Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 1 of 235
Found at i:957 original size:46 final size:46
Alignment explanation
Indices: 909--1090 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
899 GCTCTCTGAT
* * * *
909 ATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAGCATGAC
* *
955 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCATGAC
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAGCATGAC
* *
1001 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAGCATGAC
* * *
1047 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATAGTTGAAAGATACCATGGCAGCATG
1091 TCAAAGATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAGCATGAC
Found at i:7153 original size:12 final size:12
Alignment explanation
Indices: 7136--7160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7126 TGCAAATGGA
7136 TCATTTCCATTT
1 TCATTTCCATTT
7148 TCATTTCCATTT
1 TCATTTCCATTT
7160 T
1 T
7161 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:8789 original size:24 final size:24
Alignment explanation
Indices: 8757--8809 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
8747 CACGTTTGGA
8757 AGTAAAACCATTATATCTTATAAG
1 AGTAAAACCATTATATCTTATAAG
8781 AGTAAAACCATTATATCTTATAAG
1 AGTAAAACCATTATATCTTATAAG
8805 AGTAA
1 AGTAA
8810 GATCTCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (24 bp):
AGTAAAACCATTATATCTTATAAG
Found at i:10183 original size:28 final size:28
Alignment explanation
Indices: 10143--10198 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10133 TATAACAGTT
10143 TGCTCTTTCGGGTTATAAAAAAAACCAC
1 TGCTCTTTCGGGTTATAAAAAAAACCAC
10171 TGCTCTTTCGGGTTATAAAAAAAACCAC
1 TGCTCTTTCGGGTTATAAAAAAAACCAC
10199 CCTTTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (28 bp):
TGCTCTTTCGGGTTATAAAAAAAACCAC
Found at i:14902 original size:46 final size:46
Alignment explanation
Indices: 14850--14989 Score: 183
Period size: 46 Copynumber: 3.0 Consensus size: 46
14840 GTGTGCTCTC
* *
14850 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
14896 TGATATGAAATGAATAAGACCATGGTTGAAATATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
14942 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
14988 TG
1 TG
14990 TCAAAGATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:15293 original size:16 final size:17
Alignment explanation
Indices: 15272--15304 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15262 ATGATGGAGC
15272 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
15288 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
15305 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:15881 original size:46 final size:45
Alignment explanation
Indices: 15814--15934 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 45
15804 CGAGAGCTAG
*
15814 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATG-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-GAGA-GATAAGCCAA
* * *
15860 TGTAAGACATGTCTGGGACATGCATCGG-CTGTGAGATATGTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTGAGAGATAAGCCAA
*
15904 TGTAATACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
15935 ACGAACATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.02
44 15 0.23
45 16 0.24
46 34 0.52
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTGAGAGATAAGCCAA
Found at i:15971 original size:50 final size:49
Alignment explanation
Indices: 15812--16032 Score: 146
Period size: 49 Copynumber: 4.7 Consensus size: 49
15802 CACGAGAGCT
* * *
15812 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGT--A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-CGAAATGTCAAGAGTC
* * *
15858 AATGTAAGA-CATGTCTGGGACAT-GCATCGG-C----TGTGAGATATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCGAAATGTCA-AGA-GTC
* *
15902 AATGTAATACCATGTCTGGGACATGGCATCGGCACGAACATGT-AAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CGAA-ATGTCAAGAGTC
* * ** * * *
15951 TAGTTTAAGACCATGTCTGGGACATGGCGTCGGCCTTAATTTCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCGAAATGTCAAGAGTC
16001 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
16033 TATTATACTC
Statistics
Matches: 142, Mismatches: 16, Indels: 31
0.75 0.08 0.16
Matches are distributed among these distances:
39 3 0.02
42 1 0.01
43 2 0.01
44 10 0.07
45 14 0.10
46 35 0.25
48 4 0.03
49 36 0.25
50 31 0.22
51 2 0.01
52 1 0.01
53 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCGAAATGTCAAGAGTC
Found at i:19626 original size:40 final size:36
Alignment explanation
Indices: 19582--19679 Score: 85
Period size: 35 Copynumber: 2.6 Consensus size: 36
19572 CCGTTGGTTC
19582 ATCCAACTAGAGCTGGGCTCACAATTATTATCATCAGTAT
1 ATCCAACTAGAGCTGGGCTCACAA-TATTAT--T-AGTAT
* * * *
19622 ATCCAAATAGCA-CTGGG-TGCA-AATATTGTTGGTTT
1 ATCCAACTAG-AGCTGGGCT-CACAATATTATTAGTAT
19657 ATCCAACTAGAGCTGGGCTCACA
1 ATCCAACTAGAGCTGGGCTCACA
19680 TTCAATACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
34 1 0.02
35 19 0.40
36 3 0.06
38 5 0.10
39 3 0.06
40 16 0.33
41 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (36 bp):
ATCCAACTAGAGCTGGGCTCACAATATTATTAGTAT
Found at i:19708 original size:75 final size:75
Alignment explanation
Indices: 19540--19718 Score: 202
Period size: 75 Copynumber: 2.4 Consensus size: 75
19530 CACACAATCG
* * *
19540 TCGATTTATCCGACTAGCGCTGGGCACAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACA
1 TCGATTAATCCGACTAGCACTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACA
*
19605 ATTATTATCA
66 ATTAATATCA
* * * * * ** *
19615 TC-AGTATATCCAAATAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCAC
1 TCGATTA-ATCCGACTAGCACTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCAC
19679 -ATTCAATA-CTA
65 AATT-AATATC-A
19690 TCGATTAATCCGACTAGCACTGGGCGCAA
1 TCGATTAATCCGACTAGCACTGGGCGCAA
19719 TCTCCTTTAC
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
74 6 0.07
75 75 0.89
76 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (75 bp):
TCGATTAATCCGACTAGCACTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCTCACA
ATTAATATCA
Found at i:19852 original size:26 final size:26
Alignment explanation
Indices: 19823--19875 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19813 TTTGGTTAAG
19823 TTATAATTTCAATTAATATTGATTGT
1 TTATAATTTCAATTAATATTGATTGT
19849 TTATAATTTCAATTAATATTGATTGT
1 TTATAATTTCAATTAATATTGATTGT
19875 T
1 T
19876 CTTGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (26 bp):
TTATAATTTCAATTAATATTGATTGT
Found at i:21322 original size:23 final size:21
Alignment explanation
Indices: 21253--21328 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
21243 ACCTGATCAG
** *
21253 AATACGACACATAAAGTGCCT
1 AATACGACACACGAGGTGCCT
*
21274 AAAACGACACACGAGGTGCCT
1 AATACGACACACGAGGTGCCT
* *
21295 GATACGACACACGAGGTGCTT
1 AATACGACACACGAGGTGCCT
21316 AAAATACGACACA
1 --AATACGACACA
21329 TAAAGTGTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
21 35 0.78
23 10 0.22
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (21 bp):
AATACGACACACGAGGTGCCT
Found at i:22517 original size:27 final size:28
Alignment explanation
Indices: 22461--22551 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 28
22451 TTTAATTTAT
* *
22461 TTAATAATAATACCAATTAAATAATTATAAC
1 TTAAT-ATAAAACCAA-T-AATAATAATAAC
* *
22492 TTAATATGAAACCATAATAATAATAATAAT
1 TTAATATAAAACC--AATAATAATAATAAC
22522 TTAATATAAAACCATACTAATAATTAATAA
1 TTAATATAAAACCA-A-TAATAA-TAATAA
22552 TAATAAAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 34 0.68
31 12 0.24
32 2 0.04
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (28 bp):
TTAATATAAAACCAATAATAATAATAAC
Found at i:22526 original size:30 final size:30
Alignment explanation
Indices: 22480--22552 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
22470 ATACCAATTA
* * *
22480 AATAATTATAACTTAATATGAAACCATAAT
1 AATAATAATAATTTAATATAAAACCATAAT
*
22510 AATAATAATAATTTAATATAAAACCATACT
1 AATAATAATAATTTAATATAAAACCATAAT
22540 AATAATTAATAAT
1 AATAA-TAATAAT
22553 AATAAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.34
Consensus pattern (30 bp):
AATAATAATAATTTAATATAAAACCATAAT
Found at i:23324 original size:26 final size:25
Alignment explanation
Indices: 23294--23345 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
23284 AAATATTTTA
23294 ATTAATTTT-TTTAGTTTTAGTTATTT
1 ATTAATTTTATTTA-TTTTA-TTATTT
23320 ATTAATTTTAATTTATTTTATTATTT
1 ATTAATTTT-ATTTATTTTATTATTT
23346 TTTTATTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (25 bp):
ATTAATTTTATTTATTTTATTATTT
Found at i:23347 original size:19 final size:19
Alignment explanation
