCCGCAA
1 GTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAA
*
45341744 ATAATACACCCAGACGGTGCCGTTCTGTGGCCTTTGGGGGGGGAAATAGTGGCGTTTATTGTAAA
66 ATAATACACCCAGACGGTGCCGTTCTGTGGCCTTTGAGGGGGGAAATAGTGGCGTTTATTGTAAA
45341809 GCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGG
131 GCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGG
*
45341874 TGCCATTTTGTGGCCTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCTGCTAAAGAGT
196 TGCCATTTTGTGGCCTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGT
45341939 GAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGGTGCCATTTTGTGGCC
261 GAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGGTGCCATTTTGTGGCC
45342004 TTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAACCGCCGCTAAAGACTGAACATTAGCAGCGT
326 TTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAACCGCCGCTAAAGACTGAACATTAGCAGCGT
* *
45342069 TTATAAAAAACGCCACAAATAATACACCCAAACGGTGTCGTTTTGTGGCCTTTGGGGGGGGACTT
391 TTATAAAAAACGCCACAAATAATACACCCAAACGGTGCCGTTTTGTGGCCTTTGGGGGGGCACTT
45342134 AGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCA
456 AGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTG-ACATTAGCAGCGTTTATAAAAAACGCCGCA
45342199 AATAATACACCCAGACGGTGCCATTTTGTGGCCTTTGGGGGAGAATTG
520 AATAATACACCCAGACGGTGCCATTTTGTGGCCTTTGGGGGAGAATTG
** *
45342247 GTGGCGTTTATTGTAAAGCGCCGCTAAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCA
1 GTGGCGTTTAAGGAAAAGCGCCGCT-AAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCA
* **
45342312 AATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-AGGGGGGACCTAGTGGCGTTTATTGTAA
65 AATAATACACCCAGACGGTGCCGTTCTGTGGCCTTTGAGGGGGGAAATAGTGGCGTTTATTGTAA
*
45342376 AGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACG
130 AGCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACG
45342441 GTGCCATTTTGTGGCCTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAG
195 GTGCCATTTTGTGGCCTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAG
45342506 TGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGGTGCCATTTTGTGGC
260 TGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGGTGCCATTTTGTGGC
* *
45342571 CTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCG
325 CTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAACCGCCGCTAAAGACTGAACATTAGCAGCG
* * *
45342636 TTTATAAAAAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGGCA-T
390 TTTATAAAAAACGCCACAAATAATACACCCAAACGGTGCCGTTTTGTGGCCTTTGGGGGGGCACT
*
45342700 TAGTGGCGTTTTTTGTAAAGCGCCGCTAA
455 TAGTGGCGTTTATTGTAAAGCGCCGCTAA
45342729 TCTAGGTGTT
Statistics
Matches: 463, Mismatches: 18, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
567 29 0.06
568 361 0.78
569 73 0.16
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (567 bp):
GTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCCGCAA
ATAATACACCCAGACGGTGCCGTTCTGTGGCCTTTGAGGGGGGAAATAGTGGCGTTTATTGTAAA
GCGCCGCTAAAGACTGAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGG
TGCCATTTTGTGGCCTTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGT
GAACATTAGCAGCGTTTATAAAAAACGCCGGAAATAATACTCCCAAACGGTGCCATTTTGTGGCC
TTTGGGGGGGAGGACTTAGTGGCGTTTATTGTAAACCGCCGCTAAAGACTGAACATTAGCAGCGT
TTATAAAAAACGCCACAAATAATACACCCAAACGGTGCCGTTTTGTGGCCTTTGGGGGGGCACTT
AGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGACATTAGCAGCGTTTATAAAAAACGCCGCAA
ATAATACACCCAGACGGTGCCATTTTGTGGCCTTTGGGGGAGAATTG
Found at i:45344550 original size:84 final size:84
Alignment explanation
Indices: 45344449--45344645 Score: 349
Period size: 84 Copynumber: 2.3 Consensus size: 84
45344439 TAAACTTTTG
*
45344449 GTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGCTTCTG
1 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGCTTCTG
45344514 TTCACAGCTGTAATATTTA
66 TTCACAGCTGTAATATTTA
*
45344533 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTG
1 GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGCTTCTG
45344598 TTCACAGCTGTAATATTTA
66 TTCACAGCTGTAATATTTA
**
45344617 GTGGCGTTTTTACCAAAAACGCCACAAAA
1 GTGGCGTTTTTA-GGAAAACGCCACAAAA
45344646 CGGTGTTAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
84 94 0.87
85 14 0.13
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (84 bp):
GTGGCGTTTTTAGGAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGCTTCTG
TTCACAGCTGTAATATTTA
Found at i:45346287 original size:11 final size:11
Alignment explanation
Indices: 45346267--45346295 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
45346257 GAATATCTCA
45346267 AACT-ATGGGT
1 AACTAATGGGT
45346277 AACTAATGGGT
1 AACTAATGGGT
45346288 AACTAATG
1 AACTAATG
45346296 TATTATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:45347065 original size:17 final size:17
Alignment explanation
Indices: 45347043--45347144 Score: 96
Period size: 17 Copynumber: 5.6 Consensus size: 17
45347033 TGTTAAATTT
45347043 ATTACTAAAATACATTA
1 ATTACTAAAATACATTA
*
45347060 ATTACTAAAATAAATTA
1 ATTACTAAAATACATTA
* * *
45347077 CTTACTAAAATTTGTTTAAATTT
1 ATTACTAAAA------TACATTA
45347100 ATTACTAAAATACATTA
1 ATTACTAAAATACATTA
*
45347117 CTTACTAAAATACATTA
1 ATTACTAAAATACATTA
*
45347134 CTTACTAAAAT
1 ATTACTAAAAT
45347145 TTGTTTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
17 57 0.79
23 15 0.21
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
ATTACTAAAATACATTA
Found at i:45347104 original size:57 final size:57
Alignment explanation
Indices: 45347035--45347157 Score: 228
Period size: 57 Copynumber: 2.2 Consensus size: 57
45347025 CGATTGAATG
45347035 TTAAATTTATTACTAAAATACATTAATTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTAATTACTAAAATAAATTACTTACTAAAATTTGT
* *
45347092 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTAATTACTAAAATAAATTACTTACTAAAATTTGT
45347149 TTAAATTTA
1 TTAAATTTA
