Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 81 of 130
Found at i:16300624 original size:18 final size:18
Alignment explanation
Indices: 16300603--16300651 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
16300593 CAAAACTTAT
16300603 AAATTTAATAA-AAATAAA
1 AAATTTAA-AATAAATAAA
*
16300621 AAATTCATAAAATATATAAA
1 AAATT--TAAAATAAATAAA
16300641 AAATTTAAAAT
1 AAATTTAAAAT
16300652 TGTAAGATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 11 0.41
19 2 0.07
20 14 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTTAAAATAAATAAA
Found at i:16300633 original size:27 final size:26
Alignment explanation
Indices: 16300586--16300642 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
16300576 AATGAAAAAT
*
16300586 AAAATAACAAAACTTATAAATTTAATA
1 AAAATAACAAAACTTATAAATAT-ATA
16300613 AAAATAA-AAAA-TTCATAAAATATATA
1 AAAATAACAAAACTT-AT-AAATATATA
16300639 AAAA
1 AAAA
16300643 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.07
26 13 0.48
27 12 0.44
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATAACAAAACTTATAAATATATA
Found at i:16300790 original size:19 final size:19
Alignment explanation
Indices: 16300749--16300810 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 19
16300739 TTTTCTTTTC
** *
16300749 AATTTTTTAAGTTTTTGTGA
1 AATTTTTTAA-TTTTAATAA
16300769 AATTTTTTAATTTTAATAA
1 AATTTTTTAATTTTAATAA
* *
16300788 AATTTTAT-A-TTTATTAA
1 AATTTTTTAATTTTAATAA
16300805 AATTTT
1 AATTTT
16300811 CATATTTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 13 0.35
18 1 0.03
19 13 0.35
20 10 0.27
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
AATTTTTTAATTTTAATAA
Found at i:16300800 original size:17 final size:18
Alignment explanation
Indices: 16300780--16300817 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
16300770 ATTTTTTAAT
16300780 TTTAATAAAATTTT-ATA
1 TTTAATAAAATTTTCATA
*
16300797 TTTATTAAAATTTTCATA
1 TTTAATAAAATTTTCATA
16300815 TTT
1 TTT
16300818 TTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAAAATTTTCATA
Found at i:16300819 original size:26 final size:27
Alignment explanation
Indices: 16300796--16300847 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
16300786 AAAATTTTAT
*
16300796 ATTTATTAAAATTTTCATA-TTTTTGA
1 ATTTATTAAAATTTTAATAGTTTTTGA
*
16300822 ATTTTTTAAAATTTTAATAGTTTTTG
1 ATTTATTAAAATTTTAATAGTTTTTG
16300848 TGGATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (27 bp):
ATTTATTAAAATTTTAATAGTTTTTGA
Found at i:16300877 original size:22 final size:22
Alignment explanation
Indices: 16300852--16300896 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16300842 TTTTTGTGGA
16300852 TTTTTATTAAAATTTTGAGTTT
1 TTTTTATTAAAATTTTGAGTTT
* **
16300874 TTTTTTTTAATTTTTTGAGTTT
1 TTTTTATTAAAATTTTGAGTTT
16300896 T
1 T
16300897 CATAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (22 bp):
TTTTTATTAAAATTTTGAGTTT
Found at i:16301560 original size:19 final size:20
Alignment explanation
Indices: 16301538--16301576 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16301528 ATTTTATTAA
16301538 TTTATTATAATA-AATAAAT
1 TTTATTATAATATAATAAAT
*
16301557 TTTATTATTATATAATAAAT
1 TTTATTATAATATAATAAAT
16301577 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATTATAATATAATAAAT
Found at i:16301560 original size:27 final size:24
Alignment explanation
Indices: 16301512--16301580 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 24
16301502 ACATAAATAA
16301512 ATATAATTAAATAATAATTTTATTAATTT
1 ATATAA-TAAAT-A-AATTTTATT-A-TT
16301541 ATTATAATAAATAAATTTTATTATT
1 A-TATAATAAATAAATTTTATTATT
16301566 ATATAATAAATAAAT
1 ATATAATAAATAAAT
16301581 AAAATTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.36
25 3 0.08
26 1 0.03
27 9 0.23
28 1 0.03
29 6 0.15
30 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATAATAAATAAATTTTATTATT
Found at i:16301612 original size:32 final size:29
Alignment explanation
Indices: 16301514--16301614 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 29
16301504 ATAAATAAAT
*
16301514 ATAATTAAATAATAATTTTATTAA-TTTATT
1 ATAA-TAAATAA-AATTTTATTAATTTTATA
*
16301544 ATAATAAAT-AAATTTTATT-ATTATATA
1 ATAATAAATAAAATTTTATTAATTTTATA
16301571 ATAAATAAATAAAATTCTTTATTAATTTTATAA
1 AT-AATAAATAAAA-T-TTTATTAATTTTAT-A
*
16301604 ATATTAAATAA
1 ATAATAAATAA
16301615 TTTAAAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.02
27 15 0.25
28 8 0.13
29 8 0.13
30 5 0.08
31 6 0.10
32 14 0.23
33 3 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
ATAATAAATAAAATTTTATTAATTTTATA
Found at i:16303150 original size:13 final size:13
Alignment explanation
Indices: 16303134--16303174 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
16303124 TGTTTTCTAA
16303134 AAATGTATTTTTT
1 AAATGTATTTTTT
*
16303147 AAATATA-TTTTT
1 AAATGTATTTTTT
*
16303159 ATATGTATTTTTT
1 AAATGTATTTTTT
16303172 AAA
1 AAA
16303175 CAAATTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
AAATGTATTTTTT
Found at i:16305369 original size:24 final size:26
Alignment explanation
Indices: 16305322--16305374 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
16305312 TTTTTTTACC
*
16305322 TTTTTTTGTAATTTAATTTTAATTAAT
1 TTTTTTTGTAATTT-ATTTCAATTAAT
16305349 TTTTTTTGTAA-TT-TTTCAATTAAT
1 TTTTTTTGTAATTTATTTCAATTAAT
16305373 TT
1 TT
16305375 GATTAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 12 0.48
26 2 0.08
27 11 0.44
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTTTTGTAATTTATTTCAATTAAT
Found at i:16305969 original size:24 final size:24
Alignment explanation
Indices: 16305925--16305970 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16305915 AAATAAGAAT
16305925 AAAAAAATACTAAAAAAATGTAAA
1 AAAAAAATACTAAAAAAATGTAAA
* *
16305949 AAAAAAATCCTAAAAATATGTA
1 AAAAAAATACTAAAAAAATGTA
16305971 CCAAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAAAAATACTAAAAAAATGTAAA
Found at i:16307909 original size:20 final size:19
Alignment explanation
Indices: 16307876--16307914 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16307866 TTTTTTAATT
*
16307876 GTAATAAAATAATCCAAAA
1 GTAATAAAAAAATCCAAAA
16307895 GTAATCAAAAAAATCCAAAA
1 GTAAT-AAAAAAATCCAAAA
16307915 AATAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (19 bp):
GTAATAAAAAAATCCAAAA
Found at i:16311412 original size:8 final size:8
Alignment explanation
Indices: 16311399--16311436 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
16311389 AAAAGAATAT
16311399 TTTTAAAA
1 TTTTAAAA
16311407 TTTTAAAA
1 TTTTAAAA
16311415 TTTTAAAAA
1 TTTT-AAAA
16311424 TGTTTAAAA
1 T-TTTAAAA
16311433 TTTT
1 TTTT
16311437 TTCCAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.54
9 10 0.36
10 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:16311473 original size:11 final size:9
Alignment explanation
Indices: 16311397--16311483 Score: 68
Period size: 9 Copynumber: 9.1 Consensus size: 9
16311387 TTAAAAGAAT
*
16311397 ATTTTTAAA
1 ATTTTAAAA
16311406 ATTTT-AAA
1 ATTTTAAAA
16311414 ATTTTAAAA
1 ATTTTAAAA
16311423 ATGTTTAAAA
1 AT-TTTAAAA
*
16311433 TTTTTTCCAAAA
1 -ATTTT--AAAA
* *
16311445 AATTGAAAA
1 ATTTTAAAA
*
16311454 TTTTTAAAA
1 ATTTTAAAA
16311463 AGTTATTAAAA
1 A-TT-TTAAAA
16311474 ATTTTAAAA
1 ATTTTAAAA
16311483 A
1 A
16311484 ATGAAATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
8 8 0.13
9 27 0.43
10 14 0.22
11 10 0.16
12 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:16311701 original size:20 final size:19
Alignment explanation
Indices: 16311676--16311729 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
16311666 ATTGAAAACA
16311676 AAAAAATCTAAAAATTTATT
1 AAAAAATCTAAAAATTT-TT
*
16311696 AAAAAAT-TCATCAAATTTTT
1 AAAAAATCT-A-AAAATTTTT
16311716 AAAAAATTCTAAAA
1 AAAAAA-TCTAAAA
16311730 GTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 8 0.29
22 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATCTAAAAATTTTT
Found at i:16311745 original size:35 final size:36
Alignment explanation
Indices: 16311696--16311764 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
16311686 AAAATTTATT
* *
16311696 AAAAAATTCATCAAATTTTTAAAAAATTCTAAAAGTA
1 AAAAAATT-ATCAAATATATAAAAAATTCTAAAAGTA
* *
16311733 AAAAAATT-TCAAATATATGAAATATTCTAAAA
1 AAAAAATTATCAAATATATAAAAAATTCTAAAA
16311765 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 20 0.71
37 8 0.29
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (36 bp):
AAAAAATTATCAAATATATAAAAAATTCTAAAAGTA
Found at i:16311831 original size:19 final size:19
Alignment explanation
Indices: 16311800--16311861 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
16311790 CAAAACTTAT
*
16311800 AAATTT-AATAAAAATAAA
1 AAATTTCAAAAAAAATAAA
*
16311818 AAATTTCAAAAAAAATGAA
1 AAATTTCAAAAAAAATAAA
*
16311837 AAA-TTCATAAAATATATAAA
1 AAATTTCA-AAAA-AAATAAA
16311857 AAATT
1 AAATT
16311862 AAATTGTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.28
19 17 0.47
20 8 0.22
21 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
AAATTTCAAAAAAAATAAA
Found at i:16311966 original size:21 final size:20
Alignment explanation
Indices: 16311928--16311965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16311918 CAATTTGTTT
*
16311928 AAAATTTTTAGATTTTTTCA
1 AAAAATTTTAGATTTTTTCA
16311948 AAAAATTTTAGATTTTTT
1 AAAAATTTTAGATTTTTT
16311966 TTTATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
AAAAATTTTAGATTTTTTCA
Found at i:16312035 original size:17 final size:18
Alignment explanation
Indices: 16312010--16312052 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
16312000 TTTTTAAAAT
* *
16312010 TTTAATAAAA-TTTTATA
1 TTTATTAAAAGTTTCATA
16312027 TTTATTAAAAGTTTCATA
1 TTTATTAAAAGTTTCATA
*
16312045 TTTTTTAA
1 TTTATTAA
16312053 TTTTTTCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTATTAAAAGTTTCATA
Found at i:16312106 original size:21 final size:21
Alignment explanation
Indices: 16312082--16312125 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16312072 TTTTTGTGGA
16312082 TTTTTATTAAAATTTTGAGTT
1 TTTTTATTAAAATTTTGAGTT
* **
16312103 TTTTTTTTAATTTTTTGAGTT
1 TTTTTATTAAAATTTTGAGTT
16312124 TT
1 TT
16312126 CATTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (21 bp):
TTTTTATTAAAATTTTGAGTT
Found at i:16312337 original size:19 final size:18
Alignment explanation
Indices: 16312302--16312346 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
16312292 CTTAAATATG
16312302 AAAATAAATATCAAAATT
1 AAAATAAATATCAAAATT
16312320 AAAATTAAAGTATC-AAATT
1 AAAA-TAAA-TATCAAAATT
16312339 AAAA-AAAT
1 AAAATAAAT
16312347 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.04
17 3 0.12
18 4 0.16
19 13 0.52
20 4 0.16
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATAAATATCAAAATT
Found at i:16312386 original size:29 final size:29
Alignment explanation
Indices: 16312325--16312386 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
16312315 AAATTAAAAT
* * **
16312325 TAAAGTATCAAATTAAAAAAATTATTTTT
1 TAAAGTATCAAATTAAAAAAAATATATAA
16312354 TAAA-TATCAAATTAATAAAAAATATATAA
1 TAAAGTATCAAATTAA-AAAAAATATATAA
16312383 TAAA