Indices: 23288--23346 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 19
23278 TTTGTTAAAT
* *
23288 ATTTTAATTAATTTTTTTA
1 ATTTTAATTTATTTTATTA
* *
23307 GTTTT-AGTTA-TTTATTA
1 ATTTTAATTTATTTTATTA
23324 ATTTTAATTTATTTTATT-
1 ATTTTAATTTATTTTATTA
23342 ATTTT
1 ATTTT
23347 TTTATTACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 10 0.31
18 12 0.38
19 10 0.31
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTTAATTTATTTTATTA
Found at i:36379 original size:10 final size:10
Alignment explanation
Indices: 36350--36394 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
36340 AATGACATTC
36350 TAAATGATAAA
1 TAAA-GATAAA
36361 TACAA-ATAAA
1 TA-AAGATAAA
*
36371 TAAAGATAAT
1 TAAAGATAAA
36381 TAAAGATAAA
1 TAAAGATAAA
36391 TAAA
1 TAAA
36395 TCCTAGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.07
10 24 0.80
11 2 0.07
12 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (10 bp):
TAAAGATAAA
Found at i:37033 original size:10 final size:11
Alignment explanation
Indices: 37018--37046 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
37008 TACCTCCTTA
37018 TTTTTTTTCT-
1 TTTTTTTTCTC
37028 TTTTTTTTCTC
1 TTTTTTTTCTC
37039 TTTTTTTT
1 TTTTTTTT
37047 AATTCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:37035 original size:12 final size:12
Alignment explanation
Indices: 37018--37046 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37008 TACCTCCTTA
37018 TTTTTTT-TCTT
1 TTTTTTTCTCTT
37029 TTTTTTTCTCTT
1 TTTTTTTCTCTT
37041 TTTTTT
1 TTTTTT
37047 AATTCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:37228 original size:96 final size:97
Alignment explanation
Indices: 37058--37244 Score: 286
Period size: 96 Copynumber: 1.9 Consensus size: 97
37048 ATTCTATTTA
* * * * *
37058 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTGAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
37123 CCCCGGTTACTCAACCCAACACATTCGTAATT
66 CCCCAGTTACTCAACCCAACACATTCGTAATT
* *
37155 TTTATTTTT-CTGAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGTCAAGCACCTCA
1 TTTATTTTTACTGAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
37219 CCCCAGTTACTCAGCCCAACACATTC
66 CCCCAGTTACTCAACCCAACACATTC
37245 TTAAAAATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 72 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTGAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCAGTTACTCAACCCAACACATTCGTAATT
Found at i:38018 original size:18 final size:15
Alignment explanation
Indices: 37985--38025 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
37975 TTAATATCTG
37985 AAAATAATAAATAAT
1 AAAATAATAAATAAT
*
38000 AAAATAAT-AA-GAT
1 AAAATAATAAATAAT
38013 AAAATAA-AAATAA
1 AAAATAATAAATAA
38026 AAATTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:44447 original size:10 final size:10
Alignment explanation
Indices: 44428--44487 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
44418 TGAAATTCTA
44428 AAAGATAAAT
1 AAAGATAAAT
44438 ACAA-ATAAAT
1 A-AAGATAAAT
*
44448 AAAGATAATT
1 AAAGATAAAT
44458 AAAGATAAAT
1 AAAGATAAAT
44468 AAAGATAAAT
1 AAAGATAAAT
44478 GAAA-ATAAAT
1 -AAAGATAAAT
44488 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:46784 original size:30 final size:30
Alignment explanation
Indices: 46737--46809 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
46727 ATTATGGAGC
* * *
46737 ACACGATCGTGTTACACATATGGCCTGGCT
1 ACACGGTCGTGTGACACACATGGCCTGGCT
*
46767 ACACTGTCGTGTGACACACATGGCCTGGCT
1 ACACGGTCGTGTGACACACATGGCCTGGCT
*
46797 ACACGGCCGTGTG
1 ACACGGTCGTGTG
46810 TCACTTGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (30 bp):
ACACGGTCGTGTGACACACATGGCCTGGCT
Found at i:48988 original size:42 final size:42
Alignment explanation
Indices: 48942--49173 Score: 116
Period size: 42 Copynumber: 5.1 Consensus size: 42
48932 ATTAAAATAC
48942 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
1 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
* ** ** *
48984 TTTCATGCAAATAGCAACCCAACACAT-AATCAAGTCATA-CATTAAAAT-AC
1 TTTCAT-C--A-ACCAA-CC-AC-CATAAATTTAGT--TACCA--ATCATCAT
49034 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
1 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
* ** ** *
49076 TTTCATGCAAATAGCAACCCAACACAT-AATCAAGTCATA-CATTAAAAT-AC
1 TTTCAT-C--A-ACCAA-CC-AC-CATAAATTTAGT--TACCA--ATCATCAT
49126 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
1 TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
49168 TTTCAT
1 TTTCAT
49174 GCAAATAACA
Statistics
Matches: 138, Mismatches: 24, Indels: 56
0.63 0.11 0.26
Matches are distributed among these distances:
41 6 0.04
42 24 0.17
43 12 0.09
44 16 0.12
45 6 0.04
46 16 0.12
47 6 0.04
48 16 0.12
49 12 0.09
50 18 0.13
51 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (42 bp):
TTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCAT
Found at i:49010 original size:92 final size:92
Alignment explanation
Indices: 48848--49216 Score: 684
Period size: 92 Copynumber: 4.0 Consensus size: 92
48838 ACCAAACAAC
* * *
48848 ACTTCCATCAACCAGCCACTATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
48913 ACACATAATCAAGTCATACATTAAAAT
66 ACACATAATCAAGTCATACATTAAAAT
48940 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
49005 ACACATAATCAAGTCATACATTAAAAT
66 ACACATAATCAAGTCATACATTAAAAT
49032 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
49097 ACACATAATCAAGTCATACATTAAAAT
66 ACACATAATCAAGTCATACATTAAAAT
*
49124 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAACCCA
1 ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
* *
49189 ACACATACTAAAGTCATACATTAAAAT
66 ACACATAATCAAGTCATACATTAAAAT
49216 A
1 A
49217 AGCACAAGAG
Statistics
Matches: 271, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 271 1.00
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.27
Consensus pattern (92 bp):
ACTTTCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
ACACATAATCAAGTCATACATTAAAAT
Found at i:49038 original size:50 final size:50
Alignment explanation
Indices: 48984--49131 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
48974 CAATCATCAT
48984 TTTCATGCAAATAGCAACCCAACACATAATCAAGTCATACATTAAAATAC
1 TTTCATGCAAATAGCAACCCAACACATAATCAAGTCATACATTAAAATAC
* ** ** *
49034 TTTCAT-C--A-ACCAA-CC-AC-CATAAATTTAGT--TACCA--ATCATCAT
1 TTTCATGCAAATAGCAACCCAACACAT-AATCAAGTCATA-CATTAAAAT-AC
49076 TTTCATGCAAATAGCAACCCAACACATAATCAAGTCATACATTAAAATAC
1 TTTCATGCAAATAGCAACCCAACACATAATCAAGTCATACATTAAAATAC
49126 TTTCAT
1 TTTCAT
49132 CAACCAACCA
Statistics
Matches: 72, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
41 3 0.04
42 9 0.12
43 6 0.08
44 8 0.11
45 3 0.04
46 8 0.11
47 3 0.04
48 8 0.11
49 6 0.08
50 15 0.21
51 3 0.04
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.28
Consensus pattern (50 bp):
TTTCATGCAAATAGCAACCCAACACATAATCAAGTCATACATTAAAATAC
Found at i:52801 original size:12 final size:12
Alignment explanation
Indices: 52784--52808 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52774 ACCCAAAATC
52784 CTTAGCCCAAAA
1 CTTAGCCCAAAA
52796 CTTAGCCCAAAA
1 CTTAGCCCAAAA
52808 C
1 C
52809 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:53752 original size:12 final size:12
Alignment explanation
Indices: 53737--53784 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
53727 TATTTCTCTC
53737 TTTATATTTATG
1 TTTATATTTATG
53749 TTTATATTTTATG
1 TTTATA-TTTATG
** *
53762 TATTATACCTATC
1 T-TTATATTTATG
53775 TTTATATTTA
1 TTTATATTTA
53785 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:53976 original size:22 final size:22
Alignment explanation
Indices: 53951--53992 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
53941 TAACGTGCTA
* *
53951 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
53973 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
53993 GTAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:68593 original size:14 final size:15
Alignment explanation
Indices: 68574--68603 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68564 GAAAAATTTA
68574 ACAAAAT-ATAATAT
1 ACAAAATGATAATAT
68588 ACAAAATGATAATAT
1 ACAAAATGATAATAT
68603 A
1 A
68604 AATACGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
ACAAAATGATAATAT
Found at i:76081 original size:34 final size:36
Alignment explanation
Indices: 76020--76086 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
76010 TACATAGTAA
*
76020 TATAAAATAATAAGTGATGATAGTGAAACTAATGGG
1 TATAAAATAATAAGTGATGATAGTGAAAATAATGGG
*
76056 TATAATAATTATAA-TGAT-ATA-TGAAAATAAT
1 TATAA-AATAATAAGTGATGATAGTGAAAATAAT
