Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001966.1 Hibiscus syriacus cultivar Beakdansim tig00003973_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 458221
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:10122 original size:16 final size:16
Alignment explanation
Indices: 10101--10131 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10091 AGAAAAAAAA
10101 TAATAAAGGATGAAGT
1 TAATAAAGGATGAAGT
10117 TAATAAAGGATGAAG
1 TAATAAAGGATGAAG
10132 GGTAAATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (16 bp):
TAATAAAGGATGAAGT
Found at i:14116 original size:3 final size:3
Alignment explanation
Indices: 14108--14134 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14098 TATCTCAGAT
14108 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
14135 CAACAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14139 original size:3 final size:3
Alignment explanation
Indices: 14133--14158 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14123 TAATAATAAT
14133 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
14159 TTATAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:18250 original size:27 final size:28
Alignment explanation
Indices: 18210--18269 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
18200 AAAATTTATT
*
18210 ATAAATTATATTAATTA-T-TTATTAAA
1 ATAAAATATATTAATTATTATTATTAAA
18236 ATAAAATATTATTAATTATTACTTATTAAA
1 ATAAAATA-TATTAATTATTA-TTATTAAA
18266 ATAA
1 ATAA
18270 TAGTGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.24
27 9 0.31
28 1 0.03
30 12 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAAAATATATTAATTATTATTATTAAA
Found at i:18280 original size:27 final size:28
Alignment explanation
Indices: 18218--18280 Score: 65
Period size: 30 Copynumber: 2.2 Consensus size: 28
18208 TTATAAATTA
* *
18218 TATTAATTATTTATTAAAATAAAATATTAT
1 TATT-ATTACTTATTAAAAT-AAATAGTAT
*
18248 TAATTATTACTTATTAAAAT-AATAGTGT
1 T-ATTATTACTTATTAAAATAAATAGTAT
18276 TATTA
1 TATTA
18281 AAATATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 4 0.14
28 7 0.24
30 15 0.52
31 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (28 bp):
TATTATTACTTATTAAAATAAATAGTAT
Found at i:18289 original size:8 final size:8
Alignment explanation
Indices: 18276--18308 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
18266 ATAATAGTGT
18276 TATTAAAA
1 TATTAAAA
18284 TATT-AAA
1 TATTAAAA
*
18291 TATTATAA
1 TATTAAAA
18299 TATTAAAA
1 TATTAAAA
18307 TA
1 TA
18309 AGAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATTAAAA
Found at i:18300 original size:15 final size:15
Alignment explanation
Indices: 18276--18317 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18266 ATAATAGTGT
18276 TATTAAAATATTAAA
1 TATTAAAATATTAAA
*
18291 TATTATAATATTAAA
1 TATTAAAATATTAAA
18306 -A-TAAGAATATTA
1 TATTAA-AATATTA
18318 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 8 0.33
15 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TATTAAAATATTAAA
Found at i:18459 original size:29 final size:29
Alignment explanation
Indices: 18411--18468 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18401 ATTGATAATT
*
18411 TATTATATATTATTAAAATAAAAGTATAA
1 TATTATATATTACTAAAATAAAAGTATAA
* *
18440 TATTATATATT-CTAATAATATAATTATAA
1 TATTATATATTACTAA-AATAAAAGTATAA
18469 AAACAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TATTATATATTACTAAAATAAAAGTATAA
Found at i:20327 original size:30 final size:31
Alignment explanation
Indices: 20269--20327 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
20259 TGATTTTGAA
*
20269 AAAATTAAAATTTTAGGTACTAAAACGAACC
1 AAAATTAAAATTCTAGGTACTAAAACGAACC
20300 AAAATTAATAA-TCTAGGTACT-AAACGAA
1 AAAATTAA-AATTCTAGGTACTAAAACGAA
20328 TAATTTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 17 0.65
32 2 0.08
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (31 bp):
AAAATTAAAATTCTAGGTACTAAAACGAACC
Found at i:20354 original size:20 final size:20
Alignment explanation
Indices: 20306--20345 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20296 AACCAAAATT
*
20306 AATAATCTAGGTACTAAACG
1 AATAATTTAGGTACTAAACG
*
20326 AATAATTTAGGTATTAAACG
1 AATAATTTAGGTACTAAACG
20346 GATTATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
AATAATTTAGGTACTAAACG
Found at i:22630 original size:23 final size:23
Alignment explanation
Indices: 22561--22649 Score: 85
Period size: 23 Copynumber: 3.8 Consensus size: 23
22551 AGCTCGTATA
*
22561 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
22584 AAATTTGTC-CCGAAG-GACCGCGTAG
1 -AA-TTG-CACCGAAGTG-CCACGTAG
22609 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
22632 AAATGCACC-ATAGTGCCA
1 AATTGCACCGA-AGTGCCA
22650 TATAAGATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.04
23 31 0.56
24 6 0.11
25 15 0.27
26 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:23683 original size:22 final size:22
Alignment explanation
Indices: 23655--23697 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23645 TTTTTTCTTT
23655 AGGGGGGAAT-TGATACCCCCTC
1 AGGGGGGAATCTG-TACCCCCTC
23677 AGGGGGGAATCTGTACCCCCT
1 AGGGGGGAATCTGTACCCCCT
23698 GCACAATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.19
Consensus pattern (22 bp):
AGGGGGGAATCTGTACCCCCTC
Found at i:26903 original size:14 final size:14
Alignment explanation
Indices: 26876--26908 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26866 TGAGCAGTAA
26876 AATA-CGTATAAAC
1 AATACCGTATAAAC
*
26889 AATACCGTATGAAC
1 AATACCGTATAAAC
26903 AATACC
1 AATACC
26909 TGCTACAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (14 bp):
AATACCGTATAAAC
Found at i:26989 original size:21 final size:22
Alignment explanation
Indices: 26951--26992 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
26941 ATTCAAAGAG
*
26951 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGATTACCCTGCTACA
26973 GGGAACCGA-TACCCTGCTAC
1 GGGAACCGATTACCCTGCTAC
26993 GGTACTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.17
Consensus pattern (22 bp):
GGGAACCGATTACCCTGCTACA
Found at i:27776 original size:23 final size:23
Alignment explanation
Indices: 27707--27795 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 23
27697 AGCTCGTATA
*
27707 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
27730 AAATTTGTC-CCGAAG-GACCGCGTAG
1 -AA-TTG-CACCGAAGTG-CCACGTAG
27755 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
27778 AAATGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
27796 TATAAGATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 32 0.58
24 6 0.11
25 15 0.27
26 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:36160 original size:25 final size:25
Alignment explanation
Indices: 36105--36162 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
36095 AATCCAACGT
36105 TGGAAAAAGGTCCTAAATCTAGCGC
1 TGGAAAAAGGTCCTAAATCTAGCGC
* * *
36130 TAGAAACAGGTCCTAAATCT-GATGC
1 TGGAAAAAGGTCCTAAATCTAG-CGC
36155 TGGAAAAA
1 TGGAAAAA
36163 TGTATCGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (25 bp):
TGGAAAAAGGTCCTAAATCTAGCGC
Found at i:42603 original size:91 final size:92
Alignment explanation
Indices: 42447--42613 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 92
42437 TGATAGGTCA
*
42447 AACAAGCTCTTTTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
42512 TCCATTGGAAACAATGATGTGAGATCG
66 TCCATTGGAAACAATGATGTGAGATCG
* * *
42539 AACAAGTTCTTCTCATTATGAACTTCTTCTCTCTC-GTTGGATGAGTTCTTCTCATTATGAACTC
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
42603 TCCATTGGAAA
66 TCCATTGGAAA
42614 TGTTGATCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
91 39 0.55
92 32 0.45
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (92 bp):
AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
TCCATTGGAAACAATGATGTGAGATCG
Found at i:42705 original size:19 final size:17
Alignment explanation
Indices: 42653--42706 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
42643 TGAAAGGAAC
42653 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* * *
42670 AACTTTTTC-CTTTATG
1 AAGTTCTTCTCATTATG
42686 ACGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
42705 AA
1 AA
42707 CTCTTCTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:42713 original size:19 final size:18
Alignment explanation
Indices: 42656--42713 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
42646 AAGGAACAAG