45347158 AAATTTGTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTAATTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:45347123 original size:74 final size:75
Alignment explanation
Indices: 45347044--45347184 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 75
45347034 GTTAAATTTA
*
45347044 TTACTAAAATACATTAATTACTAAAA-TAAATT-ACTTACTAAAATTTGTTTAAATTTATTAC-T
1 TTACTAAAATACATTAATTACTAAAATTAAATTAAATT--TAAAATTTGTTTAAATTTATTACTT
45347106 AAAATACATTAC
64 AAAATACATTAC
* ***
45347118 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTAAAATTTGTTTAAATTTATTACTTAA
1 TTACTAAAATACATTAATTACTAAAATTAAATTAAATTTAAAATTTGTTTAAATTTATTACTTAA
45347183 AA
66 AA
45347185 ATGTTACTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
74 48 0.81
75 8 0.14
76 3 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (75 bp):
TTACTAAAATACATTAATTACTAAAATTAAATTAAATTTAAAATTTGTTTAAATTTATTACTTAA
AATACATTAC
Found at i:45347159 original size:17 final size:17
Alignment explanation
Indices: 45347139--45347174 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45347129 CATTACTTAC
45347139 TAAAATTTGTTTAAATT
1 TAAAATTTGTTTAAATT
45347156 TAAAATTTGTTTAAATT
1 TAAAATTTGTTTAAATT
45347173 TA
1 TA
45347175 TTACTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TAAAATTTGTTTAAATT
Found at i:45347204 original size:13 final size:13
Alignment explanation
Indices: 45347166--45347210 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
45347156 TAAAATTTGT
45347166 TTAAATTTATTAC
1 TTAAATTTATTAC
** *
45347179 TTAAAAATGTTAC
1 TTAAATTTATTAC
45347192 TTAAATTTATTAC
1 TTAAATTTATTAC
45347205 TTAAAT
1 TTAAAT
45347211 GATTATAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:45347512 original size:25 final size:25
Alignment explanation
Indices: 45347470--45347602 Score: 203
Period size: 25 Copynumber: 5.2 Consensus size: 25
45347460 ATTTTATTAA
*
45347470 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
45347496 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
45347521 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
45347546 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
45347572 ATAATACATTTAACTTACATAACTTAC
1 ATAATACATTTAACTTAC--AACTTAC
45347599 ATAA
1 ATAA
45347603 CTTACCATTG
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
25 56 0.57
26 32 0.32
27 11 0.11
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATACATTTAACTTACAACTTAC
Found at i:45353092 original size:21 final size:21
Alignment explanation
Indices: 45353063--45353137 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
45353053 CTACAACTTA
45353063 AAGCAGAGGCAGAAGCGAGGG
1 AAGCAGAGGCAGAAGCGAGGG
* * *
45353084 AAGCGGAGGCTGCAGCGAGGG
1 AAGCAGAGGCAGAAGCGAGGG
* * * *
45353105 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCAGAAGCGAGGG
45353126 AAGCAGA-GCAGA
1 AAGCAGAGGCAGA
45353138 GCAAAAAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.33, C:0.17, G:0.47, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGAAGCGAGGG
Found at i:45353538 original size:42 final size:42
Alignment explanation
Indices: 45353430--45353567 Score: 179
Period size: 42 Copynumber: 3.2 Consensus size: 42
45353420 CCAAAATAGT
* *
45353430 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGGTCTTTAGC
1 GGCGTTTTT-T-TTAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* * **
45353474 GGCGTTTTTTTTACAAACGCCGCGAAAGAACATATTCTTTAGC
1 GGCGTTTTTTTTA-AAGCGCCGCTAAAGAACATGGTCTTTAGC
45353517 GGCGTTTTTTTCT-AAGCGCCGCTAAAGAACATGGTCTTTAGC
1 GGCGTTTTTTT-TAAAGCGCCGCTAAAGAACATGGTCTTTAGC
45353559 GGCGTTTTT
1 GGCGTTTTT
45353568 GTTTGTAAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 36 0.44
43 36 0.44
44 10 0.12
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (42 bp):
GGCGTTTTTTTTAAAGCGCCGCTAAAGAACATGGTCTTTAGC
Found at i:45354210 original size:20 final size:20
Alignment explanation
Indices: 45354157--45354226 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
45354147 GTATTTTTCA
45354157 AAATAAAAATAAAA-ATAAATT
1 AAAT-AAAATAAAATAT-AATT
* * *
45354178 -AATTAATTAAAATGT-ATT
1 AAATAAAATAAAATATAATT
45354196 ACAATAAAATAAAATATAATT
1 A-AATAAAATAAAATATAATT
45354217 AAATAAAATA
1 AAATAAAATA
45354227 GTTTAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 25 0.64
21 4 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (20 bp):
AAATAAAATAAAATATAATT
Found at i:45356166 original size:3 final size:3
Alignment explanation
Indices: 45356158--45356184 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45356148 TAATTTCATG
45356158 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
45356185 CAACAAGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45367159 original size:40 final size:40
Alignment explanation
Indices: 45367104--45367180 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
45367094 AAAAAAAAAG
45367104 AAGCCAGAAACATACCTATTTTCTCTCAAACACTCTTAGA
1 AAGCCAGAAACATACCTATTTTCTCTCAAACACTCTTAGA
*
45367144 AAGCCAGAAACATACCTATTTTCTCTCAAACATTCTT
1 AAGCCAGAAACATACCTATTTTCTCTCAAACACTCTT
45367181 TCTACAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (40 bp):
AAGCCAGAAACATACCTATTTTCTCTCAAACACTCTTAGA
Found at i:45369283 original size:30 final size:31
Alignment explanation
Indices: 45369249--45369350 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
45369239 TAAAAAATAA
*
45369249 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
45369279 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
45369309 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
45369339 AAATTTCATTTT
1 AAATTTCATTTT
45369351 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:45369941 original size:14 final size:13
Alignment explanation
Indices: 45369919--45369971 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