76087 ACTACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
35 3 0.11
36 9 0.32
37 7 0.25
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.33
Consensus pattern (36 bp):
TATAAAATAATAAGTGATGATAGTGAAAATAATGGG
Found at i:76214 original size:31 final size:30
Alignment explanation
Indices: 76177--76238 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
76167 TGTAATAATG
* * *
76177 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
76206 ATATATATACAATATAGTATTTAAAAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
76236 ATA
1 ATA
76239 CATAAGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATATATACAATATAGTATTTAAAAATAT
Found at i:76254 original size:24 final size:23
Alignment explanation
Indices: 76227--76287 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
76217 ATATAGTATT
76227 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
76251 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
76275 TAAGAAATATATA
1 TAA-AAATATATA
76288 TAATTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:76441 original size:21 final size:21
Alignment explanation
Indices: 76416--76533 Score: 102
Period size: 21 Copynumber: 5.6 Consensus size: 21
76406 ACACATACAT
*
76416 ATATATATAATAGTATTAGAA
1 ATATATATAATAATATTAGAA
*
76437 ATATACA-ATATAATATTAGAA
1 ATATATATA-ATAATATTAGAA
* * *
76458 ATATACATATAATAGTATAAAAA
1 ATAT--ATATAATAATATTAGAA
76481 ATATATAACTAATAATATTA-AA
1 ATATAT-A-TAATAATATTAGAA
76503 ATATATATAATAATATATA-AA
1 ATATATATAATAATAT-TAGAA
76524 A-A-ATATAATA
1 ATATATATAATA
76534 TTGAAAACAT
Statistics
Matches: 82, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.10
20 11 0.13
21 29 0.35
22 9 0.11
23 24 0.29
24 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:76758 original size:17 final size:16
Alignment explanation
Indices: 76732--76764 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
76722 CTATATATAA
76732 ATATATATACATACAT
1 ATATATATACATACAT
76748 ATATAATATACATACAT
1 ATAT-ATATACATACAT
76765 TAATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:76779 original size:3 final size:3
Alignment explanation
Indices: 76765--76925 Score: 68
Period size: 3 Copynumber: 53.7 Consensus size: 3
76755 ATACATACAT
* *
76765 TAA TAT TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA TAA
* * * ** * *
76811 TAA TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
76856 TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA
* *
76901 -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
76926 TGTAAAAAAA
Statistics
Matches: 116, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 13 0.11
3 91 0.78
4 11 0.09
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:78303 original size:21 final size:21
Alignment explanation
Indices: 78277--78319 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
78267 AGTTCATAGG
*
78277 TTTCAAATTGGCTTTGTGGAC
1 TTTCAAATTCGCTTTGTGGAC
78298 TTTCAAATTCGCTTTGTGGAC
1 TTTCAAATTCGCTTTGTGGAC
78319 T
1 T
78320 ATGTAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (21 bp):
TTTCAAATTCGCTTTGTGGAC
Found at i:80771 original size:6 final size:7
Alignment explanation
Indices: 80750--80788 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
80740 TTTCAAACAA
80750 ATTTTAT
1 ATTTTAT
80757 ATTTT-T
1 ATTTTAT
80763 ATATTTAT
1 AT-TTTAT
80771 ATTTTAT
1 ATTTTAT
80778 AGTTTTAT
1 A-TTTTAT
80786 ATT
1 ATT
80789 AATAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.10
7 16 0.55
8 10 0.34
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
ATTTTAT
Found at i:84205 original size:18 final size:18
Alignment explanation
Indices: 84182--84218 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
84172 ATTAGACTAT
84182 GGTTTTGAACTAAAAAAG
1 GGTTTTGAACTAAAAAAG
84200 GGTTTTGAACTAAAAAAG
1 GGTTTTGAACTAAAAAAG
84218 G
1 G
84219 TAGGAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (18 bp):
GGTTTTGAACTAAAAAAG
Found at i:87932 original size:10 final size:9
Alignment explanation
Indices: 87902--87928 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
87892 TAATATGTCT
87902 TTAAAAATA
1 TTAAAAATA
87911 TTAAAAATA
1 TTAAAAATA
87920 TTAAAAATA
1 TTAAAAATA
87929 ATTAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:88103 original size:22 final size:22
Alignment explanation
Indices: 88075--88122 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
88065 ACAAAGCAGA
88075 GAGTTACCAAATAATGTGGTCG
1 GAGTTACCAAATAATGTGGTCG
88097 GAGTTACCAAATAATGTGGTCG
1 GAGTTACCAAATAATGTGGTCG
88119 GAGT
1 GAGT
88123 GGAAAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
GAGTTACCAAATAATGTGGTCG
Found at i:91480 original size:25 final size:23
Alignment explanation
Indices: 91426--91480 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
91416 AGTTAAATTA
* *
91426 TAAATTTTTTATTTGTATTAATT
1 TAAATTTTTTATTTGTATAAAAT
*
91449 TATAATTTTATTATTTTTATAAGAAT
1 TA-AATTTT-TTATTTGTATAA-AAT
91475 TAAATT
1 TAAATT
91481 ATAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 14 0.54
26 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TAAATTTTTTATTTGTATAAAAT
Found at i:91825 original size:16 final size:16
Alignment explanation
Indices: 91801--91834 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
91791 CCAGTCTAAC
91801 TTGACTATACTTTAAA
1 TTGACTATACTTTAAA
*
91817 TTGATTATACTTTAAA
1 TTGACTATACTTTAAA
91833 TT
1 TT
91835 TAATCGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (16 bp):
TTGACTATACTTTAAA
Found at i:92024 original size:29 final size:29
Alignment explanation
Indices: 91982--92041 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
91972 ATGATTAATA
91982 AACTTAAGTGACGAATAAGTTAAAAACTG
1 AACTTAAGTGACGAATAAGTTAAAAACTG
92011 AACTTAAGTGACGAATAAGTTAAAAACTG
1 AACTTAAGTGACGAATAAGTTAAAAACTG
92040 AA
1 AA
92042 TCTAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (29 bp):
AACTTAAGTGACGAATAAGTTAAAAACTG
Found at i:93012 original size:3 final size:3
Alignment explanation
Indices: 93004--93030 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
92994 ATATAGGTAT
93004 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
93031 AGTTTGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:93531 original size:67 final size:67
Alignment explanation
Indices: 93423--93557 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
93413 GGTAAATCTG
* *
93423 TTCGTATGGTCGGTCAGGTTTGTTGCCATATGCATATCGAATGGTCCTACTTTGATATTCTCTTT
1 TTCGTATGGTCGGTCAGGTTTGTTGCCATATGCATACCGAATGGTCCTACTTTGACATTCTCTTT
93488 AT
66 AT
* * * *
93490 TTCGTATGGTCGGTTAGGTTTGTTGCCGTGTGCATACCGAATGGTCCTACTTTGGCATTCTCTTT
1 TTCGTATGGTCGGTCAGGTTTGTTGCCATATGCATACCGAATGGTCCTACTTTGACATTCTCTTT
93555 AT
66 AT
93557 T
1 T
93558 AAGGTTGTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.43
Consensus pattern (67 bp):
TTCGTATGGTCGGTCAGGTTTGTTGCCATATGCATACCGAATGGTCCTACTTTGACATTCTCTTT
AT
Found at i:94646 original size:28 final size:27
Alignment explanation
Indices: 94589--94647 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
94579 CTTTTTTATT
*
94589 AAATAAAATAAAATTATAAAAACTATA
1 AAATAAAATAAAATTATAAAAACTACA
94616 AAATATAAATATAAA-TAT-AAAACTAACA
1 AAATA-AAATA-AAATTATAAAAACT-ACA
94644 AAAT
1 AAAT
94648 GGCATGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 11 0.39
28 14 0.50
29 3 0.11
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (27 bp):
AAATAAAATAAAATTATAAAAACTACA
Found at i:95391 original size:19 final size:17
Alignment explanation
Indices: 95365--95418 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
95355 AGGGACATAC
95365 TTATTTTTAAATTATTT
1 TTATTTTTAAATTATTT
* *
95382 TTCAATTTTTAGATCATTT
1 TT--ATTTTTAAATTATTT
*
95401 TTATTTTTATATTATTT
1 TTATTTTTAAATTATTT
95418 T
1 T
95419 GAGTTTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTTTTAAATTATTT
Found at i:99983 original size:19 final size:21
Alignment explanation
Indices: 99955--99997 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
99945 TGGTATAAAA
99955 TTTTAAATTA-ATTTT-ATTT
1 TTTTAAATTATATTTTGATTT
*
99974 TTTTATATTATTATTTTGATTT
1 TTTTAAATTA-TATTTTGATTT
99996 TT
1 TT
99998 CAATATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAAATTATATTTTGATTT
Found at i:106715 original size:22 final size:21
Alignment explanation
Indices: 106679--106726 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
106669 TTTTCTAGTC
* *
106679 ATTTAAAAATTTTTAAAATTA
1 ATTTTAAAATTTTTAAAATAA
*
106700 ATTTTAAAATATTTTAATATAA
1 ATTTTAAAAT-TTTTAAAATAA
106722 ATTTT
1 ATTTT
106727 TTTATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTAAAATTTTTAAAATAA
Found at i:108028 original size:60 final size:60
Alignment explanation
Indices: 107958--108079 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
107948 AATTGAATGG
107958 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
1 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
*
108018 ATCAATTTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
1 ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
108078 AT
1 AT
108080 GGTATATTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (60 bp):
ATCAAATTTCATAGTATTAATTGATTTAATCAACTGACTTAACATTGGTTGGTTAAGTTT
Found at i:109390 original size:68 final size:69
Alignment explanation
Indices: 109258--109391 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 69
109248 TAATTAAACT
* * * *
109258 TAATCACTTTAATATGAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
109323 ATGA
66 ATGA
* * * * *
109327 TAATTACTTTAATATTAAATTAATAAAATA-CTATTAAGTTAAGTATTAAATTAAATTCAATATT
1 TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
109391 A
66 A
109392 AACTATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
68 29 0.52
69 27 0.48
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (69 bp):
TAATCACTTTAATATGAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
ATGA
Found at i:111453 original size:40 final size:40
Alignment explanation
Indices: 111408--111506 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
111398 GATTTCGATA
* **
111408 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGAC
111448 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGAC
* *
111488 TCTATGTGGCACTTAGTGT
1 TATATATGGCACTTAGTGT
111507 ACAAGACCGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGAC
Found at i:113793 original size:20 final size:18
Alignment explanation
Indices: 113765--113803 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
113755 TACTTATTAT
*
113765 TTAAGAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
113785 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
113803 T
1 T
113804 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:113829 original size:27 final size:26
Alignment explanation
Indices: 113767--113832 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
113757 CTTATTATTT
*
113767 AAGAAATAATAATTATAATTAAAAAA
1 AAGAAATAATAATTATAAGTAAAAAA
* *
113793 TATAATATAATAA-TATAAAGTAAAATAA
1 AAGAA-ATAATAATTAT-AAGTAAAA-AA
113821 AAGAAATAATAA
1 AAGAAATAATAA
113833 AAAGAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.19
27 21 0.66
28 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
AAGAAATAATAATTATAAGTAAAAAA
Found at i:113853 original size:11 final size:10
Alignment explanation
Indices: 113807--113859 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
113797 ATATAATAAT
*
113807 ATAAAGTAAA
1 ATAAAGAAAA
113817 ATAAAAGAAATA
1 AT-AAAGAAA-A
*
113829 ATAAA-AAGA
1 ATAAAGAAAA
113838 ATAAAGAAACA
1 ATAAAGAAA-A
113849 ATAAAGAAAA
1 ATAAAGAAAA
113859 A
1 A
113860 GAACAGAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.17
10 8 0.22
11 19 0.53
12 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (10 bp):
ATAAAGAAAA
Found at i:118510 original size:47 final size:47
Alignment explanation
Indices: 118441--118561 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
118431 TTCGGAGAAA
*
118441 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
118488 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* * *
118535 TGTGATACGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
118562 GGCTGGGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 12 0.18
47 55 0.82
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
Found at i:123810 original size:40 final size:40
Alignment explanation
Indices: 123717--123811 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
123707 GATTCAGATA
* * * * *
123717 TATATAAGGCACTTAGTGTGTGATTCGAGATAGCTTCGGC
1 TATATATGACACTTAGTGTGCGATTCGAAATAACTTCGGC
* * *
123757 TATATATGGCACTTAGTGTGCGATTCGAAATAATTTTGGC
1 TATATATGACACTTAGTGTGCGATTCGAAATAACTTCGGC
* *
123797 TCTATGTGACACTTA
1 TATATATGACACTTA
123812 ATGTACGAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (40 bp):
TATATATGACACTTAGTGTGCGATTCGAAATAACTTCGGC
Found at i:131796 original size:13 final size:13
Alignment explanation
Indices: 131773--131833 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
131763 TCATTATCAA
*
131773 ATATCTCTTTATAT
1 ATAT-TCTTTAAAT
131787 ATATTCTTTAAAT
1 ATATTCTTTAAAT
* *
131800 ATATTTTTTTTGAAT
1 ATA--TTCTTTAAAT
*
131815 CATATTCTTTAACT
1 -ATATTCTTTAAAT
131829 ATATT
1 ATATT
131834 TTAAAATTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 16 0.42
14 11 0.29
15 8 0.21
16 3 0.08
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTCTTTAAAT
Found at i:135410 original size:27 final size:26
Alignment explanation
Indices: 135236--135479 Score: 108
Period size: 24 Copynumber: 9.8 Consensus size: 26
135226 AATCTCATGT
* *
135236 GAGCCATGTAA-CGGGAAGCTCA-TAA
1 GAGCCAT-TAATCAGGAAGCTCACGAA
* * *
135261 GAGCCA-TAATAAGGAAGCTCA-TAC
1 GAGCCATTAATCAGGAAGCTCACGAA
* * * *
135285 GAGCCAATAA-CGGGTAGCTC-TGAA
1 GAGCCATTAATCAGGAAGCTCACGAA
135309 GAGCCATTAATCAGGAAGCT--CGAA
1 GAGCCATTAATCAGGAAGCTCACGAA
* * * * * *
135333 AAGTCA-TATATCGGGAAGTTCAAG-C
1 GAGCCATTA-ATCAGGAAGCTCACGAA
* *
135358 GAGCCA-T-ATCGGGAAGCTC-CTAA
1 GAGCCATTAATCAGGAAGCTCACGAA
* *
135381 GAGCCATTAATCAGGAAGTTCATGAAA
1 GAGCCATTAATCAGGAAGCTCACG-AA
* *
135408 GAGCCTTTAATCGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACGAA
*
135434 GAGCCA-TATATC-GGAATACTC-CGAA
1 GAGCCATTA-ATCAGGAA-GCTCACGAA
* *
135459 GAGCTATTAA-CGGGAAGCTCA
1 GAGCCATTAATCAGGAAGCTCA
135480 TAAAAACCAT
Statistics
Matches: 166, Mismatches: 36, Indels: 34
0.70 0.15 0.14
Matches are distributed among these distances:
23 22 0.13
24 55 0.33
25 51 0.31
26 16 0.10
27 22 0.13
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACGAA
Found at i:137336 original size:31 final size:32
Alignment explanation
Indices: 137293--137384 Score: 132
Period size: 31 Copynumber: 2.8 Consensus size: 32
137283 TATAATAAAT
*
137293 AAGATTTAAATAATTTAATATAATGATAAATGA
1 AAGATTT-AATAATTTAATATAATGATAAATAA
* *
137326 TA-ATTTAATAATTTAATATAATGATATATAA
1 AAGATTTAATAATTTAATATAATGATAAATAA
137357 AAGATTTAGATAATTTAATATAATGATA
1 AAGATTTA-ATAATTTAATATAATGATA
137385 CATAGAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.45
32 9 0.17
33 20 0.38
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (32 bp):
AAGATTTAATAATTTAATATAATGATAAATAA
Found at i:137865 original size:37 final size:38
Alignment explanation
Indices: 137786--137892 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
137776 ATTTAAATTA
* *
137786 TTTAGAGTTAA-GGTTTTTAGGGTTTAGGGTTAGAGTTT
1 TTTA-AGTTAAGGGTTTTTAGGGTTTAGGGTTAGAGGTC
137824 TTTAAGTTAAGGGTTTTTAGGGTTTAGGGTTAG-GGTC
1 TTTAAGTTAAGGGTTTTTAGGGTTTAGGGTTAGAGGTC
* * *
137861 TTTAAGTTAAAGGTTTTTTAGGTTTTATGGTT
1 TTTAAGTT-AAGGGTTTTTAGGGTTTAGGGTT
137893 TAAGGGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 16 0.26
38 46 0.74
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (38 bp):
TTTAAGTTAAGGGTTTTTAGGGTTTAGGGTTAGAGGTC
Found at i:138794 original size:126 final size:126
Alignment explanation
Indices: 138529--138910 Score: 595
Period size: 126 Copynumber: 3.0 Consensus size: 126
138519 TTTCTGCAAG
* * * * * * *
138529 AATAATTCTGAGCAAACGTTTTTGGACAAATAGTGTCGAAAAAAGCTTCAAGCAGGATGCACTGT
1 AATAATTATGAGTAGACGTTTCTGAACAAATAGTGT-TAAAAACGCTTCAAGCAGGATGCACTGT
* *
138594 TAGCAAAATTTCT-AGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCATAGAAA
65 CAGCAAAATTTCTGA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
138656 AACAATTATGAGTAGACGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTATGAGTAGACGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGCACTGTC
*
138721 AGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
138782 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAACGTTTCAAGCAGGATGCAGTGTC
1 AATAATTATGAGTAGACGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGCACTGTC
*
138847 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
138908 AAT
1 AAT
138911 GAGGCTATAA
Statistics
Matches: 236, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 205 0.87
127 31 0.13
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTATGAGTAGACGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:142352 original size:18 final size:18
Alignment explanation
Indices: 142326--142368 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
142316 GACTAGGAAA
* *