42656 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
* *
42674 TT-TTC-CTTTATG-ACGAG
1 TTCTTCTCATTATGAAC--T
42691 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
42709 CTTCT
1 -TTCT
42714 GGAAATGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 5 0.17
18 5 0.17
19 10 0.33
20 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.50
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:42905 original size:136 final size:136
Alignment explanation
Indices: 42688--42993 Score: 481
Period size: 136 Copynumber: 2.3 Consensus size: 136
42678 CCTTTATGAC
* *
42688 GAGTTCTTCTCATTATGAACTCTTC--TGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTC
* * *
42751 GAAATGCCATGAACCGAGTGATAGGTCGAACAAGCTCTTATCATTATGAACTTTTTCTTCCTCTG
66 AAAATACCATGAACCGAGTGATAGGTCGAACAAGCTCTTATCATTATGAACTTCTTCTTCCTCTG
42816 TCGGAT
131 TCGGAT
*
42822 GAGTTCTTCTCATTATAAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTC
* * * * * *
42887 AAAATATCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTCTT
66 AAAATACCATGAACCGAGTGATAGGTCGAACAAGCTCTTATCATTATGAACTTCTTCTTCCTCTG
42952 TCGGAT
131 TCGGAT
*
42958 GAGTTCTTCTCATTATGAACTCTCCATTGAAAATGT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGT
42994 TGATCTGTTT
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
134 23 0.15
136 133 0.85
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (136 bp):
GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTC
AAAATACCATGAACCGAGTGATAGGTCGAACAAGCTCTTATCATTATGAACTTCTTCTTCCTCTG
TCGGAT
Found at i:43376 original size:76 final size:73
Alignment explanation
Indices: 43285--43591 Score: 239
Period size: 72 Copynumber: 4.2 Consensus size: 73
43275 GAAGGAAAAT
* * * **
43285 TGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAAACATCTCAAGTGAGATTAAATTTCTTGTTT
1 TGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAAACATCTCAAGGGAGA-CAAAACT-TTGTTT
*
43350 CAAGGGAAAGC
64 CAAGAGAAA-C
* ** *
43361 TGTCTCAAGCGAGACGAATTTGGTTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCA
1 TGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAAACATCTCAAGGGAGACAAAACTTTGTTTCA
43426 AGAGAAAC
66 AGAGAAAC
* * * ** * ** * *
43434 TGTCTCAAGGGAGACAAAATTCGTTTCAA-AGGAAACTGTCTCAAGGGAGACAAAA-TTCGTTTC
1 TGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAAAC-ATCTCAAGGGAGACAAAACTTTGTTTC
*
43497 AAGGGAAAC
65 AAGAGAAAC
* * * * * ** *
43506 TGTCTCAAGGGAGACAAAATTTA-TTTCAAG-GGAAACTATCTCAAGGGAGACAAAA-TTCGTTT
1 TGTCTCAAGCGAGAC-GAAGTAAGTTTTAAGAAAAAAC-ATCTCAAGGGAGACAAAACTTTGTTT
43568 CAA-AGGAAAC
64 CAAGA-GAAAC
*
43578 TGTCTCAAGGGAGA
1 TGTCTCAAGCGAGA
43592 GAAAATTCGT
Statistics
Matches: 202, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
72 93 0.46
73 47 0.23
74 14 0.07
75 4 0.02
76 44 0.22
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (73 bp):
TGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAAACATCTCAAGGGAGACAAAACTTTGTTTCA
AGAGAAAC
Found at i:43469 original size:36 final size:36
Alignment explanation
Indices: 43346--43824 Score: 578
Period size: 36 Copynumber: 13.4 Consensus size: 36
43336 TAAATTTCTT
* * * *
43346 GTTTCAAGGGAAAGCTGTCTCAAGCGAGACGAATTTG
1 GTTTCAAGGGAAA-CTGTCTCAAGGGAGACAAAATTC
* ** ** *
43383 GTTTTAAGAAAAACCATCTCAAGGGAGACAAAACTTT
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTC
*
43420 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
*
43456 GTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
*
43492 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
* *
43528 ATTTCAAGGGAAACTATCTCAAGGGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
* *
43564 GTTTCAAAGGAAACTGTCTCAAGGGAGAGAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
* *
43600 GTTTCAAGGGAAACTGTCTAAAGGGTGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
43636 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
*
43672 GTTTCAAGGGAAACTGTTTCAAGGGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
* * ***
43708 GTTTCAATGGAAACT-TTTCAA---AG--TTTA-T-
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
* * *
43736 GTTTCAAGAGAAACTGCCTCAAGAGAGACAAAACTTTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA--TTC
* * *
43774 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTC
1 -GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
43811 GTTTCAAGGGAAAC
1 GTTTCAAGGGAAAC
43825 GTTTTCAAAG
Statistics
Matches: 382, Mismatches: 48, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.03
29 5 0.01
30 1 0.00
32 4 0.01
34 1 0.00
35 6 0.02
36 278 0.73
37 45 0.12
39 29 0.08
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (36 bp):
GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTC
Found at i:43796 original size:39 final size:37
Alignment explanation
Indices: 43735--43823 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 37
43725 TCAAAGTTTA
* * *
43735 TGTTTCAAGAGAAACTGCCTCAAGAGAGACAAAACTTTC
1 TGTTTCAAGGGAAAATACCTCAAGAGAGACAAAA--TTC
*
43774 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTC
1 TGTTTCAAGGGAAAATACCTCAAGAGAGACAAAATTC
43811 -GTTTCAAGGGAAA
1 TGTTTCAAGGGAAA
43824 CGTTTTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 13 0.28
37 3 0.07
39 30 0.65
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
TGTTTCAAGGGAAAATACCTCAAGAGAGACAAAATTC
Found at i:44044 original size:75 final size:75
Alignment explanation
Indices: 43842--44044 Score: 234
Period size: 76 Copynumber: 2.7 Consensus size: 75
43832 AAGTTTATGT
* * *
43842 TTCAAG-AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGAAAAACAACATGTAGTGAAAT
1 TTCAAGTA-AAACTGTCTCAAGCGAGAC-AAA-TTTGTTTTAAGAAAAACAATATGTAGTCAAAT
**
43906 GAAATGTCTTGTT
63 GAAATGTCTTGCC
* *
43919 TTGAA-TAAAACCTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAATAT-TGAGTCAAAT
1 TTCAAGTAAAA-CTGTCTCAAGCGAGACAAAT-TTGTTTTAAGAAAAACAATATGT-AGTCAAAT
43982 GAAATGTCTT-CC
63 GAAATGTCTTGCC
* *
43994 TTCAAGTAAAACAGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAAT
1 TTCAAGTAAAACTGTCTCAAGCGAGACAAA-TTTGTTTTAAGAAAAACAAT
44045 CTCCAGTGAA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
75 41 0.38
76 48 0.44
77 20 0.18
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (75 bp):
TTCAAGTAAAACTGTCTCAAGCGAGACAAATTTGTTTTAAGAAAAACAATATGTAGTCAAATGAA
ATGTCTTGCC
Found at i:49869 original size:29 final size:30
Alignment explanation
Indices: 49827--49934 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 30
49817 GATTGAAAGC
* *
49827 ATTATTTAGGCGTTAAAAAATAACCGGAAAT
1 ATTA-TTAGGCGTTAAAAAATGACCGAAAAT
* *
49858 ATTATTA-GCGTTAAAAAAATGATCGAAAAC
1 ATTATTAGGCGTT-AAAAAATGACCGAAAAT
* **
49888 ACTATTAGGTATTAAAAAATGACCGAAAAT
1 ATTATTAGGCGTTAAAAAATGACCGAAAAT
*
49918 ATTATTAGGTGTTAAAA
1 ATTATTAGGCGTTAAAA
49935 GTGATCGGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
29 5 0.08
30 52 0.81
31 7 0.11
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (30 bp):
ATTATTAGGCGTTAAAAAATGACCGAAAAT
Found at i:49896 original size:60 final size:62
Alignment explanation
Indices: 49811--49934 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 62
49801 AAAATCGGTT
* * * * *
49811 AAAAATGATTGAAAGCATTATTTAGGCGTTAAAAAATAACCGGAAATATTATTA-GCGTTAA
1 AAAAATGATCGAAAACACTATTTAGGCATTAAAAAATAACCGAAAATATTATTAGGCGTTAA
* * *
49872 AAAAATGATCGAAAACACTA-TTAGGTATTAAAAAATGACCGAAAATATTATTAGGTGTTAA
1 AAAAATGATCGAAAACACTATTTAGGCATTAAAAAATAACCGAAAATATTATTAGGCGTTAA
49933 AA
1 AA
49935 GTGATCGGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 29 0.54
61 25 0.46
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.28
Consensus pattern (62 bp):
AAAAATGATCGAAAACACTATTTAGGCATTAAAAAATAACCGAAAATATTATTAGGCGTTAA
Found at i:49979 original size:20 final size:20
Alignment explanation
Indices: 49951--49988 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49941 GGAAATGTTA
*
49951 AAAAAAATAATGTTTTAGGT
1 AAAAAAATAATATTTTAGGT
*
49971 AAAATAATAATATTTTAG
1 AAAAAAATAATATTTTAG
49989 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
AAAAAAATAATATTTTAGGT
Found at i:52777 original size:59 final size:59
Alignment explanation
Indices: 52668--52816 Score: 145
Period size: 59 Copynumber: 2.5 Consensus size: 59
52658 ACATATACTA
** * * ** *
52668 ATAGTTTGAGATGAAAACGAAATGTTCAAAAGTTCAAATACTAATTTAGAATGAGGATC
1 ATAGTTTGAGATGAAATTGAAATATTCAAAAGTTCAAAGACTAACATAGAATGAGCATC
** * * *
52727 ATAGTTTGAGATGAAATTGAAATATTCAAAAGTTTGAGGATTAACATAGAATGAGCTTC