1 TAAA
16312387 AAGTCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAGTATCAAATTAAAAAAAATATATAA
Found at i:16312804 original size:19 final size:20
Alignment explanation
Indices: 16312780--16312818 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16312770 AATTTTATAA
16312780 TTTATTATAATA-AATAAAT
1 TTTATTATAATATAATAAAT
*
16312799 TTTATTATTATATAATAAAT
1 TTTATTATAATATAATAAAT
16312819 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATTATAATATAATAAAT
Found at i:16312812 original size:24 final size:26
Alignment explanation
Indices: 16312770--16312822 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
16312760 ATTACATAAT
16312770 AATTTTATAATTTATTATAATAAATA
1 AATTTTATAATTTATTATAATAAATA
*
16312796 AATTTTATTA-TTA-TATAATAAATA
1 AATTTTATAATTTATTATAATAAATA
16312820 AAT
1 AAT
16312823 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 14 0.54
25 3 0.12
26 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTTTATAATTTATTATAATAAATA
Found at i:16312833 original size:24 final size:24
Alignment explanation
Indices: 16312780--16312837 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
16312770 AATTTTATAA
***
16312780 TTTATTATAATAAATAAATTTTATT
1 TTTA-TATAATAAATAAATAAAATT
*
16312805 ATTATATAATAAATAAATAAAATT
1 TTTATATAATAAATAAATAAAATT
16312829 TTTAT-TAAT
1 TTTATATAAT
16312838 TTTATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 4 0.14
24 21 0.75
25 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATATAATAAATAAATAAAATT
Found at i:16312844 original size:28 final size:28
Alignment explanation
Indices: 16312773--16312847 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
16312763 ACATAATAAT
* *
16312773 TTTATAATT-TATTAT-AATAAATAAAT
1 TTTATTATTATATTATAAATAAATAAAA
*
16312799 TTTATTATTATATAATAAATAAATAAAA
1 TTTATTATTATATTATAAATAAATAAAA
*
16312827 TTT-TTATTAATTTTATAAATA
1 TTTATTATT-ATATTATAAATA
16312848 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.20
27 10 0.24
28 23 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTATTATTATATTATAAATAAATAAAA
Found at i:16312997 original size:21 final size:21
Alignment explanation
Indices: 16312969--16313026 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
16312959 ATTTTATAAT
*
16312969 TAAT-TTTAATTTTATTATTA
1 TAATATTTAATTTTATCATTA
16312989 TAATATTTAATTTTATCATTA
1 TAATATTTAATTTTATCATTA
* * *
16313010 CAATAATTAATCTTATC
1 TAATATTTAATTTTATC
16313027 GTCTATCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATATTTAATTTTATCATTA
Found at i:16315230 original size:18 final size:17
Alignment explanation
Indices: 16315198--16315232 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16315188 AATTTAATTT
16315198 TTAAATTAATCAAATAA
1 TTAAATTAATCAAATAA
*
16315215 TTAAATATAATGAAATAA
1 TTAAAT-TAATCAAATAA
16315233 AATTATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAATTAATCAAATAA
Found at i:16318817 original size:14 final size:15
Alignment explanation
Indices: 16318794--16318851 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
16318784 GATAAATTAA
*
16318794 ATATTTTAATT-ATT
1 ATATTATAATTAATT
16318808 ATATTATAATTAAATT
1 ATATTATAATT-AATT
*
16318824 ATAATAATTAATTAATT
1 AT-ATTA-TAATTAATT
16318841 A-ATTATAATTA
1 ATATTATAATTA
16318852 GATAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 5 0.14
17 8 0.22
18 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATAATTAATT
Found at i:16318835 original size:18 final size:18
Alignment explanation
Indices: 16318814--16318861 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16318804 TATTATATTA
16318814 TAATTAAATT-ATAATAAT
1 TAATT-AATTAATAATAAT
*
16318832 TAATTAATTAATTATAAT
1 TAATTAATTAATAATAAT
16318850 TAGA-TAATTAAT
1 TA-ATTAATTAAT
16318862 CTCAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 4 0.15
18 22 0.81
19 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATTAATTAATAATAAT
Found at i:16318835 original size:32 final size:33
Alignment explanation
Indices: 16318772--16318851 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 33
16318762 TAACCAAGTT
* *
16318772 TTATATTTATAAGATAAATTAAATATTTTAATT-A
1 TTATA-TTATAA-TTAAATTAAATATATTAATTAA
16318806 TTATATTATAATTAAATTATAATA-ATTAATTAA
1 TTATATTATAATTAAATTA-AATATATTAATTAA
16318839 TTA-ATTATAATTA
1 TTATATTATAATTA
16318852 GATAATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 23 0.55
33 14 0.33
34 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
TTATATTATAATTAAATTAAATATATTAATTAA
Found at i:16319568 original size:26 final size:27
Alignment explanation
Indices: 16319539--16319593 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
16319529 ATAATATATG
*
16319539 CTCCCACTGTTAATAACC-TTAAGATA
1 CTCCCACTATTAATAACCTTTAAGATA
* * *
16319565 CTCCCATTATTATTAGCCTTTAAGATA
1 CTCCCACTATTAATAACCTTTAAGATA
16319592 CT
1 CT
16319594 ACTTACTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
CTCCCACTATTAATAACCTTTAAGATA
Found at i:16320268 original size:22 final size:23
Alignment explanation
Indices: 16320224--16320268 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
16320214 AAAAATTTTT
*
16320224 AAAATTATTTTTAATAATCAATC
1 AAAATTATATTTAATAATCAATC
16320247 AAAATTA-ATTTAATGAAT-AATC
1 AAAATTATATTTAAT-AATCAATC
16320269 GATTAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAATTATATTTAATAATCAATC
Found at i:16325494 original size:15 final size:15
Alignment explanation
Indices: 16325474--16325505 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16325464 CCACATTTCG
16325474 TTGTGGATTTTAATT
1 TTGTGGATTTTAATT
16325489 TTGTGGATTTTAATT
1 TTGTGGATTTTAATT
16325504 TT
1 TT
16325506 TTATTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (15 bp):
TTGTGGATTTTAATT
Found at i:16328580 original size:2 final size:2
Alignment explanation
Indices: 16328573--16328600 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16328563 GCCACCAGTA
16328573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16328601 GAGCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16331595 original size:13 final size:13
Alignment explanation
Indices: 16331577--16331601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16331567 TGGTAGCGAA
16331577 AGGAAGAAAGAAG
1 AGGAAGAAAGAAG
16331590 AGGAAGAAAGAA
1 AGGAAGAAAGAA
16331602 AGAAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
AGGAAGAAAGAAG
Found at i:16332425 original size:13 final size:12
Alignment explanation
Indices: 16332404--16332455 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
16332394 AATAAAGAAG
16332404 AAAAAAAAAATA
1 AAAAAAAAAATA
*
16332416 AAAAATAAAATA
1 AAAAAAAAAATA
*
16332428 TAAAAAAAATATA
1 -AAAAAAAAAATA
16332441 AAAAAAAAACATA
1 AAAAAAAAA-ATA
16332454 AA
1 AA
16332456 TATGAGTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 19 0.56
13 15 0.44
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAAAAATA
Found at i:16333881 original size:19 final size:18
Alignment explanation
Indices: 16333836--16333883 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
16333826 TTAAAATAAA
*
16333836 TTTT-TTAAATTAATAAT
1 TTTTATTAAATTAAAAAT
*
16333853 TTTAATTTAAATTCAAAAAT
1 TTTTA-TTAAATT-AAAAAT
16333873 TTTTATTAAAT
1 TTTTATTAAAT
16333884 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTATTAAATTAAAAAT
Found at i:16335800 original size:21 final size:22
Alignment explanation
Indices: 16335776--16335829 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
16335766 TTAGGATAAG
* *
16335776 ACTAAAGG-ACGATGAGTCATA
1 ACTAAAGGTACAATGACTCATA
16335797 ACT-AAGGTACAATGACTCATA
1 ACTAAAGGTACAATGACTCATA
16335818 ACT-AAGGTACAA
1 ACTAAAGGTACAA
16335830 AGGTCCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (22 bp):
ACTAAAGGTACAATGACTCATA
Found at i:16342855 original size:19 final size:19
Alignment explanation
Indices: 16342831--16342868 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16342821 CCTGATACCA
16342831 TTTATACACACATAGCTCT
1 TTTATACACACATAGCTCT
*
16342850 TTTATACATACATAGCTCT
1 TTTATACACACATAGCTCT
16342869 GATACCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTATACACACATAGCTCT
Found at i:16348596 original size:14 final size:15
Alignment explanation
Indices: 16348573--16348630 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
16348563 GATAAATTAA
*
16348573 ATATTTTAATT-ATT
1 ATATTATAATTAATT
16348587 ATATTATAATTAAATT
1 ATATTATAATT-AATT
*
16348603 ATAATAATTAATTAATT
1 AT-ATTA-TAATTAATT
16348620 A-ATTATAATTA
1 ATATTATAATTA
16348631 GATAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 5 0.14
17 8 0.22
18 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATAATTAATT
Found at i:16348614 original size:18 final size:18
Alignment explanation
Indices: 16348593--16348640 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16348583 TATTATATTA
16348593 TAATTAAATT-ATAATAAT
1 TAATT-AATTAATAATAAT
*
16348611 TAATTAATTAATTATAAT
1 TAATTAATTAATAATAAT
16348629 TAGA-TAATTAAT
1 TA-ATTAATTAAT
16348641 CTCAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 4 0.15
18 22 0.81
19 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATTAATTAATAATAAT
Found at i:16348614 original size:32 final size:33
Alignment explanation
Indices: 16348551--16348630 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 33
16348541 TAACCAAGTT
* *
16348551 TTATATTTATAAGATAAATTAAATATTTTAATT-A
1 TTATA-TTATAA-TTAAATTAAATATATTAATTAA
16348585 TTATATTATAATTAAATTATAATA-ATTAATTAA
1 TTATATTATAATTAAATTA-AATATATTAATTAA
16348618 TTA-ATTATAATTA
1 TTATATTATAATTA
16348631 GATAATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 23 0.55
33 14 0.33
34 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
TTATATTATAATTAAATTAAATATATTAATTAA
Found at i:16357514 original size:15 final size:15
Alignment explanation
Indices: 16357494--16357525 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16357484 CCACATTTCG
16357494 TTGTGGATTTTAATT
1 TTGTGGATTTTAATT
16357509 TTGTGGATTTTAATT
1 TTGTGGATTTTAATT
16357524 TT
1 TT
16357526 TTATTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (15 bp):
TTGTGGATTTTAATT
Found at i:16377619 original size:24 final size:24
Alignment explanation
Indices: 16377592--16377654 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 24
16377582 ATTATCAATG
*
16377592 ATTTACTATTAAATTATATGACTA
1 ATTTACTATTAAATTATATGAATA
16377616 ATTTACTATTAAA--ATATGAATA
1 ATTTACTATTAAATTATATGAATA
* * *
16377638 GTTTATTATTAAGTTAT
1 ATTTACTATTAAATTAT
16377655 CCATACTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.55
24 15 0.45
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTTACTATTAAATTATATGAATA
Found at i:16377642 original size:22 final size:23
Alignment explanation
Indices: 16377568--16377649 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
16377558 GTTAGCAATG
* * * *
16377568 ATTTACTACTATATATTATCAATG
1 ATTTACTATTAAATA-TATGAATA
*
16377592 ATTTACTATTAAATTATATGACTA
1 ATTTACTATTAAA-TATATGAATA
16377616 ATTTACTATTAAA-ATATGAATA
1 ATTTACTATTAAATATATGAATA
* *
16377638 GTTTATTATTAA
1 ATTTACTATTAA
