Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 245 of 310
Found at i:80925377 original size:25 final size:26
Alignment explanation
Indices: 80925340--80925388 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
80925330 CCAGGTAAGT
80925340 CTTTCTCCTTCTTCCATTCTTCATTC
1 CTTTCTCCTTCTTCCATTCTTCATTC
* *
80925366 CTTT-TCCTTCTTCCTTTTTTCAT
1 CTTTCTCCTTCTTCCATTCTTCAT
80925389 CTTCTAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (26 bp):
CTTTCTCCTTCTTCCATTCTTCATTC
Found at i:80925450 original size:8 final size:8
Alignment explanation
Indices: 80925437--80925463 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
80925427 GTTTTGTTTC
80925437 CTCTCTTT
1 CTCTCTTT
80925445 CTCTCTTT
1 CTCTCTTT
80925453 CTCTCTTT
1 CTCTCTTT
80925461 CTC
1 CTC
80925464 AGGCAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (8 bp):
CTCTCTTT
Found at i:80926277 original size:91 final size:92
Alignment explanation
Indices: 80926116--80926301 Score: 365
Period size: 91 Copynumber: 2.0 Consensus size: 92
80926106 AAAACAAGAT
80926116 TTTAATTCCTGTTTCTATGGGATTTGAACATATTTTTTTATGAATGCCTGTGATCTGTTTTGTAA
1 TTTAATTCCTGTTTCTATGGGATTTGAACATATTTTTTTATGAATGCCTGTGATCTGTTTTGTAA
80926181 TTGCCTTCGTATATCAAACATAAAATA
66 TTGCCTTCGTATATCAAACATAAAATA
80926208 TTTAATTCCTGTTTCTATGGGATTTGAACATA-TTTTTTATGAATGCCTGTGATCTGTTTTGTAA
1 TTTAATTCCTGTTTCTATGGGATTTGAACATATTTTTTTATGAATGCCTGTGATCTGTTTTGTAA
80926272 TTGCCTTCGTATATCAAACATAAAATA
66 TTGCCTTCGTATATCAAACATAAAATA
80926299 TTT
1 TTT
80926302 TGCTCACAGT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 62 0.66
92 32 0.34
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (92 bp):
TTTAATTCCTGTTTCTATGGGATTTGAACATATTTTTTTATGAATGCCTGTGATCTGTTTTGTAA
TTGCCTTCGTATATCAAACATAAAATA
Found at i:80934931 original size:21 final size:21
Alignment explanation
Indices: 80934899--80934944 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
80934889 GAAAAAATTT
*
80934899 AAAACTTTAAAT-ATTAAAAA
1 AAAAATTTAAATAATTAAAAA
*
80934919 AAAAATTTAAAATAATTTAAAA
1 AAAAATTT-AAATAATTAAAAA
80934941 AAAA
1 AAAA
80934945 GTGTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATTTAAATAATTAAAAA
Found at i:80939148 original size:49 final size:51
Alignment explanation
Indices: 80939062--80939173 Score: 129
Period size: 49 Copynumber: 2.2 Consensus size: 51
80939052 AAACCTACAG
* ** **
80939062 AGAACACACCTGGGCACCAAGTGCTTAGCCCGTAGGC-TAACATC-CCTCC
1 AGAACACACCTGGGCACCAAATGCCAAGCCCAAAGGCTTAACATCGCCTCC
* *
80939111 AGAACACACCTGGGCACCAAATGCCAAGCCTAAAGGCTTTACATCTGCCTCC
1 AGAACACACCTGGGCACCAAATGCCAAGCCCAAAGGCTTAACATC-GCCTCC
80939163 AGTAACACACC
1 AG-AACACACC
80939174 AGAATTACTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 31 0.60
50 6 0.12
52 7 0.13
53 8 0.15
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (51 bp):
AGAACACACCTGGGCACCAAATGCCAAGCCCAAAGGCTTAACATCGCCTCC
Found at i:80939616 original size:14 final size:14
Alignment explanation
Indices: 80939595--80939644 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
80939585 TTCCTTTCCC
80939595 TTTCTTCTTTTATT
1 TTTCTTCTTTTATT
*
80939609 TTT-TT-TCTT-TT
1 TTTCTTCTTTTATT
*
80939620 TTTCTTCCTTTATT
1 TTTCTTCTTTTATT
80939634 TTTCTTCTTTT
1 TTTCTTCTTTT
80939645 TCCTCTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 4 0.14
14 15 0.52
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTCTTTTATT
Found at i:80939624 original size:25 final size:25
Alignment explanation
Indices: 80939595--80939645 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
80939585 TTCCTTTCCC
* *
80939595 TTTCTTCTTTTATTTTTTTTCTTTT
1 TTTCTTCCTTTATTTTTCTTCTTTT
80939620 TTTCTTCCTTTATTTTTCTTCTTTT
1 TTTCTTCCTTTATTTTTCTTCTTTT
80939645 T
1 T
80939646 CCTCTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTCTTCCTTTATTTTTCTTCTTTT
Found at i:80946894 original size:23 final size:21
Alignment explanation
Indices: 80946860--80946916 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
80946850 TTATTATTGG
**
80946860 TTTTAAA-A-ATTTTGAAATG
1 TTTTAAATATATTTTGAAAAA
*
80946879 TTTTATAATATTATTTTTAAAAA
1 TTTTA-AATA-TATTTTGAAAAA
80946902 TTTTAAATATATTTT
1 TTTTAAATATATTTT
80946917 TAATAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 7 0.23
22 4 0.13
23 13 0.42
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTAAATATATTTTGAAAAA
Found at i:80947121 original size:20 final size:19
Alignment explanation
Indices: 80947092--80947130 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
80947082 TCTATTTAAA
80947092 ATTT-AAAAAATAATATTTT
1 ATTTAAAAAAATAA-ATTTT
80947111 ATTTCAAAAAAATAAATTTT
1 ATTT-AAAAAAATAAATTTT
80947131 GAATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAAAAAAATAAATTTT
Found at i:80947190 original size:19 final size:20
Alignment explanation
Indices: 80947147--80947190 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
80947137 ATTAGAAAAA
*
80947147 AATTTGTTAAAAAAAGGATT
1 AATTTGTTAAAAAAAGGATG
* *
80947167 TATTTGTTAAAAAAA-TATG
1 AATTTGTTAAAAAAAGGATG
80947186 AATTT
1 AATTT
80947191 ATTTAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (20 bp):
AATTTGTTAAAAAAAGGATG
Found at i:80947219 original size:21 final size:21
Alignment explanation
Indices: 80947195--80947249 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
80947185 GAATTTATTT
*
80947195 AAAATATATATTAAAAAAGTA
1 AAAATATATATTAAAAAAATA
* *
80947216 AAAATTTAAATTAAAAAAATA
1 AAAATATATATTAAAAAAATA
80947237 AAAATATATATTA
1 AAAATATATATTA
80947250 TAACTAGTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATATATATTAAAAAAATA
Found at i:80947834 original size:22 final size:22
Alignment explanation
Indices: 80947809--80947854 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
80947799 TTCTACTTAA
80947809 TTTTACTATTTACTTTGTTTAG
1 TTTTACTATTTACTTTGTTTAG
80947831 TTTTACTATTTACTTTGTTTAG
1 TTTTACTATTTACTTTGTTTAG
80947853 TT
1 TT
80947855 CCATTTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.65
Consensus pattern (22 bp):
TTTTACTATTTACTTTGTTTAG
Found at i:80951007 original size:22 final size:22
Alignment explanation
Indices: 80950979--80951022 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
80950969 GCGGGATCCC
*
80950979 CGGCCGATGACCGATGTACTTT
1 CGGCCGACGACCGATGTACTTT
80951001 CGGCCGACGACCGATGTACTTT
1 CGGCCGACGACCGATGTACTTT
80951023 TTTACTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (22 bp):
CGGCCGACGACCGATGTACTTT
Found at i:80953595 original size:30 final size:30
Alignment explanation
Indices: 80953536--80953618 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
80953526 AAAACGTTTG
* * * *
80953536 AATATCTTTAAAAATTAATAATTTATAAAAA
1 AATATATTTAAAATTTAAAAAATTAT-AAAA
80953567 AATATATTTAAAATTTAAAAAATT-TAAAA
1 AATATATTTAAAATTTAAAAAATTATAAAA
* * *
80953596 TATACATTTAAAATATTATAAAA
1 AATATATTTAAAAT-TTAAAAAA
80953619 CAAATAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 16 0.36
30 8 0.18
31 20 0.45
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
AATATATTTAAAATTTAAAAAATTATAAAA
Found at i:80953677 original size:9 final size:9
Alignment explanation
Indices: 80953663--80953715 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
80953653 ATAATATATT
80953663 TTAAAAAAA
1 TTAAAAAAA
*
80953672 TT-AAAAAT
1 TTAAAAAAA
80953680 TTAAAAAATTA
1 TTAAAAAA--A
*
80953691 TAAAAAAAA
1 TTAAAAAAA
80953700 TTAAAAAAA
1 TTAAAAAAA
*
80953709 TTTAAAA
1 TTAAAAA
80953716 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
8 7 0.19
9 22 0.61
11 7 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:80953687 original size:10 final size:10
Alignment explanation
Indices: 80953662--80953715 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
80953652 AATAATATAT
80953662 TTTAAAAAAA
1 TTTAAAAAAA
80953672 -TT--AAAAA
1 TTTAAAAAAA
80953679 TTT-AAAAAA
1 TTTAAAAAAA
80953688 TTATAAAAAAA
1 TT-TAAAAAAA
*
80953699 ATTAAAAAAA
1 TTTAAAAAAA
80953709 TTTAAAA
1 TTTAAAA
80953716 TTTAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 5 0.13
8 2 0.05
9 9 0.24
10 15 0.39