1 ATAGTTTGAGATGAAATTGAAATATTCAAAAGTTCAAAGACTAACATAGAATGAGCATC
* * * *
52786 ATAATTTAAGGATAAAATTAAAATATTCAAA
1 ATAGTTTGA-GATGAAATTGAAATATTCAAA
52817 TATTTAAGAA
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
59 54 0.74
60 19 0.26
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.31
Consensus pattern (59 bp):
ATAGTTTGAGATGAAATTGAAATATTCAAAAGTTCAAAGACTAACATAGAATGAGCATC
Found at i:58140 original size:2 final size:2
Alignment explanation
Indices: 58135--58176 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
58125 AGGTTTTTTA
58135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58177 TGGTTGACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59492 original size:23 final size:22
Alignment explanation
Indices: 59460--59508 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
59450 TTTAAAATAG
*
59460 TTATTTAAAT-TTAAAACATAAAA
1 TTATTAAAATATTAAAA-A-AAAA
*
59483 TTATTAAAATATTCAAAAAAAA
1 TTATTAAAATATTAAAAAAAAA
59505 TTAT
1 TTAT
59509 AACAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTATTAAAATATTAAAAAAAAA
Found at i:59911 original size:74 final size:74
Alignment explanation
Indices: 59773--59995 Score: 271
Period size: 72 Copynumber: 3.0 Consensus size: 74
59763 ATATGGATTC
* *
59773 GAAAACATGTTTTTGAAAACGTATAATATATAGTTTTAAAAACATATTTTTGAAAACTTATATAA
1 GAAAACGTG-TTTTGAAAACATATAATATATAGTTTTAAAAA-ATATTTTT-AAAACTTATATAA
59838 TATATAGTTTTT
63 TATATAGTTTTT
* *
59850 -AAATTCG-GTTTTGAAAAACATATAATATA-AGTTTT-AAAAATATTTTTAAAACGTATAT-AT
1 GAAA-ACGTGTTTTG-AAAACATATAATATATAGTTTTAAAAAATATTTTTAAAACTTATATAAT
59910 AATATAGTTTTT
64 -ATATAGTTTTT
* *
59922 GAAAACGTTTTTTGAAAACATATAATATATAGTTTTTTAAAAAATATTTTGAAAAC--ATATAAT
1 GAAAACGTGTTTTGAAAACATATAATATATAG--TTTTAAAAAATATTTTTAAAACTTATATAAT
59985 ATATAGTTTTT
64 ATATAGTTTTT
59996 TTGAAAACAT
Statistics
Matches: 129, Mismatches: 7, Indels: 23
0.81 0.04 0.14
Matches are distributed among these distances:
71 2 0.02
72 38 0.29
73 18 0.14
74 19 0.15
75 17 0.13
76 34 0.26
77 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (74 bp):
GAAAACGTGTTTTGAAAACATATAATATATAGTTTTAAAAAATATTTTTAAAACTTATATAATAT
ATAGTTTTT
Found at i:59996 original size:37 final size:36
Alignment explanation
Indices: 59783--59995 Score: 218
Period size: 37 Copynumber: 5.8 Consensus size: 36
59773 GAAAACATGT
*
59783 TTTTGAAAACGTATAATATATAG-TTTTAAAAACATA
1 TTTTGAAAACATATAATATATAGTTTTTAAAAA-ATA
*****
59819 TTTTTGAAAACTTATATAATATATAGTTTTTAAATTCGG
1 -TTTTGAAAAC--ATATAATATATAGTTTTTAAAAAATA
59858 TTTTGAAAAACATATAATATA-AG-TTTT-AAAAATA
1 TTTTG-AAAACATATAATATATAGTTTTTAAAAAATA
* * ** *
59892 TTTTTAAAACGTATATATAATATAGTTTTTGAAAACGTT
1 TTTTGAAAACATATA-AT-ATATAGTTTTT-AAAAAATA
59931 TTTTGAAAACATATAATATATAGTTTTTTAAAAAATA
1 TTTTGAAAACATATAATATATAG-TTTTTAAAAAATA
59968 TTTTGAAAACATATAATATATAGTTTTT
1 TTTTGAAAACATATAATATATAGTTTTT
59996 TTGAAAACAT
Statistics
Matches: 144, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
33 9 0.06
34 8 0.06
35 7 0.05
36 9 0.06
37 58 0.40
38 12 0.08
39 34 0.24
40 7 0.05
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATATAATATATAGTTTTTAAAAAATA
Found at i:60001 original size:26 final size:26
Alignment explanation
Indices: 59968--60021 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
59958 TTAAAAAATA
59968 TTTTGAAAACATATAATATATAGTTT
1 TTTTGAAAACATATAATATATAGTTT
59994 TTTTGAAAACATATAATATATAGTTT
1 TTTTGAAAACATATAATATATAGTTT
60020 TT
1 TT
60022 AAAATGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (26 bp):
TTTTGAAAACATATAATATATAGTTT
Found at i:60065 original size:31 final size:32
Alignment explanation
Indices: 60008--60076 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
59998 GAAAACATAT
* *
60008 AATATATAGTTTTTAAAATGATTATTTTTGGAA
1 AATATATAGTTTTTAAAATCATTATTTTTCG-A
60041 AATATATAG-TTTTAGAAA-CA-TATTTTTCGA
1 AATATATAGTTTTTA-AAATCATTATTTTTCGA
60071 AATATA
1 AATATA
60077 CATATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 7 0.21
31 8 0.24
32 6 0.18
33 12 0.36
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (32 bp):
AATATATAGTTTTTAAAATCATTATTTTTCGA
Found at i:60112 original size:13 final size:13
Alignment explanation
Indices: 60081--60152 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 13
60071 AATATACATA
60081 TTATTTTA-TTTT
1 TTATTTTATTTTT
**
60093 TCGTTTTATTTTT
1 TTATTTTATTTTT
60106 TTATTTTACTTATTT
1 TTATTTTA-TT-TTT
*
60121 ATATTTT-TTTTT
1 TTATTTTATTTTT
*
60133 ATATTTT-TTTTT
1 TTATTTTATTTTT
60145 CTTATTTT
1 -TTATTTT
60153 CGGTCCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
12 21 0.42
13 18 0.36
14 2 0.04
15 9 0.18
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:60127 original size:20 final size:20
Alignment explanation
Indices: 60079--60133 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
60069 GAAATATACA
*
60079 TATTATTTTATTTTTCGTTT
1 TATTATTTTATTTTACGTTT
* *
60099 TATTTTTTTATTTTACTTATT
1 TATTATTTTATTTTACGT-TT
*
60120 TA-TATTTTTTTTTA
1 TATTATTTTATTTTA
60134 TATTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TATTATTTTATTTTACGTTT
Found at i:61103 original size:30 final size:30
Alignment explanation
Indices: 61069--61160 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
61059 AAACACTTTG
* *
61069 GATATCTTTTATAGGCCCATGCACATTACT
1 GATATCTTTTATAAGCCCATGTACATTACT
* * *
61099 GATATCTTTTATAATCCAATGTACAGTACT
1 GATATCTTTTATAAGCCCATGTACATTACT
61129 GATATCTTTTATAAGCCCATGTACATTACT
1 GATATCTTTTATAAGCCCATGTACATTACT
61159 GA
1 GA
61161 GAACTCAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (30 bp):
GATATCTTTTATAAGCCCATGTACATTACT
Found at i:61275 original size:20 final size:20
Alignment explanation
Indices: 61218--61265 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
61208 CCACAACTCG
61218 TATAAATTCCCACTAAGGCA
1 TATAAATTCCCACTAAGGCA
61238 TATAAATTCCCACTAAGGCA
1 TATAAATTCCCACTAAGGCA
61258 TATAAATT
1 TATAAATT
61266 ATCCCCAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (20 bp):
TATAAATTCCCACTAAGGCA
Found at i:61697 original size:26 final size:26
Alignment explanation
Indices: 61659--61709 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
61649 TATATTCACA
* *
61659 TCAATCATGTCACATAAAATAACATG
1 TCAAACATATCACATAAAATAACATG
*
61685 TCAAACATATCACATATAATAACAT
1 TCAAACATATCACATAAAATAACAT
61710 ATGACACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (26 bp):
TCAAACATATCACATAAAATAACATG
Found at i:61718 original size:26 final size:26
Alignment explanation
Indices: 61658--61720 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
61648 ATATATTCAC
* *
61658 ATCAATCATGTCACATAAAATAACAT
1 ATCAAACATATCACATAAAATAACAT
* *
61684 GTCAAACATATCACATATAATAACAT
1 ATCAAACATATCACATAAAATAACAT
* *
61710 ATGACACATAT
1 ATCAAACATAT
61721 ACCCATTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (26 bp):
ATCAAACATATCACATAAAATAACAT
Found at i:62290 original size:9 final size:9
Alignment explanation
Indices: 62272--62322 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
62262 CTTAAATTTT
*
62272 AAATACCAG
1 AAATTCCAG
*
62281 AAATTTCAG
1 AAATTCCAG
*
62290 AAATTCCAT
1 AAATTCCAG
*
62299 AAATTCCAT
1 AAATTCCAG
*
62308 AAATTCAAG
1 AAATTCCAG
62317 AAATTC
1 AAATTC
62323 TAGTAATGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (9 bp):
AAATTCCAG
Found at i:62302 original size:27 final size:27
Alignment explanation
Indices: 62271--62322 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
62261 ACTTAAATTT
62271 TAAATACCAGAAATTTC-AGAAATTCCA
1 TAAATACCAGAAA-TTCAAGAAATTCCA
* *
62298 TAAATTCCATAAATTCAAGAAATTC
1 TAAATACCAGAAATTCAAGAAATTC
62323 TAGTAATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (27 bp):
TAAATACCAGAAATTCAAGAAATTCCA
Found at i:62572 original size:30 final size:30
Alignment explanation
Indices: 62537--62595 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
62527 CAACTTTTAC
* * *
62537 AAAATTACGAATTGGTCCCCCAATCTTTCA
1 AAAATTACAAAATGGTCCCCAAATCTTTCA
*
62567 AAAATTACAAAATGGTCCCCAAATTTTTC
1 AAAATTACAAAATGGTCCCCAAATCTTTC
62596 TAAGACCTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (30 bp):
AAAATTACAAAATGGTCCCCAAATCTTTCA
Found at i:70332 original size:49 final size:49
Alignment explanation
Indices: 70256--70350 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
70246 GTTTCAAAAA
* * **
70256 TAGGGGCGGGCCTCTATGGAGCCCGGGGTATCCCGGGCAACCCCTCGTC
1 TAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCGTC
* *