16377650 GTTATCCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.37
24 29 0.59
25 2 0.04
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (23 bp):
ATTTACTATTAAATATATGAATA
Found at i:16377828 original size:22 final size:22
Alignment explanation
Indices: 16377803--16377959 Score: 147
Period size: 22 Copynumber: 7.1 Consensus size: 22
16377793 ATTATAACTA
*
16377803 ATTTATTATTATGTTATTAATG
1 ATTTATTATTAAGTTATTAATG
* *
16377825 ATTTATTATTAAATTATCAATG
1 ATTTATTATTAAGTTATTAATG
* *
16377847 ATTTACTATTAAGTTATGAATG
1 ATTTATTATTAAGTTATTAATG
* * *
16377869 ATTTATTACTAAGTTATTGATA
1 ATTTATTATTAAGTTATTAATG
* *
16377891 ATTTATTATAAAGTTA-TAATTA
1 ATTTATTATTAAGTTATTAA-TG
* *
16377913 ATTT-TCTATGAAGTTATAAATG
1 ATTTAT-TATTAAGTTATTAATG
* * *
16377935 ATTTACTATAAAGTTATCAATG
1 ATTTATTATTAAGTTATTAATG
16377957 ATT
1 ATT
16377960 AACTAATTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
21 3 0.03
22 106 0.95
23 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTATTATTAAGTTATTAATG
Found at i:16377885 original size:66 final size:64
Alignment explanation
Indices: 16377582--16378061 Score: 189
Period size: 66 Copynumber: 7.3 Consensus size: 64
16377572 ACTACTATAT
* * * * ** * *
16377582 ATTATCAATGATTTACTATTAAATTATATGACTAATTTACTATTAAAATATGAATAGTTTATTAT
1 ATTAT-AATGATTTACTATTAAGTTATA--AATGATTTATTA-TAAGTTATTAATAATTTATTAT
16377647 TAA
62 TAA
* * * * * * *
16377650 GTTATCCAT-ACTTTACTACTAAGTTA-AAATTGATTTATTATAAATTATCATTAATTTATTGTT
1 ATTAT-AATGA-TTTACTATTAAGTTATAAA-TGATTTATTATAAGTTATTAATAATTTATTATT
16377713 --
63 AA
* * * * * * * * ** *
16377713 ATCAT--TGATTTACAATTTAA-TTGTAATTGATTTATCATTAAATTATCAATAAATTACAACTA
1 ATTATAATGATTTACTA-TTAAGTTATAAATGATTTATTA-TAAGTTATTAATAATTTATTATTA
16377775 A
64 A
* * * *
16377776 ATTA-ACACTGA--TA-TATT-A-TTATAACTAATTTATTATTATGTTATTAATGATTTATTATT
1 ATTATA-A-TGATTTACTATTAAGTTATAAATGATTTATTA-TAAGTTATTAATAATTTATTATT
16377835 AA
63 AA
* *
16377837 ATTATCAATGATTTACTATTAAGTTATGAATGATTTATTACTAAGTTATTGATAATTTATTA-TA
1 ATTAT-AATGATTTACTATTAAGTTATAAATGATTTATTA-TAAGTTATTAATAATTTATTATTA
16377901 A
64 A
* * * *
16377902 AGTTATAATTAATTTTCTATGAAGTTATAAATGATTTACTATAAAGTTATCAATGATTAACTAAT
1 A-TTATAA-TGATTTACTATTAAGTTATAAATGATTTATTAT-AAG---T---T-ATTAA-TAAT
*
16377967 TTATTACTAA
55 TTATTATTAA
* * * * * * * * * *
16377977 ATTATCATTGATATACAACTAAATTATAAATGATTTATTAGTATGTCATTAGTAATTTACTACTA
1 ATTAT-AATGATTTACTATTAAGTTATAAATGATTTATTA-TAAGTTATTAATAATTTATTATTA
16378042 A
64 A
16378043 ATT-TAATGATTTACTATTA
1 ATTATAATGATTTACTATTA
16378062 TATTATTATG
Statistics
Matches: 310, Mismatches: 69, Indels: 70
0.69 0.15 0.16
Matches are distributed among these distances:
60 18 0.06
61 62 0.20
62 3 0.01
63 10 0.03
64 17 0.05
65 28 0.09
66 93 0.30
67 6 0.02
68 20 0.06
69 1 0.00
71 1 0.00
72 1 0.00
73 4 0.01
74 40 0.13
75 6 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (64 bp):
ATTATAATGATTTACTATTAAGTTATAAATGATTTATTATAAGTTATTAATAATTTATTATTAA
Found at i:16378077 original size:42 final size:44
Alignment explanation
Indices: 16377994--16378080 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
16377984 TTGATATACA
* *
16377994 ACTAAATTATAAATGATTTATTAGTATGTCATTAGTAATTTACT
1 ACTAAATTATAAATGATTTACTAGTATATCATTAGTAATTTACT
* *
16378038 ACTAAATT-T-AATGATTTACTATTATATTATTATGT-ATTTACT
1 ACTAAATTATAAATGATTTACTAGTATATCATTA-GTAATTTACT
16378080 A
1 A
16378081 ATTACCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 27 0.71
43 3 0.08
44 8 0.21
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (44 bp):
ACTAAATTATAAATGATTTACTAGTATATCATTAGTAATTTACT
Found at i:16378167 original size:23 final size:23
Alignment explanation
Indices: 16378122--16378200 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 23
16378112 AATTAGCTGT
*
16378122 TAAGTTATTAATT-ATTTACTAC
1 TAAGTTATCAATTGATTTACTAC
*
16378144 TAAGTTATCAATTGAATTACTAC
1 TAAGTTATCAATTGATTTACTAC
** *
16378167 TAAGTTATTTA-TGATTTACTAT
1 TAAGTTATCAATTGATTTACTAC
*
16378189 TAATTTATCAAT
1 TAAGTTATCAAT
16378201 AAATTACAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 29 0.63
23 17 0.37
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (23 bp):
TAAGTTATCAATTGATTTACTAC
Found at i:16378543 original size:19 final size:21
Alignment explanation
Indices: 16378481--16378592 Score: 75
Period size: 22 Copynumber: 5.1 Consensus size: 21
16378471 AATTTATCAC
* *
16378481 TAAGTTATAGATGAA-TTATTGC
1 TAAGTTATAGAT-AATTTACT-A
* * *
16378503 TAAGTTATAAATGATTTATTA
1 TAAGTTATAGATAATTTACTA
* *
16378524 CTAAATTATTGATAATTTACTA
1 -TAAGTTATAGATAATTTACTA
*
16378546 TTAAGTTATAGATAATTTATTA
1 -TAAGTTATAGATAATTTACTA
*
16378568 TAAAGTTATTA-CTAATTTACTA
1 T-AAGTTA-TAGATAATTTACTA
16378590 TAA
1 TAA
16378593 TATATTATAA
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.06
22 66 0.92
23 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (21 bp):
TAAGTTATAGATAATTTACTA
Found at i:16378551 original size:44 final size:44
Alignment explanation
Indices: 16378503--16378590 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
16378493 GAATTATTGC
*
16378503 TAAGTTATAAATGATTTATTACTAAA-TTATTGA-TAATTTACTAT
1 TAAGTTATAAATAATTTATTA-TAAAGTTATT-ACTAATTTACTAT
*
16378547 TAAGTTATAGATAATTTATTATAAAGTTATTACTAATTTACTAT
1 TAAGTTATAAATAATTTATTATAAAGTTATTACTAATTTACTAT
16378591 AATATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 5 0.12
44 35 0.88
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (44 bp):
TAAGTTATAAATAATTTATTATAAAGTTATTACTAATTTACTAT
Found at i:16378563 original size:22 final size:22
Alignment explanation
Indices: 16378470--16378576 Score: 99
Period size: 22 Copynumber: 4.9 Consensus size: 22
16378460 AAATTATCAT
* *
16378470 TAATTTATCACTAAGTTATAGA
1 TAATTTATTATTAAGTTATAGA
** *
16378492 TGAA-TTATTGCTAAGTTATAAA
1 T-AATTTATTATTAAGTTATAGA
* * * *
16378514 TGATTTATTACTAAATTATTGA
1 TAATTTATTATTAAGTTATAGA
*
16378536 TAATTTACTATTAAGTTATAGA
1 TAATTTATTATTAAGTTATAGA
*
16378558 TAATTTATTATAAAGTTAT
1 TAATTTATTATTAAGTTAT
16378577 TACTAATTTA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.01
22 65 0.96
23 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (22 bp):
TAATTTATTATTAAGTTATAGA
Found at i:16378599 original size:32 final size:32
Alignment explanation
Indices: 16378557--16378624 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
16378547 TAAGTTATAG
* *
16378557 ATAATTTATTATAAAGTTATTACTAATTTACT
1 ATAATATATTATAAAATTATTACTAATTTACT
* *
16378589 ATAATATATTATAAAATTATTGCTAATTTGCT
1 ATAATATATTATAAAATTATTACTAATTTACT
16378621 ATAA
1 ATAA
16378625 AGTTATTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (32 bp):
ATAATATATTATAAAATTATTACTAATTTACT
Found at i:16378639 original size:22 final size:22
Alignment explanation
Indices: 16378598--16378639 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16378588 TATAATATAT
*
16378598 TATAAAATTATTGCTAATTTGC
1 TATAAAATTATTGATAATTTGC
* *
16378620 TATAAAGTTATTGATGATTT
1 TATAAAATTATTGATAATTT
16378640 ACTAAGAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
TATAAAATTATTGATAATTTGC
Found at i:16378689 original size:22 final size:22
Alignment explanation
Indices: 16378664--16378720 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
16378654 AATAATTAAC
16378664 TAATTTATAACTAAATCATTAT
1 TAATTTATAACTAAATCATTAT
*
16378686 TAATTTAT-ACTAAATTATTAT
1 TAATTTATAACTAAATCATTAT
* *
16378707 TGATTTATAGCTAA
1 TAATTTATAACTAA
16378721 GTTATCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATTTATAACTAAATCATTAT
Found at i:16378699 original size:21 final size:21
Alignment explanation
Indices: 16378664--16378750 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
16378654 AATAATTAAC
16378664 TAATTTATAACTAAATCATTAT
1 TAATTTAT-ACTAAATCATTAT
*
16378686 TAATTTATACTAAATTATTAT
1 TAATTTATACTAAATCATTAT
* * * * *
16378707 TGATTTATAGCTAAGTTATCAA
1 TAATTTATA-CTAAATCATTAT
16378729 TAATTT-TACTATAA-CATTAT
1 TAATTTATACTA-AATCATTAT
16378749 TA
1 TA
16378751 GTGATTTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 8 0.15
21 23 0.43
22 22 0.42
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.47
Consensus pattern (21 bp):
TAATTTATACTAAATCATTAT
Found at i:16378725 original size:22 final size:21
Alignment explanation
Indices: 16378664--16378768 Score: 86
Period size: 22 Copynumber: 4.8 Consensus size: 21
16378654 AATAATTAAC
*
16378664 TAATTTATAACTAAATCATTAT
1 TAATTTAT-ACTAAATTATTAT
16378686 TAATTTATACTAAATTATTAT
1 TAATTTATACTAAATTATTAT
* * * *
16378707 TGATTTATAGCTAAGTTATCAA
1 TAATTTATA-CTAAATTATTAT
*
16378729 TAATTT-TACTATAACATTATTAG
1 TAATTTATAC--TAA-ATTATTAT
*
16378752 TGATTTACTACTAAATT
1 TAATTTA-TACTAAATT
16378769 GTCAATAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
20 1 0.01
21 22 0.33
22 28 0.42
23 13 0.19
25 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
TAATTTATACTAAATTATTAT
Found at i:16378757 original size:45 final size:44
Alignment explanation
Indices: 16378697--16378805 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 44
16378687 AATTTATACT
* *
16378697 AAATTATTATTGATTTA-TAGCTAAGTTATCAATAATTTTACTATA
1 AAATTATTAATGATTTACTA-CTAAATTATCAATAA-TTTACTATA
* * * *
16378742 ACATTATTAGTGATTTACTACTAAATTGTCAATAATTTATTATA
1 AAATTATTAATGATTTACTACTAAATTATCAATAATTTACTATA
*
16378786 AAATTATCAATGATTTACTA
1 AAATTATTAATGATTTACTA
16378806 TATACTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 25 0.45
45 28 0.51
46 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (44 bp):
AAATTATTAATGATTTACTACTAAATTATCAATAATTTACTATA
Found at i:16378779 original size:22 final size:22
Alignment explanation
Indices: 16378722--16378807 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
16378712 TATAGCTAAG
*
16378722 TTATCAATAATTTTACTATAACA
1 TTATCAATAA-TTTACTATAAAA
* * *
16378745 TTATTAGTGATTTACTACT-AAA
1 TTATCAATAATTTACTA-TAAAA
* *
16378767 TTGTCAATAATTTATTATAAAA
1 TTATCAATAATTTACTATAAAA
*
16378789 TTATCAATGATTTACTATA
1 TTATCAATAATTTACTATA
16378808 TACTATTATG
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.02
22 40 0.82
23 8 0.16
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (22 bp):
TTATCAATAATTTACTATAAAA
Found at i:16378918 original size:22 final size:22
Alignment explanation
Indices: 16378893--16379224 Score: 107
Period size: 22 Copynumber: 15.0 Consensus size: 22
16378883 GATTTATTTC
16378893 TAAGTTATTTATGATTTACTAT
1 TAAGTTATTTATGATTTACTAT
*
16378915 TAAGTTTATAATT-T-AATTACTAT
1 TAAG-TTAT--TTATGATTTACTAT
** ** *
16378938 TAAACTA-AAACAGATTTACTAT
1 TAAGTTATTTA-TGATTTACTAT
* * * * *
16378960 TAAGTTATCTGTAATTTATTAC
1 TAAGTTATTTATGATTTACTAT
* *
16378982 TAAATT-TTCATTGATTTACTAT
1 TAAGTTATTTA-TGATTTACTAT
* ** *
16379004 TAAATTATCAATGATTAACTAT
1 TAAGTTATTTATGATTTACTAT
* **
16379026 TAAATTATCATT-T-ATTTTTTTAT
1 TAAGTTAT--TTATGA-TTTACTAT
* *
16379049 TAAGTTA-TTATTGATTTATTAC
1 TAAGTTATTTA-TGATTTACTAT
* * *
16379071 TATGCTATTT-TGCATTTACAAT
1 TAAGTTATTTATG-ATTTACTAT
* *
16379093 TATGTTA-TAATTGATTTACTAT
1 TAAGTTATTTA-TGATTTACTAT
16379115 TAAGTTA-TTATGCATTTACTAT