142326 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
142344 AGGATACATCTAAGGGCT
1 AGGATACATATAAGGGCT
142362 AGGATAC
1 AGGATAC
142369 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:142586 original size:24 final size:24
Alignment explanation
Indices: 142554--142600 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
142544 ATAAATATGG
142554 CTTGCCATGGAT-TATAAACCATGA
1 CTTGCCATGGATCT-TAAACCATGA
*
142578 CTTGTCATGGATCTTAAACCATG
1 CTTGCCATGGATCTTAAACCATG
142601 GCATGTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (24 bp):
CTTGCCATGGATCTTAAACCATGA
Found at i:142996 original size:7 final size:7
Alignment explanation
Indices: 142986--143025 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
142976 CATAATACAT
142986 AATACTA
1 AATACTA
142993 AATACTA
1 AATACTA
143000 AATACTA
1 AATACTA
143007 AATACTA
1 AATACTA
143014 AATACTA
1 AATACTA
143021 AATAC
1 AATAC
143026 GAAACGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:144096 original size:48 final size:48
Alignment explanation
Indices: 144021--144153 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 48
144011 ATGCAAACAT
* * *
144021 CATAAATGAAAAAAAAAATCAAGTAGTATT-GACATTGTAATTATAA-TTG
1 CATAAATG-AAAAAAAAATCAAATAGTATTAGAAATT-CAATTA-AATTTG
* * *
144070 CATAAATGAATAAAATATCAAATAGTATTATAAATTCAATTAAATTTG
1 CATAAATGAAAAAAAAATCAAATAGTATTAGAAATTCAATTAAATTTG
* * *
144118 CATAAATTAAAAAAAAATCGAATAGTATTAAAAATT
1 CATAAATGAAAAAAAAATCAAATAGTATTAGAAATT
144154 TAAAATTATC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
47 2 0.03
48 57 0.80
49 12 0.17
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (48 bp):
CATAAATGAAAAAAAAATCAAATAGTATTAGAAATTCAATTAAATTTG
Found at i:155639 original size:45 final size:46
Alignment explanation
Indices: 155588--155680 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
155578 CAAGGCAAGC
155588 ATTGAGACTCCTCCAAGCTCTATTT-CCATCTTTTAAATTGGGAAG
1 ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATTGGGAAG
* *
155633 ATTGAGACTTCTCTAAGCTCTATTTCCCATCTTTTAAATTGGGAAG
1 ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATTGGGAAG
155679 AT
1 AT
155681 CAAAGATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 23 0.51
46 22 0.49
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (46 bp):
ATTGAGACTCCTCCAAGCTCTATTTCCCATCTTTTAAATTGGGAAG
Found at i:155883 original size:20 final size:20
Alignment explanation
Indices: 155860--155900 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
155850 TGTAAAAAAA
155860 TAAAGCTATGAGCCTTATGG
1 TAAAGCTATGAGCCTTATGG
155880 TAAAGCTATGAGCCTTATGG
1 TAAAGCTATGAGCCTTATGG
155900 T
1 T
155901 TTTCTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (20 bp):
TAAAGCTATGAGCCTTATGG
Found at i:158064 original size:32 final size:32
Alignment explanation
Indices: 158019--158080 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
158009 CGAAATAGCG
158019 CACCCACACGTCTTCATCGACGTTGCTTTTTA
1 CACCCACACGTCTTCATCGACGTTGCTTTTTA
*
158051 CACCCACATGTCTTCATCGACGTTGCTTTT
1 CACCCACACGTCTTCATCGACGTTGCTTTT
158081 CGACCGGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.35
Consensus pattern (32 bp):
CACCCACACGTCTTCATCGACGTTGCTTTTTA
Found at i:159685 original size:39 final size:39
Alignment explanation
Indices: 159618--159835 Score: 375
Period size: 39 Copynumber: 5.5 Consensus size: 39
159608 ACAAAGCATG
* * *
159618 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
159658 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
159698 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
159737 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
159776 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
159815 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
159836 TTCTCCATTA
Statistics
Matches: 174, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
39 153 0.88
40 21 0.12
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:166960 original size:14 final size:14
Alignment explanation
Indices: 166936--166976 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
166926 ATATTAAGTA
166936 ATTAATAATATTTAT
1 ATTAAT-ATATTTAT
*
166951 ATTATTATATTTAT
1 ATTAATATATTTAT
166965 ATTAATATATTT
1 ATTAATATATTT
166977 TGATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATATATTTAT
Found at i:166972 original size:20 final size:20
Alignment explanation
Indices: 166943--166985 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
166933 GTAATTAATA
*
166943 ATATTTATATTATTAT-ATTT
1 ATATTAATA-TATTATGATTT
*
166963 ATATTAATATATTTTGATTT
1 ATATTAATATATTATGATTT
166983 ATA
1 ATA
166986 AATCTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATATTAATATATTATGATTT
Found at i:167023 original size:20 final size:19
Alignment explanation
Indices: 167006--167052 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
166996 TCTATATCAT
*
167006 TTATTTTATTATTCTATCTA
1 TTATTATATTA-TCTATCTA
*
167026 TTATTATATTATCTATTTA
1 TTATTATATTATCTATCTA
167045 TATATTAT
1 T-TATTAT
167053 TTTTTGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATATTATCTATCTA
Found at i:167029 original size:15 final size:15
Alignment explanation
Indices: 167011--167052 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
167001 ATCATTTATT
167011 TTATTAT-TCTATCTA
1 TTATTATAT-TATCTA
167026 TTATTATATTATCTA
1 TTATTATATTATCTA
167041 TT-TATATATTAT
1 TTAT-TATATTAT
167053 TTTTTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATATTATCTA
Found at i:167047 original size:13 final size:12
Alignment explanation
Indices: 166944--167072 Score: 60
Period size: 12 Copynumber: 10.8 Consensus size: 12
166934 TAATTAATAA
166944 TATTTATATTAT
1 TATTTATATTAT
166956 TATATT-TA-TAT
1 TAT-TTATATTAT
*
166967 TA-ATATATT-T
1 TATTTATATTAT
166977 TGATTTATAAATCTA-
1 T-ATTTAT--AT-TAT
*
166992 TATTTCTA-TAT
1 TATTTATATTAT
* *
167003 CATTTATTTTAT
1 TATTTATATTAT
*
167015 TATTCTAT-CTAT
1 TATT-TATATTAT
167027 TA-TTATATTAT
1 TATTTATATTAT
167038 CTATTTATA-TAT
1 -TATTTATATTAT
* *
167050 TATTTTTTGTTAT
1 TA-TTTATATTAT
167063 TATTTATATT
1 TATTTATATT
167073 TAGTATATTT
Statistics
Matches: 87, Mismatches: 13, Indels: 34
0.65 0.10 0.25
Matches are distributed among these distances:
9 1 0.01
10 9 0.10
11 18 0.21
12 35 0.40
13 15 0.17
14 7 0.08
15 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTTATATTAT
Found at i:167079 original size:9 final size:9
Alignment explanation
Indices: 167067--167101 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
167057 TGTTATTATT
167067 TATATTTAG
1 TATATTTAG
167076 TATATTTAG
1 TATATTTAG
*
167085 -AAATTTAG
1 TATATTTAG
167093 TATATTTAG
1 TATATTTAG
167102 AATTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (9 bp):
TATATTTAG
Found at i:167092 original size:17 final size:16
Alignment explanation
Indices: 167070--167107 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
167060 TATTATTTAT
167070 ATTTAGTATATTTAGAA
1 ATTTAGTATATTTAG-A
167087 ATTTAGTATATTTAGA
1 ATTTAGTATATTTAGA
167103 ATTTA
1 ATTTA
167108 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
ATTTAGTATATTTAGA
Found at i:167157 original size:31 final size:33
Alignment explanation
Indices: 167122--167192 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
167112 TTATTAAAAT
*
167122 ATTTAATTTAAGT-TAAATAGAA-AAATTAATA
1 ATTTAATTTAAGTATAAATAAAATAAATTAATA
* *
167153 ATTTAATTTAAGTATAATTAAAATAAATTATTA
1 ATTTAATTTAAGTATAAATAAAATAAATTAATA
167186 ATTTAAT
1 ATTTAAT
167193 AATTTTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 13 0.37
32 7 0.20
33 15 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (33 bp):
ATTTAATTTAAGTATAAATAAAATAAATTAATA
Found at i:172857 original size:24 final size:24
Alignment explanation
Indices: 172804--172863 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
172794 TTTAAATTTA
*
172804 TAAATATATATATCATATGAAAAAT
1 TAAA-ATATATATAATATGAAAAAT
*
172829 T-AAATATACTATAATAT-AAATAT
1 TAAAATATA-TATAATATGAAAAAT
172852 TAAAATATATAT
1 TAAAATATATAT
172864 TAACTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 14 0.45
24 16 0.52
25 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAATATATATAATATGAAAAAT
Found at i:174346 original size:37 final size:37
Alignment explanation
Indices: 174302--174412 Score: 204
Period size: 37 Copynumber: 3.0 Consensus size: 37
174292 GTTTACATGG
174302 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
174339 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
**
174376 ATTGATTATTTAACTAGAAGACGAAGTACAAAATTAT
1 ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