70305 TAGGGGTGGACCTCCATGGTGCCCGGGGTATCCCAAGCAACCCCTC
1 TAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTC
70351 CACAAGTGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.15, C:0.35, G:0.34, T:0.17
Consensus pattern (49 bp):
TAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCGTC
Found at i:75460 original size:5 final size:5
Alignment explanation
Indices: 75450--75474 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
75440 CCTAATCAAT
75450 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
75475 AATCCACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:79023 original size:19 final size:19
Alignment explanation
Indices: 78999--79069 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
78989 TTTGTTGTTT
78999 TTTTTTTCTTTTCTCTGTA
1 TTTTTTTCTTTTCTCTGTA
* *
79018 TTTTTTTTCTGTT-TCTGTC
1 -TTTTTTTCTTTTCTCTGTA
* * *
79037 TCTTCTTTCTGTTTCTCTCTG
1 T-TTTTTTCT-TTTCTCTGTA
79058 TTTTTTT-TTTTC
1 TTTTTTTCTTTTC
79070 GCAGGTGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
18 5 0.12
19 13 0.32
20 18 0.44
21 5 0.12
ACGTcount: A:0.01, C:0.18, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTTTTCTTTTCTCTGTA
Found at i:79541 original size:3 final size:3
Alignment explanation
Indices: 79533--79585 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
79523 TAATATAAAT
79533 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79581 TAA TA
1 TAA TA
79586 TGGATAAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79925 original size:116 final size:116
Alignment explanation
Indices: 79721--80471 Score: 1009
Period size: 116 Copynumber: 6.6 Consensus size: 116
79711 ATTGAATAAA
* ** *
79721 TTCTTC-TCTTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTCT-GCTGGGGATGATGATC
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAAC--TCTAACTGGAAAAGATGATC
*
79781 CATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 CATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
79834 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAAGTTGATCCA
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
* * *
79899 TCAAATGATGAATTCAAGCAAAAGATTGAGCAAGTTCTTCTTATTATGAAC
66 TCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* * *
79950 TTCTTCTTCCTTCTTCA-A--ATGAGTTCTTCTCATTATGAACCTTCT--CTGGCAAAA-ATAAT
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAA-C-TCTAACTGG-AAAAGATGAT
*
80009 CCATCAAGTGATGAATTCAA-AAAAAGATTGAACAAGTTCTTCTCATTATGAAC
63 CCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* *
80062 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACCTTCT--CTGGCAAAA-ATAAT
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAA-C-TCTAACTGG-AAAAGATGAT
* * *
80121 CCATCAAGTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 CCATCAAGTGATGAATTCAAG-CAAAAGATTGAACAAGTTCTTCTCATTATGAAC
* *
80175 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCA
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
* ** *
80240 TCAAGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAAC
66 TCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
*
80291 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCA
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
* ** *
80356 TCAAGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAAC
66 TCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
80407 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
1 TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
80472 CCAGATGATG
Statistics
Matches: 591, Mismatches: 28, Indels: 35
0.90 0.04 0.05
Matches are distributed among these distances:
111 1 0.00
112 104 0.18
113 104 0.18
114 20 0.03
115 12 0.02
116 328 0.55
117 22 0.04
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (116 bp):
TTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATGATCCA
TCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
Found at i:81204 original size:130 final size:130
Alignment explanation
Indices: 81044--81341 Score: 578
Period size: 130 Copynumber: 2.3 Consensus size: 130
81034 CACTTCTTCG
*
81044 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
81109 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
81174 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
*
81239 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
81304 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
81342 GTTCTGTCCA
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 166 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (130 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:81324 original size:52 final size:52
Alignment explanation
Indices: 81253--81497 Score: 481
Period size: 52 Copynumber: 4.7 Consensus size: 52
81243 ATTCTGTCCA
81253 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
81305 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
81357 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
81409 ATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
81461 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
81498 TGGCATATTC
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 191 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:93289 original size:17 final size:16
Alignment explanation
Indices: 93250--93292 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
93240 CTTGCAAAGA
*
93250 AAATAAACATATAAAT
1 AAATAAAAATATAAAT
*
93266 ATTATAAAAATAATAAAT
1 A-AATAAAAAT-ATAAAT
93284 AAATAAAAA
1 AAATAAAAA
93293 GTTTGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAAATATAAAT
Found at i:95216 original size:21 final size:21
Alignment explanation
Indices: 95187--95239 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
95177 ATTCTGACTA
95187 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
95208 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
95229 TCGCAATGCGA
1 TCGCATTGCGA
95240 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:95254 original size:20 final size:20
Alignment explanation
Indices: 95229--95281 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
95219 TTTTCCTAAT
95229 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
95249 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
95269 TCGCAACGCGAAT
1 TCGCAATGCGAAT
95282 CTGACTATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:95502 original size:22 final size:22
Alignment explanation
Indices: 95477--95542 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
95467 GGCGACATCC
95477 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
95499 GTCCCCATCTCTGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
95521 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
95543 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:95975 original size:13 final size:14
Alignment explanation
Indices: 95943--95976 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
95933 TGCGATAGTC
95943 ATTTTTGTGTTGCA
1 ATTTTTGTGTTGCA
95957 ATTTTTGTGTTGCA
1 ATTTTTGTGTTGCA
95971 ATTTTT
1 ATTTTT
95977 ATTTTCGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (14 bp):
ATTTTTGTGTTGCA
Found at i:95986 original size:20 final size:20
Alignment explanation
Indices: 95957--95994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95947 TTGTGTTGCA
*
95957 ATTTTTGTGTTGCAATTTTT
1 ATTTTCGTGTTGCAATTTTT
*
95977 ATTTTCGTGTTGCGATTT
1 ATTTTCGTGTTGCAATTT
95995 AAAGTTTCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.61
Consensus pattern (20 bp):
ATTTTCGTGTTGCAATTTTT
Found at i:96916 original size:15 final size:16
Alignment explanation
Indices: 96891--96920 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96881 GCCTTTAACA
96891 ATTACTATTGTTTGTT
1 ATTACTATTGTTTGTT
96907 ATTA-TATTGTTTGT
1 ATTACTATTGTTTGT
96921 AGATTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTACTATTGTTTGTT
Found at i:97841 original size:20 final size:20
Alignment explanation
Indices: 97816--97867 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
97806 AGAATAGTTT
*
97816 ACTATCGCAATGCGAAAACG
1 ACTATCGCAACGCGAAAACG
*
97836 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAACG
*
97856 ACTATCGTAACG
1 ACTATCGCAACG
97868 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAACG
Found at i:97930 original size:34 final size:34
Alignment explanation
Indices: 97839--97932 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
97829 GAAAACGACT