1 TAAGTTATTTATG-ATTTACTAT
*
16379137 TATA-TTA-TTATTGATTTACTAC
1 TA-AGTTATTTA-TGATTTACTAT
** *
16379159 TAAGTTATCAATTATTTACTAT
1 TAAGTTATTTATGATTTACTAT
* * *
16379181 TAAATTA-TTATTGATATATTAT
1 TAAGTTATTTA-TGATTTACTAT
*
16379203 TAAGTTA-TTACTAATTTACTAT
1 TAAGTTATTTA-TGATTTACTAT
16379225 ACAGAATTAT
Statistics
Matches: 225, Mismatches: 60, Indels: 50
0.67 0.18 0.15
Matches are distributed among these distances:
20 2 0.01
21 8 0.04
22 174 0.77
23 38 0.17
24 1 0.00
25 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (22 bp):
TAAGTTATTTATGATTTACTAT
Found at i:16379120 original size:66 final size:66
Alignment explanation
Indices: 16379046--16379201 Score: 183
Period size: 66 Copynumber: 2.4 Consensus size: 66
16379036 TTTATTTTTT
* * *
16379046 TATTAAGTTATTATTGATTTATTACTATGCTATT-TTGCATTTACAATTATGTTAT-AATTGATT
1 TATTAAGTTATTATTGATTTATTACTATACTATTATTG-ATTTACAACTAAGTTATCAATT-ATT
16379109 TAC
64 TAC
* * * *
16379112 TATTAAGTTATTA-TGCATTTACTATTATATTATTATTGATTTACTACTAAGTTATCAATTATTT
1 TATTAAGTTATTATTG-ATTTATTACTATACTATTATTGATTTACAACTAAGTTATCAATTATTT
16379176 AC
65 AC
* *
16379178 TATTAAATTATTATTGATATATTA
1 TATTAAGTTATTATTGATTTATTA
16379202 TTAAGTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
65 2 0.03
66 65 0.86
67 9 0.12
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (66 bp):
TATTAAGTTATTATTGATTTATTACTATACTATTATTGATTTACAACTAAGTTATCAATTATTTA
C
Found at i:16379220 original size:44 final size:43
Alignment explanation
Indices: 16378681--16379224 Score: 206
Period size: 44 Copynumber: 12.3 Consensus size: 43
16378671 TAACTAAATC
* *
16378681 ATTATTAATTTA-TACTAAATTATTATTGATTTA-TAGCTAAGTT
1 ATTA-TAATTTACTATTAAATTATTATTGATTTACTA-TTAAGTT
* * * *
16378724 ATCAATAATTTTACTA-TAACATTATTAGTGATTTACTACTAAATT
1 AT-TATAA-TTTACTATTAA-ATTATTATTGATTTACTATTAAGTT
* * * * * * *
16378769 GTCAATAATTTATTATAAAATTATCAATGATTTACTA-TATA-CT
1 AT-TATAATTTACTATTAAATTATTATTGATTTACTATTA-AGTT
* * ** ** * *
16378812 ATTATGCATTTGCTACCATGTTATCATTGATTTACTATTGAGTT
1 ATTAT-AATTTACTATTAAATTATTATTGATTTACTATTAAGTT
* * * * *
16378856 -TTAGTGATTAACTACTAAATTATCATTGATTTA-TTTCTAAGTT
1 ATTA-TAATTTACTATTAAATTATTATTGATTTACTAT-TAAGTT
* * * * * **
16378899 ATTTATGATTTACTATTAAGTTTATAATTTAATTACTATTAAACT
1 A-TTATAATTTACTATTAA-ATTATTATTGATTTACTATTAAGTT
** * * * * * * *
16378944 AAAACAGATTTACTATTAAGTTATCT-GTAATTTATTACTAAATT
1 ATTATA-ATTTACTATTAAATTAT-TATTGATTTACTATTAAGTT
* * * * *
16378988 -TTCATTGATTTACTATTAAATTATCAATGATTAACTATTAAATT
1 ATT-A-TAATTTACTATTAAATTATTATTGATTTACTATTAAGTT
* * ** * * * * *
16379032 ATCATTTATTTTTTTATTAAGTTATTATTGATTTATTACTATGCT
1 AT--TATAATTTACTATTAAATTATTATTGATTTACTATTAAGTT
* * * ** *
16379077 ATTTTGCATTTACAATTATGTTATAATTGATTTACTATTAAGTT
1 ATTAT-AATTTACTATTAAATTATTATTGATTTACTATTAAGTT
* * *
16379121 ATTATGCATTTACTATTATATTATTATTGATTTACTACTAAGTT
1 ATTAT-AATTTACTATTAAATTATTATTGATTTACTATTAAGTT
* * * *
16379165 ATCAATTATTTACTATTAAATTATTATTGATATATTATTAAGTT
1 AT-TATAATTTACTATTAAATTATTATTGATTTACTATTAAGTT
16379209 ATTACTAATTTACTAT
1 ATTA-TAATTTACTAT
16379225 ACAGAATTAT
Statistics
Matches: 375, Mismatches: 99, Indels: 53
0.71 0.19 0.10
Matches are distributed among these distances:
42 4 0.01
43 67 0.18
44 206 0.55
45 93 0.25
46 4 0.01
47 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (43 bp):
ATTATAATTTACTATTAAATTATTATTGATTTACTATTAAGTT
Found at i:16379703 original size:22 final size:22
Alignment explanation
Indices: 16379662--16379849 Score: 68
Period size: 22 Copynumber: 8.6 Consensus size: 22
16379652 ATGAAAGAAG
16379662 TATTAAATTGAATT-TT-ATTTAC
1 TATTAAATT--ATTATTAATTTAC
16379684 TATTAAATTATTATTAATTTAC
1 TATTAAATTATTATTAATTTAC
* * * * * * *
16379706 AACTAAGTCATCATTACTTTAG
1 TATTAAATTATTATTAATTTAC
* * *
16379728 TATTAAGTTATCACTT-ATTT-T
1 TATTAAATTATTA-TTAATTTAC
**
16379749 TATTAAATTATCCTTAATTTAC
1 TATTAAATTATTATTAATTTAC
* **
16379771 TACTGTATTATTA-TATATTTAC
1 TATTAAATTATTATTA-ATTTAC
* * *
16379793 AATT--ATGTATAAATAATTTAC
1 TATTAAAT-TATTATTAATTTAC
* *
16379814 CATTAAGTTATTTATT-ATTTAC
1 TATTAAATTA-TTATTAATTTAC
* *
16379836 TACTATATTATTAT
1 TATTAAATTATTAT
16379850 GTATTATTAT
Statistics
Matches: 124, Mismatches: 31, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
20 7 0.06
21 36 0.29
22 75 0.60
23 6 0.05
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (22 bp):
TATTAAATTATTATTAATTTAC
Found at i:16382526 original size:153 final size:153
Alignment explanation
Indices: 16382309--16382616 Score: 460
Period size: 153 Copynumber: 2.0 Consensus size: 153
16382299 ATTTTTAATT
* *
16382309 GATTTAAATTTAAATAACTAACAAATAAAAAGTTATATTTTTAATGACAAATAATCTTTATTAAA
1 GATTTAAATTTAAATAACTAACAAATAAAAAGTTATATATTTAATGACAAATAATCATTATTAAA
16382374 TAAATAAGA-AATGCTAAAAATTG-AAATATAAATTTATTATTTTTTAAAATTTATAAAGATATT
66 TAAATAA-ATAATGCTAAAAATTGAAAAT-TAAATTTATTATTTTTTAAAATTTATAAA-ATATT
* * * *
16382437 TATGTTATTCATTTTTAATAGTTTTA
128 TATGTCATTCACTATTAATACTTTTA
* *
16382463 GATTTAAATTTAAATAATTAACTAAT-AAAAGTTATATATTTAATGACAAATAATCATTATTAAA
1 GATTTAAATTTAAATAACTAACAAATAAAAAGTTATATATTTAATGACAAATAATCATTATTAAA
* * *
16382527 TAAATAAATAATGCTAGAAATTTAAAATTAAATTTGTTATTTTTTAAAATTTATAAAATATTTAT
66 TAAATAAATAATGCTAAAAATTGAAAATTAAATTTATTATTTTTTAAAATTTATAAAATATTTAT
*
16382592 GTCGTTCACTATTAATACTTTTA
131 GTCATTCACTATTAATACTTTTA
16382615 GA
1 GA
16382617 ATGCACACTT
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
152 29 0.21
153 83 0.59
154 28 0.20
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (153 bp):
GATTTAAATTTAAATAACTAACAAATAAAAAGTTATATATTTAATGACAAATAATCATTATTAAA
TAAATAAATAATGCTAAAAATTGAAAATTAAATTTATTATTTTTTAAAATTTATAAAATATTTAT
GTCATTCACTATTAATACTTTTA
Found at i:16383455 original size:19 final size:19
Alignment explanation
Indices: 16383399--16383463 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
16383389 ATGTATTCAA
16383399 ATATTTTAA-T-ATAATTT
1 ATATTTTAATTAATAATTT
* *
16383416 ACTATTCTAATTAA-ATTTTT
1 A-TATTTTAATTAATA-ATTT
16383436 ATATTTTAATTAATAATTT
1 ATATTTTAATTAATAATTT
16383455 ATCATTTTA
1 AT-ATTTTA
16383464 CACTTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 18 0.47
20 12 0.32
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAATTAATAATTT
Found at i:16383768 original size:12 final size:12
Alignment explanation
Indices: 16383748--16383778 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16383738 AAAAAAAAAA
*
16383748 ATATATATATAT
1 ATATTTATATAT
16383760 ATATTTATATAT
1 ATATTTATATAT
16383772 ATATTTA
1 ATATTTA
16383779 ATTTTCTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:16384569 original size:3 final size:3
Alignment explanation
Indices: 16384561--16384597 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16384551 GTGTAAGTTG
16384561 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16384598 GTTTTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16385551 original size:77 final size:78
Alignment explanation
Indices: 16385413--16385564 Score: 216
Period size: 77 Copynumber: 2.0 Consensus size: 78
16385403 ACTGCCCAAC
* * * * *
16385413 ACTCTCTGTATGTAATGTCATGATCAGAGCTTACGCTTCCAAAATCAGCGACGCAGATGATACCC
1 ACTCTCTGCATATAACGTCATGATCAGAGCTTACGCTTCCAAAATCACCGACGCAAATGATACCC
16385478 ATTTTTTACAATT
66 ATTTTTTACAATT
* * * *
16385491 ACTCTCTGCATATAACGTCATTATCAGGGC-TACTCTTCCAAAATCACCGACTCAAATGATACCC
1 ACTCTCTGCATATAACGTCATGATCAGAGCTTACGCTTCCAAAATCACCGACGCAAATGATACCC
16385555 ATTTTTTACA
66 ATTTTTTACA
16385565 GTCTTTAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 40 0.62
78 25 0.38
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (78 bp):
ACTCTCTGCATATAACGTCATGATCAGAGCTTACGCTTCCAAAATCACCGACGCAAATGATACCC
ATTTTTTACAATT
Found at i:16393850 original size:27 final size:27
Alignment explanation
Indices: 16393819--16393872 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16393809 AAATCAGTTC
16393819 GATAAAGATAAGGAAGAAGAAGATAAG
1 GATAAAGATAAGGAAGAAGAAGATAAG
* * **
16393846 GATAAAGATTAGGCATTAGAAGATAAG
1 GATAAAGATAAGGAAGAAGAAGATAAG
16393873 TTGGAGGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.28, T:0.17
Consensus pattern (27 bp):
GATAAAGATAAGGAAGAAGAAGATAAG
Found at i:16396969 original size:576 final size:577
Alignment explanation
Indices: 16395869--16397014 Score: 1954
Period size: 576 Copynumber: 2.0 Consensus size: 577
16395859 CAAAGTTAAC
*
16395869 GCTTTGTCAAGATACTTTCAAATTCTATCTTTTCGAGCTCCAAACTTTTCCATTTATCTGACCAA
1 GCTTTGTCAAGATACTTTCAAATTCTATCTTTTCGAGCTCCAAACTTTTCCATTTATCAGACCAA
* * *
16395934 CCACCAATTGAGAATCATTATAAGCGATTATGTGTTGAACATTCAGCTCGGTTGCCAACCTTAGG
66 CCACCAATTGAGAATCACTATAAGCGATTATGTGTTGAACATTCAGCTCAGTTGCCAACCTTAGA
16395999 TTGGCTATCAATGCCCATATTTCATTTTATTATTAGATGCCCTGAACTTGAATCTCAAAGTATAT
131 TTGGCTATCAATGCCCATATTTCATTTTATTATTAGATGCCCTGAACTTGAATCTCAAAGTATAT
* * * * *
16396064 GGGTACTGTAGCCCTTCTAAGCTGATCAAAATGAGGGTAGCTCTTTTATCTTGGGTTGTAGCTGA
196 GGGTACTATAGCCCTTCTAAGCTGATCAAAATGAGGCTAACTCTTCTATCTTGGATTGTAGCTGA
* *
16396129 TCCGTCGACATAAAGCTTTTAATCATCCTTATCCAGGGTCTCTTTTTTTTTGTTCTCAAATTGTC
261 TCCGTCGACATAAAACTTTTAATCATCCTTATCCAGGGTCTCTTTTTTTTTGTTCTCAAATTATC
* * *
16396194 CTTCTGGTTGTATTGAGGTGCACTATACAACAAAGTCTGTCGGTACCTATAATTTTAATGTCAAT
326 CTTCTAGTTGTATTGAGGTGCACTATACAACAAAGTCTGTCAGCACCTATAATTTTAATGTCAAT
16396259 TTGGGTGAAATGTATAGGTCGAATTCGCTGAGCTCTACTACCCATTTGATTAGCCTTATCGATAT
391 TTGGGTGAAATGTATAGGTCGAATTCGCTGAGCTCTACTACCCATTTGATTAGCCTTATCGATAT
16396324 TTTAGGCTTTTGTAAAACTTACCTCAATGGCTGATTGATTAGGACATAGATCGTGTGGGCTTAAA
456 TTTAGGCTTTTGTAAAACTTACCTCAATGGCTGATTGATTAGGACATAGATCGTGTGGGCTTAAA
*
16396389 AGTATGACTGGAGTTTTTTGGTCAGGGTGACAATGGCATAGCTTAATTTTGGTTAGT
521 AGTATGACTGGAGTTTTTTGGTCAGGGTAACAATGGCATAGCTTAATTTTGGTTAGT
* *
16396446 GCTTTGTCAAGATACTTTTAAATTCTATCTTTTCGAGCTCCAAACTTTT-CATTTATCAGATCAA
1 GCTTTGTCAAGATACTTTCAAATTCTATCTTTTCGAGCTCCAAACTTTTCCATTTATCAGACCAA
*
16396510 CCACCAATTGAGAATCACTATAAGCGGTTATGTGTTGAACATTCAGCTCAGTTGCCAACCTTAGA
66 CCACCAATTGAGAATCACTATAAGCGATTATGTGTTGAACATTCAGCTCAGTTGCCAACCTTAGA
* * *
16396575 TTGGTTATCAATGCCTCATATTTCATTTTATTATTAGATGCCTTGAACTTGAATCTCAAAGTGTA
131 TTGGCTATCAATGCC-CATATTTCATTTTATTATTAGATGCCCTGAACTTGAATCTCAAAGTATA
16396640 TGGGTACTATAGCCCTTCTAAGCTGATCAAAATGAGGCTAACTCTTCTATCTTGGATTGTAGCTG
195 TGGGTACTATAGCCCTTCTAAGCTGATCAAAATGAGGCTAACTCTTCTATCTTGGATTGTAGCTG
* *
16396705 ATTCGTCGACATAAAACTTTTAATCATCCTTATCCAGGGTCTCTTTTTTTTT-TTTTCAAATTAT
260 ATCCGTCGACATAAAACTTTTAATCATCCTTATCCAGGGTCTCTTTTTTTTTGTTCTCAAATTAT
* ** * ** *
16396769 CCTTTTAGTTGTATTGAGGTGTGCTATACAATAAAGTCTGTCAGCACCTATGGTTTTAATGTCGA
325 CCTTCTAGTTGTATTGAGGTGCACTATACAACAAAGTCTGTCAGCACCTATAATTTTAATGTCAA
16396834 TTTGGGTGAAATGTATAGGTCGAATTCGCTGAGCTCTACTACCCATTTGATTAGCCTTATCGATA
390 TTTGGGTGAAATGTATAGGTCGAATTCGCTGAGCTCTACTACCCATTTGATTAGCCTTATCGATA
* * *
16396899 TTTTAGGCTTTTGTAAAACTTACCTCAGTGGCTGATTGATTAGGACATAGATCGTGTGTGCTTGA
455 TTTTAGGCTTTTGTAAAACTTACCTCAATGGCTGATTGATTAGGACATAGATCGTGTGGGCTTAA
* *
16396964 AAGTATGACTTGAGTTTTTTGGTTAGGGTAACAATGGCATAGCTTAATTTT