45369909 AGACAAGAAG
45369919 AAGAGAAGAAGAAAA
1 AAGA-AAGAA-AAAA
45369934 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
45369947 AGAGAAAGAAAAAGA
1 A-AGAAAGAAAAA-A
45369962 AAGAAA-AAAA
1 AAGAAAGAAAA
45369972 GTAATTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:45369944 original size:10 final size:10
Alignment explanation
Indices: 45369922--45369969 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
45369912 CAAGAAGAAG
*
45369922 AGAAGAAGAA
1 AGAAAAAGAA
*
45369932 AAAAGAAAGAA
1 AGAA-AAAGAA
45369943 A-AAAAGAGAA
1 AGAAAA-AGAA
45369953 AGAAAAAGAA
1 AGAAAAAGAA
45369963 AGAAAAA
1 AGAAAAA
45369970 AAGTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:45369981 original size:11 final size:11
Alignment explanation
Indices: 45369967--45369993 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45369957 AAAGAAAGAA
45369967 AAAAAGTAATT
1 AAAAAGTAATT
45369978 AAAAAGTAATT
1 AAAAAGTAATT
45369989 AAAAA
1 AAAAA
45369994 AATAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAAGTAATT
Found at i:45369982 original size:24 final size:23
Alignment explanation
Indices: 45369925--45369972 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
45369915 GAAGAAGAGA
45369925 AGAAGAAAAAAGAAAGAAAAAAAG
1 AGAA-AAAAAAGAAAGAAAAAAAG
45369949 AGAAAGAAAAAGAAAGAAAAAAAG
1 AGAAA-AAAAAGAAAGAAAAAAAG
45369973 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAGAAAGAAAAAAAG
Found at i:45370632 original size:38 final size:37
Alignment explanation
Indices: 45370581--45370908 Score: 206
Period size: 36 Copynumber: 9.1 Consensus size: 37
45370571 TCGCGTTTTC
* * *
45370581 AAAATTCTAGTGTTTCAAAAATTTTCTTGTTTTCAGAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCA-AA
* * * *
45370619 AAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
** *
45370656 AAAATCAT-GTCTTTCAAAAATTTTCGTGTTTTCAAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC-AAA
*** * * **
45370693 AAAATGACCGTGTTTCAAAAATTTCCATG-TTAAAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* *
45370729 AAAATCTTCGTATTTTCAAAAAATTTTCGTG-TTTC--A
1 AAAATTTTCGT-GTTTC-AAAAATTTTCGTGTTTTCAAA
45370765 AAAATTTTCGTGTTTTCAAAAA-TTTCG-GTGTTTC--A
1 AAAATTTTCGTG-TTTCAAAAATTTTCGTGT-TTTCAAA
** *
45370800 AGGATTTTCGTGTTTTCAAAAA-CTTCGGTGATTTT-AAA
1 AAAATTTTCGTG-TTTCAAAAATTTTC-GTG-TTTTCAAA
* *
45370838 AAAA--ATCGT-TTTCTAAAAAATTTCCGTG-TTTC--A
1 AAAATTTTCGTGTTTC--AAAAATTTTCGTGTTTTCAAA
*
45370871 AAAATTTTCGTGTTTTAAAAATTTTCGTGTTTT-AAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
45370907 AA
1 AA
45370909 TTCTCGTATT
Statistics
Matches: 226, Mismatches: 42, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
33 6 0.03
34 24 0.11
35 40 0.18
36 65 0.29
37 29 0.13
38 62 0.27
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (37 bp):
AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
Found at i:45370688 original size:18 final size:18
Alignment explanation
Indices: 45370575--45371057 Score: 239
Period size: 17 Copynumber: 27.6 Consensus size: 18
45370565 GAAAAATCGC
* *
45370575 GTTTTC-AAAATTCTAGT
1 GTTTTCAAAAATTTTCGT
*
45370592 G-TTTCAAAAATTTTCTT
1 GTTTTCAAAAATTTTCGT
45370609 GTTTTCAGAAAAAATTTTCGT
1 GTTTTC---AAAAATTTTCGT
* *
45370630 GTTTT-ATAAATTTCCGT
1 GTTTTCAAAAATTTTCGT
* ** *
45370647 ATTTTCAAAAA-AATCAT
1 GTTTTCAAAAATTTTCGT
45370664 GTCTTTCAAAAATTTTCGT
1 GT-TTTCAAAAATTTTCGT
***
45370683 GTTTTCAAAAAAAATGACCGT
1 GTTTTC---AAAAATTTTCGT
* *
45370704 G-TTTCAAAAATTTCCAT
1 GTTTTCAAAAATTTTCGT
*** *
45370721 GTTAAAAAAAAATCTTCGT
1 GTT-TTCAAAAATTTTCGT
*
45370740 ATTTTCAAAAAATTTTCGT
1 GTTTTC-AAAAATTTTCGT
45370759 G-TTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
45370776 GTTTTCAAAAA-TTTCG-
1 GTTTTCAAAAATTTTCGT
**
45370792 GTGTTTCAAGGATTTTCGT
1 GT-TTTCAAAAATTTTCGT
*
45370811 GTTTTCAAAAA-CTTCGGT
1 GTTTTCAAAAATTTTC-GT
***
45370829 GATTTT-AAAAAAAATCGT
1 G-TTTTCAAAAATTTTCGT
* *
45370847 -TTTCTAAAAAATTTCCGT
1 GTTT-TCAAAAATTTTCGT
45370865 G-TTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
45370882 GTTTT-AAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
*
45370899 GTTTT-AAAAATTCTCGT
1 GTTTTCAAAAATTTTCGT
*
45370916 ATTTT---AAATTTT--T
1 GTTTTCAAAAATTTTCGT
*** **
45370929 -TTAAGAAAAAAATT-GT
1 GTTTTCAAAAATTTTCGT
* * *
45370945 G-TTTCAAAAAATGTCTT
1 GTTTTCAAAAATTTTCGT
*
45370962 GTTTT-AAAAATTCTCGT
1 GTTTTCAAAAATTTTCGT
* *
45370979 G-TTTCAAAAAAATGTCGT
1 GTTTTC-AAAAATTTTCGT
45370997 GTTTT-AAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
*** *
45371014 GTTTTTTGAAATTTCCGT
1 GTTTTCAAAAATTTTCGT
*
45371032 G-TTT-AAAAATTCTCGT
1 GTTTTCAAAAATTTTCGT
45371048 GTTTT-AAAAA
1 GTTTTCAAAAA
45371058 AAAACTTTCA
Statistics
Matches: 355, Mismatches: 74, Indels: 74
0.71 0.15 0.15
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 11 0.03
16 30 0.08
17 149 0.42
18 94 0.26
19 38 0.11
20 4 0.01
21 26 0.07
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
GTTTTCAAAAATTTTCGT
Found at i:45370695 original size:74 final size:74
Alignment explanation
Indices: 45370593--45370790 Score: 210
Period size: 74 Copynumber: 2.7 Consensus size: 74
45370583 AATTCTAGTG
* * **
45370593 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTAT-TTTCAAAA
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAAATTTTCGTGTTTTAAAAATTTCC--ATGTTAAAAAA
45370657 AAATCAT-GT-C
63 AAATCATCGTAC
*** *
45370667 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCATGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATTTTCGTGTTTTAAAAATTTCCATGTTAAAAAAAA
* *
45370732 ATCTTCGTAT
65 ATCATCGTAC
45370742 TTTCAAAAAATTTTCGTG-TTTC--AAAAATTTTCGTGTTTTCAAAAATTTC
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAAATTTTCGTGTTTT-AAAAATTTC
45370791 GGTGTTTCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
72 15 0.14
73 21 0.20
74 46 0.44