174413 TTAACTATAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (37 bp):
ACCGATTATTTAACTAGAAGACGAAGTACAAAATTAT
Found at i:177391 original size:6 final size:6
Alignment explanation
Indices: 177380--177466 Score: 120
Period size: 6 Copynumber: 14.5 Consensus size: 6
177370 GCAAGCTCGA
* * *
177380 CTCAGG CTCAGG CTCATG CTCAGG CTCAAG CTCAGG CTCAAG CTCAGG
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG
* * *
177428 CTCAAG CTCAAG CTCAAG CTCAGG CTCAGG CTCAGG CTC
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTC
177467 GACCCACAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.18
Consensus pattern (6 bp):
CTCAGG
Found at i:177400 original size:12 final size:12
Alignment explanation
Indices: 177371--177466 Score: 140
Period size: 12 Copynumber: 8.1 Consensus size: 12
177361 TTGGGCTATG
*
177371 CAAGCTC-GACT
1 CAAGCTCAGGCT
*
177382 CAGGCTCAGGCT
1 CAAGCTCAGGCT
*
177394 CATGCTCAGGCT
1 CAAGCTCAGGCT
177406 CAAGCTCAGGCT
1 CAAGCTCAGGCT
177418 CAAGCTCAGGCT
1 CAAGCTCAGGCT
*
177430 CAAGCTCAAGCT
1 CAAGCTCAGGCT
177442 CAAGCTCAGGCT
1 CAAGCTCAGGCT
*
177454 CAGGCTCAGGCT
1 CAAGCTCAGGCT
177466 C
1 C
177467 GACCCACAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
11 6 0.08
12 71 0.92
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (12 bp):
CAAGCTCAGGCT
Found at i:182732 original size:16 final size:16
Alignment explanation
Indices: 182711--182743 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
182701 AAATAAAGTA
*
182711 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
182727 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
182743 A
1 A
182744 GAGACTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:183758 original size:23 final size:23
Alignment explanation
Indices: 183727--183816 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
183717 ACTAAGTGCC
183727 ATTCTGGTGTGTTTGGGTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
*
183750 GTTCTGGTGTGTTTGGGTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
* * *
183773 ATTTTAGTGTGTTTGGTTGGATT
1 ATTCTGGTGTGTTTGGGTGGATT
* *
183796 ATT-TCAGTGTGTTTGGTTGGA
1 ATTCT-GGTGTGTTTGGGTGGA
183817 ATCTGTGTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.02
23 60 0.98
ACGTcount: A:0.10, C:0.03, G:0.37, T:0.50
Consensus pattern (23 bp):
ATTCTGGTGTGTTTGGGTGGATT
Found at i:184042 original size:22 final size:23
Alignment explanation
Indices: 184017--184062 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
184007 CAACCAAATC
184017 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
184039 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
184062 A
1 A
184063 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:187547 original size:16 final size:16
Alignment explanation
Indices: 187526--187557 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
187516 TCCTTATACC
*
187526 AAAAGATTTTTTAAAG
1 AAAAGATTTTTCAAAG
187542 AAAAGATTTTTCAAAG
1 AAAAGATTTTTCAAAG
187558 TAGGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (16 bp):
AAAAGATTTTTCAAAG
Found at i:204808 original size:27 final size:27
Alignment explanation
Indices: 204770--204822 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
204760 AGCTGATCAA
204770 ACTAGTATTTTATTACAATATAGATAT
1 ACTAGTATTTTATTACAATATAGATAT
204797 ACTAGTATTTTATTACAATATAGATA
1 ACTAGTATTTTATTACAATATAGATA
204823 AATTACTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (27 bp):
ACTAGTATTTTATTACAATATAGATAT
Found at i:204837 original size:27 final size:27
Alignment explanation
Indices: 204780--204837 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
204770 ACTAGTATTT
* * ***
204780 TATTACAATATAGATATACTAGTATTT
1 TATTACAATATAGATAAACTACTAGAA
*
204807 TATTACAATATAGATAAATTACTAGAA
1 TATTACAATATAGATAAACTACTAGAA
204834 TATT
1 TATT
204838 TTTAACGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (27 bp):
TATTACAATATAGATAAACTACTAGAA
Found at i:206123 original size:31 final size:31
Alignment explanation
Indices: 206086--206213 Score: 99
Period size: 31 Copynumber: 4.3 Consensus size: 31
206076 CAAGTTAGTT
206086 CCTGAACTTGATAATTGTTCTCACATTGAGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
* * *
206117 CTTGAACTT--T--TTTTTC-CA-AGTT-AGTC
1 CCTGAACTTGATAATTGTTCTCACA-TTGAG-G
* *
206143 CCTGAACTTGATAATTGTTCTCATATTGGGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
** * *
206174 CCTGAACTTGGCAAATGTTCCCACATTGAGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
*
206205 CTTGAACTT
1 CCTGAACTT
206214 TAGAGTTCAG
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
25 3 0.04
26 12 0.16
27 5 0.07
28 1 0.01
29 1 0.01
30 5 0.07
31 45 0.61
32 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (31 bp):
CCTGAACTTGATAATTGTTCTCACATTGAGG
Found at i:206123 original size:62 final size:59
Alignment explanation
Indices: 206041--206182 Score: 182
Period size: 57 Copynumber: 2.4 Consensus size: 59
206031 TTAGCAATAA
* *
206041 TTCTCACATTGAGG-TCTGAACTTTTTTTTTTTGGTCAAGTTAGTTCCTGAACTTGATAATTG
1 TTCTCACATTGAGGCT-TGAAC-TTTTTTTTTT--CCAAGTTAGTCCCTGAACTTGATAATTG
206103 TTCTCACATTGAGGCTTGAAC--TTTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
1 TTCTCACATTGAGGCTTGAACTTTTTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
* * *
206160 TTCTCATATTGGGGCCTGAACTT
1 TTCTCACATTGAGGCTTGAACTT
206183 GGCAAATGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
57 44 0.61
59 8 0.11
62 19 0.26
63 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (59 bp):
TTCTCACATTGAGGCTTGAACTTTTTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
Found at i:211441 original size:22 final size:22
Alignment explanation
Indices: 211400--211441 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
211390 TTCATATTTA
*
211400 TCATATATATTTAATATTTTTT
1 TCATAAATATTTAATATTTTTT
211422 TCATAAAT-TTTAATATTTTT
1 TCATAAATATTTAATATTTTT
211442 ATAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TCATAAATATTTAATATTTTTT
Found at i:215223 original size:16 final size:15
Alignment explanation
Indices: 215202--215249 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
215192 GATGTGAATA
215202 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
215218 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
215233 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
215249 A
1 A
215250 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:215225 original size:24 final size:24
Alignment explanation
Indices: 215198--215253 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
215188 TAATGATGTG
*
215198 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
215222 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
215246 AATAATAA
1 AATAATAA
215254 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:215232 original size:8 final size:8
Alignment explanation
Indices: 215198--215249 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
215188 TAATGATGTG
*
215198 AATAATAA
1 AATATTAA
215206 AATATATAA
1 AATAT-TAA
215215 AATA-TAA
1 AATATTAA
215222 AATATTAA
1 AATATTAA
*
215230 AATATCAA
1 AATATTAA
*
215238 AATATTAG
1 AATATTAA
215246 AATA
1 AATA
215250 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:215463 original size:22 final size:24
Alignment explanation
Indices: 215400--215464 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
215390 CGTGATAATA
*
215400 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
215425 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
215448 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
215465 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:215511 original size:25 final size:25
Alignment explanation
Indices: 215483--215616 Score: 77
Period size: 25 Copynumber: 5.6 Consensus size: 25
215473 GTAAAAAAAA
215483 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
215508 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
215533 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
215559 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
215581 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
215604 AAATAT-AATAATA
1 ATATATAAATAATA
215617 ACAAAAAAGG
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 18 0.22
24 5 0.06
25 32 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:216138 original size:30 final size:30
Alignment explanation
Indices: 216102--216276 Score: 305
Period size: 30 Copynumber: 5.8 Consensus size: 30
216092 TAGGTACAAG
* *
216102 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