11 7 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:80953700 original size:21 final size:20
Alignment explanation
Indices: 80953674--80953715 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
80953664 TAAAAAAATT
*
80953674 AAAAATTTAAAAAATTATAAA
1 AAAAATTAAAAAAATT-TAAA
80953695 AAAAATTAAAAAAATTTAAA
1 AAAAATTAAAAAAATTTAAA
80953715 A
1 A
80953716 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATTAAAAAAATTTAAA
Found at i:80953731 original size:17 final size:16
Alignment explanation
Indices: 80953663--80953750 Score: 59
Period size: 16 Copynumber: 5.0 Consensus size: 16
80953653 ATAATATATT
*
80953663 TTAAAAAAATTAAAAA
1 TTAAAAAAATTTAAAA
*
80953679 TTTAAAAAATTATAAAAAAAA
1 TTAAAAAAATT-T----AAAA
80953700 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
* *
80953716 TTTAAAATATTATAAAA
1 TTAAAAAAATT-TAAAA
*
80953733 CTAATAATAAATTTAAAA
1 TTAA-AA-AAATTTAAAA
80953751 GTTCATATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
16 23 0.41
17 7 0.12
18 7 0.12
19 4 0.07
20 1 0.02
21 14 0.25
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:80953812 original size:22 final size:22
Alignment explanation
Indices: 80953787--80953903 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 22
80953777 TTTTATATTA
80953787 TTAAAAAAACATATTTAAAATT
1 TTAAAAAAACATATTTAAAATT
*
80953809 TT-AAAAAATATATTT-AAA--
1 TTAAAAAAACATATTTAAAATT
*
80953827 TTAAAAATATATATATTTAAAATT
1 TTAAAAA-A-ACATATTTAAAATT
80953851 TTAAAAAATA-ATATTATAAAATATT
1 TTAAAAAA-ACATATT-T-AAA-ATT
* * *
80953876 TTAAATATACAT-TTCAAAATT
1 TTAAAAAAACATATTTAAAATT
*
80953897 TTTAAAA
1 TTAAAAA
80953904 TCAATAATAA
Statistics
Matches: 79, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 4 0.05
21 28 0.35
22 13 0.16
23 4 0.05
24 13 0.16
25 11 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAAAAACATATTTAAAATT
Found at i:80953818 original size:42 final size:42
Alignment explanation
Indices: 80953786--80953870 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
80953776 ATTTTATATT
80953786 ATTAAAAA-A-ACATATTTAAAATTTTAAAAAATATATTTAA
1 ATTAAAAATATACATATTTAAAATTTTAAAAAATATATTTAA
*
80953826 ATTAAAAATATATATATTTAAAATTTTAAAAAATAATATTATAA
1 ATTAAAAATATACATATTTAAAATTTTAAAAAAT-ATATT-TAA
80953870 A
1 A
80953871 ATATTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 8 0.20
41 1 0.03
42 22 0.55
43 5 0.12
44 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (42 bp):
ATTAAAAATATACATATTTAAAATTTTAAAAAATATATTTAA
Found at i:80953876 original size:25 final size:24
Alignment explanation
Indices: 80953797--80953904 Score: 92
Period size: 23 Copynumber: 4.8 Consensus size: 24
80953787 TTAAAAAAAC
80953797 ATATTTAAAATTTT-AAAA-A-AT
1 ATATTTAAAATTTTAAAAATATAT
80953818 ATATTT-AAA--TTAAAAATATAT
1 ATATTTAAAATTTTAAAAATATAT
80953839 ATATTTAAAATTTTAAAAA-ATA-
1 ATATTTAAAATTTTAAAAATATAT
* *
80953861 ATATTATAAAATATTT-TAAATATAC
1 ATATT-TAAAAT-TTTAAAAATATAT
* *
80953886 AT-TTCAAAATTTTTAAAAT
1 ATATTTAAAATTTTAAAAAT
80953905 CAATAATAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 4 0.05
21 14 0.19
22 11 0.15
23 21 0.29
24 15 0.21
25 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTAAAATTTTAAAAATATAT
Found at i:80953904 original size:23 final size:21
Alignment explanation
Indices: 80953799--80953904 Score: 60
Period size: 22 Copynumber: 4.9 Consensus size: 21
80953789 AAAAAAACAT
*
80953799 ATTTAAAA-TTTTAAAAAATA
1 ATTTAAAATTTTTAAAATATA
**
80953819 TATTT-AAA-TTAAAAATATATA
1 -ATTTAAAATTTTTAAA-ATATA
*
80953840 TATTTAAAA-TTTTAAAAAATAA
1 -ATTTAAAATTTTTAAAATAT-A
80953862 TATTATAAAATATTTT-AAATATA
1 -ATT-TAAAAT-TTTTAAAATATA
80953885 CATTTCAAAATTTTTAAAAT
1 -ATTT-AAAATTTTTAAAAT
80953905 CAATAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.12
21 16 0.23
22 18 0.26
23 18 0.26
24 5 0.07
25 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTAAAATTTTTAAAATATA
Found at i:80953924 original size:20 final size:22
Alignment explanation
Indices: 80953899--80953946 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
80953889 TCAAAATTTT
*
80953899 TAAAATCAAT-AATAA-ACAAA
1 TAAAATAAATAAATAAGACAAA
80953919 TAAAATAAATAAATAAGGACAAA
1 TAAAATAAATAAATAA-GACAAA
80953942 TAAAA
1 TAAAA
80953947 AAACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
23 10 0.42
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (22 bp):
TAAAATAAATAAATAAGACAAA
Found at i:80959200 original size:33 final size:35
Alignment explanation
Indices: 80959163--80959260 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
80959153 ATGGTTATAT
80959163 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
80959196 TTAAAT-TTTACAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
80959231 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
80959261 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:80959250 original size:30 final size:30
Alignment explanation
Indices: 80959211--80959267 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
80959201 TTTTACAAAT
80959211 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
80959241 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
80959268 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:80960602 original size:33 final size:35
Alignment explanation
Indices: 80960565--80960662 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
80960555 ATGGTTATAT
80960565 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
80960598 TTAAAT-TTTACAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
80960633 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
80960663 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:80960652 original size:30 final size:30
Alignment explanation
Indices: 80960613--80960669 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
80960603 TTTTACAAAT
80960613 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
80960643 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
80960670 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:80967541 original size:16 final size:16
Alignment explanation
Indices: 80967503--80967542 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
80967493 ATCAGTTAAT
80967503 TTAATAAATTAAAAATA
1 TTAA-AAATTAAAAATA
*
80967520 TATAAAAATTAAAATTA
1 T-TAAAAATTAAAAATA
80967537 TTAAAA
1 TTAAAA
80967543 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAATTAAAAATA
Found at i:80967542 original size:15 final size:16
Alignment explanation
Indices: 80967508--80967545 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
80967498 TTAATTTAAT
80967508 AAATTAAAAATATATAA
1 AAATT-AAAATATATAA
*
80967525 AAATTAAAAT-TATTA
1 AAATTAAAATATATAA
80967540 AAATTA
1 AAATTA
80967546 TTTTAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAAATATATAA
Found at i:80968958 original size:22 final size:23
Alignment explanation
Indices: 80968933--80968975 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
80968923 GTCGGAGCAA
80968933 CAACAAATAATTT-TGTAAATTT
1 CAACAAATAATTTATGTAAATTT
* *
80968955 CAACCAATCATTTATGTAAAT
1 CAACAAATAATTTATGTAAAT
80968976 AAGTATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (23 bp):
CAACAAATAATTTATGTAAATTT
Found at i:80969704 original size:61 final size:61
Alignment explanation
Indices: 80969629--80969751 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
80969619 GGAACAGAGG
*
80969629 TTTTGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGA
1 TTTTGGGACCACAAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGA
80969690 TTTTGGGACCACAAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGA
1 TTTTGGGACCACAAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGA
80969751 T
1 T
80969752 ATGATTGCAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (61 bp):
TTTTGGGACCACAAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCTATGA
Found at i:80980590 original size:23 final size:23
Alignment explanation
Indices: 80980546--80980590 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
80980536 AAAAATAGGC
*
80980546 AAAGGGAAATAAAAAGGTAGAGA
1 AAAGGGAAAAAAAAAGGTAGAGA