75 9 0.09
76 13 0.12
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (74 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTTCGTGTTTTAAAAATTTCCATGTTAAAAAAAAA
TCATCGTAC
Found at i:45370796 original size:35 final size:34
Alignment explanation
Indices: 45370618--45371058 Score: 219
Period size: 35 Copynumber: 12.7 Consensus size: 34
45370608 TGTTTTCAGA
* *
45370618 AAAAATTTTCGTGTTTT-ATAAATTTCCGTATTTT
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTT
** *
45370652 CAAAAA-AATCATGTCTTTCAAAAATTTTCGTGTTTT
1 -AAAAATTTTCGTGT-TTTCAAAAA-TTTCGTGTTTT
*** * **
45370688 CAAAAAAAATGACCGTG-TTTCAAAAATTTCCATGTTAAAA
1 ----AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTT--TT
* * *
45370728 AAAAATCTTCGTATTTTCAAAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTTT
*
45370764 AAAAATTTTCGTGTTTTCAAAAATTTCGGTGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTTT
** *
45370799 AAGGATTTTCGTGTTTTCAAAAACTTCGGTGATTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTG-TTTT
*** * *
45370835 AAAAAAAATCGT-TTTCTAAAAAATTTCCGTGTTTC
1 AAAAATTTTCGTGTTT-TCAAAAATTT-CGTGTTTT
45370870 AAAAATTTTCGTGTTTT-AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAA-TTTCGTGTTTT
* * *
45370904 AAAAATTCTCGTATTTT---AAATTT--T-TTTAAG
1 AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT--T
** * *
45370934 AAAAAAATT-GTG-TTTCAAAAAATGTCTTGTTTT
1 AAAAATTTTCGTGTTTTC-AAAAATTTCGTGTTTT
* *
45370967 AAAAATTCTCGTG-TTTCAAAAAAATGTCGTGTTTT
1 AAAAATTTTCGTGTTTTC--AAAAATTTCGTGTTTT
***
45371002 AAAAATTTTCGTGTTTTTTGAAATTTCCGTG-TTT
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTT
* *
45371036 AAAAATTCTCGTGTTTTAAAAAA
1 AAAAATTTTCGTGTTTTCAAAAA
45371059 AAACTTTCAT
Statistics
Matches: 315, Mismatches: 59, Indels: 65
0.72 0.13 0.15
Matches are distributed among these distances:
28 6 0.02
29 3 0.01
30 6 0.02
31 3 0.01
32 8 0.03
33 6 0.02
34 71 0.23
35 102 0.32
36 63 0.20
37 11 0.03
38 24 0.08
39 8 0.03
40 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTTT
Found at i:45372442 original size:20 final size:20
Alignment explanation
Indices: 45372410--45372447 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45372400 ATGAAGGGTT
*
45372410 TTAAAAACATAAATAAATAA
1 TTAAAAACATAAAAAAATAA
45372430 TTAAAAA-ATTAAAAAAAT
1 TTAAAAACA-TAAAAAAAT
45372448 GAAGTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAAAAACATAAAAAAATAA
Found at i:45372794 original size:16 final size:16
Alignment explanation
Indices: 45372753--45372784 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45372743 TTAATTATAT
45372753 ATAAAAAATATAATAA
1 ATAAAAAATATAATAA
45372769 ATAAAAAATATAATAA
1 ATAAAAAATATAATAA
45372785 TACAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAAAAATATAATAA
Found at i:45373834 original size:28 final size:30
Alignment explanation
Indices: 45373803--45373869 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
45373793 GACTTCTGGT
*
45373803 TTAGGCTAGTTGGG-CTAGGGTA-TTGGGC
1 TTAGGCTAGTTGGGTCTAGGCTAGTTGGGC
* * *
45373831 TTAGGCTAATTGGGTTTAGGCTAGTTGGGT
1 TTAGGCTAGTTGGGTCTAGGCTAGTTGGGC
45373861 TTAGGCTAG
1 TTAGGCTAG
45373870 GTTAGAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 13 0.41
29 6 0.19
30 13 0.41
ACGTcount: A:0.16, C:0.09, G:0.39, T:0.36
Consensus pattern (30 bp):
TTAGGCTAGTTGGGTCTAGGCTAGTTGGGC
Found at i:45373869 original size:15 final size:15
Alignment explanation
Indices: 45373800--45373869 Score: 90
Period size: 15 Copynumber: 4.8 Consensus size: 15
45373790 TCTGACTTCT
45373800 GGTTTAGGCTAGTTG
1 GGTTTAGGCTAGTTG
* *
45373815 GG-CTAGGGTA-TTG
1 GGTTTAGGCTAGTTG
* *
45373828 GGCTTAGGCTAATTG
1 GGTTTAGGCTAGTTG
45373843 GGTTTAGGCTAGTTG
1 GGTTTAGGCTAGTTG
45373858 GGTTTAGGCTAG
1 GGTTTAGGCTAG
45373870 GTTAGAGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
13 5 0.11
14 12 0.26
15 30 0.64
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (15 bp):
GGTTTAGGCTAGTTG
Found at i:45382018 original size:15 final size:15
Alignment explanation
Indices: 45381994--45382031 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45381984 AAACTCTAGC
45381994 CTAGCCTAAACCCAA
1 CTAGCCTAAACCCAA
*
45382009 CTAGCTTAAACCCAA
1 CTAGCCTAAACCCAA
*
45382024 TTAGCCTA
1 CTAGCCTA
45382032 GCCTCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.34, G:0.08, T:0.21
Consensus pattern (15 bp):
CTAGCCTAAACCCAA
Found at i:45384855 original size:45 final size:46
Alignment explanation
Indices: 45384788--45384911 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
45384778 CATATGACCT
*
45384788 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
45384831 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
45384877 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
45384912 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:45384894 original size:46 final size:45
Alignment explanation
Indices: 45384788--45385022 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
45384778 CATATGACCT
*
45384788 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
45384831 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
45384877 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
45384914 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
45384951 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
45384988 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
45385023 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:45384915 original size:37 final size:37
Alignment explanation
Indices: 45384873--45385049 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
45384863 AGCTGAAGCT
* **
45384873 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
45384910 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
45384947 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
