Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004240.1 Hibiscus syriacus cultivar Beakdansim tig00009295_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: 149734
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:8434 original size:4 final size:4
Alignment explanation
Indices: 8425--8451 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8415 AGTATTGGAC
8425 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8452 TTGCAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:12861 original size:16 final size:16
Alignment explanation
Indices: 12842--12876 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12832 ACAAATTCAT
*
12842 ATCAAATCAAAGAATA
1 ATCAAACCAAAGAATA
12858 ATCAAACCAAAGAATA
1 ATCAAACCAAAGAATA
12874 ATC
1 ATC
12877 TAAGACTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
ATCAAACCAAAGAATA
Found at i:16915 original size:2 final size:2
Alignment explanation
Indices: 16908--16932 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16898 ATCATTCATC
16908 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16933 CATACATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19556 original size:4 final size:4
Alignment explanation
Indices: 19547--19571 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19537 TATAGTCACA
19547 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
19572 CTATCGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:26307 original size:53 final size:53
Alignment explanation
Indices: 26248--26393 Score: 224
Period size: 53 Copynumber: 2.8 Consensus size: 53
26238 GTGGGTTCGT
*
26248 TCCCTCTTGCTTCAAGGAATAGAACTC-AAAATATCTTCT-TCCTACGGGTTCAC
1 TCCCTCTTGCTTCAAGGAGTAGAACTCGAAAA-ATCTTCTGT-CTACGGGTTCAC
*
26301 TCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGTCTACGGGTTCAC
1 TCCCTCTTGCTTCAAGGAGTAGAACTCGAAAAATCTTCTGTCTACGGGTTCAC
* *
26354 TCCCTATTGCTTCAAGGAGTAGAACTCGAACAATCTTCTG
1 TCCCTCTTGCTTCAAGGAGTAGAACTCGAAAAATCTTCTG
26394 GTGTGATTTT
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
53 84 0.95
54 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (53 bp):
TCCCTCTTGCTTCAAGGAGTAGAACTCGAAAAATCTTCTGTCTACGGGTTCAC
Found at i:26959 original size:42 final size:42
Alignment explanation
Indices: 26911--27130 Score: 228
Period size: 42 Copynumber: 5.0 Consensus size: 42
26901 TTACAAATTA
*
26911 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
26953 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
* * * * ** **
26995 CACTTACTGATGGATTTGCTTCA-CTACT-CTTCGGTGAAGGCTTACAAATTA
1 C-C---C-GAAGGATTT-CATCATC-A-TGC-TC-G-AAAGACTTACTGATGG
* *
27046 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGA
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
27088 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
27130 C
1 C
27131 ACTTACTGAT
Statistics
Matches: 146, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
42 94 0.64
43 2 0.01
44 3 0.02
45 5 0.03
46 10 0.07
47 10 0.07
48 6 0.04
49 3 0.02
50 2 0.01
51 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
Found at i:27001 original size:13 final size:13
Alignment explanation
Indices: 26983--27007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26973 TGCTCGAAAG
26983 ACTTACTGATGGC
1 ACTTACTGATGGC
26996 ACTTACTGATGG
1 ACTTACTGATGG
27008 ATTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:27103 original size:135 final size:135
Alignment explanation
Indices: 26861--27223 Score: 681
Period size: 135 Copynumber: 2.7 Consensus size: 135
26851 TGCTCGAAAG
* *
26861 ACTTACTGATGAATTTGCTTCACTACTCTTTGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
*
26926 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
26991 ATGGC
131 ATGGC
26996 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
27061 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
27126 ATGGC
131 ATGGC
* *
27131 ACTTACTGATGGGTTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAATGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