520 AAGTATGACTGGAGTTTTTTGGTCAGGGTAACAATGGCATAGCTTAATTTT
16397015 TCTATACCGC
Statistics
Matches: 533, Mismatches: 35, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
576 328 0.62
577 205 0.38
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (577 bp):
GCTTTGTCAAGATACTTTCAAATTCTATCTTTTCGAGCTCCAAACTTTTCCATTTATCAGACCAA
CCACCAATTGAGAATCACTATAAGCGATTATGTGTTGAACATTCAGCTCAGTTGCCAACCTTAGA
TTGGCTATCAATGCCCATATTTCATTTTATTATTAGATGCCCTGAACTTGAATCTCAAAGTATAT
GGGTACTATAGCCCTTCTAAGCTGATCAAAATGAGGCTAACTCTTCTATCTTGGATTGTAGCTGA
TCCGTCGACATAAAACTTTTAATCATCCTTATCCAGGGTCTCTTTTTTTTTGTTCTCAAATTATC
CTTCTAGTTGTATTGAGGTGCACTATACAACAAAGTCTGTCAGCACCTATAATTTTAATGTCAAT
TTGGGTGAAATGTATAGGTCGAATTCGCTGAGCTCTACTACCCATTTGATTAGCCTTATCGATAT
TTTAGGCTTTTGTAAAACTTACCTCAATGGCTGATTGATTAGGACATAGATCGTGTGGGCTTAAA
AGTATGACTGGAGTTTTTTGGTCAGGGTAACAATGGCATAGCTTAATTTTGGTTAGT
Found at i:16401929 original size:68 final size:68
Alignment explanation
Indices: 16401815--16401941 Score: 155
Period size: 68 Copynumber: 1.9 Consensus size: 68
16401805 TTTCTCTACT
* * * *
16401815 TTTAAAGTTTGATGTCTTTGTCAAATCGAGCCTAACTATAGAATTAAAATCACATTAAAAGTTGG
1 TTTAAAGCTTGATGTCTTTATCAAATCGAGCCTAACTACAGAATTAAAATCACACTAAAAGTTGG
16401880 GTC
66 GTC
* * * ** * *
16401883 TTTAAAGCTTGATGTTTTTATTAAGTCGAGTTTAACTACAGGATTAAGATCACACTAAA
1 TTTAAAGCTTGATGTCTTTATCAAATCGAGCCTAACTACAGAATTAAAATCACACTAAA
16401942 CGTGATCACA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (68 bp):
TTTAAAGCTTGATGTCTTTATCAAATCGAGCCTAACTACAGAATTAAAATCACACTAAAAGTTGG
GTC
Found at i:16402148 original size:84 final size:84
Alignment explanation
Indices: 16402007--16402168 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
16401997 TGAACTATAA
* *
16402007 GATTAAGATCACATTAGACATTAGGATTTTAAAGTTGAGTTTAATTACAAGATTAAGATCAAACT
1 GATTAAGATCACATTAAACATTAGGATTTTAAAGTTGAGTTTAACTACAAGATTAAGATCAAACT
16402072 AGATGTAATCACATTACAG
66 AGATGTAATCACATTACAG
* * * *
16402091 GATTAAGATCACATTAAATATTAGGATTTTTGAA-TTGAGTTTAACTACAATATTAAGATCACAC
1 GATTAAGATCACATTAAACATTAGGA-TTTTAAAGTTGAGTTTAACTACAAGATTAAGATCAAAC
*
16402155 TAGATGTGATCACA
65 TAGATGTAATCACA
16402169 CTAGAGGTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
84 64 0.91
85 6 0.09
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (84 bp):
GATTAAGATCACATTAAACATTAGGATTTTAAAGTTGAGTTTAACTACAAGATTAAGATCAAACT
AGATGTAATCACATTACAG
Found at i:16407828 original size:30 final size:30
Alignment explanation
Indices: 16407761--16407845 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
16407751 ATTAAAATTC
*
16407761 AACAGTTT-ATTGGATACAAATTAAAGGATA
1 AACA-TTTAATTGAATACAAATTAAAGGATA
* *
16407791 AACATTTAATTGAATGCAAATTAAAGGTTA
1 AACATTTAATTGAATACAAATTAAAGGATA
* *
16407821 AGA-ATTTATTTGTATAC-AATTAAAG
1 A-ACATTTAATTGAATACAAATTAAAG
16407846 TATATGAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
29 11 0.23
30 35 0.74
31 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (30 bp):
AACATTTAATTGAATACAAATTAAAGGATA
Found at i:16409211 original size:29 final size:28
Alignment explanation
Indices: 16409146--16409220 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
16409136 ATTAAAAAGT
*
16409146 AATAATTAAGTATAAAAAAATTAAACTTA
1 AATAATTAAAT-TAAAAAAATTAAACTTA
* * *
16409175 AGTGATTAAATTAAAAAAATTAATAGTTA
1 AATAATTAAATTAAAAAAATTAA-ACTTA
**
16409204 AATAATTATTTTAAAAA
1 AATAATTAAATTAAAAA
16409221 TATAATCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 12 0.32
29 25 0.68
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (28 bp):
AATAATTAAATTAAAAAAATTAAACTTA
Found at i:16412912 original size:17 final size:18
Alignment explanation
Indices: 16412888--16412930 Score: 72
Period size: 16 Copynumber: 2.5 Consensus size: 18
16412878 AACAATTTAA
16412888 AGAATTTTTAATTTTTTT
1 AGAATTTTTAATTTTTTT
16412906 A-AA-TTTTAATTTTTTT
1 AGAATTTTTAATTTTTTT
16412922 AGAATTTTT
1 AGAATTTTT
16412931 TAAACTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.61
17 4 0.17
18 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
AGAATTTTTAATTTTTTT
Found at i:16412921 original size:26 final size:24
Alignment explanation
Indices: 16412892--16412979 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 24
16412882 ATTTAAAGAA
16412892 TTTTTAATTTTTTTAAATTTTAATT
1 TTTTTAATTTTTTTAAATTTT-ATT
* * **
16412917 TTTTTAGAATTTTTTAAACTTTGGT
1 TTTTTA-ATTTTTTTAAATTTTATT
*
16412942 TTTTTAATATTTCTTTGAATTTTTTATTT
1 TTTTTAAT-TTT-TTT-AA-ATTTTA-TT
16412971 TTTTTAATT
1 TTTTTAATT
16412980 CATGAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
24 1 0.02
25 16 0.33
26 16 0.33
27 2 0.04
28 4 0.08
29 9 0.19
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTTTAATTTTTTTAAATTTTATT
Found at i:16413041 original size:46 final size:46
Alignment explanation
Indices: 16412993--16413291 Score: 221
Period size: 46 Copynumber: 6.6 Consensus size: 46
16412983 GAAAAATTCT
* * *
16412993 TTAGAGGCT-TCACAATTTTCAAAAATAATTTTAAAAGCTTTTCTCT
1 TTAGAGGCTCT-ACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * *
16413039 TTAAAGGCTCTACAACTTTTAAAAA-AAATTT-AAAGCTTTTCCCA
1 TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * **
16413083 TTAGAGGCTCTACAATTTTTGAAAATAGATTTAAAAGCTCCTCTCA
1 TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * * ** *
16413129 TTAGAGGCTCCATAATTTTTAAAAATAAATTTAAAAACTCATCTTA
1 TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * * * * * * * *
16413175 TTAGAGGCTCCAAAACTTTTGAAAAGAGATTT-AAA-CCTCTGTCA
1 TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * ** * * *
16413219 TTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAGCTCTTCTTA
1 TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
* * * * *
16413265 TTATAAGCTCCACAACTTTTGAAAATA
1 TTAGAGGCTCTACAATTTTTAAAAATA
16413292 TAACACAATA
Statistics
Matches: 205, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
44 64 0.31
45 16 0.08
46 124 0.60
47 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (46 bp):
TTAGAGGCTCTACAATTTTTAAAAATAAATTTAAAAGCTTTTCTCA
Found at i:16413098 original size:90 final size:91
Alignment explanation
Indices: 16412993--16413253 Score: 246
Period size: 90 Copynumber: 2.9 Consensus size: 91
16412983 GAAAAATTCT
** * *
16412993 TTAGAGGCTTCACAATTTTCAAAAATA-ATTTTAAAAGCTTTTCTCTTTAAAGGCTCTACAACTT
1 TTAGAGGCTTCACAATTTTCAAAAATAGA-TTTAAAAGCTCCTCTCATTAAAGGCTCCACAACTT
16413057 TTAAAAA-AAATTTAAAGCTTTTCCCA
65 TTAAAAATAAATTTAAAGCTTTTCCCA
** * * *
16413083 TTAGAGGC-TCTACAATTTTTGAAAATAGATTTAAAAGCTCCTCTCATTAGAGGCTCCATAATTT
1 TTAGAGGCTTC-ACAATTTTCAAAAATAGATTTAAAAGCTCCTCTCATTAAAGGCTCCACAACTT
* ** **
16413147 TTAAAAATAAATTTAAAAACTCATCTTA
65 TTAAAAATAAATTT-AAAGCTTTTCCCA
* * * * * * *
16413175 TTAGAGGCTCCAAAACTTTT-GAAAAGAGATTT-AAACCT-CTGTCATTAAAGGCTCCACAACGT
1 TTAGAGGCTTCACAA-TTTTCAAAAATAGATTTAAAAGCTCCTCTCATTAAAGGCTCCACAACTT
*
16413237 TTGAAAATAAATTTAAA
65 TTAAAAATAAATTTAAA
16413254 AGCTCTTCTT
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
89 5 0.04
90 89 0.63
91 12 0.09
92 30 0.21
93 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (91 bp):
TTAGAGGCTTCACAATTTTCAAAAATAGATTTAAAAGCTCCTCTCATTAAAGGCTCCACAACTTT
TAAAAATAAATTTAAAGCTTTTCCCA
Found at i:16413146 original size:136 final size:136
Alignment explanation
Indices: 16412993--16413294 Score: 322
Period size: 136 Copynumber: 2.2 Consensus size: 136
16412983 GAAAAATTCT
* * * ** * *
16412993 TTAGAGGCTTCACAATTTTCAAAAATAATTTTAAAAGCTTTTCTCT-TTAAAGGCTCTACAACTT
1 TTAGAGGCTCCACAATTTTCAAAAATAAATTTAAAAACTCATCT-TATTAAAGGCTCCAAAACTT
* * * * ** *
16413057 TT-AAAAAAAATTTAAAGCT-TTTCCCATTAGAGGCTCTACAATTTTTGAAAATAGATTTAAAAG
65 TTGAAAAAAAATTTAAACCTCTGT--CATTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAG
16413120 CTCCTCTCA
128 CTCCTCTCA
* * *
16413129 TTAGAGGCTCCATAATTTTTAAAAATAAATTTAAAAACTCATCTTATTAGAGGCTCCAAAACTTT
1 TTAGAGGCTCCACAATTTTCAAAAATAAATTTAAAAACTCATCTTATTAAAGGCTCCAAAACTTT
* *
16413194 TGAAAAGAGATTTAAACCTCTGTCATTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAGCTC
66 TGAAAAAAAATTTAAACCTCTGTCATTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAGCTC
* *
16413259 TTCTTA
131 CTCTCA
* * *
16413265 TTATAAGCTCCACAACTTTTGAAAATATAA
1 TTAGAGGCTCCACAA-TTTTCAAAA-ATAA
16413295 CACAATAATT
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
135 1 0.01
136 107 0.79
137 22 0.16
138 6 0.04
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (136 bp):
TTAGAGGCTCCACAATTTTCAAAAATAAATTTAAAAACTCATCTTATTAAAGGCTCCAAAACTTT
TGAAAAAAAATTTAAACCTCTGTCATTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAGCTC
CTCTCA
Found at i:16413254 original size:90 final size:91
Alignment explanation
Indices: 16413034--16413289 Score: 286
Period size: 90 Copynumber: 2.8 Consensus size: 91
16413024 TAAAAGCTTT
* * * ** *
16413034 TCTCTTTAAAGGCTCTACAACTTTTAAAAA-AAATTT-AAAGCTTTTCCCATTAGAGGCTCTACA
1 TCTCATTAAAGGCTCCACAAC-TTTAAAAATAAATTTAAAAGCTCTTCTTATTAGAGGCTCCACA
* * *
16413097 ATTTTTGAAAATAGATTTAAAAGCTCC
65 ACTTTTGAAAAGAGATTTAAAACCTCC
* * * * * *
16413124 TCTCATTAGAGGCTCCATAATTTTTAAAAATAAATTTAAAAACTCATCTTATTAGAGGCTCCAAA
1 TCTCATTAAAGGCTCCACAA-CTTTAAAAATAAATTTAAAAGCTCTTCTTATTAGAGGCTCCACA
16413189 ACTTTTGAAAAGAGATTT-AAACCT-C
65 ACTTTTGAAAAGAGATTTAAAACCTCC
* * * *
16413214 TGTCATTAAAGGCTCCACAACGTTTGAAAATAAATTTAAAAGCTCTTCTTATTATAAGCTCCACA
1 TCTCATTAAAGGCTCCACAAC-TTTAAAAATAAATTTAAAAGCTCTTCTTATTAGAGGCTCCACA
16413279 ACTTTTGAAAA
65 ACTTTTGAAAA
16413290 TATAACACAA
Statistics
Matches: 137, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
90 90 0.66
91 11 0.08
92 36 0.26
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (91 bp):
TCTCATTAAAGGCTCCACAACTTTAAAAATAAATTTAAAAGCTCTTCTTATTAGAGGCTCCACAA
CTTTTGAAAAGAGATTTAAAACCTCC
Found at i:16413800 original size:23 final size:23
Alignment explanation
Indices: 16413773--16413824 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
16413763 TTACCACTGA
* *
16413773 AGAGAACTTC-GATATCATCATTG
1 AGAGAAC-TCGGATATCACCATCG
16413796 AGAGAACTCGGATATCACCATCG
1 AGAGAACTCGGATATCACCATCG
16413819 AGAGAA
1 AGAGAA
16413825 TGCAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (23 bp):
AGAGAACTCGGATATCACCATCG
Found at i:16414159 original size:63 final size:62
Alignment explanation
Indices: 16414092--16414292 Score: 197
Period size: 63 Copynumber: 3.2 Consensus size: 62
16414082 ATTAAATTGG
* *
16414092 GCTTAAATCTCATCGGTGTTAATTAAATTGGGCTTAAATCTCATCGGGTGCTAGCTAAGCTAA
1 GCTTAAATCTCATCGGTGTTAACTAAATTGGGCTTAAATCTCATC-GGTGCTAGCTAAGTTAA
* * * * * * * *
16414155 GCTTAAACCTAATCGGTGTCAACTAAATTGAGCTTAAATCTCATCGATGCTAGTTAAATTAG
1 GCTTAAATCTCATCGGTGTTAACTAAATTGGGCTTAAATCTCATCGGTGCTAGCTAAGTTAA
* * * * * * * * *
16414217 GCTTAAATCTTATCGAGTGCTAGCTAAACTAGGTTTAAATCTTATCGGTGCCAGCT-AGATTAT
1 GCTTAAATCTCATCG-GTGTTAACTAAATTGGGCTTAAATCTCATCGGTGCTAGCTAAG-TTAA
16414280 GCTTAAATCTCAT
1 GCTTAAATCTCAT
16414293 TTTTTAAAGT
Statistics
Matches: 110, Mismatches: 26, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
62 26 0.24
63 84 0.76