45384984 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
45385021 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
45385050 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:45390420 original size:19 final size:19
Alignment explanation
Indices: 45390396--45390436 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
45390386 TGATTTATTC
*
45390396 TAAGATTTATCTATCTAAA
1 TAAGATTTATCTACCTAAA
45390415 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
45390434 TAA
1 TAA
45390437 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:45396538 original size:11 final size:11
Alignment explanation
Indices: 45396440--45396539 Score: 56
Period size: 11 Copynumber: 8.7 Consensus size: 11
45396430 GTTTTCTCAC
*
45396440 TATTTTATTAC
1 TATTTTATTAT
* *
45396451 CATTTCATTAT
1 TATTTTATTAT
* ** *
45396462 TATATTGCTAC
1 TATTTTATTAT
*
45396473 TATTTTATTGT
1 TATTTTATTAT
*
45396484 TATTATTTAGATAT
1 TA-T-TTTA-TTAT
* * *
45396498 TATATAATTGT
1 TATTTTATTAT
45396509 TATTTTATTAT
1 TATTTTATTAT
45396520 TAATTTTATTAT
1 T-ATTTTATTAT
45396532 TATTTTAT
1 TATTTTAT
45396540 AAGCATTTGC
Statistics
Matches: 62, Mismatches: 23, Indels: 8
0.67 0.25 0.09
Matches are distributed among these distances:
11 39 0.63
12 14 0.23
13 5 0.08
14 4 0.06
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:45397441 original size:24 final size:22
Alignment explanation
Indices: 45397374--45397441 Score: 54
Period size: 24 Copynumber: 3.1 Consensus size: 22
45397364 TATATCCAAT
45397374 TTTTTAAATTAATAGAAAATGATA
1 TTTTTAAATTAATAG-AAAT-ATA
* *
45397398 TTTTAAAATT-AT---AATCTA
1 TTTTTAAATTAATAGAAATATA
45397416 TTTTTAAATTAATAGAAGATAATA
1 TTTTTAAATTAATAGAA-AT-ATA
45397440 TT
1 TT
45397442 AAACTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 11 0.32
19 5 0.15
22 1 0.03
23 4 0.12
24 13 0.38
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (22 bp):
TTTTTAAATTAATAGAAATATA
Found at i:45397459 original size:42 final size:42
Alignment explanation
Indices: 45397374--45397462 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
45397364 TATATCCAAT
* *
45397374 TTTTTAAATTAATAGAAAATGATATTTTAAAATTATAATCTA
1 TTTTTAAATTAATAGAAAATGATATATTAAAATTATAAACTA
* *
45397416 TTTTTAAATTAATAGAAGAT-A-ATATTAAACTTATAAAAACTA
1 TTTTTAAATTAATAGAAAATGATATATTAAAATTAT--AAACTA
45397458 TTTTT
1 TTTTT
45397463 TTCACGCTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 11 0.27
41 1 0.02
42 29 0.71
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (42 bp):
TTTTTAAATTAATAGAAAATGATATATTAAAATTATAAACTA
Found at i:45399035 original size:25 final size:25
Alignment explanation
Indices: 45399007--45399086 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
45398997 AGGTTATCCC
45399007 AAAAATTAGCCACTACA-GCTTTTCA
1 AAAAATTAGCCACTA-AGGCTTTTCA
* * *
45399032 AAAAATTTGCCATTAAGGTTTTTCA
1 AAAAATTAGCCACTAAGGCTTTTCA
* *
45399057 GAAGATTAGCCACTAAGGCTTTTCA
1 AAAAATTAGCCACTAAGGCTTTTCA
*
45399082 GAAAA
1 AAAAA
45399087 CTTACCGACT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 1 0.02
25 44 0.98
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (25 bp):
AAAAATTAGCCACTAAGGCTTTTCA
Found at i:45403234 original size:5 final size:5
Alignment explanation
Indices: 45403224--45403249 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45403214 TGAGCATTCG
45403224 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
45403250 AATTTTCGAG
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:45404256 original size:9 final size:9
Alignment explanation
Indices: 45404242--45404278 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45404232 TATAGTTTGA
45404242 TATTCGAAT
1 TATTCGAAT
45404251 TATTCGAAT
1 TATTCGAAT
*
45404260 TATTCGAGT
1 TATTCGAAT
45404269 TATTCGAAT
1 TATTCGAAT
45404278 T
1 T
45404279 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45404353 original size:18 final size:18
Alignment explanation
Indices: 45404330--45404364 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
45404320 ATTCAAGTTG
45404330 ATTCGAATAACTCGATTA
1 ATTCGAATAACTCGATTA
45404348 ATTCGAATAACTCGATT
1 ATTCGAATAACTCGATT
45404365 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTCGAATAACTCGATTA
Found at i:45405806 original size:21 final size:21
Alignment explanation
Indices: 45405780--45405831 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45405770 ATTGAGGCTT
*
45405780 AAGGATTGAGATAGATGGTTG
1 AAGGATTGAGACAGATGGTTG
*
45405801 AAGGATAGAGACAGATGGTTG
1 AAGGATTGAGACAGATGGTTG
*
45405822 GAGGA-TGAGA
1 AAGGATTGAGA
45405832 AAGAGATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.37, C:0.02, G:0.40, T:0.21
Consensus pattern (21 bp):
AAGGATTGAGACAGATGGTTG
Found at i:45409769 original size:45 final size:44
Alignment explanation
Indices: 45409701--45409853 Score: 155
Period size: 45 Copynumber: 3.4 Consensus size: 44
45409691 AGCACCACCC
* * * *
45409701 TTATAGTCAATGATACTCGGTGGAATCAACACATAGCAACTACCT
1 TTATAATCAATG-TACCCAGTGGAATCAACACACAGCAACTACCT
* * * *
45409746 TCATAATCAATAGTACCCAGTGGAATCAGCACACAGTAACCACCT
1 TTATAATCAAT-GTACCCAGTGGAATCAACACACAGCAACTACCT
* *
45409791 TTATAATCAATGATACTCGGTGGAATCAACACACAGCAA-TCACCT
1 TTATAATCAATG-TACCCAGTGGAATCAACACACAGCAACT-ACCT
*
45409836 TTATAATTAATGGTACCC
1 TTATAATCAAT-GTACCC
45409854 GGTACACGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 85 0.97
46 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (44 bp):
TTATAATCAATGTACCCAGTGGAATCAACACACAGCAACTACCT
Found at i:45409811 original size:90 final size:88
Alignment explanation
Indices: 45409677--45409853 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 88
45409667 CAGATACACG
* * * *
45409677 GTGGATCAGCACATAGCACCACCCTTATAGTCAATGATACTCGGTGGAATCAACACATAGCAA-C