27196 CATCATGCTCGAAAGACTTACTGATGAC
66 CATCATGCTCGAAAGACTTACTGATGAC
27224 ACTTACTGAT
Statistics
Matches: 223, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 223 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (135 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
ATGGC
Found at i:27136 original size:13 final size:13
Alignment explanation
Indices: 27118--27142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27108 TGCTCGAAAG
27118 ACTTACTGATGGC
1 ACTTACTGATGGC
27131 ACTTACTGATGG
1 ACTTACTGATGG
27143 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:27174 original size:93 final size:93
Alignment explanation
Indices: 27087--27316 Score: 433
Period size: 93 Copynumber: 2.5 Consensus size: 93
27077 CTTACTGATG
*
27087 ACCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
27152 ACTACTCTTCGGTGAAGGCTTACAAATT
66 ACTACTCTTCGGTGAAGGCTTACAAATT
* *
27180 ACCCGAATGATTTAATCATCATGCTCGAAAGACTTACTGATGACACTTACTGATGGGTTTGCTTC
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
27245 ACTACTCTTCGGTGAAGGCTTACAAATT
66 ACTACTCTTCGGTGAAGGCTTACAAATT
27273 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
27317 CCGAAGGACT
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 132 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (93 bp):
ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
ACTACTCTTCGGTGAAGGCTTACAAATT
Found at i:33354 original size:12 final size:12
Alignment explanation
Indices: 33339--33367 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33329 GCTAATAAGA
33339 ATGCAAATGCAC
1 ATGCAAATGCAC
33351 ATGCAAATGCAC
1 ATGCAAATGCAC
33363 ATGCA
1 ATGCA
33368 CAAGGTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (12 bp):
ATGCAAATGCAC
Found at i:39017 original size:24 final size:24
Alignment explanation
Indices: 38986--39108 Score: 140
Period size: 24 Copynumber: 5.1 Consensus size: 24
38976 TTCAATTTGA
38986 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
39010 ATTTTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* * *
39034 ATTCTGATATGATATTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
39058 ATTCTGATCTAATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* * * *
39082 ATTTTGATCTCATATTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
39106 ATT
1 ATT
39109 ATGTTTTGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 84 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:44098 original size:8 final size:8
Alignment explanation
Indices: 44085--44195 Score: 120
Period size: 8 Copynumber: 13.9 Consensus size: 8
44075 GTCGCAACTT
44085 CTCTCTCC
1 CTCTCTCC
44093 CTCTCT--
1 CTCTCTCC
44099 CTCTCTCC
1 CTCTCTCC
44107 CTCTCTCTC
1 CTCTCTC-C
* *
44116 TCTCCCTCT
1 -CTCTCTCC
44125 CTCTCTCC
1 CTCTCTCC
44133 CTCTCTCC
1 CTCTCTCC
44141 CTCTC-CC
1 CTCTCTCC
44148 TCTCTCTCC
1 -CTCTCTCC
*
44157 CTCTCTCT
1 CTCTCTCC
* *
44165 CTCCCTCT
1 CTCTCTCC
44173 CTCTCTCC
1 CTCTCTCC
*
44181 CTCTCTCT
1 CTCTCTCC
44189 CTCTCTC
1 CTCTCTC
44196 TTTCTCTCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
6 6 0.07
7 2 0.02
8 71 0.81
9 3 0.03
10 6 0.07
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (8 bp):
CTCTCTCC
Found at i:44099 original size:10 final size:10
Alignment explanation
Indices: 44084--44207 Score: 121
Period size: 10 Copynumber: 12.6 Consensus size: 10
44074 AGTCGCAACT
44084 TCTCTCTCCC
1 TCTCTCTCCC
44094 TCTCTCT--C
1 TCTCTCTCCC
* *
44102 TCTCCCTCTC
1 TCTCTCTCCC
44112 TCTCTCTCCC
1 TCTCTCTCCC
44122 TCTCTCTCTCC
1 TCTCTCTC-CC
44133 -CTCTCTCCC
1 TCTCTCTCCC
* *
44142 TCTCCCTCTC
1 TCTCTCTCCC
* *
44152 TCTCCCTCTC
1 TCTCTCTCCC
44162 TCTCTC-CCTC
1 TCTCTCTCC-C
44172 TCTCTCTCCC
1 TCTCTCTCCC
*
44182 TCTCTCTCTC
1 TCTCTCTCCC
* *
44192 TCTCTTTCTC
1 TCTCTCTCCC
44202 TCTCTC
1 TCTCTC
44208 CTCACGAAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.07
9 3 0.03
10 84 0.86
11 4 0.04
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTCTCTCCC
Found at i:44103 original size:14 final size:14
Alignment explanation