* * * *
97839 ATCGCAACGCGAAAATGACTATCGTAACGAGAGA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
* **
97873 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
97906 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAACGCGAAAATGACTATCGCAA
97933 TGCGAATTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 26 0.53
34 23 0.47
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACAACAAA
Found at i:97931 original size:20 final size:20
Alignment explanation
Indices: 97906--97954 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
97896 CAACAACAAA
97906 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
97926 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
97946 ATCGCAACG
1 ATCGCAACG
97955 AAATAATCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:97973 original size:87 final size:87
Alignment explanation
Indices: 97819--97984 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
97809 ATAGTTTACT
* * * * *
97819 ATCGCAATGCGAAAACGACTATCGCAACGCGAAAATGACTATCGTAACGAGAGAATCGCAATGCG
1 ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCACAATACG
97884 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* * ** *
97906 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAATAATCACAATACG
1 ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCACAATACG
97971 AAATGAAAATCGCA
66 AAATGAAAATCGCA
97985 TTGCGATTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (87 bp):
ATCGCAACGCGAAAACGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCACAATACG
AAATGAAAATCGCAACAACAAA
Found at i:98024 original size:20 final size:20
Alignment explanation
Indices: 97999--98085 Score: 102
Period size: 20 Copynumber: 4.3 Consensus size: 20
97989 GATTCTCTCG
*
97999 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCAAATTCGCA
* *
98019 TTGCGATAATAAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
98039 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
**
98059 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
98079 TTGCGAT
1 TTGCGAT
98086 TTTAAGTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:98660 original size:21 final size:21
Alignment explanation
Indices: 98569--98673 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
98559 GACTCACCTG
*
98569 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
98591 T-ATCGTTCAAGAGACCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
98611 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
98632 ACACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
98653 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
98674 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:100225 original size:14 final size:14
Alignment explanation
Indices: 100206--100259 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
100196 GAAAATGACT
100206 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
100220 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
100239 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
100253 ATCGCAA
1 ATCGCAA
100260 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:100243 original size:33 final size:34
Alignment explanation
Indices: 100186--100281 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 34
100176 AAAACAGACT
* **
100186 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
100220 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
100253 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
100282 CGAAACTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 31 0.53
34 27 0.47
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:100277 original size:20 final size:19
Alignment explanation
Indices: 100219--100286 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 19
100209 GCAACGAGAG
100219 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100238 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
100252 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
100272 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
100287 CTAAATTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
19 12 0.30
20 13 0.32
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:100355 original size:20 final size:20
Alignment explanation
Indices: 100330--100443 Score: 158
Period size: 20 Copynumber: 5.7 Consensus size: 20
100320 GCGATTCTCT
100330 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
100350 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
100370 CGTTGCGATAGTCAATTCCA
1 CGTTGCGATAGTCATTTCCG
* *
100390 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
* *
100410 TGTTGCAATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
100430 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
100444 AATGAATGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 80 0.98
21 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:100432 original size:60 final size:60
Alignment explanation
Indices: 100332--100444 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
100322 GATTCTCTCG
*
100332 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCACA
1 TTGCGATAGTCATTTCCGCGTTGCAATAGTCATTTCCGCGTTGCGATAGTCAATTCCACA
* *
100392 TTGCGATAGTCATTTTCGTGTTGCAATAGTCATATT-CGCGTTGCGATAGTCAA
1 TTGCGATAGTCATTTCCGCGTTGCAATAGTCAT-TTCCGCGTTGCGATAGTCAA
100445 ATGAATGTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
60 47 0.96
61 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (60 bp):
TTGCGATAGTCATTTCCGCGTTGCAATAGTCATTTCCGCGTTGCGATAGTCAATTCCACA
Found at i:102890 original size:24 final size:24
Alignment explanation
Indices: 102856--102909 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
102846 CTGAAAAATC
102856 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
102880 ATCAAAGTCCGGGTATTGGCCAAG
1 ATCAAAATCCGAGTATTGACCAAG
102904 ATCAAA
1 ATCAAA
102910 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:103789 original size:20 final size:20
Alignment explanation
Indices: 103748--103794 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
103738 AAATTCAGTA
*
103748 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
**
103768 TTGCGATAGTCAGGTTCGCG
1 TTGCGATAGTCAGAATCGCG
*
103788 TTACGAT
1 TTGCGAT
103795 TTACGTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:103816 original size:20 final size:20
Alignment explanation
Indices: 103791--103833 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
103781 GTTCGCGTTA
103791 CGATTTACGTATTCACATTG
1 CGATTTACGTATTCACATTG
*
103811 CGATTTACGTATTCGCATTG
1 CGATTTACGTATTCACATTG
103831 CGA
1 CGA
103834 ATTAGGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (20 bp):
CGATTTACGTATTCACATTG
Found at i:103854 original size:21 final size:21
Alignment explanation
Indices: 103830--103896 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
103820 TATTCGCATT
*
103830 GCGAATTAGGAAAATCGCAAA
1 GCGAATTTGGAAAATCGCAAA
*
103851 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAA
* *
103872 GCGAATTTGAAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAA
103893 GCGA
1 GCGA
103897 TAGTCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAA
Found at i:103936 original size:20 final size:20
Alignment explanation
Indices: 103882--103929 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
103872 GCGAATTTGA
103882 AAAATCGCAATGCGATAGTC
1 AAAATCGCAATGCGATAGTC
103902 AAAATCGCAATGCGATAGTC
1 AAAATCGCAATGCGATAGTC
*
103922 AGAATCGC
1 AAAATCGC
103930 GTTGCGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
AAAATCGCAATGCGATAGTC
Found at i:104238 original size:3 final size:3
Alignment explanation
Indices: 104230--104259 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
104220 TATATGTCAG
*
104230 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
104260 TTGTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:106024 original size:45 final size:45
Alignment explanation
Indices: 105975--106066 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
105965 CTTCTCAAAG
*
105975 TAACATGTATTTGAACATGGGATGAAGTATTATACATGTCCGTAT
1 TAACATGTATTTGAACATGGGATGAAGTATTATACATATCCGTAT
*
106020 TAACATGTATTTGAACATGGGATGAAGTATTATATATATCCGTAT
1 TAACATGTATTTGAACATGGGATGAAGTATTATACATATCCGTAT
106065 TA
1 TA
106067 GACGCACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (45 bp):
TAACATGTATTTGAACATGGGATGAAGTATTATACATATCCGTAT
Found at i:110536 original size:21 final size:21