1 GTGGATCAGCACACAGAACCACCCTTATAATCAATGATACTCGGTGGAATCAACACACAGCAATC
45409741 TACCTTCATAATCAATAGTACCCA
66 -ACCTTCATAATCAATAGTACCCA
*
45409765 GTGGAATCAGCACACAGTAACCACCTTTATAATCAATGATACTCGGTGGAATCAACACACAGCAA
1 GTGG-ATCAGCACACAG-AACCACCCTTATAATCAATGATACTCGGTGGAATCAACACACAGCAA
* * *
45409830 TCACCTTTATAATTAATGGTACCC
64 TCACCTTCATAATCAATAGTACCC
45409854 GGTACACGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 4 0.05
89 11 0.14
90 62 0.79
91 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (88 bp):
GTGGATCAGCACACAGAACCACCCTTATAATCAATGATACTCGGTGGAATCAACACACAGCAATC
ACCTTCATAATCAATAGTACCCA
Found at i:45416629 original size:9 final size:9
Alignment explanation
Indices: 45416615--45416651 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45416605 TATAGTTTGA
45416615 TATTCGAAT
1 TATTCGAAT
45416624 TATTCGAAT
1 TATTCGAAT
* *
45416633 TATTTGAGT
1 TATTCGAAT
45416642 TATTCGAAT
1 TATTCGAAT
45416651 T
1 T
45416652 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45416721 original size:9 final size:9
Alignment explanation
Indices: 45416704--45416734 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45416694 TCAAGTTGAT
45416704 TCGAATAAC
1 TCGAATAAC
*
45416713 TCGATTAAC
1 TCGAATAAC
45416722 TCGAATAAC
1 TCGAATAAC
45416731 TCGA
1 TCGA
45416735 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45421508 original size:15 final size:16
Alignment explanation
Indices: 45421482--45421511 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45421472 CTTGAAAGTA
45421482 AGATTAAGATTAGATG
1 AGATTAAGATTAGATG
45421498 AGATT-AGATTAGAT
1 AGATTAAGATTAGAT
45421512 TAATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (16 bp):
AGATTAAGATTAGATG
Found at i:45421893 original size:9 final size:9
Alignment explanation
Indices: 45421874--45421927 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
45421864 TAAAAAAACC
*
45421874 TAAATTATA
1 TAAAATATA
*
45421883 TAACATATA
1 TAAAATATA
45421892 TAAAATATA
1 TAAAATATA
*
45421901 TATATATATA
1 TA-AAATATA
45421911 TAAAATATA
1 TAAAATATA
*
45421920 TAACATAT
1 TAAAATAT
45421928 TCACTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 30 0.79
10 8 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (9 bp):
TAAAATATA
Found at i:45421909 original size:17 final size:17
Alignment explanation
Indices: 45421887--45421921 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45421877 ATTATATAAC
45421887 ATATATA-AAATATATAT
1 ATATATATAAA-ATATAT
45421904 ATATATATAAAATATAT
1 ATATATATAAAATATAT
45421921 A
1 A
45421922 ACATATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATATAAAATATAT
Found at i:45422229 original size:22 final size:22
Alignment explanation
Indices: 45422172--45422230 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
45422162 AAAAAAAACT
* *
45422172 ATTGTTTTGCTGCTGTTTTTCC
1 ATTGTTTTGCTGCTATTTTCCC
* *
45422194 ACTGTTTTACTGCTATTTTCCC
1 ATTGTTTTGCTGCTATTTTCCC
*
45422216 ATTGTTTTGTTGCTA
1 ATTGTTTTGCTGCTA
45422231 CTATTTTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.10, C:0.19, G:0.15, T:0.56
Consensus pattern (22 bp):
ATTGTTTTGCTGCTATTTTCCC
Found at i:45430356 original size:26 final size:26
Alignment explanation
Indices: 45430299--45430349 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
45430289 CTTGATATAT
*
45430299 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCAATTAAA
* *
45430325 GGCTCTTTGTGAGCTTCCTAATTAA
1 GGCTCTTCGTGAGCTTCCCAATTAA
45430350 TTGCTCTCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCAATTAAA
Found at i:45430459 original size:24 final size:24
Alignment explanation
Indices: 45430408--45430460 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
45430398 TGGCTATCCG
* *
45430408 GAGCTTCCCGTTAATGGCTCTTCA
1 GAGCTACCCGTTAATGGCTCTGCA
*
45430432 GAGCTACCCGTTATTGGCTC-GCA
1 GAGCTACCCGTTAATGGCTCTGCA
45430455 TGAGCT
1 -GAGCT
45430461 TCTTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (24 bp):
GAGCTACCCGTTAATGGCTCTGCA
Found at i:45431235 original size:18 final size:18
Alignment explanation
Indices: 45431200--45431237 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45431190 AGAAAAGAAT
*
45431200 AAAAAGAAAAACGGTTCA
1 AAAAAGAAAAACGATTCA
45431218 AAAAAGAGAAAA-GATTCA
1 AAAAAGA-AAAACGATTCA
45431236 AA
1 AA
45431238 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAACGATTCA
Found at i:45432115 original size:7 final size:7
Alignment explanation
Indices: 45432100--45432133 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
45432090 ACTTACATAC
45432100 TTATATT
1 TTATATT
*
45432107 TTATTTT
1 TTATATT
45432114 TTATATT
1 TTATATT
*
45432121 TTATAAT
1 TTATATT
45432128 TTATAT
1 TTATAT
45432134 ATCTATATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATATT
Found at i:45432410 original size:4 final size:4
Alignment explanation
Indices: 45432401--45432446 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
45432391 TTTTATTTTC
* * *
45432401 ATTT ATTT ATTT ATTT ATAT GTCT A-TT -TTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
45432447 GTTATTGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:45432431 original size:26 final size:25
Alignment explanation
Indices: 45432402--45432452 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
45432392 TTTATTTTCA
45432402 TTTATTTATTTATTTATATGTCTATT
1 TTTATTTATTTATTTATATGT-TATT
*
45432428 TTTATTTATTTATTTATTTGTTATT
1 TTTATTTATTTATTTATATGTTATT
45432453 GTATATACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTATTTATTTATTTATATGTTATT
Found at i:45432807 original size:71 final size:71
Alignment explanation
Indices: 45432669--45432810 Score: 187
Period size: 71 Copynumber: 2.0 Consensus size: 71
45432659 AAATAGCTAA
* * *
45432669 ATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTTGCGTTTGAAAATTCGAGGAACGTGCCC