Indices: 44084--44208 Score: 155
Period size: 14 Copynumber: 8.6 Consensus size: 14
44074 AGTCGCAACT
44084 TCTCTCTCCCTCTC
1 TCTCTCTCCCTCTC
44098 TCTCTCTCCCTCTC
1 TCTCTCTCCCTCTC
44112 TCTCTCT-CC-CTC
1 TCTCTCTCCCTCTC
44124 TCTCTCTCCCTCTC
1 TCTCTCTCCCTCTC
*
44138 TCCCTCTCCCTCTC
1 TCTCTCTCCCTCTC
44152 TCTCCCTCTCTCTCTCCCTC
1 TCT--CTCTC-C-CT--CTC
44172 TCTCTCTCCCTCTC
1 TCTCTCTCCCTCTC
* *
44186 TCTCTCTCTCTTTC
1 TCTCTCTCCCTCTC
44200 TCTCTCTCC
1 TCTCTCTCC
44209 TCACGAAAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 16
0.82 0.04 0.13
Matches are distributed among these distances:
12 10 0.10
13 4 0.04
14 62 0.63
16 7 0.07
17 2 0.02
18 7 0.07
20 6 0.06
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (14 bp):
TCTCTCTCCCTCTC
Found at i:44207 original size:12 final size:12
Alignment explanation
Indices: 44084--44203 Score: 163
Period size: 12 Copynumber: 9.8 Consensus size: 12
44074 AGTCGCAACT
44084 TCTCTCTC-CCTC
1 TCTCTCTCTCC-C
44096 TCTCTCTCTCCCTC
1 TCTCTCTCT-CC-C
44110 TCTCTCTCTCCC
1 TCTCTCTCTCCC
44122 TCTCTCTCTCCC
1 TCTCTCTCTCCC
*
44134 TCTCTCCCTCTCC
1 TCTCTCTCTC-CC
44147 -CTCTCTCTCCC
1 TCTCTCTCTCCC
44158 TCTCTCTCTCCC
1 TCTCTCTCTCCC
44170 TCTCTCTCTCCC
1 TCTCTCTCTCCC
*
44182 TCTCTCTCTCTC
1 TCTCTCTCTCCC
*
44194 TCTTTCTCTC
1 TCTCTCTCTC
44204 TCTCCTCACG
Statistics
Matches: 100, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
11 2 0.02
12 81 0.81
13 4 0.04
14 13 0.13
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (12 bp):
TCTCTCTCTCCC
Found at i:47167 original size:43 final size:40
Alignment explanation
Indices: 47077--47172 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
47067 AGTTTGTTTA
*
47077 TGTTCGTTTATTT-ATTAAATGAACGAACATGAACAAGAT
1 TGTTCGTTCATTTAATTAAATGAACGAACATGAACAAGAT
* *
47116 T-TTGCGTTCGTTTAATTAAATGAACGAACATGAACAAAGGGCT
1 TGTT-CGTTCATTTAATTAAATGAACGAACATGAAC-AA--GAT
47159 TGTTCGTTCATTTA
1 TGTTCGTTCATTTA
47173 CGTTCATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
38 2 0.04
39 8 0.17
40 21 0.45
41 2 0.04
43 12 0.26
44 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (40 bp):
TGTTCGTTCATTTAATTAAATGAACGAACATGAACAAGAT
Found at i:47479 original size:13 final size:12
Alignment explanation
Indices: 47463--47532 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 12
47453 TGTTCGTTTA
47463 TGTTCATTTATT
1 TGTTCATTTATT
*
47475 GTGTTCGTTTA--
1 -TGTTCATTTATT
47486 TGTTCATTTATT
1 TGTTCATTTATT
*
47498 GTGTTCGTTTA--
1 -TGTTCATTTATT
47509 TGTTCATTTATT
1 TGTTCATTTATT
*
47521 ATGTTCGTTTAT
1 -TGTTCATTTAT
47533 GTTCGTTCGT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 18 0.39
13 28 0.61
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.61
Consensus pattern (12 bp):
TGTTCATTTATT
Found at i:47483 original size:23 final size:23
Alignment explanation
Indices: 47453--47536 Score: 159
Period size: 23 Copynumber: 3.7 Consensus size: 23
47443 GTGTTTGTGT
47453 TGTTCGTTTATGTTCATTTATTG
1 TGTTCGTTTATGTTCATTTATTG
47476 TGTTCGTTTATGTTCATTTATTG
1 TGTTCGTTTATGTTCATTTATTG
*
47499 TGTTCGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCATTTATTG
47522 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
47537 GTTCGTTTAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.61
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTG
Found at i:47532 original size:10 final size:10
Alignment explanation
Indices: 47453--47566 Score: 75
Period size: 10 Copynumber: 10.1 Consensus size: 10
47443 GTGTTTGTGT
47453 TGTTCGTTTA
1 TGTTCGTTTA
*
47463 TGTTCATTTA
1 TGTTCGTTTA
47473 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
47486 TGTTCATTTA
1 TGTTCGTTTA
47496 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
47509 TGTTCATTTATTA
1 TGTTC--GT-TTA
47522 TGTTCGTTTA
1 TGTTCGTTTA
47532 TGTTCGTTCGTTTA
1 ---T-GTTCGTTTA
*
47546 CGTTCGTTTA
1 TGTTCGTTTA
47556 TGTTCGTTTA
1 TGTTCGTTTA
47566 T
1 T
47567 CATTTAAATG
Statistics
Matches: 83, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
10 45 0.54
11 1 0.01
12 1 0.01
13 27 0.33