80980569 AAAGAGGAAAAAAAAAGG-AGAG
1 AAAG-GGAAAAAAAAAGGTAGAG
80980591 TTTCAGTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (23 bp):
AAAGGGAAAAAAAAAGGTAGAGA
Found at i:80989457 original size:22 final size:23
Alignment explanation
Indices: 80989409--80989460 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
80989399 AAGATAATCT
*
80989409 TTAATATATAATTATATCTATTA
1 TTAATTTATAATTATATCTATTA
80989432 -TAATTTATATATTA-ATCT-TTA
1 TTAATTTATA-ATTATATCTATTA
80989453 TTAATTTA
1 TTAATTTA
80989461 GCATAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTTATAATTATATCTATTA
Found at i:80990145 original size:25 final size:24
Alignment explanation
Indices: 80990105--80990161 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
80990095 CTAGTTTCTC
*
80990105 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAAGTTTATTCAATTA
* *
80990129 GTTAATTTTTCAGTTTATTGAATTA
1 -TTAATTTTTAAGTTTATTCAATTA
80990154 TTAATTTT
1 TTAATTTT
80990162 ATAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (24 bp):
TTAATTTTTAAGTTTATTCAATTA
Found at i:81001539 original size:23 final size:22
Alignment explanation
Indices: 81001503--81001546 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
81001493 AAAAATCAAC
81001503 AAAGGGAAATAAAAAGGTAAAGA
1 AAAGGGAAATAAAAAGG-AAAGA
81001526 AAAGAGGAAA-AAAAAGGAAAG
1 AAAG-GGAAATAAAAAGGAAAG
81001547 TTTCAGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (22 bp):
AAAGGGAAATAAAAAGGAAAGA
Found at i:81005170 original size:6 final size:6
Alignment explanation
Indices: 81005159--81005192 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
81005149 CAAATGAATC
81005159 ATTTCT ATTTCT ATTTCT ATTTCT ATTTCT ATTT
1 ATTTCT ATTTCT ATTTCT ATTTCT ATTTCT ATTT
81005193 TGGAAACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTCT
Found at i:81013090 original size:16 final size:16
Alignment explanation
Indices: 81013071--81013104 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
81013061 GTAATTCTTT
81013071 TTTTGGTTAATCTAAC
1 TTTTGGTTAATCTAAC
**
81013087 TTTTGGTTCCTCTAAC
1 TTTTGGTTAATCTAAC
81013103 TT
1 TT
81013105 GTCGGCTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTTGGTTAATCTAAC
Found at i:81014328 original size:65 final size:65
Alignment explanation
Indices: 81014224--81014357 Score: 241
Period size: 65 Copynumber: 2.1 Consensus size: 65
81014214 CGACTGAAAG
* *
81014224 AAATAAACATAGTTTAATTGAGAGATTATCTTTCAAATTTGACTGAAATACGTATCACACTCAAC
1 AAATAAACATAGTTTAACTGAGAGATTATCTTTCAAATTTGACTGAAATACGTAGCACACTCAAC
*
81014289 AAATAAACATAGTTTAACTGGGAGATTATCTTTCAAATTTGACTGAAATACGTAGCACACTCAAC
1 AAATAAACATAGTTTAACTGAGAGATTATCTTTCAAATTTGACTGAAATACGTAGCACACTCAAC
81014354 AAAT
1 AAAT
81014358 CTCCACCTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (65 bp):
AAATAAACATAGTTTAACTGAGAGATTATCTTTCAAATTTGACTGAAATACGTAGCACACTCAAC
Found at i:81023216 original size:42 final size:43
Alignment explanation
Indices: 81023133--81023234 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
81023123 TCCCGGACGT
* * *
81023133 GGTCTTACATGTAATTCAGTATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGTAAATCAGTATCGATGCCTATATCCCAGACAG
* * *
81023176 GGTCTTACACG-AAATCAG-ATACGATGCCTATGTCCTAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATGCCTATATCCCAGACAG
81023218 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
81023235 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATGCCTATATCCCAGACAG
Found at i:81023267 original size:44 final size:44
Alignment explanation
Indices: 81023166--81023280 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
81023156 GATGCCTCTA
* * *
81023166 TCCCAGACAGGGTCTTACACGAAA--TCAGATACGATGCCTATG
1 TCCCAGACACGGTCTTACACGAAATCTCAAATACGAGGCCTATG
* * *
81023208 TCCTAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCCTGTG
1 TCCCAGACACGGTCTTACACG-AAATCTCAAATACGAGGCCTATG
* *
81023252 TCCCAGACACAGTCTTACACGATATCTCA
1 TCCCAGACACGGTCTTACACGAAATCTCA
81023281 GATCAATGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 19 0.31
43 10 0.16
44 27 0.44
45 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
TCCCAGACACGGTCTTACACGAAATCTCAAATACGAGGCCTATG
Found at i:81030470 original size:43 final size:43
Alignment explanation
Indices: 81030422--81030523 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
81030412 TCCCGGACGT
* * * *
81030422 GGTCTTACATGTAATTTAG-TATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACACGTAAATCAGATAT-GATGCCTATGTCCCAAACAG
* *
81030465 GGTCTTACACG-AAATCAGATATGATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGATATGATGCCTATGTCCCAAACAG
81030507 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
81030524 TCAAATCAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 33 0.65
43 18 0.35
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGATATGATGCCTATGTCCCAAACAG
Found at i:81031885 original size:11 final size:11
Alignment explanation
Indices: 81031869--81031895 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
81031859 CTTCTAGACA
81031869 ATAGGGTATCT
1 ATAGGGTATCT
81031880 ATAGGGTATCT
1 ATAGGGTATCT
81031891 ATAGG
1 ATAGG
81031896 ACCTCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (11 bp):
ATAGGGTATCT
Found at i:81033807 original size:30 final size:30
Alignment explanation
Indices: 81033773--81033835 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
81033763 AATTATTTTA
*
81033773 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
*
81033803 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
81033833 TTG
1 TTG
81033836 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:81035200 original size:23 final size:23
Alignment explanation
Indices: 81035174--81035217 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
81035164 GAGGTTTTGC
81035174 AGGACTAAATTGTGAATTGAAAA
1 AGGACTAAATTGTGAATTGAAAA
81035197 AGGACTAAATTGTGAATTGAA
1 AGGACTAAATTGTGAATTGAA
81035218 CATGTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (23 bp):
AGGACTAAATTGTGAATTGAAAA
Found at i:81038095 original size:14 final size:12
Alignment explanation
Indices: 81038060--81038100 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
81038050 TATTCATGTA
81038060 AACATTTCATAT
1 AACATTTCATAT
81038072 AACATTTCATAT
1 AACATTTCATAT
*
81038084 AATTATTTTCATAT
1 AA-CA-TTTCATAT
81038098 AAC
1 AAC
81038101 TGTTTCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 14 0.56
13 1 0.04
14 10 0.40
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (12 bp):
AACATTTCATAT
Found at i:81041189 original size:18 final size:19
Alignment explanation
Indices: 81041168--81041203 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
81041158 TAAGAAACAT
81041168 GGAAAAAG-AAAAAGAAAA
1 GGAAAAAGAAAAAAGAAAA
*
81041186 GGAAGAAGAAAAAAGAAA
1 GGAAAAAGAAAAAAGAAA
81041204 TAAAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
GGAAAAAGAAAAAAGAAAA
Found at i:81054135 original size:26 final size:26
Alignment explanation
Indices: 81054106--81054188 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
81054096 ATGAAATGCC
*
81054106 TATCATGGAATATTTACCTAAATTAT
1 TATCATGGAATATTTACCTAAATCAT
* *
81054132 TATCATGAAACATTTACCT-AATCCAT
1 TATCATGGAATATTTACCTAAAT-CAT
* *
81054158 TGTCATGGAATATTTACCTAACTCAT
1 TATCATGGAATATTTACCTAAATCAT
81054184 TATCA
1 TATCA
81054189 ATTTGTACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
25 3 0.06
26 42 0.89
27 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (26 bp):
TATCATGGAATATTTACCTAAATCAT
Found at i:81057856 original size:19 final size:18
Alignment explanation
Indices: 81057832--81057870 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
81057822 AAATTAAGGA
81057832 AAATGGATTAATAGGGACC
1 AAATGGATTAATAGGG-CC
81057851 AAATGGATTAATAGGGCC
1 AAATGGATTAATAGGGCC
81057869 AA
1 AA
81057871 TAGTGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
AAATGGATTAATAGGGCC
Found at i:81066064 original size:25 final size:25
Alignment explanation
Indices: 81066036--81066085 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
81066026 TGGAAGTTAG