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (62 bp):
GCTTAAATCTCATCGGTGTTAACTAAATTGGGCTTAAATCTCATCGGTGCTAGCTAAGTTAA
Found at i:16414160 original size:94 final size:95
Alignment explanation
Indices: 16414044--16414292 Score: 317
Period size: 94 Copynumber: 2.7 Consensus size: 95
16414034 AAATTTCATT
* * * *
16414044 GGTGGTAGCTAAACTAAGCTTAAACCTAATCGGTGCT-AATTAAATTGGGCTTAAATCTCATCGG
1 GGTGCTAGCTAAACTAAGCTTAAACCTAATCGGTGCTCAACTAAATTGAGCTTAAATCTCATCGA
* *
16414108 TGTTAATTAAATTGGGCTTAAATCTCATCG
66 TGCTAATTAAATTAGGCTTAAATCTCATCG
*
16414138 GGTGCTAGCTAAGCTAAGCTTAAACCTAATCGGTG-TCAACTAAATTGAGCTTAAATCTCATCGA
1 GGTGCTAGCTAAACTAAGCTTAAACCTAATCGGTGCTCAACTAAATTGAGCTTAAATCTCATCGA
* *
16414202 TGCTAGTTAAATTAGGCTTAAATCTTATCG
66 TGCTAATTAAATTAGGCTTAAATCTCATCG
* * * * * * *
16414232 AGTGCTAGCTAAACTAGGTTTAAATCTTATCGGTGC-CAGCTAGATT-ATGCTTAAATCTCAT
1 GGTGCTAGCTAAACTAAGCTTAAACCTAATCGGTGCTCAACTAAATTGA-GCTTAAATCTCAT
16414293 TTTTTAAAGT
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
93 2 0.01
94 133 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (95 bp):
GGTGCTAGCTAAACTAAGCTTAAACCTAATCGGTGCTCAACTAAATTGAGCTTAAATCTCATCGA
TGCTAATTAAATTAGGCTTAAATCTCATCG
Found at i:16414286 original size:31 final size:31
Alignment explanation
Indices: 16414034--16414292 Score: 207
Period size: 31 Copynumber: 8.3 Consensus size: 31
16414024 TGGGTTTGAA
* * * * *
16414034 AAATTTCATTGGTGGTAGCTAAACTAAGCTT
1 AAATCTCATCGGTGCTAGCTAAATTAGGCTT
* * ** *
16414065 AAACCTAATCGGTGCTAATTAAATTGGGCTT
1 AAATCTCATCGGTGCTAGCTAAATTAGGCTT
* ** *
16414096 AAATCTCATCGGTGTTAATTAAATTGGGCTT
1 AAATCTCATCGGTGCTAGCTAAATTAGGCTT
** *
16414127 AAATCTCATCGGGTGCTAGCTAAGCTAAGCTT
1 AAATCTCATC-GGTGCTAGCTAAATTAGGCTT
* * *
16414159 AAACCTAATCGGTG-TCAACTAAATT-GAGCTT
1 AAATCTCATCGGTGCT-AGCTAAATTAG-GCTT
* *
16414190 AAATCTCATCGATGCTAGTTAAATTAGGCTT
1 AAATCTCATCGGTGCTAGCTAAATTAGGCTT
* * *
16414221 AAATCTTATCGAGTGCTAGCTAAACTAGGTTT
1 AAATCTCATCG-GTGCTAGCTAAATTAGGCTT
* * * *
16414253 AAATCTTATCGGTGCCAGCTAGATTATGCTT
1 AAATCTCATCGGTGCTAGCTAAATTAGGCTT
16414284 AAATCTCAT
1 AAATCTCAT
16414293 TTTTTAAAGT
Statistics
Matches: 180, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
30 1 0.01
31 128 0.71
32 51 0.28
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (31 bp):
AAATCTCATCGGTGCTAGCTAAATTAGGCTT
Found at i:16417273 original size:13 final size:13
Alignment explanation
Indices: 16417252--16417290 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16417242 CTATTAAACA
16417252 ATTAAAAAATTTT
1 ATTAAAAAATTTT
*
16417265 A-TAATAAAATTTA
1 ATTAA-AAAATTTT
16417278 ATTAAAAAATTTT
1 ATTAAAAAATTTT
16417291 GGATTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAAAAATTTT
Found at i:16417362 original size:39 final size:38
Alignment explanation
Indices: 16417296--16417442 Score: 116
Period size: 39 Copynumber: 3.8 Consensus size: 38
16417286 ATTTTGGATT
* * **
16417296 AATCTTATTAAATTATTGGAGGATTTAAATCTCAAATTA
1 AATCTTATCAAATTATTGAAAAATTTAAAT-TCAAATTA
**** *
16417335 AATCTTATCAAATTATT-AAAAATTTTAATATTTTTTTTC
1 AATCTTATCAAATTATTGAAAAA-TTTAA-ATTCAAATTA
* *
16417374 AATCTTATCAAACTATTGAAAAATTTAAATATCAGAGTTA
1 AATCTTATCAAATTATTGAAAAATTTAAAT-TCA-AATTA
* * *
16417414 AATCTTATGAAATTATTGGAAGATTTAAA
1 AATCTTATCAAATTATTGAAAAATTTAAA
16417443 GATTCTTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
38 4 0.05
39 46 0.55
40 34 0.40
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (38 bp):
AATCTTATCAAATTATTGAAAAATTTAAATTCAAATTA
Found at i:16417368 original size:78 final size:79
Alignment explanation
Indices: 16417286--16417430 Score: 177
Period size: 78 Copynumber: 1.8 Consensus size: 79
16417276 TAATTAAAAA
* * * ** *
16417286 ATTTTGGATT-AATCTTATTAAATTATTGGAGGATTTAAATCTCA-AATTAAATCTTATCAAATT
1 ATTTT-GATTCAATCTTATCAAACTATTGAAAAATTTAAATATCAGAATTAAATCTTATCAAATT
16417349 ATTAAAAATTTTAAT
65 ATTAAAAATTTTAAT
** * *
16417364 ATTTTTTTTCAATCTTATCAAACTATTGAAAAATTTAAATATCAGAGTTAAATCTTATGAAATTA
1 ATTTTGATTCAATCTTATCAAACTATTGAAAAATTTAAATATCAGAATTAAATCTTATCAAATTA
16417429 TT
66 TT
16417431 GGAAGATTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
77 2 0.04
78 33 0.60
79 20 0.36
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.45
Consensus pattern (79 bp):
ATTTTGATTCAATCTTATCAAACTATTGAAAAATTTAAATATCAGAATTAAATCTTATCAAATTA
TTAAAAATTTTAAT
Found at i:16417418 original size:40 final size:39
Alignment explanation
Indices: 16417296--16417442 Score: 125
Period size: 40 Copynumber: 3.7 Consensus size: 39
16417286 ATTTTGGATT
* * ** *
16417296 AATCTTATTAAATTATTGGAGGATTTAAATCTCAAATTA
1 AATCTTATCAAATTATTGAAAAATTTAAATATCAAATTA
* **** *
16417335 AATCTTATCAAATTATT-AAAAATTTTAATATTTTTTTTC
1 AATCTTATCAAATTATTGAAAAATTTAAATA-TCAAATTA
* *
16417374 AATCTTATCAAACTATTGAAAAATTTAAATATCAGAGTTA
1 AATCTTATCAAATTATTGAAAAATTTAAATATCA-AATTA
* * *
16417414 AATCTTATGAAATTATTGGAAGATTTAAA
1 AATCTTATCAAATTATTGAAAAATTTAAA
16417443 GATTCTTTTA
Statistics
Matches: 83, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
38 8 0.10
39 36 0.43
40 39 0.47
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (39 bp):
AATCTTATCAAATTATTGAAAAATTTAAATATCAAATTA
Found at i:16418986 original size:6 final size:6
Alignment explanation
Indices: 16418964--16419066 Score: 50
Period size: 6 Copynumber: 16.3 Consensus size: 6
16418954 CATTCCCTCA
* * * *
16418964 TTTTAT TTTTTT TTTTCT TTTTCCCT TTTTCT TTGTCAT TTTGT-T GTTTTTT
1 TTTTCT TTTTCT TTTTCT TTTT--CT TTTTCT TTTTC-T TTT-TCT -TTTTCT
* * *
16419016 GTTTTGT TTTTTT TTCTTGCC TTTTCT TTTTCT TTTT-T TTTTC- TTTTCT
1 -TTTTCT TTTTCT TT-TT-CT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
16419065 TT
1 TT
16419067 GTACATACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
5 10 0.13
6 42 0.54
7 17 0.22
8 9 0.12
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:16423461 original size:3 final size:3
Alignment explanation
Indices: 16423453--16423484 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16423443 TTAGATTTCT
16423453 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16423485 TCTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16425786 original size:57 final size:57
Alignment explanation
Indices: 16425725--16425901 Score: 214
Period size: 57 Copynumber: 3.1 Consensus size: 57
16425715 GCTAGTTTAG
** * * *
16425725 GATAGGAAATATCAAAAAGGAAAGAAGCCAAAATGATAATTGGGATTGCCGTAA-TGA
1 GATAGGAAATGCCAAAAAGGAAATAACCCAAAATAATAATTGGGATTGCC-TAATTGA
* *
16425782 GATAGAAAATGCCAAAAAGGAAATAACCCAAAATAATAATTGGGATTGCCTAATTGC
1 GATAGGAAATGCCAAAAAGGAAATAACCCAAAATAATAATTGGGATTGCCTAATTGA
* * * * *
16425839 GAT-GGACCATGCCAAAAAGAAAATAACCCAAAATAATAATTTGGATTGCCTAGTTGC
1 GATAGGA-AATGCCAAAAAGGAAATAACCCAAAATAATAATTGGGATTGCCTAATTGA
16425896 GATAGG
1 GATAGG
16425902 CCCTTGTTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
56 5 0.05
57 98 0.93
58 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (57 bp):
GATAGGAAATGCCAAAAAGGAAATAACCCAAAATAATAATTGGGATTGCCTAATTGA
Found at i:16427120 original size:48 final size:48
Alignment explanation
Indices: 16427049--16427141 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
16427039 GTACCCATTT
* *
16427049 ATCATACCTATGTGGACTCTCTCAGCCTCCTCTAGTCCCCTCACATGC
1 ATCATACCTATGTAGACTCTCTCAGCCTCCTCTAGTCCACTCACATGC
* *
16427097 ATCATACCTATGTAGAC-CTTCTCAGTCTCTTCTAGTCCACTCACA
1 ATCATACCTATGTAGACTC-TCTCAGCCTCCTCTAGTCCACTCACA
16427142 AACATATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.31
Consensus pattern (48 bp):
ATCATACCTATGTAGACTCTCTCAGCCTCCTCTAGTCCACTCACATGC
Found at i:16428640 original size:31 final size:31
Alignment explanation
Indices: 16428597--16428675 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
16428587 AAACCTTCAG
*
16428597 CTCTAATATCACTTGTTG-GAAAATACCATAA
1 CTCTGATATCACTTGTTGTG-AAATACCATAA
* * * *
16428628 CTTTGATATCACTTGTTGTGGATTACGATAA
1 CTCTGATATCACTTGTTGTGAAATACCATAA
16428659 CTCTGATATCACTTGTT
1 CTCTGATATCACTTGTT
16428676 AGGCTAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (31 bp):
CTCTGATATCACTTGTTGTGAAATACCATAA
Found at i:16429262 original size:52 final size:52
Alignment explanation
Indices: 16429205--16429308 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
16429195 TATAAGCATA
* *
16429205 CAAACTTACCTATTAAGAATATTTTTTCTTTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAAAATATTTTTTCTTTTAGAATTCTTCTTCTGTAAGT
*
16429257 CAAACTTACCTATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTCTGTAAGT
1 CAAACTTACCTATTAAAAATATTTTTTCTTTTAGAATTCTTCTTCTGTAAGT
16429309 TTTCTTGTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATATTTTTTCTTTTAGAATTCTTCTTCTGTAAGT
Found at i:16429938 original size:35 final size:35
Alignment explanation
Indices: 16429884--16429962 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
16429874 TAGAGTATTC
* * * * * *
16429884 TCAACACAAATAAATACATACCCATGTATATCCTT
1 TCAACATAAACAAACACATACCCATATATACCCAT
16429919 TCAACATAAACAAACACATACCCATATATACCCAT
1 TCAACATAAACAAACACATACCCATATATACCCAT
*
16429954 TCATCATAA
1 TCAACATAA
16429963 CTATATGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (35 bp):
TCAACATAAACAAACACATACCCATATATACCCAT
Found at i:16430211 original size:979 final size:985
Alignment explanation
Indices: 16428144--16430361 Score: 2535
Period size: 989 Copynumber: 2.3 Consensus size: 985
16428134 TTATCCTATA
** * *
16428144 AAAT-CTTACAACTCTTTTACAACTTTTTCTCATACTTAAACCCTATAGAGACTTTACTTATTTA
1 AAATACTTACAACTCTTTTACATTTTTTTCTCATACTT-AACCTTATAGAGACTTCACTTATTTA
* * * * * *
16428208 TAAGCATACAAACTTACCTATTAAAAATCTTTTTTCTTTTAGAATTCTTTTTTTGCAAGTTAATC
65 TAAGCATACAAACTTACCTATTAAGAATATTTTTTCTTTTAGAATTCTTCTTTTGTAAGTCAAAC
* * * * * *
16428273 TTGCTTATTAAGAATCTTTTTTCTTTT-GAAATTCTTTTTCCGTAAGTTTTCTTATCCATCAAGT
130 TTACATATTAAAAATCTTTTTTCTTTTAG-AATTCTTCTTCTGTAAGTTTTCTTATCCATCAAGC
* * * * *
16428337 AATATCTAACCAATCCCAAATAAATCTGTAATGAGATTTAAGTCACTATTCTCAATAATCTCTAC
194 AATATCTAACCAATCTCAAACAAATCTGTTATGAGATTTAAGTCACTATTCTCAACAATCTCCAC
* * ** *
16428402 CTTGACCCAAATTCCATCAAATCATTTATTTTCATGCTAGACATGCTTGGCTCCACATACAATTA
259 ATTGACCCAAATTCCATCAAATCATCTATTTTCAAACTAGACATGCTTGGCTCCACATACAATGA
* * * * *
16428467 AAGTCTCACAATCATCTTTTCTTGTGTATTTTTACGCTTCATGTAAATCGATCTTTAAAACACGA
324 AAGTCTCACAATCATCTCTTCTTATG-ATCTTCACGCTTCATGTAAATCAATCTTTAAAACACGA
* * * * *
16428532 ACTCGAACTTTTTTTTTAAATCAAGCTCCTTTAAGTTTATCTCTTCCCATGTCTCAAACCTTCAG
388 ACTCGAACTCTTCTTTTAAATCAAGCTCCTCTAAGCTTACCTCTTCCCATGTCTCAAACCTTCAG
* * * * * *
16428597 CTCTAATATCACTTGTTGGAAAATACCATAACTTTGATATCACTTGTTGTGGATTACGATAACTC
453 CTCTAATACCACTTGTTGGAAAACACCACAACTTTGATACCACTTGTTGAGGATTACGACAACTC
* * * *
16428662 TGATATCACTTGTTAGGCTAAAAAACCATAATCCAATCACACCAGCAGAAACATAATCCAACAAT
518 TGATATCACTTGCTAGGCTAAAAAACCACAACCCAATCACACCAACAGAAACATAATCCAACAAT
*
16428727 CAATCAAACAAGCACAAAAAAGATAACAATCTAACATAGTTCGACCCAATAACCTGTATCCATGA
583 CAATCAAACAAGCACAAAAAAGAGAACAATCTAACATAGTTCGACCCAATAACCTGTATCCATGA
* *
16428792 ATGAGAAACAAGATCCACTAGTTGTATAGAATTAAAAACATGCAAATCAAATCAAACACTCATAA