Alignment explanation
Indices: 110496--110550 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
110486 GATTCTTGAC
110496 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
110516 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
110538 AATCGCAACGCGA
1 AATCGCAATGCGA
110551 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:110632 original size:20 final size:20
Alignment explanation
Indices: 110538--110766 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
110528 GATTTTACAG
* ** *
110538 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
110558 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
110578 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
110598 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
110618 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
110638 AATCGCAATACGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
110658 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
110678 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
110698 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
110718 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
110738 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
110758 AATCACAAC
1 AATCGCAAC
110767 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:111498 original size:24 final size:24
Alignment explanation
Indices: 111459--111505 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
111449 AAATTTGGTC
111459 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
111483 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
111506 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:111697 original size:12 final size:12
Alignment explanation
Indices: 111680--111704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111670 ATATAATCCT
111680 GAAGAAGAAAAA
1 GAAGAAGAAAAA
111692 GAAGAAGAAAAA
1 GAAGAAGAAAAA
111704 G
1 G
111705 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:114040 original size:33 final size:34
Alignment explanation
Indices: 113970--114135 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
113960 GCATTTGACT
** * * * *
113970 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
114004 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
114037 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
114076 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
114109 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
114136 TGCGAAATGA
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.36
34 40 0.35
36 2 0.02
38 18 0.16
39 14 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Found at i:114066 original size:53 final size:50
Alignment explanation
Indices: 113989--114239 Score: 244
Period size: 53 Copynumber: 4.8 Consensus size: 50
113979 CGGAAATTAC
* *
113989 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-C-AA-GAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
114036 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCAA-GC-AAATGAA
*
114094 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAAAATCGCAA-GC-AAATGAA
* * * *
114147 AATCGCAACGAGAGAATCGCAATGCCAAATGAAAATCGCAA-C-GA-GAG
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
114194 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCA
114240 TTGCGATTCT
Statistics
Matches: 178, Mismatches: 8, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
47 18 0.10
48 1 0.01
49 2 0.01
50 3 0.02
52 30 0.17
53 108 0.61
55 2 0.01
56 1 0.01
57 2 0.01
58 11 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (50 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
Found at i:114096 original size:72 final size:72
Alignment explanation
Indices: 114003--114236 Score: 304
Period size: 72 Copynumber: 3.3 Consensus size: 72
113993 GCAACGAGAG
114003 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
114068 AAATGAA
66 AAATGAA
* * *
114075 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
114140 AAATGAA
66 AAATGAA
* * * * * *
114147 AATCGCAACGAGAGAATCG-CAATGCCAA-ATGAAAATCGCAA--C-G--A-GAGAATCGCAATG
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
114204 CGGAAATGAA
64 C-GAAATGAA
114214 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
114237 GCATTGCGAT
Statistics
Matches: 142, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
65 1 0.01
66 19 0.13
67 20 0.14
69 1 0.01
70 1 0.01
72 90 0.63
73 9 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:114170 original size:33 final size:33
Alignment explanation
Indices: 114128--114221 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
114118 CGGAAATGAA
114128 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
114161 AATCGCAATGCCAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
114194 AATCGCAATGCGGAAATGAAAATCGCAA
1 AATCGCAATGC-GAAATGAAAATCGCAA
114222 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 43 0.74
34 15 0.26
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:114185 original size:86 final size:89
Alignment explanation
Indices: 114033--114239 Score: 348
Period size: 86 Copynumber: 2.3 Consensus size: 89
114023 ATCCCAACAA
*
114033 GAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GAAAATCGCAATGC-GAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCCAAATGAAAATC
114098 GCAACGAGAGAATCGCAATGCGGAAAT
63 GCAACGAGAGAATCGCAATGCGGAAAT
*
114125 GAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCCAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCCAAATGAAAATCGCA
114187 ACGAGAGAATCGCAATGCGGAAAT
66 ACGAGAGAATCGCAATGCGGAAAT
114211 GAAAATCGCAATGCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCA
114240 TTGCGATTCT
Statistics
Matches: 113, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
86 80 0.71
87 1 0.01
89 2 0.02
91 16 0.14
92 14 0.12
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (89 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCCAAATGAAAATCGCA
ACGAGAGAATCGCAATGCGGAAAT
Found at i:114279 original size:53 final size:52
Alignment explanation
Indices: 114216--114331 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
114206 GAAATGAAAA
*
114216 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
114268 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
114321 TCGCATTGCGA
1 TCGCATTGCGA
114332 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:114294 original size:19 final size:19
Alignment explanation
Indices: 114254--114341 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
114244 GATTCTCTCG
114254 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
114274 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
114293 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
114307 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
114326 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
114342 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:114451 original size:14 final size:14
Alignment explanation
Indices: 114432--114482 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
114422 CATCAATTAC
114432 ACAAATCAACTTTT
1 ACAAATCAACTTTT
114446 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
114460 ACAAATCATCTTTT
1 ACAAATCAACTTTT
114474 ACAAATCAA
1 ACAAATCAA
114483 TTAAACAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:116450 original size:19 final size:19
Alignment explanation
Indices: 116408--116561 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
116398 TAGTTTACTT
* *
116408 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
116428 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
116447 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
116466 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
116485 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
116499 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
116518 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
116532 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
116551 TCGCAATGCGA
1 TCGCAACGCGA
116562 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 21
0.75 0.10 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 63 0.58
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:116502 original size:14 final size:14
Alignment explanation
Indices: 116483--116539 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
116473 GCGAAATGAA
*
116483 AATCGCAACGACAG