81066036 TTCAAATATGGTAAGTGTGATATGA
1 TTCAAATATGGTAAGTGTGATATGA
81066061 TTCAAATATGGTAAGTGTGATATGA
1 TTCAAATATGGTAAGTGTGATATGA
81066086 ATGAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (25 bp):
TTCAAATATGGTAAGTGTGATATGA
Found at i:81066544 original size:31 final size:31
Alignment explanation
Indices: 81066470--81066530 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
81066460 ACGGGCTATG
*
81066470 ACACGGCCGTGTGTCCCTATTTTGAATGCCC
1 ACACAGCCGTGTGTCCCTATTTTGAATGCCC
81066501 ACACAGCCGTGTGTCCCTATTTTGAATGCC
1 ACACAGCCGTGTGTCCCTATTTTGAATGCC
81066531 TACATGGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.30
Consensus pattern (31 bp):
ACACAGCCGTGTGTCCCTATTTTGAATGCCC
Found at i:81072153 original size:22 final size:22
Alignment explanation
Indices: 81072125--81072172 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
81072115 TATTCCTGAG
81072125 TGGAAATAAGAATGCATCACGA
1 TGGAAATAAGAATGCATCACGA
*
81072147 TGGAAATGAGAATGCATCACGA
1 TGGAAATAAGAATGCATCACGA
81072169 TGGA
1 TGGA
81072173 TTTTGTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (22 bp):
TGGAAATAAGAATGCATCACGA
Found at i:81076033 original size:3 final size:3
Alignment explanation
Indices: 81076027--81076088 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
81076017 ATCTAAGATT
* **
81076027 TTA TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
81076071 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
81076089 AGTTAAAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:81076986 original size:3 final size:3
Alignment explanation
Indices: 81076980--81077007 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
81076970 TAATAATTTA
81076980 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
81077008 TTTGTAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:81077630 original size:23 final size:25
Alignment explanation
Indices: 81077604--81077650 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
81077594 TATCATTGAT
*
81077604 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
81077627 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
81077651 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:81077971 original size:46 final size:47
Alignment explanation
Indices: 81077911--81078078 Score: 234
Period size: 46 Copynumber: 3.6 Consensus size: 47
81077901 TTTGACGTGA
* * * *
81077911 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
81077957 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * *
81078003 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
81078049 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
81078079 ACACAGGTTG
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.05
46 104 0.95
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:81078079 original size:46 final size:46
Alignment explanation
Indices: 81077911--81078129 Score: 233
Period size: 46 Copynumber: 5.0 Consensus size: 46
81077901 TTTGACGTGA
* * * * * *
81077911 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
81077957 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
81078003 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
81078049 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
81078087 TGCCATGGTATCTATCAACTAT-GTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
81078130 AGAGCACACT
Statistics
Matches: 149, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
37 5 0.03
38 25 0.17
39 4 0.03
41 1 0.01
42 1 0.01
44 4 0.03
45 7 0.05
46 102 0.68
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:81078095 original size:38 final size:37
Alignment explanation
Indices: 81078044--81078118 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
81078034 CATTTCATAT
*
81078044 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTATCAACCAT-GTCTTACACA
*
81078082 CAGGTTGCCATGGTATCTATCAACTATGTCTTACACA
1 CAGGTTGCCATGGTATCTATCAACCATGTCTTACACA
81078119 TTTCATATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (37 bp):
CAGGTTGCCATGGTATCTATCAACCATGTCTTACACA
Found at i:81085582 original size:31 final size:31
Alignment explanation
Indices: 81085544--81085603 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
81085534 GTCGAAATTT
*
81085544 AAAAAATAAATAAAT-AAATAAATAAATTACA
1 AAAAAATAAA-AAATAAAATAAAAAAATTACA
*
81085575 AAAAAATAAAAATTAAAATAAAAAAATTA
1 AAAAAATAAAAAATAAAATAAAAAAATTA
81085604 AAACAAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (31 bp):
AAAAAATAAAAAATAAAATAAAAAAATTACA
Found at i:81086646 original size:10 final size:10
Alignment explanation
Indices: 81086622--81086651 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
81086612 TTTGTATGGG
81086622 CCCGGCCCGAA
1 CCCGGCCC-AA
81086633 CCCGGCCCAA
1 CCCGGCCCAA
81086643 CCCGGCCCA
1 CCCGGCCCA
81086652 TGATCACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.17, C:0.60, G:0.23, T:0.00
Consensus pattern (10 bp):
CCCGGCCCAA
Found at i:81092485 original size:20 final size:20
Alignment explanation
Indices: 81092453--81092505 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
81092443 TGAAAAAACA
*
81092453 ATTAAAATGATTTTAACATG
1 ATTAAAATTATTTTAACATG
* * *
81092473 ATTGAAATTATTTTGACTTG
1 ATTAAAATTATTTTAACATG
81092493 ATTAAAATTATTT
1 ATTAAAATTATTT
81092506 GCAGTTGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTAAAATTATTTTAACATG
Found at i:81092513 original size:20 final size:19
Alignment explanation
Indices: 81092471--81092527 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
81092461 GATTTTAACA
*
81092471 TGATTGAAATTATTTTGACT
1 TGATTAAAATTA-TTTGACT
*
81092491 TGATTAAAATTATTTGCAGT
1 TGATTAAAATTATTTG-ACT
81092511 TGATCTTAAAATTATTT
1 TGA--TTAAAATTATTT
81092528 CAAAGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.12
20 16 0.50
22 12 0.38
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (19 bp):
TGATTAAAATTATTTGACT
Found at i:81093729 original size:16 final size:17
Alignment explanation
Indices: 81093698--81093730 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
81093688 TTTAGACAAT
81093698 TTATAAAACTTTTATATA
1 TTATAAAAC-TTTATATA
81093716 TTATAAAA-TTTATAT
1 TTATAAAACTTTATAT
81093731 TATTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATAAAACTTTATATA
Found at i:81097137 original size:17 final size:16
Alignment explanation
Indices: 81097097--81097129 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
81097087 TAAGAGGATA
81097097 AGGTT-AGGTTTTGTT
1 AGGTTAAGGTTTTGTT
81097112 AGGTTAAGGTTTT-TT
1 AGGTTAAGGTTTTGTT
81097127 AGG
1 AGG
81097130 GTTTAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (16 bp):
AGGTTAAGGTTTTGTT
Found at i:81097170 original size:20 final size:19
Alignment explanation
Indices: 81097145--81097198 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
81097135 AGGACTAGAG
*
81097145 TTTTTTATACTTTTTA-AATT
1 TTTTTTATA-TTTTTAGAA-A
81097165 TTTTTTATATTCTTTAGAAA
1 TTTTTTATATT-TTTAGAAA
81097185 TTTTTTATATTTTT
1 TTTTTTATATTTTT
81097199 TTTAGTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 5 0.16
20 24 0.77
21 2 0.06
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTATATTTTTAGAAA
Found at i:81097203 original size:22 final size:22
Alignment explanation
Indices: 81097160--81097203 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
81097150 TATACTTTTT
*
81097160 AAATTTTTTTTATATTCTTTAG
1 AAATTTTTTATATATTCTTTAG
* *
81097182 AAATTTTTTATATTTTTTTTAG
1 AAATTTTTTATATATTCTTTAG
81097204 TTATAAAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
AAATTTTTTATATATTCTTTAG
Found at i:81108450 original size:13 final size:13
Alignment explanation
Indices: 81108432--81108466 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
81108422 ATTATTAAAT
*
81108432 ATTTATAAACAAA
1 ATTTATAAAAAAA
81108445 ATTTATAAAAAAA
1 ATTTATAAAAAAA
*
81108458 AGTTATAAA
1 ATTTATAAA
81108467 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (13 bp):
ATTTATAAAAAAA
Found at i:81108489 original size:22 final size:23
Alignment explanation