648 ATGAGAAACAAGATCCACTAGTTGTAGAGAATTAAAAACATACAAATCAAAT---ACACTCATAA
* * * * * * * *
16428857 CTAATACTCATGACCTTCTAAATCTTCTCGAGTCTTATGAAATATTTTGAACCCAAACAAATATA
710 CTAATACCCATGACCTTATAAATCTCCTAGAGTCTTATGAAATATTCTCAACACAAACAAATACA
* * * * *
16428922 TACCAATGTGCACCATTTCAACATAAACAAACCCATGCCCATATGTACCCATTCATTATACTTAT
775 TACCAATGTACACCATTTCAACATAAACAAACACATACCCATATATACCCATTCATCATACTTAT
* * **
16428987 GTAGACCCTCTCAATCTTTTTTAGTCCACTCACATGCACCATACCTATGTGGACCTTTTCAGTCG
840 G-AGACCCTCTCAATCTCTTCTAGTCCACTCACATGCACCATACCTATACGGACCTTTTCAGTCG
* * * * *
16429052 CCTCTAGTCTGCTTATAAACATACAAACATACATACCCATAAAATGTAAATCTTCAGTAGTCTTA
904 CCTCTAGTCCGCTTACAAACATACAAACATACACACCCATAAAACGTAAATCTTCAATAGTCTTA
*
16429117 TAGGATGTCTATCTTAT
969 TAGGATGTCTATCTCAT
* * * ** *
16429134 AAATCCTTACAACTTTTTTATATTTTTTTCTCATACTTAATTTTAT-TAGACTTCACTTATTTAT
1 AAATACTTACAACTCTTTTACATTTTTTTCTCATACTTAACCTTATAGAGACTTCACTTATTTAT
16429198 AAGCATACAAACTTACCTATTAAGAATATTTTTTCTTTTAGAATTCTTCTTTTGTAAGTCAAACT
66 AAGCATACAAACTTACCTATTAAGAATATTTTTTCTTTTAGAATTCTTCTTTTGTAAGTCAAACT
* *
16429263 TACCTATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTCTGTAAGTTTTCTTGTCCATCAAGCAA
131 TACATATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTCTGTAAGTTTTCTTATCCATCAAGCAA
* * * ** *
16429328 TATTTAACCAATCTCAAACAAATTTGTTATGAGATTTGAGTCACTATTCTTGACAATCTCCATAT
196 TATCTAACCAATCTCAAACAAATCTGTTATGAGATTTAAGTCACTATTCTCAACAATCTCCACAT
* ** * * *
16429393 TGACTCAAATTTTATCAACTCATCTATCTTT-AAACTAGATATGCTTGGCTCCACCTACAATGAA
261 TGACCCAAATTCCATCAAATCATCTAT-TTTCAAACTAGACATGCTTGGCTCCACATACAATGAA
* * * * *
16429457 AGTCTCACAATC-T-TCTTCTATATG-TCTTCATGTTTCATG-CAATCAAT-TTTTAAACATGAA
325 AGTCTCACAATCATCTCTTCT-TATGATCTTCACGCTTCATGTAAATCAATCTTTAAAACACGAA
* * * *
16429517 CTCGAACTCTTCTTTTGAATCAAGCTCCTCTAAGCTTACCTTTTCTCATGTCTCGAACCTTCAGC
389 CTCGAACTCTTCTTTTAAATCAAGCTCCTCTAAGCTTACCTCTTCCCATGTCTCAAACCTTCAGC
* ** * * *
16429582 TCTAATACCACTTGTTAGG-AAGCACCACAGTTTTGATACCACTTTTTGAGGATTACGACAATTT
454 TCTAATACCACTTGTT-GGAAAACACCACAACTTTGATACCACTTGTTGAGGATTACGACAACTC
* * ** ** *
16429646 TGATGTCACTTGCTAGGCTAAAAAACCCCAACCCAATCACACCAATGGAAGTATAATCTAACAAT
518 TGATATCACTTGCTAGGCTAAAAAACCACAACCCAATCACACCAACAGAAACATAATCCAACAAT
* * * * * * * * *
16429711 TAATCAAACAAGCACATAAGAGAGAATAATTTAACATGGTTTC-ATCCAACT-AGCT-TACGTCT
583 CAATCAAACAAGCACAAAAAAGAGAACAATCTAACATAG-TTCGACCCAA-TAACCTGTA--TCC
* * * *
16429773 ATG-GTGAGAAACAAGA-CCACTAGTTGTAGATAATTACAAACATACAAATCAAAT-TACTCATA
644 ATGAATGAGAAACAAGATCCACTAGTTGTAGAGAATTAAAAACATACAAATCAAATACACTCATA
* * * * *
16429835 ACTAATACCCATTGACTTTATTAATCTCCTATAGTCTTAT-AGAGTATTCTCAACACAAATAAAT
709 ACTAATACCCA-TGACCTTATAAATCTCCTAGAGTCTTATGA-AATATTCTCAACACAAACAAAT
* *
16429899 ACATACCCATGTATATCC-TTTCAACATAAACAAACACATACCCATATATACCCATTCATCATAA
772 ACATACCAATGTACA-CCATTTCAACATAAACAAACACATACCCATATATACCCATTCATCAT-A
* * *
16429963 CTATATG-GATCCT-TCAGTCTCTTCTAGTCCACTCATATGCACCATACCTATACGGACCATTTT
835 CT-TATGAGACCCTCTCAATCTCTTCTAGTCCACTCACATGCACCATACCTATACGGACC-TTTT
** **
16430026 -AGTCTTCTCTAGTCCG-TTCACAAACATACAAACATACACATGCATAAAACGTAAATCTTCAAT
898 CAGTCGCCTCTAGTCCGCTT-ACAAACATACAAACATACACACCCATAAAACGTAAATCTTCAAT
16430089 AGTCTTAT-GAGATGTCTATCTCAT
962 AGTCTTATAG-GATGTCTATCTCAT
* * *
16430113 AAAATAC-TATAACTCTCTTACATTTTTTTCTTATACTTAACCTTATAGAGACTTCACTTATTTA
1 -AAATACTTACAACTCTTTTACATTTTTTTCTCATACTTAACCTTATAGAGACTTCACTTATTTA
** *** * * *
16430177 TAAATATACAAACTTGTTTATTAAGAAT-TTTTTTCCTCTTAAAATTTTTCTTTTGTAAGTCAAA
65 TAAGCATACAAACTTACCTATTAAGAATATTTTTT-CTTTTAGAATTCTTCTTTTGTAAGTCAAA
* * * * * * * * *
16430241 TTTACATAATAAGAATCTCTTTTTTTTTTTTA-AATTTTTCTTCTGCAAGTCTTCTTATCTATTA
129 CTTACATATTAA-AA-ATC-TTTTTTCTTTTAGAATTCTTCTTCTGTAAGTTTTCTTATCCATCA
* * *
16430305 AGCAATATCTAACTAATCTCAAACAAATCTATTATGAGATTTAAGTCACTAATCTCA
191 AGCAATATCTAACCAATCTCAAACAAATCTGTTATGAGATTTAAGTCACTATTCTCA
16430362 GCAAAAATCA
Statistics
Matches: 1030, Mismatches: 175, Indels: 54
0.82 0.14 0.04
Matches are distributed among these distances:
978 3 0.00
979 167 0.16
980 178 0.17
981 7 0.01
982 81 0.08
983 47 0.05
984 222 0.22
985 17 0.02
986 11 0.01
987 5 0.00
988 4 0.00
989 246 0.24
990 13 0.01
991 29 0.03
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (985 bp):
AAATACTTACAACTCTTTTACATTTTTTTCTCATACTTAACCTTATAGAGACTTCACTTATTTAT
AAGCATACAAACTTACCTATTAAGAATATTTTTTCTTTTAGAATTCTTCTTTTGTAAGTCAAACT
TACATATTAAAAATCTTTTTTCTTTTAGAATTCTTCTTCTGTAAGTTTTCTTATCCATCAAGCAA
TATCTAACCAATCTCAAACAAATCTGTTATGAGATTTAAGTCACTATTCTCAACAATCTCCACAT
TGACCCAAATTCCATCAAATCATCTATTTTCAAACTAGACATGCTTGGCTCCACATACAATGAAA
GTCTCACAATCATCTCTTCTTATGATCTTCACGCTTCATGTAAATCAATCTTTAAAACACGAACT
CGAACTCTTCTTTTAAATCAAGCTCCTCTAAGCTTACCTCTTCCCATGTCTCAAACCTTCAGCTC
TAATACCACTTGTTGGAAAACACCACAACTTTGATACCACTTGTTGAGGATTACGACAACTCTGA
TATCACTTGCTAGGCTAAAAAACCACAACCCAATCACACCAACAGAAACATAATCCAACAATCAA
TCAAACAAGCACAAAAAAGAGAACAATCTAACATAGTTCGACCCAATAACCTGTATCCATGAATG
AGAAACAAGATCCACTAGTTGTAGAGAATTAAAAACATACAAATCAAATACACTCATAACTAATA
CCCATGACCTTATAAATCTCCTAGAGTCTTATGAAATATTCTCAACACAAACAAATACATACCAA
TGTACACCATTTCAACATAAACAAACACATACCCATATATACCCATTCATCATACTTATGAGACC
CTCTCAATCTCTTCTAGTCCACTCACATGCACCATACCTATACGGACCTTTTCAGTCGCCTCTAG
TCCGCTTACAAACATACAAACATACACACCCATAAAACGTAAATCTTCAATAGTCTTATAGGATG
TCTATCTCAT
Found at i:16431282 original size:12 final size:12
Alignment explanation
Indices: 16431265--16431290 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16431255 TATTCTCTTT
16431265 TCACCTTTGCCA
1 TCACCTTTGCCA
16431277 TCACCTTTGCCA
1 TCACCTTTGCCA
16431289 TC
1 TC
16431291 CATTCTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.42, G:0.08, T:0.35
Consensus pattern (12 bp):
TCACCTTTGCCA
Found at i:16434278 original size:3 final size:3
Alignment explanation
Indices: 16434272--16434312 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16434262 TAATAATAAT
16434272 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16434313 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16439842 original size:18 final size:18
Alignment explanation
Indices: 16439757--16439836 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
16439747 AATGAGGTGA
*
16439757 ATTAAATAATAATATT-TT
1 ATTAATTAATAA-ATTATT
*
16439775 ATTAA-TAATAAGTTATT
1 ATTAATTAATAAATTATT
* **
16439792 -TTAATTTATGTA-TATTT
1 ATTAATTAATAAATTA-TT
*
16439809 ATTTATTAATAAATTATT
1 ATTAATTAATAAATTATT
16439827 ATTAATTAAT
1 ATTAATTAAT
16439837 TTATTAACAG
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 24 0.51
19 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTAATTAATAAATTATT
Found at i:16440457 original size:28 final size:28
Alignment explanation
Indices: 16440426--16440505 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 28
16440416 ACTATTATTC
16440426 TCTTATATTATAATTACGAAAATACTCA
1 TCTTATATTATAATTACGAAAATACTCA
* *
16440454 TCTTATAATTAT--TTAC---TATAATCA
1 TCTTAT-ATTATAATTACGAAAATACTCA
*
16440478 -CTCATATTATAATTACGAAAATACTCA
1 TCTTATATTATAATTACGAAAATACTCA
16440505 T
1 T
16440506 TTTCTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
22 5 0.12
23 4 0.10
24 10 0.25
27 10 0.25
28 6 0.15
29 5 0.12
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (28 bp):
TCTTATATTATAATTACGAAAATACTCA
Found at i:16440459 original size:23 final size:23
Alignment explanation
Indices: 16440430--16440505 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
16440420 TTATTCTCTT
16440430 ATATTATAATTACGAAAATACTC
1 ATATTATAATTACGAAAATACTC
* * *
16440453 ATCTTATAATTATTTACTATAATCACTC
1 ATATTAT-A--A-TTACGAAAAT-ACTC
16440481 ATATTATAATTACGAAAATACTC
1 ATATTATAATTACGAAAATACTC
16440504 AT
1 AT
16440506 TTTCTTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 12 0.29
24 9 0.21
25 1 0.02
26 1 0.02
27 9 0.21
28 10 0.24
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.39
Consensus pattern (23 bp):
ATATTATAATTACGAAAATACTC
Found at i:16440540 original size:51 final size:50
Alignment explanation
Indices: 16440321--16440551 Score: 166
Period size: 51 Copynumber: 4.5 Consensus size: 50
16440311 ATTATTATGT
* * * *
16440321 TCTTATACCATAATTACG-AAACACCCCTTTTATTATAATTATTCACTATAATA-
1 TCTTATACTATAATTACGAAAATACTCATTTT-TTA-AATTA---ACTATAATAC
* ** * * *
16440374 TCTTATA-TCATAATTACAAAAATATCTTTTTTTTTTAAATTTACTATTATTC
1 TCTTATACT-ATAATTACGAAAATA-C-TCATTTTTTAAATTAACTATAATAC
* * * *
16440426 TCTTATATTATAATTACGAAAATACTCATCTTATAATTATTTACTATAATCAC
1 TCTTATACTATAATTACGAAAATACTCATTTTTTAA--ATTAACTATAAT-AC
* *
16440479 TC--ATATTATAATTACGAAAATACTCATTTTCTTAAATTAACTATTATAC
1 TCTTATACTATAATTACGAAAATACTCATTTT-TTAAATTAACTATAATAC
*
16440528 TCTTATACTATAATTATGAAAATA
1 TCTTATACTATAATTACGAAAATA
16440552 TCCCTTCTCT
Statistics
Matches: 144, Mismatches: 22, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
49 4 0.03
50 17 0.12
51 53 0.37
52 35 0.24
53 19 0.13
54 8 0.06
55 4 0.03
56 4 0.03
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.45
Consensus pattern (50 bp):
TCTTATACTATAATTACGAAAATACTCATTTTTTAAATTAACTATAATAC
Found at i:16440549 original size:102 final size:103
Alignment explanation
Indices: 16440353--16440551 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 103
16440343 ACCCCTTTTA
* ** * *
16440353 TTATAATTATTCACTATAATATCTTATATCATAATTACAAAAATATCTTTTTTTTTTAAATTTAC
1 TTATAATTATTCACTATAATATCTCATATCATAATTACAAAAATATCTCATTTTCTTAAATTAAC
* *
16440418 TATTATTCTCTTATATTATAATTACGAAAATACTCATC
66 TATTATACTCTTATACTATAATTACGAAAATACTCATC
* * *
16440456 TTATAATTATTTACTATAATCA-CTCATATTATAATTACGAAAATA-CTCATTTTCTTAAATTAA
1 TTATAATTATTCACTATAAT-ATCTCATATCATAATTACAAAAATATCTCATTTTCTTAAATTAA
*
16440519 CTATTATACTCTTATACTATAATTATGAAAATA
65 CTATTATACTCTTATACTATAATTACGAAAATA
16440552 TCCCTTCTCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 44 0.52
103 39 0.46
104 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.46
Consensus pattern (103 bp):
TTATAATTATTCACTATAATATCTCATATCATAATTACAAAAATATCTCATTTTCTTAAATTAAC
TATTATACTCTTATACTATAATTACGAAAATACTCATC
Found at i:16441626 original size:35 final size:33
Alignment explanation
Indices: 16441569--16441638 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 33
16441559 AGTAGCCAAT
* *
16441569 ATTATTATAATACCTTCATACTATAATTGATCAAA
1 ATTACTATAATACCATCATACTATAATT-A-CAAA
*
16441604 ATTACTATAATACCATCGTACTATAATTACAAA
1 ATTACTATAATACCATCATACTATAATTACAAA
16441637 AT
1 AT
16441639 ACCCTTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 6 0.19
34 1 0.03
35 25 0.78
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (33 bp):
ATTACTATAATACCATCATACTATAATTACAAA
Found at i:16441645 original size:60 final size:62
Alignment explanation
Indices: 16441577--16441740 Score: 185
Period size: 62 Copynumber: 2.7 Consensus size: 62
16441567 ATATTATTAT
* *
16441577 AATA-CCTTCATACTATAATTGATCAAAATTACTATAATA-CCATCGTA-CTATAATTAC-AA
1 AATACCCTTCCTACTATAATTGATCAAAATTACTATAATATCCATCATATC-ATAATTACGAA
* * *
16441636 AATACCCTTCCTA-TCATATTTGATCAAAATTACTATAATATCCCTCATATCATACTTACGAA