216132 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
216162 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
216192 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
216222 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
216252 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
216277 TGAGAAAAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 137 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:217161 original size:78 final size:75
Alignment explanation
Indices: 216894--217268 Score: 452
Period size: 75 Copynumber: 4.9 Consensus size: 75
216884 ACTAGACATT
* * * * *
216894 AAAAACAGAAATTGAAAATAGCTTAGCACGTGAGCC-AAGGCTCAACTCACATCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
216958 GTTGA--TTTTTG
63 GTTGATTTTTTTG
* * ** *
216969 AAAAGCAGAAATTAAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
217034 TTGATTTTTTTT
64 TTGATTTTTTTG
* * * *
217046 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTC
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
217111 GATTTTTTTTTTG
66 GA---TTTTTTTG
* * **
217124 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
217189 GATTTTTTTG
66 GATTTTTTTG
* * *
217199 -ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
217263 GATTTT
66 GATTTT
217269 GAAAAAGTAG
Statistics
Matches: 257, Mismatches: 35, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
73 4 0.02
74 65 0.25
75 92 0.36
77 30 0.12
78 66 0.26
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:217229 original size:152 final size:149
Alignment explanation
Indices: 216931--217287 Score: 479
Period size: 152 Copynumber: 2.4 Consensus size: 149
216921 ACGTGAGCCA
* * * * * *
216931 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTAAAAACGCCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATAAGTCGATTTTTGAAAAACAGAAATTAAAAACACCTCAAC
216996 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGA
66 GTGT-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGA
217061 AATTACCTCAGCGTGTCCTG
130 AATTACCTCAGCGTGTCCTG
* *
217081 AGGCTCAACTCACCTCTCGCAATATAAGTCGATTTTTTTTTTGAAAAACAGAAATTGAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATAAGTCGA-----TTTTTGAAAAACAGAAATTAAAAACACC
** ** *
217146 TCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTGACAACAGAAA
61 TCAACGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAA
217209 TTGAAATTACCTCAGCGTGTCCTG
126 TTGAAATTACCTCAGCGTGTCCTG
* *
217233 AGGCTCAACTCACCTCTCGCAATATGAG-CTGA-TTTTGAAAAAGTAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATAAGTC-GATTTTTGAAAAA-CAGAAATTAAAA
217288 GGTTCAACCC
Statistics
Matches: 184, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
146 10 0.05
147 10 0.05
150 29 0.16
151 1 0.01
152 70 0.38
153 32 0.17
155 32 0.17
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (149 bp):
AGGCTCAACTCACCTCTCGCAATATAAGTCGATTTTTGAAAAACAGAAATTAAAAACACCTCAAC
GTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAA
ATTACCTCAGCGTGTCCTG
Found at i:217337 original size:54 final size:54
Alignment explanation
Indices: 217237--217342 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
217227 GTCCTGAGGC
*
217237 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
217291 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
217343 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:217477 original size:54 final size:54
Alignment explanation
Indices: 217377--217482 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
217367 GACCTGAGGC
*
217377 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
217431 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
217483 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:217617 original size:54 final size:54
Alignment explanation
Indices: 217517--217622 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
217507 GACCTGAGGC
*
217517 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
217571 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
217623 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:217757 original size:54 final size:54
Alignment explanation
Indices: 217657--217762 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
217647 GACCTGAGGC
*
217657 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
217711 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
217763 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:217897 original size:54 final size:54
Alignment explanation
Indices: 217797--217902 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
217787 GACCTGAGGC
*
217797 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
217851 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
217903 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:218037 original size:54 final size:54
Alignment explanation
Indices: 217937--218042 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
217927 GACCTGAGGC
*
217937 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
217991 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
218043 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:218177 original size:54 final size:54
Alignment explanation
Indices: 218077--218182 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
218067 GACCTGAGGC
*
218077 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
218131 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
218183 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:218317 original size:54 final size:54
Alignment explanation
Indices: 218217--218322 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
218207 GACCTGAGGC
*
218217 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
218271 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
218323 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:218394 original size:140 final size:140
Alignment explanation
Indices: 217196--218380 Score: 2307
Period size: 140 Copynumber: 8.5 Consensus size: 140
217186 GTTGATTTTT
* * *
217196 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
217261 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
217326 ACAACGTAAA
131 ACAACGTAAA
*
217336 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
217401 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
217466 ACAACGTAAA
131 ACAACGTAAA
217476 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
217541 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
217606 ACAACGTAAA
131 ACAACGTAAA
217616 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
217681 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
217746 ACAACGTAAA
131 ACAACGTAAA
*
217756 TTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
217821 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
217886 ACAACGTAAA
131 ACAACGTAAA
217896 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
217961 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
218026 ACAACGTAAA
131 ACAACGTAAA
218036 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
218101 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
218166 ACAACGTAAA
131 ACAACGTAAA
218176 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
218241 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
218306 ACAACGTAAA
131 ACAACGTAAA
218316 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
218381 TTGAAATTAA
Statistics
Matches: 1035, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 1035 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:218436 original size:72 final size:72
Alignment explanation
Indices: 218319--218478 Score: 250
Period size: 72 Copynumber: 2.2 Consensus size: 72
218309 ACGTAAATTG
* * *
218319 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
218384 AAATTAA
66 AAATTAA
*
218391 AAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
** *
218456 ATTTTGA
66 AAATTAA
218463 AAAACAAAAATT-AAAA
1 AAAACAAAAATTGAAAA
218479 GGCTTAACTC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 4 0.05
72 77 0.95
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (72 bp):
AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
AAATTAA
Found at i:218573 original size:122 final size:123
Alignment explanation
Indices: 218353--218598 Score: 381
Period size: 122 Copynumber: 2.0 Consensus size: 123
218343 GCGTGACCTG
* *
218353 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTAAAAATACCTCAGCG
218418 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG--AAACAAAAATTAAA
* * * *