Indices: 81108446--81108489 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
81108436 ATAAACAAAA
*
81108446 TTTATAAAAAAAAGTTATAAATTT
1 TTTATAAAAAAAAG-TAAAAATTT
*
81108470 TTTATTAAAAAAA-TAAAAAT
1 TTTATAAAAAAAAGTAAAAAT
81108490 ACCATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
24 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTATAAAAAAAAGTAAAAATTT
Found at i:81116949 original size:19 final size:19
Alignment explanation
Indices: 81116927--81116964 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
81116917 TCACTATCAC
81116927 CCACCACAATCAAATTTGT
1 CCACCACAATCAAATTTGT
*
81116946 CCACCATAATCAAATTTGT
1 CCACCACAATCAAATTTGT
81116965 TATTAACTTC
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:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CCACCACAATCAAATTTGT
Found at i:81121246 original size:29 final size:30
Alignment explanation
Indices: 81121211--81121288 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
81121201 AGTGTTGGAA
* * *
81121211 AGAAAATGAGAGAAGAAAAA-TATGTTGGG
1 AGAAAATGAGAGAAGAAAAAGGATGCTAGG
*
81121240 AGAAAATGGGAGAAGAAAAAGGATGCTAGG
1 AGAAAATGAGAGAAGAAAAAGGATGCTAGG
*
81121270 AGAAATTGAGAGAAGAAAA
1 AGAAAATGAGAGAAGAAAA
81121289 TTTCCTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.54, C:0.01, G:0.32, T:0.13
Consensus pattern (30 bp):
AGAAAATGAGAGAAGAAAAAGGATGCTAGG
Found at i:81121379 original size:13 final size:13
Alignment explanation
Indices: 81121361--81121385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81121351 AATTGTGTAA
81121361 TATTCAAAACTAT
1 TATTCAAAACTAT
81121374 TATTCAAAACTA
1 TATTCAAAACTA
81121386 ACAATTAACT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TATTCAAAACTAT
Found at i:81121997 original size:15 final size:15
Alignment explanation
Indices: 81121974--81122009 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
81121964 ATTTTATCAT
*
81121974 TCAAATTCATTTAGA
1 TCAATTTCATTTAGA
81121989 TCAATTTCATTTAGA
1 TCAATTTCATTTAGA
81122004 TCAATT
1 TCAATT
81122010 CTTTCAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (15 bp):
TCAATTTCATTTAGA
Found at i:81123970 original size:37 final size:37
Alignment explanation
Indices: 81123921--81123993 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
81123911 CGAAAGAAAG
*
81123921 AAGAAAAAATAACACCACTAGAGAGAAGAGCAAGGTA
1 AAGAAAAAATAACACCACTAAAGAGAAGAGCAAGGTA
* *
81123958 AAGAAAAAATAACCCCACTAAAGAGAATAGCAAGGT
1 AAGAAAAAATAACACCACTAAAGAGAAGAGCAAGGT
81123994 TTGATACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (37 bp):
AAGAAAAAATAACACCACTAAAGAGAAGAGCAAGGTA
Found at i:81124617 original size:13 final size:15
Alignment explanation
Indices: 81124597--81124635 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
81124587 AAAACTCGAA
81124597 TGTTAATTATTTAA-
1 TGTTAATTATTTAAT
*
81124611 T-TTAATTAGTTAAT
1 TGTTAATTATTTAAT
81124625 TGTTAATTATT
1 TGTTAATTATT
81124636 ATTTAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 11 0.52
14 2 0.10
15 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
TGTTAATTATTTAAT
Found at i:81124810 original size:21 final size:20
Alignment explanation
Indices: 81124764--81124812 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
81124754 TGAAGTGAAG
*
81124764 GTGATATTGAATAATGAAAT
1 GTGATATTGAATAATAAAAT
*
81124784 GCGATATTGAATTTAA-AAAAT
1 GTGATATTGAA--TAATAAAAT
81124805 GTGATATT
1 GTGATATT
81124813 ATGGACTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 11 0.46
22 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (20 bp):
GTGATATTGAATAATAAAAT
Found at i:81129421 original size:5 final size:5
Alignment explanation
Indices: 81129411--81129442 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
81129401 GACAGTGTGA
81129411 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
81129443 GAACATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:81129436 original size:9 final size:9
Alignment explanation
Indices: 81129412--81129452 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
81129402 ACAGTGTGAA
81129412 AAATAAAAT
1 AAATAAAAT
81129421 AAAATAAAAT
1 -AAATAAAAT
81129431 AAATAAAAT
1 AAATAAAAT
* *
81129440 AAAGAACAT
1 AAATAAAAT
81129449 AAAT
1 AAAT
81129453 TTTACGTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:81129451 original size:14 final size:14
Alignment explanation
Indices: 81129411--81129442 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
81129401 GACAGTGTGA
81129411 AAAATAAAATAAAAT
1 AAAAT-AAATAAAAT
81129426 AAAATAAATAAAAT
1 AAAATAAATAAAAT
81129440 AAA
1 AAA
81129443 GAACATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:81133838 original size:10 final size:9
Alignment explanation
Indices: 81133821--81133851 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
81133811 AATTTGTGAA
81133821 AAATAAAAT
1 AAATAAAAT
81133830 AACATAAAAT
1 AA-ATAAAAT
81133840 AAATAAAAT
1 AAATAAAAT
81133849 AAA
1 AAA
81133852 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:81138571 original size:67 final size:67
Alignment explanation
Indices: 81138463--81138599 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
81138453 CCAAAGTTTT
* *
81138463 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGAGAGTTGAGTAGCTATTGTGAT
1 AGAAGCATGGATGATTTCTAGTTATCGCTGCGACTTCAGTGTGAGAGTTGAGTAGCTATTGTGAT
81138528 GA
66 GA
*
81138530 AGAAGCATGGATGATTTCTAGTTATCGCTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
1 AGAAGCATGGATGATTTCTAGTTATCGCTGCGACTTCAGTGTGAGAGTTGAGTAGCTATTGTGAT
81138595 GA
66 GA
81138597 AGA
1 AGA
81138600 TGCCGGAAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (67 bp):
AGAAGCATGGATGATTTCTAGTTATCGCTGCGACTTCAGTGTGAGAGTTGAGTAGCTATTGTGAT
GA
Found at i:81140975 original size:30 final size:30
Alignment explanation
Indices: 81140939--81141003 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
81140929 ATGGACGTTC
*
81140939 GCATGCTGCTACTAT-GTTGCTTGGTCACTT
1 GCATGCTGCTAC-ATGGTGGCTTGGTCACTT
* *
81140969 GCATGCTGCTGCATGGTGGTTTGGTCACTT
1 GCATGCTGCTACATGGTGGCTTGGTCACTT
81140999 GCATG
1 GCATG
81141004 TGTTAGGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.12, C:0.22, G:0.29, T:0.37
Consensus pattern (30 bp):
GCATGCTGCTACATGGTGGCTTGGTCACTT
Found at i:81143437 original size:45 final size:45
Alignment explanation
Indices: 81143373--81143463 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
81143363 ATGCTATTGC
81143373 ATTGTGGTCACCTTTCAACACTCTTCATTGGCTACAAAGCATCAG
1 ATTGTGGTCACCTTTCAACACTCTTCATTGGCTACAAAGCATCAG
81143418 ATTGTGGTCACCTTTCAACACTCTTCATTGGCTACAAAGCATCAG
1 ATTGTGGTCACCTTTCAACACTCTTCATTGGCTACAAAGCATCAG
81143463 A
1 A
81143464 CTCTAATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (45 bp):
ATTGTGGTCACCTTTCAACACTCTTCATTGGCTACAAAGCATCAG
Found at i:81147590 original size:47 final size:45
Alignment explanation
Indices: 81147489--81147798 Score: 274
Period size: 47 Copynumber: 6.7 Consensus size: 45
81147479 TACGCGTGCT
* * **
81147489 GATGCATGTCCCAGACATGTCTTACACTAGCACAAATCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCC
* * *
81147533 GATGCGTGTCCCAAACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCC
81147580 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT--GCC
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGGCC
* *
81147626 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCC
* ** *
81147674 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTAG-GCC
* * *
81147720 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGCC
*
81147768 GAAGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
81147799 GCACAAATCA
Statistics
Matches: 221, Mismatches: 26, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.02
44 28 0.13
45 6 0.03
46 44 0.20
47 87 0.39
48 39 0.18
49 5 0.02
50 8 0.04
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCC
Found at i:81147694 original size:94 final size:93
Alignment explanation
Indices: 81147435--81147795 Score: 410
Period size: 94 Copynumber: 3.9 Consensus size: 93
81147425 TGGGCTATAT
* * * * *