14 9 0.11
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.60
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:47542 original size:14 final size:14
Alignment explanation
Indices: 47523--47563 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
47513 CATTTATTAT
47523 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
47537 GTTCGTTTA----C
1 GTTCGTTTATGTTC
47547 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
47561 GTT
1 GTT
47564 TATCATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 10 0.43
14 13 0.57
ACGTcount: A:0.07, C:0.15, G:0.22, T:0.56
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:47555 original size:24 final size:23
Alignment explanation
Indices: 47454--47566 Score: 129
Period size: 23 Copynumber: 4.9 Consensus size: 23
47444 TGTTTGTGTT
* **
47454 GTTCGTTTATGTTCATTTATTGT
1 GTTCGTTTATGTTCGTTTATTAC
* **
47477 GTTCGTTTATGTTCATTTATTGT
1 GTTCGTTTATGTTCGTTTATTAC
* *
47500 GTTCGTTTATGTTCATTTATTAT
1 GTTCGTTTATGTTCGTTTATTAC
47523 GTTCGTTTATGTTCGTTCGT-TTAC
1 GTTCGTTTATGTTCGTT--TATTAC
47547 GTTCGTTTATGTTCGTTTAT
1 GTTCGTTTATGTTCGTTTAT
47567 CATTTAAATG
Statistics
Matches: 84, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
22 1 0.01
23 62 0.74
24 20 0.24
25 1 0.01
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.59
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTTATTAC
Found at i:51820 original size:20 final size:20
Alignment explanation
Indices: 51795--51841 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
51785 TGACCGTTAG
51795 GGTGCTATGTGACAGTTTAT
1 GGTGCTATGTGACAGTTTAT
51815 GGTGCTATGTGACAGTTTAT
1 GGTGCTATGTGACAGTTTAT
51835 GGTGCTA
1 GGTGCTA
51842 ACGTGACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.38
Consensus pattern (20 bp):
GGTGCTATGTGACAGTTTAT
Found at i:52454 original size:3 final size:3
Alignment explanation
Indices: 52446--52496 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
52436 CCTTAGGAAT
52446 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52494 TTA
1 TTA
52497 ATGTCATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59514 original size:16 final size:16
Alignment explanation
Indices: 59490--59523 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
59480 TATCGCCGAC
*
59490 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
59506 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
59522 CG
1 CG
59524 TGAATAGTAA
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:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:61654 original size:24 final size:24
Alignment explanation
Indices: 61627--61733 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
61617 AAACGGAGAT
*
61627 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
61651 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * *
61675 GTTAGGAATCAGAACATATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* ** *
61699 ATCATATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
61723 ATCAGAAATCA
1 ATCAGAAATCA
61734 GATAAAATAT
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:61733 original size:48 final size:48
Alignment explanation
Indices: 61627--61735 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
61617 AAACGGAGAT
* * *
61627 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
61675 GTTAGGAATCAGAACATATTTCAGATCATATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
61723 ATCAGAAATCAGA
1 ATCAGAAATCAGA
61736 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:69554 original size:17 final size:18
Alignment explanation
Indices: 69532--69572 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
69522 ATGGTTTTAA
69532 GAACCGGA-CCGGTTAGC
1 GAACCGGACCCGGTTAGC
69549 GAACC-GACCCGGTTAGC
1 GAACCGGACCCGGTTAGC
69566 GAACCGG
1 GAACCGG
69573 CCATGCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (18 bp):
GAACCGGACCCGGTTAGC
Found at i:73468 original size:24 final size:24
Alignment explanation
Indices: 73441--73547 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