218478 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATT-TAAAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTAAAAATACCTCAGCG
* *
218540 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAACAAAAATTAAA
218598 A
1 A
218599 ATACCTCATC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 15 0.13
122 66 0.58
123 4 0.04
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAAACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAACAAAAATTAAA
Found at i:218580 original size:420 final size:404
Alignment explanation
Indices: 217233--218531 Score: 1342
Period size: 420 Copynumber: 3.1 Consensus size: 404
217223 GCGTGTCCTG
* * ** * *
217233 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTGAA-AAAGTAGAAAT-TA--AAAGGTTC
1 AGGCTTAACTCACCTCTCGCAATATGAGTC-AATTTAAAATAAACTAAAAATATAGTAAAGGTTC
*
217293 AACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
65 AACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
*
217358 CCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
130 CCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
217423 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
195 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
217488 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAA
260 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAA
* ** * ** * * *
217553 AAGTAGAAATTAAAAGGTTCAACCCA-CCTCTCGCAATATGAGTTGA-TTCTTGAACAACGTAAA
325 AAGTAGAAATTAAAA---T--ACCCAGCGTC-C-C-AGGTCAACTCACCTC-T-AGCAA--T--A
*** ** * *** * **
217616 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTG
376 -TG--AGTTGATTTTGAAAA-A-CA-AAAATTA--AA
* * ** * *
217653 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTGAA-AAAGTAGAAAT-TA--AAAGGTTC
1 AGGCTTAACTCACCTCTCGCAATATGAGTC-AATTTAAAATAAACTAAAAATATAGTAAAGGTTC
217713 AACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
65 AACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
*
217778 CCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
130 CCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
217843 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
195 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
217908 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAA
260 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAA
* ** * ** * * *
217973 AAGTAGAAATTAAAAGGTTCAACCCA-CTTCTCGCAATATGAGTTGA-TTCTTGAACAACGTAAA
325 AAGTAGAAATTAAAA---T--ACCCAGCGTC-C-C-AGGTCAACTCACCTC-T-AGCAA--T--A
*** ** * *** * **
218036 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTG
376 -TG--AGTTGATTTTGAAAA-A-CA-AAAATTA--AA
* * ** * *
218073 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTGAA-AAAGTAGAAAT-TA--AAAGGTTC
1 AGGCTTAACTCACCTCTCGCAATATGAGTC-AATTTAAAATAAACTAAAAATATAGTAAAGGTTC
218133 AACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
65 AACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATA
218198 CCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
130 CCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAAT
218263 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
195 TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAA
* **
218328 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAA
260 ATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAA
** *
218392 AAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
325 AAGTAGAAATT-AAAATACC-CAGCGT--CCC-AGG-TCAACTCACCTCTAGCAATATGAGTTGA
218457 TTTTGAAAAACAAAAATTAAA
384 TTTTGAAAAACAAAAATTAAA
218478 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATA
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAA-ATAAACTAAAAATA
218532 CCTCAGCGTG
Statistics
Matches: 828, Mismatches: 39, Indels: 35
0.92 0.04 0.04
Matches are distributed among these distances:
405 31 0.04
406 2 0.00
407 4 0.00
408 10 0.01
409 1 0.00
410 10 0.01
412 2 0.00
413 1 0.00
415 4 0.00
416 2 0.00
417 9 0.01
418 6 0.01
419 14 0.02
420 732 0.88
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (404 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAATAAACTAAAAATATAGTAAAGGTTCA
ACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATAC
CTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAA
TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAA
AGTAGAAATTAAAATACCCAGCGTCCCAGGTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
AAACAAAAATTAAA
Found at i:218620 original size:70 final size:70
Alignment explanation
Indices: 218478--218652 Score: 228
Period size: 70 Copynumber: 2.5 Consensus size: 70
218468 AAAAATTAAA
* * * * *
218478 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGCGTG
218542 CCCCG
66 CCCCG
* * *
218547 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAACAAAAATTAAAAATACCTCATCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGCGTG
* **
218612 TCTTG
66 CCCCG
218617 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
218653 CCTTGAAAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
69 27 0.29
70 66 0.71
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGCGTG
CCCCG
Found at i:229581 original size:16 final size:15
Alignment explanation
Indices: 229560--229607 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
229550 GATGGGAATA
229560 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
229576 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
229591 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
229607 A
1 A
229608 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:229590 original size:8 final size:8
Alignment explanation
Indices: 229556--229607 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
229546 CAATGATGGG
*
229556 AATAATAA
1 AATATTAA
229564 AATATATAA
1 AATAT-TAA
229573 AATA-TAA
1 AATATTAA
229580 AATATTAA
1 AATATTAA
*
229588 AATATCAA
1 AATATTAA
*
229596 AATATTAG
1 AATATTAA
229604 AATA
1 AATA
229608 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:229607 original size:24 final size:24
Alignment explanation
Indices: 229555--229611 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
229545 ACAATGATGG
*
229555 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
229579 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
229603 GAATAATAA
1 GAATAATAA
229612 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:229824 original size:22 final size:24
Alignment explanation
Indices: 229761--229825 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
229751 CGTGATAATA
*
229761 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
229786 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
229809 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
229826 GATAACATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:229877 original size:25 final size:25
Alignment explanation
Indices: 229849--229982 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
229839 AAAAAAATAT
229849 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
229874 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
229899 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
229925 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
229947 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
229970 AAATAT-AATAATA
1 ATATATAAATAATA
229983 AAAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:230514 original size:30 final size:30
Alignment explanation
Indices: 230477--230620 Score: 216
Period size: 30 Copynumber: 4.8 Consensus size: 30
230467 TAGGTACAAG
*
230477 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
230507 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
230537 TGGTGGTGGACAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
230567 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGTGTGGCTAGTGGAGT
230598 TGGTGGTGGAAAAGGTGTGGCTA
1 TGGTGGTGGAAAAGGTGTGGCTA
230621 AATTGGGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 73 0.73
31 27 0.27
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:230573 original size:60 final size:61
Alignment explanation
Indices: 230477--230620 Score: 254
Period size: 61 Copynumber: 2.4 Consensus size: 61
230467 TAGGTACAAG
*
230477 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGG-AAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
* *
230537 TGGTGGTGGACAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
230598 TGGTGGTGGAAAAGGTGTGGCTA
1 TGGTGGTGGAAAAGGTGTGGCTA
230621 AATTGGGTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
60 37 0.46
61 43 0.54
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (61 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
Done.