81147435 TGCCGATGCCATGTCCTAGACATGGTCTTACACTTGCTCTCATA-TACGCGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTC
**
81147499 CCAGACATGTCTTACACTAGCACAAATCTT-
63 CCAGACATGTCTTACACTAGCACTCATCTTG
* * * * *
81147529 AGCCGATG-CGTGTCCCAAACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGTC
*
81147590 CCAGACATGTCTTACACTGGCACTCATCTCTG
63 CCAGACATGTCTTACACTAGCACTCATCT-TG
*
81147622 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
* * *
81147687 GACATGTCTTACACTAGCCCTCGTCTGGG
66 GACATGTCTTACACTAGCACTCATCT-TG
* * * * *
81147716 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
81147781 GACATGTCTTACACT
66 GACATGTCTTACACT
81147796 GGCGCACAAA
Statistics
Matches: 228, Mismatches: 29, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
91 39 0.17
92 17 0.07
93 19 0.08
94 132 0.58
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTTG
Found at i:81147696 original size:141 final size:137
Alignment explanation
Indices: 81147435--81147808 Score: 398
Period size: 141 Copynumber: 2.7 Consensus size: 137
81147425 TGGGCTATAT
* * * *
81147435 TGCCGATGCCATGTCCTAGACATGGTCTTACACTTGCTCTCATATACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-T-C-TGTGCCGATGCATGTCC
* * * *
81147500 CAGACATGTCTTACACTAGCACAAATCTTAGCCGATGCGTGTCCCAAACACGTCTTACACTGGCT
63 CAGACATGTCTTACACTGGCACAAATCATAGCCGATGCATGTCCCAAACACGTCTTACACTAGC-
*
81147565 ATCTCTGTC-GAG
127 -CCTC-GTCTGAG
*
81147577 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGTGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TCTGTGCCGATG-CATGTCCC
* * * * *
81147639 AGACATGGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCCCAGACATGTCTTACACTA
64 AGACAT-GTCTTACACTGGC-A-CA-AATCATAGCCGATGCATGTCCCAAACACGTCTTACACTA
*
81147703 GCCCTCGTCTGGG
125 GCCCTCGTCTGAG
* ** *
81147716 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTCTGT-GCCGATGCATGTCCCA
81147781 GACATGTCTTACACTGGCGCACAAATCA
65 GACATGTCTTACACT-G-GCACAAATCA
81147809 CCTAATGCCC
Statistics
Matches: 196, Mismatches: 23, Indels: 28
0.79 0.09 0.11
Matches are distributed among these distances:
137 8 0.04
138 18 0.09
139 37 0.19
140 34 0.17
141 72 0.37
142 27 0.14
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (137 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTCTGTGCCGATGCATGTCCCAG
ACATGTCTTACACTGGCACAAATCATAGCCGATGCATGTCCCAAACACGTCTTACACTAGCCCTC
GTCTGAG
Found at i:81150690 original size:30 final size:30
Alignment explanation
Indices: 81150650--81150729 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
81150640 ATGGACATTC
* *
81150650 GCATGTTGCTGC-TGTGTTGCTTGGTCACTT
1 GCATGCTGCTGCATG-GTGGCTTGGTCACTT
81150680 GCATGCTGCTGCATGGTGGCTTGGTCACTT
1 GCATGCTGCTGCATGGTGGCTTGGTCACTT
* *
81150710 GCATGCTGCTACATTGTGGC
1 GCATGCTGCTGCATGGTGGC
81150730 CACCTTTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.10, C:0.23, G:0.31, T:0.36
Consensus pattern (30 bp):
GCATGCTGCTGCATGGTGGCTTGGTCACTT
Found at i:81150752 original size:2 final size:2
Alignment explanation
Indices: 81150745--81150774 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
81150735 TTCAACACCC
81150745 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
81150775 TTGTGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:81151925 original size:25 final size:24
Alignment explanation
Indices: 81151897--81152026 Score: 90
Period size: 23 Copynumber: 5.1 Consensus size: 24
81151887 TATAAAATTT
81151897 AAATTTATTATTATATATTTTTTGA
1 AAATTTATTATT-TATATTTTTTGA
* *
81151922 AAATATATTTTTTA-ATATTTTT-A
1 AAATTTATTATTTATAT-TTTTTGA
*
81151945 AAATTTATATATTTCTATTTTTTGTCAA
1 AAATTTAT-TATTTATATTTTTTG---A
81151973 AAATATTATTTTTATTTATATATATTTT--
1 AAAT-TTA---TTATTTATAT-T-TTTTGA
81152001 AAATTTATTA-TTATATTTTTTGA
1 AAATTTATTATTTATATTTTTTGA
81152024 AAA
1 AAA
81152027 ATAGTTATGT
Statistics
Matches: 84, Mismatches: 6, Indels: 32
0.69 0.05 0.26
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 19 0.23
24 19 0.23
25 12 0.14
27 3 0.04
28 9 0.11
29 3 0.04
31 8 0.10
32 2 0.02
33 4 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATTTATTATTTATATTTTTTGA
Found at i:81153777 original size:29 final size:31
Alignment explanation
Indices: 81153722--81153794 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
81153712 TGTCTAACTG
*
81153722 AAATTTT-TAAAAATTTTGAAAGATTTAATGA
1 AAATTTTAAAAAAATTTTG-AAGATTTAATGA
* *
81153753 GAATTTTAAAAAAATTTTG-A-ATTTAATTA
1 AAATTTTAAAAAAATTTTGAAGATTTAATGA
*
81153782 AAATTTTCAAAAA
1 AAATTTTAAAAAA
81153795 CTTTAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 19 0.53
30 1 0.03
31 6 0.17
32 10 0.28
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (31 bp):
AAATTTTAAAAAAATTTTGAAGATTTAATGA
Found at i:81156522 original size:23 final size:23
Alignment explanation
Indices: 81156492--81156549 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
81156482 CAAAATAATG
*
81156492 AAATTATAATTTAATACATGATA
1 AAATTATAATTTAATACATGAAA
* **
81156515 AAATTATATTTTAATTTATGAAA
1 AAATTATAATTTAATACATGAAA
81156538 AAATATATAATT
1 AAAT-TATAATT
81156550 AAATTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
AAATTATAATTTAATACATGAAA
Found at i:81158670 original size:51 final size:51
Alignment explanation
Indices: 81158611--81158708 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
81158601 TTAAATATGG
*
81158611 TATTAATATATTTTATGCTTACTTAAAATTGGTTCGAAATATGAGCAATGA
1 TATTAATATACTTTATGCTTACTTAAAATTGGTTCGAAATATGAGCAATGA
*
81158662 TATTAATATACTTTATGCTTACTTAAATTTGGTTCGAAATATGAGCA
1 TATTAATATACTTTATGCTTACTTAAAATTGGTTCGAAATATGAGCA
81158709 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (51 bp):
TATTAATATACTTTATGCTTACTTAAAATTGGTTCGAAATATGAGCAATGA
Found at i:81158830 original size:19 final size:20
Alignment explanation
Indices: 81158790--81158832 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
81158780 TTCTTTGAAT
*
81158790 TTTTTAAAATATTTATATTA
1 TTTTTAAAATATTTACATTA
81158810 TTTTTAATAAT-TTTACA-TA
1 TTTTTAA-AATATTTACATTA
81158829 TTTT
1 TTTT
81158833 CATTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 12 0.57
21 3 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAAAATATTTACATTA
Found at i:81167699 original size:64 final size:64
Alignment explanation
Indices: 81167623--81167751 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
81167613 AATAAAAACT
*
81167623 AAATTCCTTCTAAATGACAGTACAATAAAAGCATCTTTTAAATCAAAATAAAAATCAATTCCTA
1 AAATTCCATCTAAATGACAGTACAATAAAAGCATCTTTTAAATCAAAATAAAAATCAATTCCTA
*
81167687 AAATTCCATCTAAATGACAGTACAATAAAAGCGTCTTTTAAATCAAAATAAAAATCAATTCCTA
1 AAATTCCATCTAAATGACAGTACAATAAAAGCATCTTTTAAATCAAAATAAAAATCAATTCCTA
81167751 A
1 A
81167752 TAACAACCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (64 bp):
AAATTCCATCTAAATGACAGTACAATAAAAGCATCTTTTAAATCAAAATAAAAATCAATTCCTA
Found at i:81169682 original size:30 final size:30
Alignment explanation
Indices: 81169648--81169706 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
81169638 TATTTTATTA
81169648 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
*
81169678 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATTATTTTAAAGGCATTT
81169707 TCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:81173648 original size:31 final size:31
Alignment explanation
Indices: 81173603--81173680 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
81173593 TCAATCAATA
* * *
81173603 CACATTTCAATTCAATA-ATCCATACAAATT
1 CACAATTCAATTCAATATATCCACACAAACT
* *
81173633 CACAATTCCAATTCAA-ATATTCACACATACT
1 CACAATT-CAATTCAATATATCCACACAAACT
81173664 CACAATTCAATTCAATA
1 CACAATTCAATTCAATA
81173681 CCACAATATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (31 bp):
CACAATTCAATTCAATATATCCACACAAACT
Found at i:81174344 original size:18 final size:18
Alignment explanation
Indices: 81174321--81174365 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
81174311 AAAACCCTAA
* *
81174321 TTTTCTTTTTTTTCTTTC
1 TTTTCTTCTTTTTCTTCC
81174339 TTTTC-TCTTTTTCTTCC
1 TTTTCTTCTTTTTCTTCC
81174356 TTGTTCTTCT
1 TT-TTCTTCT
81174366 CTGTTTCGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTCTTCTTTTTCTTCC
Found at i:81174388 original size:22 final size:20
Alignment explanation
Indices: 81174362--81174406 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
81174352 TTCCTTGTTC
*
81174362 TTCTCTGTTTCGTCTCTTTACT
1 TTCTCTGTTTC-TATCTTTA-T
*
81174384 TTCTCTTTTTCTATCTTTAT
1 TTCTCTGTTTCTATCTTTAT
81174404 TTC
1 TTC
81174407 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.07, C:0.24, G:0.04, T:0.64
Consensus pattern (20 bp):
TTCTCTGTTTCTATCTTTAT
Found at i:81174402 original size:21 final size:20
Alignment explanation
Indices: 81174324--81174406 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
81174314 ACCCTAATTT
*
81174324 TCTTTTTTTTCTTT-CTTTTC
1 TCTTTTTCTTCTTTAC-TTTC
*
81174344 TCTTTTTCTTCCTTGTTC-TTC
1 TCTTTTTCTT-CTT-TACTTTC
*
81174365 TCTGTTTCGTCTCTTTACTTTC
1 TCTTTTTC-T-TCTTTACTTTC
81174387 TCTTTTTCTATCTTTA-TTTC
1 TCTTTTTCT-TCTTTACTTTC
81174407 ATTTATTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
20 13 0.25
21 22 0.42
22 15 0.29
23 2 0.04
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.69
Consensus pattern (20 bp):
TCTTTTTCTTCTTTACTTTC
Found at i:81180198 original size:19 final size:19
Alignment explanation
Indices: 81180174--81180218 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
81180164 GTTCAGCCTT
*
81180174 CACTTGTTGACACACAAGG
1 CACTTGCTGACACACAAGG
81180193 CACTTGCTGACACACAAGG
1 CACTTGCTGACACACAAGG
81180212 CACTTGC
1 CACTTGC
81180219 AAATGAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (19 bp):
CACTTGCTGACACACAAGG
Found at i:81188775 original size:12 final size:12
Alignment explanation
Indices: 81188747--81188781 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
81188737 TAGCTATAAT
81188747 CATGAAA-ATTA
1 CATGAAACATTA
81188758 CATGAAACATTA
1 CATGAAACATTA
*
81188770 CTTGAAACATTA
1 CATGAAACATTA
81188782 AAATTTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (12 bp):
CATGAAACATTA
Found at i:81193884 original size:22 final size:22
Alignment explanation
Indices: 81193859--81193901 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
81193849 TCTCCCTATT
81193859 TTGCTACTATTTTATTATTATG
1 TTGCTACTATTTTATTATTATG
*
81193881 TTGCTACTATTTTATTGTTAT
1 TTGCTACTATTTTATTATTAT
81193902 TGTTTGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTACTATTTTATTATTATG
Found at i:81193967 original size:30 final size:30
Alignment explanation
Indices: 81193931--81193993 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
81193921 ACTTATTTTA
*
81193931 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTAATATTTTAAAGGCAT
* *
81193961 TTGTTAATTTTTTTAATATTTTAGAGGCAT
1 TTGTTAATTTTATTAATATTTTAAAGGCAT
81193991 TTG
1 TTG
81193994 CTTGTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTAATATTTTAAAGGCAT
Found at i:81194903 original size:42 final size:42
Alignment explanation
Indices: 81194851--81194944 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
81194841 TGTCCCCACC
81194851 AACTCACTGAGATGCC-CCGCACGCCTATGTG-TCAGGCCGTGT
1 AACTCACTGAGATGCCACC-CACGCCTATGTGCT-AGGCCGTGT
* * * * *
81194893 AACTCTCTGAGTTGCCACCCATGTCTGTGTGCTAGGCCGTGT
1 AACTCACTGAGATGCCACCCACGCCTATGTGCTAGGCCGTGT
81194935 AACTCACTGA
1 AACTCACTGA
81194945 CTTGAAATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (42 bp):
AACTCACTGAGATGCCACCCACGCCTATGTGCTAGGCCGTGT
Found at i:81196599 original size:23 final size:21
Alignment explanation
Indices: 81196556--81196600 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
81196546 CACACTTATA
*
81196556 TGGAAGGGCAACACGCCTGTG
1 TGGAAGGGCAACACACCTGTG
81196577 TGGAAGGGCAACACACCTGTG
1 TGGAAGGGCAACACACCTGTG
81196598 TGG
1 TGG
81196601 CCATTATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.38, T:0.16
Consensus pattern (21 bp):
TGGAAGGGCAACACACCTGTG
Found at i:81197849 original size:47 final size:48
Alignment explanation
Indices: 81197777--81198045 Score: 245
Period size: 47 Copynumber: 5.7 Consensus size: 48
81197767 TAAGATGCCA
*
81197777 ATGCCATGTCCCAGACATGGCCTTACACTGGCTCAT-TCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCATCAAGTCG
* * ** *
81197824 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCTGTGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTC--ATC-AAGTCG
* * * *
81197874 ATGTCATGTCCCAGACATGGTCTTACACTGACACATCTCAT--AGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCATCAAGTCG
* * * * *
81197920 ATG-TATGTCCCAGACAT-GTCTTACACTGGCTTATGTCA-CGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCATCAAGTC-G
* *
81197966 ATG-CATGTCCCAGACAT-GTCTTACATTGCCTC-TCGTC-TCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TCATCAA-GTCG
*
81198012 TTGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
81198046 TCATAATATG
Statistics
Matches: 179, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 17 0.09
45 17 0.09
46 42 0.23
47 49 0.27
48 13 0.07
49 5 0.03
50 33 0.18
51 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCATCAAGTCG
Found at i:81197928 original size:50 final size:50
Alignment explanation
Indices: 81197823--81197946 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
81197813 TCATCAAGTC
* * * *
81197823 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGTT
1 GATGTCATGTCCCAGACATGGTCTTACACTAGCACTCACATAGCCGTGTT
*
81197873 GATGTCATGTCCCAGACATGGTCTTACACT-GACACATCTCATAGCC-----
1 GATGTCATGTCCCAGACATGGTCTTACACTAG-CAC-TCACATAGCCGTGTT
81197919 GATGT-ATGTCCCAGACAT-GTCTTACACT
1 GATGTCATGTCCCAGACATGGTCTTACACT
81197947 GGCTTATGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 10 0.15
45 13 0.19
46 5 0.07
49 1 0.01
50 31 0.46
51 7 0.10
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (50 bp):
GATGTCATGTCCCAGACATGGTCTTACACTAGCACTCACATAGCCGTGTT
Found at i:81198064 original size:94 final size:94
Alignment explanation
Indices: 81197773--81198087 Score: 260
Period size: 94 Copynumber: 3.4 Consensus size: 94
81197763 GAGATAAGAT
*
81197773 GCCAATGCCATGTCCCAGACATGGCCTTACACTGGCTCAT-TCATCAA-GTCGATGCCATGTCCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACACT-GCTC-TCTC-TCAATGTCGATGCCATGTCCC
* * *
81197836 AGACATGGTCTTACACTAGCTCTCACATATCTG
63 AGACATGGTCTTACACTGGCTCTCATA-ATATG
*** * * * * *
81197869 TGTTGATGTCATGTCCCAGACATGGTCTTACACTGACAC-ATCTC-ATAGCCGATG-TATGTCCC
1 -GCCAATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCTCTCAAT-GTCGATGCCATGTCCC
* *
81197931 AGACAT-GTCTTACACTGGCT-T-AT-GTCACGAG
63 AGACATGGTCTTACACTGGCTCTCATAAT-A--TG
** * *
81197962 GCTGATG-CATGTCCCAGACAT-GTCTTACATTGCCTCTCGTCTCAATGTCGTTGCCATGTCCCA
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-TCTCAATGTCGATGCCATGTCCCA
81198025 GACATGGTCTTACACTGGCTCTCATAATATG
64 GACATGGTCTTACACTGGCTCTCATAATATG
*
81198056 GCCAATG-CATGTTCCAGACAT-GTCTTACACTG
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTG
81198088 GCACACAAAT
Statistics
Matches: 176, Mismatches: 27, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
90 13 0.07
91 14 0.08
92 16 0.09
93 17 0.10
94 57 0.32
95 16 0.09
96 12 0.07
97 31 0.18
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACACTGCTCTCTCTCAATGTCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTCATAATATG
Found at i:81198067 original size:47 final size:46
Alignment explanation
Indices: 81197771--81198089 Score: 203
Period size: 47 Copynumber: 6.8 Consensus size: 46
81197761 ATGAGATAAG
* *
81197771 ATGCCAATGCCATGTCCCAGACATGGCCTTACACTGGCTCATTCATCA-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--TCAT-AT
* *
81197819 A-GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATA--T
* ** * * *
81197868 GTGTTGATGTCATGTCCCAGACATGGTCTTACACTGACACATC-TCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT-AT
* *
81197915 A-GCCGATG-TATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-A-T
* * * * * *
81197960 AGGCTGATG-CATGTCCCAGACAT-GTCTTACATTGCCTCTCGTCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT
* *
81198004 CAATGTCGTTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
1 --ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AT
* *