1 AATCGCAACGAAAG
116497 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
116514 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
116530 AATCGCAACG
1 AATCGCAACG
116540 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:116510 original size:33 final size:33
Alignment explanation
Indices: 116426--116556 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
116416 CGAAACTTAA
* *
116426 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
116464 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
116497 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
116530 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
116557 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:116553 original size:52 final size:51
Alignment explanation
Indices: 116425--116561 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
116415 ACGAAACTTA
* * * *
116425 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
116476 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
116528 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
116562 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:116592 original size:14 final size:14
Alignment explanation
Indices: 116573--116599 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
116563 TTTGGTTTCG
116573 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
116587 CGTTGCGATTTTG
1 CGTTGCGATTTTG
116600 GTTTCGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:116599 original size:33 final size:33
Alignment explanation
Indices: 116557--116651 Score: 145
Period size: 33 Copynumber: 2.9 Consensus size: 33
116547 AAAATCGCAA
116557 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
* * *
116590 TGCGATTTTGGTTTCGCGTTGCAATTCTGTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
**
116623 TGCGATTTTCATTTCGCGTTGCGATTTTG
1 TGCGATTTTGGTTTCGCGTTGCGATTTTG
116652 GTTTCTCGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.48
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:116611 original size:19 final size:19
Alignment explanation
Indices: 116557--116685 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
116547 AAAATCGCAA
116557 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
116576 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
116590 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
116609 TGCAATTCT-G-TT---GT
1 TGCGATTTTGGTTTCGCGT
**
116623 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
116642 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTGGTTTCGCGT
* *
116661 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
116681 TGCGA
1 TGCGA
116686 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 3 0.03
17 3 0.03
18 2 0.02
19 46 0.52
20 12 0.14
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:116942 original size:93 final size:93
Alignment explanation
Indices: 116783--117098 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
116773 TCAGGGTATT
116783 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
116848 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
116876 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
116941 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
116969 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
117034 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
117062 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
117099 AAGCAATCTA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 221 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:118809 original size:14 final size:14
Alignment explanation
Indices: 118790--118827 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
118780 TTGAAATGAA
118790 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
118804 AATCGCAACGAGAT
1 AATCGCAACGAGAG
118818 AATCGCAACG
1 AATCGCAACG
118828 CGAAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:118842 original size:19 final size:19
Alignment explanation
Indices: 118818--118868 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
118808 GCAACGAGAT
118818 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
118837 AATCGCAACGCGAAATGAG
1 AATCGCAACGCGAAATGAA
*
118856 AATCGCAATGCGA
1 AATCGCAACGCGA
118869 TTTTGGTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:118899 original size:14 final size:14
Alignment explanation
Indices: 118880--118936 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
118870 TTTGGTTTCG
118880 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
118894 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
118913 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
118927 CGTTGCGATT
1 CGTTGCGATT
118937 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:118912 original size:33 final size:33
Alignment explanation
Indices: 118864--118943 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
118854 AGAATCGCAA
**
118864 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
118897 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
118930 TGCGATTTTCATTT
1 TGCGATTTTCATTT
118944 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:118949 original size:21 final size:21
Alignment explanation
Indices: 118924--118997 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
118914 GTTGCGATTC
118924 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
118945 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
118966 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
118987 TCTCGTTGCGA
1 TCTCGTTGCGA
118998 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:119518 original size:20 final size:20
Alignment explanation
Indices: 119493--119684 Score: 253
Period size: 20 Copynumber: 9.6 Consensus size: 20
119483 CTTTAAAAAT
119493 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
119513 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
119534 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
119553 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
119573 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
119593 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
119613 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
119633 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
119653 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
119673 CGCGTTGCGATT
1 CGCGTTGCGATT
119685 CTTAAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:119745 original size:42 final size:43
Alignment explanation
Indices: 119652--119750 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 43
119642 ATTTATGTGT
* *
119652 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTAAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTCAAAAA
** * *
119693 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTGTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTCAAAAA
*
119735 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
119751 GAAACTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 8 0.17
42 35 0.76
43 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTCAAAAA
Found at i:119783 original size:20 final size:20
Alignment explanation
Indices: 119737--119787 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
119727 GTCAAGAATC
*
119737 GCGTTGCGATTTTGGAAACT
1 GCGTTGCGATTCTGGAAACT
** * *
119757 GATTTGCGATTCTGGAGATT
1 GCGTTGCGATTCTGGAAACT
119777 GCGTTGCGATT
1 GCGTTGCGATT
119788 TTTATTTCGC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTCTGGAAACT
Found at i:119976 original size:68 final size:68
Alignment explanation
Indices: 119891--120114 Score: 288
Period size: 68 Copynumber: 3.4 Consensus size: 68
119881 CGATTTTCTC
* * *
119891 TTTATGTTTTGGGCACTCGATTATTATTTAGGGTAAACTACCTATTTGGTCAATTATATATTATC
1 TTTATATTTTGGTCACTCGATTATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATC
119956 TAA
66 TAA
*
119959 TTTATATTTTGGTCACTCGATTATTATTT-GGAGTAAACTACCTATTTGGTCACTTATATATAAT
1 TTTATATTTTGGTCACTCGATTATTATTTAGG-GTAAACTACCTATTTGGTCACTTATATATTAT
120023 CTAA
65 CTAA
* * * * *
120027 --TATA--AT--TCA-T--TTTTTTATTTAGGGTAAACTACCTATTTGGTTACTTATATATTGTC
1 TTTATATTTTGGTCACTCGATTATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATC
120083 TAA
66 TAA
120086 TTTATATTTTGGTCACTCGATTATTATTT
1 TTTATATTTTGGTCACTCGATTATTATTT
120115 TTTTCAAAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
59 41 0.31
60 2 0.02
61 5 0.04