73431 AAACGGAGAT
*
73441 ATCAGAAATCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAA
* * * *
73465 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAA
* * * * * *
73489 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAA
**
73513 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAA
73537 ATCAGAAATCA
1 ATCAGAAATCA
73548 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAA
Found at i:73547 original size:48 final size:48
Alignment explanation
Indices: 73441--73549 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
73431 AAACGGAGAT
* * * *
73441 ATCAGAAATCAAAACATAATTCAAATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAAATCAGATATCAAAACAGAATCCAA
* * * * * * *
73489 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAAATCAGATATCAAAACAGAATCCAA
73537 ATCAGAAATCAGA
1 ATCAGAAATCAGA
73550 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAAATCAGATATCAAAACAGAATCCAA
Found at i:78536 original size:21 final size:22
Alignment explanation
Indices: 78500--78547 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
78490 AATTGAGTTA
*
78500 AATTTTAACTTATTTTTTTATT
1 AATTTTAACTTATTTTATTATT
* *
78522 TATTTT-ACTTTTTTTATTATT
1 AATTTTAACTTATTTTATTATT
78543 AATTT
1 AATTT
78548 AGAGTGATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (22 bp):
AATTTTAACTTATTTTATTATT
Found at i:91229 original size:21 final size:21
Alignment explanation
Indices: 91203--91242 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91193 TCAAAAAAAT
**
91203 TTGCTTTGTGTTTAAATAAGG
1 TTGCTTTGTACTTAAATAAGG
91224 TTGCTTTGTACTTAAATAA
1 TTGCTTTGTACTTAAATAA
91243 AGATTTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (21 bp):
TTGCTTTGTACTTAAATAAGG
Found at i:93008 original size:3 final size:3
Alignment explanation
Indices: 93002--93064 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
92992 TTACCCATTT
* * *
93002 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93049 TATA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA
93065 AATAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:93019 original size:12 final size:12
Alignment explanation
Indices: 93004--93062 Score: 102
Period size: 12 Copynumber: 4.9 Consensus size: 12
92994 ACCCATTTTT
93004 ATTATTATTATA
1 ATTATTATTATA
93016 ATTATTATTATA
1 ATTATTATTATA
93028 ATTATTATTATA
1 ATTATTATTATA
93040 ATTATTA-TATA
1 ATTATTATTATA
93051 TATTATTATTAT
1 -ATTATTATTAT
93063 TAAATAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.09
12 38 0.84
13 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:93085 original size:16 final size:15
Alignment explanation
Indices: 93064--93108 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
93054 TATTATTATT
93064 AAATAAAAAATCAAAA
1 AAATAAAAAAT-AAAA
*
93080 AAATAATAATATAAAA
1 AAATAA-AAAATAAAA
*
93096 AAATAAATAATAA
1 AAATAAAAAATAA
93109 TTACAAGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:94697 original size:23 final size:22
Alignment explanation
Indices: 94651--94695 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94641 TATTATAAAA
94651 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
94673 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
94696 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:94776 original size:20 final size:23
Alignment explanation
Indices: 94751--94792 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
94741 CTGATATTTC
94751 TAAATA-A-ATAAA-TATTTTTA
1 TAAATATATATAAATTATTTTTA
94771 TAAATATATATAAATTATTTTT
1 TAAATATATATAAATTATTTTT
94793 TTCTCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 5 0.26
23 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATATATAAATTATTTTTA
Found at i:98653 original size:15 final size:15
Alignment explanation
Indices: 98633--98664 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98623 ATCAATACCT
98633 TTTTGCATACATACA
1 TTTTGCATACATACA
*
98648 TTTTGCATACATTCA
1 TTTTGCATACATACA
98663 TT
1 TT
98665 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:108267 original size:115 final size:115