81198053 ATGGCCAATG-CATGTTCCAGACAT-GTCTTACACTGGC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
81198090 ACACAAATAG
Statistics
Matches: 214, Mismatches: 36, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
44 15 0.07
45 15 0.07
46 56 0.26
47 68 0.32
48 22 0.10
49 3 0.01
50 33 0.15
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT
Found at i:81199607 original size:21 final size:21
Alignment explanation
Indices: 81199583--81199648 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
81199573 AGCTAAACAA
81199583 AAACCCAGTAAGGTTAGACTG
1 AAACCCAGTAAGGTTAGACTG
*
81199604 AAACTC-GTAAGAGTTTA-ACTG
1 AAACCCAGTAAG-G-TTAGACTG
* *
81199625 AAACCCATTAGGGTTAG-CTG
1 AAACCCAGTAAGGTTAGACTG
81199645 AAAC
1 AAAC
81199649 TCATATGAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 15 0.41
21 16 0.43
22 6 0.16
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (21 bp):
AAACCCAGTAAGGTTAGACTG
Found at i:81199659 original size:41 final size:41
Alignment explanation
Indices: 81199535--81199666 Score: 117
Period size: 42 Copynumber: 3.2 Consensus size: 41
81199525 ACATAAGTTC
* * *
81199535 TAACGGAAACCC-GTAAGGGTT-GAACAGAAGCTCATAAGAGCT
1 TAACTGAAACCCAGTAA-GGTTAG-ACTGAAACTCATAAGAG-T
* ** *
81199577 AAACAAAAACCCAGTAAGGTTAGACTGAAACTCGTAAGAGTT
1 TAACTGAAACCCAGTAAGGTTAGACTGAAACTCATAAGAG-T
* * *
81199619 TAACTGAAACCCATTAGGGTTAG-CTGAAACTCATATGAGT
1 TAACTGAAACCCAGTAAGGTTAGACTGAAACTCATAAGAGT
81199659 TAACTGAA
1 TAACTGAA
81199667 GCTCATGTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
40 9 0.12
41 14 0.19
42 46 0.62
43 5 0.07
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (41 bp):
TAACTGAAACCCAGTAAGGTTAGACTGAAACTCATAAGAGT
Found at i:81199660 original size:20 final size:20
Alignment explanation
Indices: 81199595--81199677 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
81199585 ACCCAGTAAG
* *
81199595 GTTAGACTGAAACTCGTAAGA
1 GTTA-ACTGAAACTCATATGA
* *
81199616 GTTTAACTGAAACCCAT-TAGG
1 G-TTAACTGAAACTCATAT-GA
*
81199637 GTTAGCTGAAACTCATATGA
1 GTTAACTGAAACTCATATGA
* *
81199657 GTTAACTGAAGCTCATGTGA
1 GTTAACTGAAACTCATATGA
81199677 G
1 G
81199678 CTAAACGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 32 0.65
21 14 0.29
22 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (20 bp):
GTTAACTGAAACTCATATGA
Found at i:81203990 original size:38 final size:38
Alignment explanation
Indices: 81203934--81204018 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
81203924 GGCACGAAGG
* * * * *
81203934 CCCGAATATAATACCAGCACTAGGCCTTCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
81203972 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
81204010 CCCGGATAT
1 CCCGGATAT
81204019 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:81208521 original size:20 final size:20
Alignment explanation
Indices: 81208496--81208546 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
81208486 TAGTTGGTCC
81208496 TAAACTCATCTTCCTACCAT
1 TAAACTCATCTTCCTACCAT
81208516 TAAACTCATCTTCCTACCAT
1 TAAACTCATCTTCCTACCAT
* *
81208536 CATACTCATCT
1 TAAACTCATCT
81208547 GCCTCAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAACTCATCTTCCTACCAT
Found at i:81208652 original size:33 final size:32
Alignment explanation
Indices: 81208569--81208727 Score: 147
Period size: 33 Copynumber: 4.8 Consensus size: 32
81208559 GTAGCAGTCA
* * * *
81208569 CACCCTCCCTATCAGCTTTTACCCCTTCAACGT
1 CACCCTCCCCATCAGCTTCTACCCTTTC-ACAT
* * * *
81208602 CGCCCTGCCCAACAGCTTGTACCCTTTCTACAT
1 CACCCTCCCCATCAGCTTCTACCCTTTC-ACAT
* * * *
81208635 CATCCTCCCCATTAGCTTCTCCCCCTTCAGCAT
1 CACCCTCCCCATCAGCTTCTACCCTTTCA-CAT
* *
81208668 CACCCTCTCCATCAGCTTGTACCCTTTCAACAT
1 CACCCTCCCCATCAGCTTCTACCCTTTC-ACAT
81208701 CACCCTCCCCATCAGCTTCTACTCCTT
1 CACCCTCCCCATCAGCTTCTAC-CCTT
81208728 CGAAATCACT
Statistics
Matches: 99, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
32 1 0.01
33 93 0.94
34 5 0.05
ACGTcount: A:0.18, C:0.46, G:0.07, T:0.30
Consensus pattern (32 bp):
CACCCTCCCCATCAGCTTCTACCCTTTCACAT
Found at i:81208661 original size:66 final size:66
Alignment explanation
Indices: 81208569--81208744 Score: 212
Period size: 66 Copynumber: 2.7 Consensus size: 66
81208559 GTAGCAGTCA
* * * * *
81208569 CACCCTCCCTATCAGCTTTTACCCCTTCAACGTCGCCCTGC-CCAACAGCTTGTACCCTTTCTAC
1 CACCCTCCCCATCAGCTTCTACCCCTTCAACATCACCCT-CTCCAACAGCTTGTACCCTTTCAAC
81208633 AT
65 AT
* * * * *
81208635 CATCCTCCCCATTAGCTTCTCCCCCTTCAGCATCACCCTCTCCATCAGCTTGTACCCTTTCAACA
1 CACCCTCCCCATCAGCTTCTACCCCTTCAACATCACCCTCTCCAACAGCTTGTACCCTTTCAACA
81208700 T
66 T
* *
81208701 CACCCTCCCCATCAGCTTCTACTCCTTCGAA-ATCACTCTCTCCA
1 CACCCTCCCCATCAGCTTCTACCCCTTC-AACATCACCCTCTCCA
81208745 GCATTCAATA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
65 1 0.01
66 90 0.98
67 1 0.01
ACGTcount: A:0.19, C:0.45, G:0.07, T:0.29
Consensus pattern (66 bp):
CACCCTCCCCATCAGCTTCTACCCCTTCAACATCACCCTCTCCAACAGCTTGTACCCTTTCAACA
T
Found at i:81208795 original size:42 final size:42
Alignment explanation
Indices: 81208725--81208806 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
81208715 GCTTCTACTC
* * * *
81208725 CTTCGAAATCACTCTCTCCAGCATTCAATAGTAACATATCAT
1 CTTCAAAATCACTCTCCCCAACAATCAATAGTAACATATCAT
81208767 CTTCAAAATCACTCTCCCCAACAATCAATAGTAACATATC
1 CTTCAAAATCACTCTCCCCAACAATCAATAGTAACATATC
81208807 TCCCTCATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (42 bp):
CTTCAAAATCACTCTCCCCAACAATCAATAGTAACATATCAT
Found at i:81209740 original size:34 final size:31
Alignment explanation
Indices: 81209696--81209771 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 31
81209686 ATTGTAAGAG
*
81209696 TTTTAAGGATTCAACGACGATTGGGAATTATAGT
1 TTTTAGGGATTC-ACGA--ATTGGGAATTATAGT
* *
81209730 TTTTAGGGATTTCACGATTTGGGATTTATAGT
1 TTTTAGGGA-TTCACGAATTGGGAATTATAGT
*
81209762 TTTTTGGGAT
1 TTTTAGGGAT
81209772 GATTTGGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.03
32 21 0.57
34 12 0.32
35 3 0.08
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (31 bp):
TTTTAGGGATTCACGAATTGGGAATTATAGT
Found at i:81209759 original size:32 final size:31
Alignment explanation
Indices: 81209712--81209771 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
81209702 GGATTCAACG
81209712 ACGATTGGGAATTATAGTTTTTAGGGATTTC
1 ACGATTGGGAATTATAGTTTTTAGGGATTTC
* *
81209743 ACGATTTGGGATTTATAGTTTTTTGGGAT
1 ACGA-TTGGGAATTATAGTTTTTAGGGAT
81209772 GATTTGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.45
Consensus pattern (31 bp):
ACGATTGGGAATTATAGTTTTTAGGGATTTC
Found at i:81210053 original size:22 final size:22
Alignment explanation
Indices: 81210025--81210078 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
81210015 AAACGTTAAG
81210025 AGTATTTTTTGCAATTATGCCA
1 AGTATTTTTTGCAATTATGCCA
81210047 AGTATTTTTTGCAATTATGCCA
1 AGTATTTTTTGCAATTATGCCA
*
81210069 AATATTTTTT
1 AGTATTTTTT
81210079 TGGGGATAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (22 bp):
AGTATTTTTTGCAATTATGCCA
Found at i:81212907 original size:49 final size:49
Alignment explanation
Indices: 81212842--81212935 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
81212832 CAATTTCCTC
*
81212842 TTGTTTTGCGACTTGATTATT-GAACCA-CATCATACAGGAACGATTTCTT
1 TTGTTTTGCAACTTGATT-TTCGAACCATCA-CATACAGGAACGATTTCTT
* *
81212891 TTGTTTTGCAACTTGATTTTCGAACCATGACATACAGGAATGATT
1 TTGTTTTGCAACTTGATTTTCGAACCATCACATACAGGAACGATT
81212936 CCAAGAAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 2 0.05
49 37 0.93
50 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (49 bp):
TTGTTTTGCAACTTGATTTTCGAACCATCACATACAGGAACGATTTCTT
Found at i:81215078 original size:39 final size:39
Alignment explanation
Indices: 81215024--81215104 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
81215014 AACTCTCTCT
81215024 TTTTCACCTTGTTAGACCATGAGTCATCTTTAACAGTGG
1 TTTTCACCTTGTTAGACCATGAGTCATCTTTAACAGTGG
81215063 TTTTCACCTTGTTAGACCATGAGTCATCTTTAACAGTGG
1 TTTTCACCTTGTTAGACCATGAGTCATCTTTAACAGTGG
81215102 TTT
1 TTT
81215105 GGTCGGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (39 bp):
TTTTCACCTTGTTAGACCATGAGTCATCTTTAACAGTGG
Done.