1 AATACCCTTCCTACT-ATAATTGATCAAAATTACTATAATATCCATCATATCATAATTACGAA
* * * **
16441698 AATGCCCATCCCACTATAATTGGCCAAAATTACTATAATATCC
1 AATACCCTTCCTACTATAATTGATCAAAATTACTATAATATCC
16441741 CCTATACCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
59 5 0.06
60 31 0.35
61 13 0.15
62 38 0.43
63 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (62 bp):
AATACCCTTCCTACTATAATTGATCAAAATTACTATAATATCCATCATATCATAATTACGAA
Found at i:16445463 original size:129 final size:129
Alignment explanation
Indices: 16445209--16445619 Score: 410
Period size: 129 Copynumber: 3.2 Consensus size: 129
16445199 AATAAAGATG
* * *
16445209 CATTTTTAACATAAAAACATCATTTTTATAAACAAACAC--TGCTTGTTTAACATAAAAAA-GTT
1 CATTTTTAACATAAAAACATCATCTTTGTAAACAAACACTATG-TT-TTTAACATAAAAAATGTC
* * * **
16445271 ATCATTG-TTAGTTAATATGAAATTAACCAAGTTTAATTTAAAATTTGATAAATTGACAAAGATT
64 ATCATTGTTTAGTTAACATGAAATTGACCAAGTTCAATTTAAAATTTGATAAACCGACAAAGATT
16445335 A
129 A
** * *
16445336 TGTTTTTAATATAAAAACTTCATCTTTGTAAACAAACACTATGTTTTTAACATAAAAAATGTCAT
1 CATTTTTAACATAAAAACATCATCTTTGTAAACAAACACTATGTTTTTAACATAAAAAATGTCAT
* * * *
16445401 CGTTGTTTACTTAACATGAAATTGACCAAATTCAATTTAAAATTTGATAAACCGACAAAGATTG
66 CATTGTTTAGTTAACATGAAATTGACCAAGTTCAATTTAAAATTTGATAAACCGACAAAGATTA
* * ** * *
16445465 CATTTTTAACATAAAAA-AGTCATCTTTGTAAA-AAAAAATACATGTTTAACATTAAAAAAATAT
1 CATTTTTAACATAAAAACA-TCATCTTTGTAAACAAACACTATGTTTTTAACA-T-AAAAAATGT
* * * * ** *
16445528 CGTCAATGTTT-GTTAACATGAAATTGATCAAGTTCAATTT-AAATTCTAATAAACTAATAAAGA
63 CATCATTGTTTAGTTAACATGAAATTGACCAAGTTCAATTTAAAATT-TGATAAACCGACAAAGA
*
16445591 CTA
127 TTA
*
16445594 CCA-TTTTAACATAAAAA-GTCATCTTT
1 -CATTTTTAACATAAAAACATCATCTTT
16445620 CTAGATATAA
Statistics
Matches: 236, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
127 47 0.20
128 37 0.16
129 134 0.57
130 18 0.08
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (129 bp):
CATTTTTAACATAAAAACATCATCTTTGTAAACAAACACTATGTTTTTAACATAAAAAATGTCAT
CATTGTTTAGTTAACATGAAATTGACCAAGTTCAATTTAAAATTTGATAAACCGACAAAGATTA
Found at i:16445853 original size:24 final size:24
Alignment explanation
Indices: 16445825--16445970 Score: 132
Period size: 24 Copynumber: 6.1 Consensus size: 24
16445815 TGACCACAAG
* * *
16445825 TTGGACTTGCATAAATGATAAATT
1 TTGGACTTGTATAAATGAAAAAAT
* * * *
16445849 TTGGAATTGCATAATTGAAAAAGT
1 TTGGACTTGTATAAATGAAAAAAT
* *
16445873 TTGAACTTGTATAAATGATAAAAT
1 TTGGACTTGTATAAATGAAAAAAT
* * *
16445897 TTGAACTTATATAAATAAAAAAAT
1 TTGGACTTGTATAAATGAAAAAAT
* * *
16445921 TTAGACTTGTATTAATGAAGAAAT
1 TTGGACTTGTATAAATGAAAAAAT
*
16445945 TTGGACTTGTACAAAT-AAAACAAT
1 TTGGACTTGTATAAATGAAAA-AAT
16445969 TT
1 TT
16445971 TGAGTTCTGT
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
23 3 0.03
24 95 0.97
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.36
Consensus pattern (24 bp):
TTGGACTTGTATAAATGAAAAAAT
Found at i:16447060 original size:78 final size:78
Alignment explanation
Indices: 16446972--16447133 Score: 281
Period size: 78 Copynumber: 2.1 Consensus size: 78
16446962 CGATATACAT
*
16446972 TATATATGAATGAATATATATTATGTATATTTAAATGACTACATAAGCTAACTTCATATATGCCA
1 TATATATGAATGAATATATATTATGTATATTTAAATGAATACATAAGCTAACTTCATATATGCCA
16447037 AGATTTCTGTAAC
66 AGATTTCTGTAAC
* *
16447050 TATATATGAATGAATATATATTATTTATATTTAAATGAATACATAAGCTAACTTCATGTATGCCA
1 TATATATGAATGAATATATATTATGTATATTTAAATGAATACATAAGCTAACTTCATATATGCCA
*
16447115 AGATTTTTGTAAC
66 AGATTTCTGTAAC
16447128 TA-ATAT
1 TATATAT
16447134 TTCTATTATC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 4 0.05
78 76 0.95
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (78 bp):
TATATATGAATGAATATATATTATGTATATTTAAATGAATACATAAGCTAACTTCATATATGCCA
AGATTTCTGTAAC
Found at i:16449232 original size:73 final size:73
Alignment explanation
Indices: 16448848--16449271 Score: 568
Period size: 73 Copynumber: 5.8 Consensus size: 73
16448838 GACAAGAACA
* * * * *
16448848 ATATTCGAATATTATTATTTACATTGTTTAATAATATAATAACAAATGAGAAAATGATTT-CAAT
1 ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTTACAAT
16448912 AGTATAGT
66 AGTATAGT
* * *
16448920 ATATTCTAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGTGGAAATGATTTACAAT
1 ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTTACAAT
16448985 AGTATAGT
66 AGTATAGT
* * * *
16448993 ATAATT-GAATACTATTATTTACATT-TTTCATAGCATAAAAACAAATGAGAAAATTATTTACAA
1 AT-ATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTTACAA
*
16449056 TAAG-ATAAT
65 T-AGTATAGT
* * *
16449065 ATATTCAAATATTATTATTTACATTGTTTCATAACATAAGAACAAAAGGATAAAATGATTTACAA
1 ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAAC-AAATGAGAAAATGATTTACAA
16449130 TAGTATAGT
65 TAGTATAGT
* * * *
16449139 ATATTCTAATACTATTATTTACATTGTTTCATAATATAAGAACAAATGAAAAAATGATTTATAAT
1 ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTTACAAT
16449204 AGTATAGT
66 AGTATAGT
* * * * *
16449212 ACATTCAAATGCTATTATTTACATTGTTTCATAACATAAAAACAAAGGAGAAAATTATTT
1 ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTT
16449272 GTTACCTGAA
Statistics
Matches: 309, Mismatches: 36, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
71 3 0.01
72 110 0.36
73 130 0.42
74 66 0.21
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (73 bp):
ATATTCAAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAGAAAATGATTTACAAT
AGTATAGT
Found at i:16449232 original size:219 final size:218
Alignment explanation
Indices: 16448848--16449271 Score: 663
Period size: 219 Copynumber: 1.9 Consensus size: 218
16448838 GACAAGAACA
* * * *
16448848 ATATTCGAATATTATTATTTACATTGTTTAATAATATAATAACAAATGAGAAAATGATTTCAATA
1 ATATTCAAATATTATTATTTACATTGTTTAATAACATAAGAACAAAGGAGAAAATGATTTCAATA
***
16448913 GTATAGTATATTCTAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGTGGAAATGAT
66 GTATAGTATATTCTAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAAAAAATGAT
* * *
16448978 TTACAATAGTATAGTATAATTGAATACTATTATTTACATT-TTTCATAGCATAAAAACAAATGAG
131 TTACAATAGTATAGTATAATTAAATACTATTATTTACATTGTTTCATAACATAAAAACAAAGGAG
16449042 AAAATTATTTACAATAAGATAAT
196 AAAATTATTTACAATAAGATAAT
* *
16449065 ATATTCAAATATTATTATTTACATTGTTTCATAACATAAGAACAAAAGGATAAAATGATTTACAA
1 ATATTCAAATATTATTATTTACATTGTTTAATAACATAAGAAC-AAAGGAGAAAATGATTT-CAA
*
16449130 TAGTATAGTATATTCTAATACTATTATTTACATTGTTTCATAATATAAGAACAAATGAAAAAATG
64 TAGTATAGTATATTCTAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAAAAAATG
* * *
16449195 ATTTATAATAGTATAGTA-CATTCAAATGCTATTATTTACATTGTTTCATAACATAAAAACAAAG
129 ATTTACAATAGTATAGTATAATT-AAATACTATTATTTACATTGTTTCATAACATAAAAACAAAG
16449259 GAGAAAATTATTT
193 GAGAAAATTATTT
16449272 GTTACCTGAA
Statistics
Matches: 187, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
217 39 0.21
218 18 0.10
219 98 0.52
220 32 0.17
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (218 bp):
ATATTCAAATATTATTATTTACATTGTTTAATAACATAAGAACAAAGGAGAAAATGATTTCAATA
GTATAGTATATTCTAATACTATTATTTACATTGTTTCATAACATAAGAACAAATGAAAAAATGAT
TTACAATAGTATAGTATAATTAAATACTATTATTTACATTGTTTCATAACATAAAAACAAAGGAG
AAAATTATTTACAATAAGATAAT
Found at i:16450070 original size:13 final size:13
Alignment explanation
Indices: 16450052--16450077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16450042 ACTTTCTTGA
16450052 AGATCAATTTCCC
1 AGATCAATTTCCC
16450065 AGATCAATTTCCC
1 AGATCAATTTCCC
16450078 TCTCAAAATC
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:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
AGATCAATTTCCC
Found at i:16451947 original size:31 final size:31
Alignment explanation
Indices: 16451906--16452020 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 31
16451896 CTTTTGGCAT
16451906 AACAAATGGTATCAGAGCTATGGTGATCCCC
1 AACAAATGGTATCAGAGCTATGGTGATCCCC
* * * * ** *
16451937 AACAAGTGGTATTAAAACTATCATGAT-CCT
1 AACAAATGGTATCAGAGCTATGGTGATCCCC
* *
16451967 AACAAATGGTATCAGAGTTATGGT-ATTCCTC
1 AACAAATGGTATCAGAGCTATGGTGA-TCCCC
*
16451998 AACAAATGGGATCAGAGC-ATGGT
1 AACAAATGGTATCAGAGCTATGGT
16452021 TCGAGACATA
Statistics
Matches: 64, Mismatches: 18, Indels: 5
0.74 0.21 0.06
Matches are distributed among these distances:
29 1 0.02
30 25 0.39
31 38 0.59
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (31 bp):
AACAAATGGTATCAGAGCTATGGTGATCCCC
Found at i:16453745 original size:23 final size:22
Alignment explanation
Indices: 16453711--16453755 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
16453701 AGACAAAGAA
* *
16453711 CTATATTTTTCTTTTATTTTTG
1 CTATATTATTCTTTTAGTTTTG
16453733 CTATGATTATTCTTTTAGTTTTG
1 CTAT-ATTATTCTTTTAGTTTTG
16453756 TTGAAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.67
Consensus pattern (22 bp):
CTATATTATTCTTTTAGTTTTG
Found at i:16455391 original size:2 final size:2
Alignment explanation
Indices: 16455386--16455419 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
16455376 AGAAATTTGC
*
16455386 TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16455420 AAGGTTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16456496 original size:19 final size:19
Alignment explanation
Indices: 16456460--16456510 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
16456450 CAATTCAAAC
* *
16456460 AAATTTAAATATTTTAAAA
1 AAATTTAAATAATATAAAA
*
16456479 AAATTTGAATAATATAAAA
1 AAATTTAAATAATATAAAA
*
16456498 TAAA-GTAAATAAT
1 -AAATTTAAATAAT
16456511 CATATATCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAATTTAAATAATATAAAA
Found at i:16456829 original size:14 final size:14
Alignment explanation
Indices: 16456812--16456855 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
16456802 AATCAATTTG
16456812 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
16456826 TCAACAAAAAAAAAA
1 TCAA-AAAAAAAAAA
*
16456841 -GAAAAAAAGAAAAA
1 TCAAAAAAA-AAAAA
16456855 T
1 T
16456856 GTGAGATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.19
14 11 0.42
15 10 0.38
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:16458672 original size:14 final size:13
Alignment explanation
Indices: 16458640--16458682 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
16458630 GCCTTTGACC
*
16458640 ATTTTTTTATTTT
1 ATTTATTTATTTT
16458653 ATTTATTTATTTT
1 ATTTATTTATTTT
16458666 GATTTATTTATTTT
1 -ATTTATTTATTTT
16458680 ATT
1 ATT
16458683 ACTTGTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:16458871 original size:24 final size:24
Alignment explanation
Indices: 16458844--16458982 Score: 172
Period size: 24 Copynumber: 5.8 Consensus size: 24
16458834 TATTGTTTGT
16458844 ATGATTATTAATATATTTACTTAC
1 ATGATTATTAATATATTTACTTAC
* **
16458868 ATGATTATTAATAAATTTACTTGT
1 ATGATTATTAATATATTTACTTAC
* *
16458892 AT-ACTTATTAATATATTTATTTAT
1 ATGA-TTATTAATATATTTACTTAC
* * * *
16458916 ATTATTATTGATATATTTATTTGC
1 ATGATTATTAATATATTTACTTAC
*
16458940 ATGATTATTAATATATTTTCTTAC
1 ATGATTATTAATATATTTACTTAC
16458964 ATGATTATTAATATATTTA
1 ATGATTATTAATATATTTA
16458983 TTTATGTTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
23 1 0.01
24 96 0.98
25 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (24 bp):
ATGATTATTAATATATTTACTTAC
Done.