1 ATATCCTTTCAAAAATTTCAAAATAAGACAATGTTTTTGCGTTTGAAAATTCGAGAAACATGCCC
45432734 TAAGGT
66 TAAGGT
* * * * * *
45432740 ATATCCTTTTAAAATTTTTAAAATAAGACAATG-TTTTGCGTTTGGACATTCGAGAAAACATGTC
1 ATATCCTTTCAAAAATTTCAAAATAAGACAATGTTTTTGCGTTTGAAAATTCGAG-AAACATGCC
45432804 CTAAGGT
65 CTAAGGT
45432811 GCTGGGTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 19 0.31
71 42 0.69
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (71 bp):
ATATCCTTTCAAAAATTTCAAAATAAGACAATGTTTTTGCGTTTGAAAATTCGAGAAACATGCCC
TAAGGT
Found at i:45432889 original size:180 final size:181
Alignment explanation
Indices: 45432574--45432920 Score: 527
Period size: 180 Copynumber: 1.9 Consensus size: 181
45432564 CAAAAGAAAT
* * *
45432574 TTTTTTAAATGAGGCAATGTTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTTAAAATAAGACAATGTTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* *
45432639 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTT
66 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATAAGGCAATGAT
* *
45432704 TTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTATATCCTTTTAAAA
131 TTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTATATCCTTTTAAAA
* * *
45432754 TTTTTAAAATAAGACAATGTTTTGCGTTTGGACATTCGAGAAAACATGTCCTAAGGTGCTGGGTG
1 TTTTTAAAATAAGACAATGTTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* ** * *
45432819 TCGATTTTTCTCGTTCAACCAAATGGCTTTATATCATCTTCAGAAATTTTAAAATAAGGCAAT-A
66 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCAT-TTCAAAAATTTCAAAATAAGGCAATGA
*
45432883 TTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGT
130 TTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGT
45432921 GCTGGGTGTC
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
180 112 0.75
181 37 0.25
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (181 bp):
TTTTTAAAATAAGACAATGTTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATAAGGCAATGAT
TTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTATATCCTTTTAAAA
Found at i:45432948 original size:110 final size:109
Alignment explanation
Indices: 45432740--45433070 Score: 434
Period size: 110 Copynumber: 3.0 Consensus size: 109
45432730 GCCCTAAGGT
* * * * * * *
45432740 ATATCCTTTTAAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGACATTCGAGAAAACATGTCC
1 ATATCATTTCAAAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCC
* **
45432805 TAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTT
66 TAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAA
*
45432849 ATATCATCTTCAGAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCC
1 ATATCAT-TTCAAAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCC
45432914 CTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAA
65 CTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAA
* * * * * *
45432959 ATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTTGCGTTTGAAAATTCGAG-GAACGTGCC
1 ATATCATTTCAAAAATTTTAAAATAAGGCAAT-ATTTTGCGTTTGGAAATTCGAGAAAACATGCC
* * * *
45433023 CTAAGGTGCTGGGTTTCGA--TTTCTCGTTTAACCAAATTGCCAA
65 CTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAA
45433066 ATATC
1 ATATC
45433071 CTCTTGAATT
Statistics
Matches: 198, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
107 26 0.13
109 54 0.27
110 118 0.60
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (109 bp):
ATATCATTTCAAAAATTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCC
TAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAA
Found at i:45436764 original size:51 final size:50
Alignment explanation
Indices: 45436575--45436768 Score: 153
Period size: 51 Copynumber: 3.9 Consensus size: 50
45436565 ATGTGAAAGT
* *
45436575 GAAAGTGAT-GGTCACGTGTGTAGTGCTATGTGCAGGCTACTACATGTAC
1 GAAAGTGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAC
* ** * * * * *
45436624 CAAAAAGATAGGTCGCTTGTGTAGTACTGTGTGCAGGCTACTATGCGTACC
1 GAAAGTGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-C
* * * * * *
45436675 GGATAGCT--TCGATCACGTGTGTAGTACTATATACAGGCTACTACGTGTATT
1 -GAAAG-TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-C
* *
45436726 GAATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAA-AGTGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTA
45436769 TGTGAACCCG
Statistics
Matches: 107, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
49 6 0.06
50 35 0.33
51 63 0.59
52 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (50 bp):
GAAAGTGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAC
Found at i:45436864 original size:42 final size:42
Alignment explanation
Indices: 45436776--45437033 Score: 317
Period size: 42 Copynumber: 6.1 Consensus size: 42
45436766 CTATGTGAAC
* *
45436776 CCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCA
1 CCGTATCCTTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* *
45436818 CCGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCC-
1 CCGTATCCTTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCA
*
45436860 CCGTATCCTTGATTATAAGGTGGTTGCTAAATGCTGATTCCA
1 CCGTATCCTTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* *
45436902 CCGTATCCTTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCC-
1 CCGTATCCTTGATTAT--AAGGTGGTTGCTAAGTGCTGATTCCA
* * *
45436944 CCATATCATTGATTATAAGGTGGTTCCTAAGTGCTGATTCCA
1 CCGTATCCTTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
* * *
45436986 CCGGGATCCTTTGAATATGAGGTGGTTGCTAAGTGCTGATTCCA
1 CC-GTATCC-TTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
45437030 CCGT
1 CCGT
45437034 GTAATGGTTA
Statistics
Matches: 184, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
40 8 0.04
41 36 0.20
42 59 0.32
43 40 0.22
44 41 0.22
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (42 bp):
CCGTATCCTTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