62 3 0.02
63 1 0.01
64 1 0.01
65 3 0.02
66 5 0.04
67 2 0.02
68 69 0.52
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (68 bp):
TTTATATTTTGGTCACTCGATTATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATC
TAA
Found at i:120542 original size:6 final size:6
Alignment explanation
Indices: 120531--120562 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
120521 ACTCTTAATT
120531 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GT
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GT
120563 GTATTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (6 bp):
GTTAGG
Found at i:120941 original size:39 final size:39
Alignment explanation
Indices: 120887--120967 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
120877 ACATAAGATG
120887 TTCCTCTTTATTTTTATTGGAACTCTTGGTATCATGCCT
1 TTCCTCTTTATTTTTATTGGAACTCTTGGTATCATGCCT
*
120926 TTCCTCTTTATTTTTATTGGAACTCTTGGTATTATGCCT
1 TTCCTCTTTATTTTTATTGGAACTCTTGGTATCATGCCT
120965 TTC
1 TTC
120968 TTATCTCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (39 bp):
TTCCTCTTTATTTTTATTGGAACTCTTGGTATCATGCCT
Found at i:121194 original size:22 final size:22
Alignment explanation
Indices: 121132--121196 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
121122 TAATTTTATT
*
121132 TATA-ATTTTTAATAATATTTGA
1 TATATATTTTTAA-AATATTTAA
*
121154 TA-AT-TTTTTAAAGT-TTTAA
1 TATATATTTTTAAAATATTTAA
*
121173 TATATATTTTTAAAATAATTAA
1 TATATATTTTTAAAATATTTAA
121195 TA
1 TA
121197 ATTCTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.17
20 4 0.11
21 17 0.49
22 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
TATATATTTTTAAAATATTTAA
Found at i:121892 original size:28 final size:28
Alignment explanation
Indices: 121831--121892 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
121821 AATATCAAAT
* *
121831 ATATAGATTATTTTAAGAATATTTTTAG
1 ATATATATTATTTTAAGAATATTTTAAG
121859 ATATATATTATTTT-AGAATATTTTCAAG
1 ATATATATTATTTTAAGAATATTTT-AAG
121887 ATATAT
1 ATATAT
121893 CTCGTGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (28 bp):
ATATATATTATTTTAAGAATATTTTAAG
Found at i:122977 original size:29 final size:29
Alignment explanation
Indices: 122926--123011 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
122916 TTATATTTCA
*
122926 TATGTTCATGTA-CTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
122954 TATGATCATGTAGCTCATGTCATTTCTCT
1 TATGATCATGTAGCTCATGTCATTTCTCT
*
122983 TGTGATCATGTAGCTCATGTCATGTTCTC
1 TATGATCATGTAGCTCATGTCAT-TTCTC
123012 ATATCACATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
28 11 0.20
29 38 0.70
30 5 0.09
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (29 bp):
TATGATCATGTAGCTCATGTCATTTCTCT
Found at i:123457 original size:64 final size:63
Alignment explanation
Indices: 123388--123544 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
123378 TAACGAAGGT
* * *
123388 ATGCATCGATGCACTACATGTGCATCGGTTCA-TAAAATGCTTTCGATG-TTTTATTATTAATGA
1 ATGCATCGATGCACTACATGTGCATCGATTCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
123451 G
63 G
* * * *
123452 ATGCATCGATGCA-TGCCTTATGCATCGATTCACTAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACATGTGCATCGATTCACTAAATGCATTCGATGTTTTTATTTTAAAAG
*
123515 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACATGTGCATCGAT
123545 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 4 0.05
64 65 0.83
65 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACATGTGCATCGATTCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:129696 original size:2 final size:2
Alignment explanation
Indices: 129691--129720 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
129681 CTTTGATTTA
129691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129721 TATTTTGATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129760 original size:21 final size:21
Alignment explanation
Indices: 129731--129773 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
129721 TATTTTGATA
* *
129731 TTATGTTTGATATTTATAAAT
1 TTATATTTGATATATATAAAT
*
129752 TTATATTTGATATATATTAAT
1 TTATATTTGATATATATAAAT
129773 T
1 T
129774 AATTCAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
TTATATTTGATATATATAAAT
Found at i:130831 original size:63 final size:63
Alignment explanation
Indices: 130761--130886 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
130751 ACATTCCCGG
130761 TAATATACCCCAAAAAATCCACTACTGATAATCTTTCATTACCGGGAATGGGATTCCCGACCT
1 TAATATACCCCAAAAAATCCACTACTGATAATCTTTCATTACCGGGAATGGGATTCCCGACCT
130824 TAATATACCCCAAAAAATCCACTACTGATAATCTTTCATTACCGGGAATGGGATTCCCGACCT
1 TAATATACCCCAAAAAATCCACTACTGATAATCTTTCATTACCGGGAATGGGATTCCCGACCT
130887 AACCAAACGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (63 bp):
TAATATACCCCAAAAAATCCACTACTGATAATCTTTCATTACCGGGAATGGGATTCCCGACCT
Found at i:132824 original size:30 final size:30
Alignment explanation
Indices: 132790--132859 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
132780 TTGTAATTTC
* * *
132790 GAATTAATTAAAATCTTATTTATTTATTCT
1 GAATTAAATAAAATATTATTTAATTATTCT
*
132820 GAATTAAATAAAATATTGTTTAATTATTCT
1 GAATTAAATAAAATATTATTTAATTATTCT
132850 GAATTAAATA
1 GAATTAAATA
132860 TTCATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (30 bp):
GAATTAAATAAAATATTATTTAATTATTCT
Found at i:133519 original size:13 final size:15
Alignment explanation
Indices: 133485--133516 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
133475 AATACCTTTT
133485 AAAATAATTTTAAGA
1 AAAATAATTTTAAGA
133500 AAAATAATTTTAA-A
1 AAAATAATTTTAAGA
133514 AAA
1 AAA
133517 TAAAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATAATTTTAAGA
Found at i:135807 original size:53 final size:54
Alignment explanation
Indices: 135703--135824 Score: 237
Period size: 53 Copynumber: 2.3 Consensus size: 54
135693 GCACCTTTTA
135703 AAATCAATTTTAAAAAGAAATACAAAAAAAAAACACAAGCCATCATGTTGTAAG
1 AAATCAATTTTAAAAAGAAATACAAAAAAAAAACACAAGCCATCATGTTGTAAG
135757 AAATCAATTTTAAAAAGAAATAC-AAAAAAAAACACAAGCCATCATGTTGTAAG
1 AAATCAATTTTAAAAAGAAATACAAAAAAAAAACACAAGCCATCATGTTGTAAG
135810 AAATCAATTTTAAAA
1 AAATCAATTTTAAAA
135825 TCGTTTATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
53 45 0.66
54 23 0.34
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.22
Consensus pattern (54 bp):
AAATCAATTTTAAAAAGAAATACAAAAAAAAAACACAAGCCATCATGTTGTAAG
Found at i:146398 original size:32 final size:32
Alignment explanation
Indices: 146357--146422 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
146347 TAAACCCTAA
* * *
146357 ACCCTACCCGAATAGCATATTTAAAAAAACCG
1 ACCCGACCCGAATAGCAAACTTAAAAAAACCG
* *
146389 ACCCGACCCGAATATCAAACTTAAAAAACCCG
1 ACCCGACCCGAATAGCAAACTTAAAAAAACCG
146421 AC
1 AC
146423 ATAACCCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.32, G:0.09, T:0.15
Consensus pattern (32 bp):
ACCCGACCCGAATAGCAAACTTAAAAAAACCG
Found at i:146430 original size:32 final size:32
Alignment explanation
Indices: 146362--146431 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
146352 CCTAAACCCT
* * * *
146362 ACCCGAATAGCATATTTAAAAAAACCGACCCG
1 ACCCGAATAGCAAACTTAAAAAAACCGACACA
* * *
146394 ACCCGAATATCAAACTTAAAAAACCCGACATA
1 ACCCGAATAGCAAACTTAAAAAAACCGACACA
146426 ACCCGA
1 ACCCGA
146432 CCCGAACCCG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.46, C:0.30, G:0.10, T:0.14
Consensus pattern (32 bp):
ACCCGAATAGCAAACTTAAAAAAACCGACACA
Found at i:146552 original size:30 final size:29
Alignment explanation
Indices: 146518--146598 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 29
146508 AATATCAAAC
146518 TTTAAAAAACCGACCCGAACCCGATTTTTT
1 TTTAAAAAACCGACCCGAACCCG-TTTTTT
* * *
146548 TTTAAAAAAAATACAACCCGATCCCGTTTTTT
1 TTT--AAAAAA-CCGACCCGAACCCGTTTTTT
* *
146580 TATAAAAATCCGACCCGAA
1 TTTAAAAAACCGACCCGAA
146599 TACCAAAAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
29 7 0.17
30 8 0.20
32 14 0.35
33 11 0.28
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (29 bp):
TTTAAAAAACCGACCCGAACCCGTTTTTT
Found at i:146734 original size:28 final size:28
Alignment explanation
Indices: 146662--146719 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
146652 AGGATTTCAA
*
146662 TTCCATCATGTTATGGATTAAATTTACT
1 TTCCATCATGTTATGGATGAAATTTACT
146690 TTCCATCATGTTATGGATGAAATTTACT
1 TTCCATCATGTTATGGATGAAATTTACT
146718 TT
1 TT
146720 TCCTCATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (28 bp):
TTCCATCATGTTATGGATGAAATTTACT
Done.