Found at i:45436916 original size:84 final size:84
Alignment explanation
Indices: 45436775--45437033 Score: 396
Period size: 84 Copynumber: 3.1 Consensus size: 84
45436765 ACTATGTGAA
45436775 CCCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCACCGTATCCTTGATTGTGAAAGG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCACCGTATCCTTGATTGTGAAAGG
45436840 GGTTGCTATGTGCTGATTC
66 GGTTGCTATGTGCTGATTC
*
45436859 CCCGTATCCTTGATTATAAGGTGGTTGCTAAATGCTGATTCCACCGTATCCTTGATTGTGAAAGG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCACCGTATCCTTGATTGTGAAAGG
45436924 GGTTGCTATGTGCTGATTC
66 GGTTGCTATGTGCTGATTC
* * * * * *
45436943 CCCATATCATTGATTATAAGGTGGTTCCTAAGTGCTGATTCCACCGGGATCCTTTGAATATG--A
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCACC-GTATCC-TTGATTGTGAAA
*
45437006 GGTGGTTGCTAAGTGCTGATTC
64 GG-GGTTGCTATGTGCTGATTC
45437028 CACCGT
1 C-CCGT
45437034 GTAATGGTTA
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
84 127 0.79
85 24 0.15
86 10 0.06
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (84 bp):
CCCGTATCATTGATTATAAGGTGGTTGCTAAATGCTGATTCCACCGTATCCTTGATTGTGAAAGG
GGTTGCTATGTGCTGATTC
Found at i:45444308 original size:26 final size:26
Alignment explanation
Indices: 45444259--45444309 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
45444249 CCCGATATAT
*
45444259 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCAATTAAA
* *
45444285 GGCTCTTTGTGAGCTTCCTAATTAA
1 GGCTCTTCGTGAGCTTCCCAATTAA
45444310 TGTCTTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCAATTAAA
Found at i:45444374 original size:25 final size:25
Alignment explanation
Indices: 45444346--45444410 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
45444336 CTTCCCTGAA
* *
45444346 CTTCCCGGTATATGGCTATTCGGAG
1 CTTCCCGTTATATGGCTATTCAGAG
*
45444371 CTTCCCGTTA-ATGGCTCTTCAGAG
1 CTTCCCGTTATATGGCTATTCAGAG
*
45444395 CTACCCGTTAT-TGGCT
1 CTTCCCGTTATATGGCT
45444411 CGCATGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 26 0.74
25 9 0.26
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.34
Consensus pattern (25 bp):
CTTCCCGTTATATGGCTATTCAGAG
Found at i:45444468 original size:25 final size:25
Alignment explanation
Indices: 45444438--45444504 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
45444428 TATGGCTCTT
* *
45444438 ATAAGCTTCCTGTTATGCAGCCCAG
1 ATAAGCTTCCTGTTATACAGCCCAC
*
45444463 ATAAGCTT-CTCGTTATACAGCTCAC
1 ATAAGCTTCCT-GTTATACAGCCCAC
*
45444488 ATGAGCTTCCTGTTATA
1 ATAAGCTTCCTGTTATA
45444505 TGGCTCGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.06
25 32 0.89
26 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (25 bp):
ATAAGCTTCCTGTTATACAGCCCAC
Found at i:45444510 original size:25 final size:25
Alignment explanation
Indices: 45444368--45444510 Score: 71
Period size: 24 Copynumber: 5.8 Consensus size: 25
45444358 TGGCTATTCG
* *
45444368 GAGCTTCCCGTTA-ATGGCTCTTCA-
1 GAGCTTCCTGTTATATGGCTC-ACAT
* * *
45444392 GAGCTACCCGTTAT-TGGCTCGCAT
1 GAGCTTCCTGTTATATGGCTCACAT
* * **
45444416 GAGCTTCTTG-AATATGGCTCTTAT
1 GAGCTTCCTGTTATATGGCTCACAT
* *** * *
45444440 AAGCTTCCTGTTATGCAGCCCAGAT
1 GAGCTTCCTGTTATATGGCTCACAT
* **
45444465 AAGCTT-CTCGTTATACAGCTCACAT
1 GAGCTTCCT-GTTATATGGCTCACAT
45444490 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCTGTTATATGGCTC
45444511 GAGAGAGGGC
Statistics
Matches: 90, Mismatches: 23, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
23 4 0.04
24 43 0.48
25 41 0.46
26 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGTTATATGGCTCACAT
Found at i:45446771 original size:20 final size:20
Alignment explanation
Indices: 45446746--45446789 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
45446736 TAATATGGTA
45446746 AGAAAAGTGGAGAATTCTCT
1 AGAAAAGTGGAGAATTCTCT
45446766 AGAAAAGTGGAGAATTCTCT
1 AGAAAAGTGGAGAATTCTCT
45446786 AGAA
1 AGAA
45446790 TGTGTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (20 bp):
AGAAAAGTGGAGAATTCTCT
Found at i:45449557 original size:30 final size:30
Alignment explanation
Indices: 45449523--45449587 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
45449513 AACAGTGAGT
45449523 TACACAGCCTGGAAACACGGCCGTGCAACC
1 TACACAGCCTGGAAACACGGCCGTGCAACC
* * * * *
45449553 TACACGGCTTGGCAACATGGCCGTGTAACC
1 TACACAGCCTGGAAACACGGCCGTGCAACC
45449583 TACAC
1 TACAC
45449588 GANNNNNNNN
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (30 bp):
TACACAGCCTGGAAACACGGCCGTGCAACC
Found at i:45449660 original size:30 final size:30
Alignment explanation
Indices: 45449624--45449691 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
45449614 NNNNNNNNNN
*
45449624 CTACACGACCTGGCGACACGGTCATGTAAC
1 CTACACGACCTGGAGACACGGTCATGTAAC
* * *
45449654 CTACACGGCTTGGAGACACGGTCGTGTAAC
1 CTACACGACCTGGAGACACGGTCATGTAAC
45449684 CTACACGA
1 CTACACGA
45449692 ACTAGACACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.25, T:0.18
Consensus pattern (30 bp):
CTACACGACCTGGAGACACGGTCATGTAAC
Found at i:45450523 original size:17 final size:17
Alignment explanation
Indices: 45450485--45450533 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
45450475 TATCTGTTCA
45450485 TTTTTATTAT-TTT-TT
1 TTTTTATTATGTTTATT
* *
45450500 TTCTTATTCTGTTTATT
1 TTTTTATTATGTTTATT
45450517 TTTTTATTATGTTTATT
1 TTTTTATTATGTTTATT
45450534 CCTGGTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 8 0.29
16 3 0.11
17 17 0.61
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTATTATGTTTATT
Found at i:45451273 original size:13 final size:13
Alignment explanation
Indices: 45451255--45451280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45451245 ATCGAGCCCA
45451255 CATATATGGAGCT
1 CATATATGGAGCT
45451268 CATATATGGAGCT
1 CATATATGGAGCT
45451281 TACTTTGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
CATATATGGAGCT
Done.