Alignment explanation
Indices: 107431--108242 Score: 1482
Period size: 115 Copynumber: 7.1 Consensus size: 115
107421 TAATTGGAGC
*
107431 AAGATGAATGTGCTCATAATAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
107496 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
*
107546 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAA
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
107611 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
*
107661 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
107726 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
107776 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
*
107841 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
107891 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
* *
107956 TTATCTAATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTAA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
*
108006 AAAATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
* *
108071 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCGATCATTGGATTCGA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
108121 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
* * * * * *
108186 TTATCTGATCTGGTTCGGTAAGAACCAC-AGAACCAATCATTGGAATTAA
66 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
108235 AAGATGAA
1 AAGATGAA
108243 CTGCATGATC
Statistics
Matches: 674, Mismatches: 23, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
114 24 0.04
115 650 0.96
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (115 bp):
AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
Found at i:109173 original size:73 final size:74
Alignment explanation
Indices: 109002--109174 Score: 190
Period size: 74 Copynumber: 2.4 Consensus size: 74
108992 TGAAGAAGGA
* ** *
109002 AGAATAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATC
1 AGAA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAAC
** *
109066 AGCTTTTTCC
65 AGCAGTATCC
* * *
109076 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAG-TGGAAC
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCA-TCAGATGGAAC
109140 AGCAGTAT-C
65 AGCAGTATCC
** *
109149 AGTTAGAGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
109175 CACCTAAAGA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
73 27 0.32
74 55 0.65
75 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (74 bp):
AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATCAGATGGAACA
GCAGTATCC
Found at i:109280 original size:113 final size:109
Alignment explanation
Indices: 109076--109338 Score: 314
Period size: 113 Copynumber: 2.4 Consensus size: 109
109066 AGCTTTTTCC
* * * *
109076 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAGTGGAACA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAGTGGAACA
** *
109141 GCAGTATCAGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGA
66 GCAGTATCAGAGAAAGTTCATAATGAGAAGAACTCACCT---GAA-GA
* * * *
109189 AGAAGGAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACT-TGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAG-TGGAAC
* * *
109253 AGC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
65 AGCAGTAT-CAGAGAAAGTTCATAATGAGAAGAACTCACCTGAAGA
* *
109298 AGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
109339 ATAATTCTAT
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
109 39 0.30
110 3 0.02
112 3 0.02
113 85 0.65
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (109 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAGTGGAACA
GCAGTATCAGAGAAAGTTCATAATGAGAAGAACTCACCTGAAGA
Found at i:109478 original size:124 final size:122
Alignment explanation
Indices: 109257--109549 Score: 389
Period size: 124 Copynumber: 2.4 Consensus size: 122
109247 TGGATCAGCT
109257 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAGAAGTTCACAATGAGAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCACAATGAGAAG
* * * * * * *
109320 AGCTTGTTCAACCTTTTGCATAATTCTATTACAGAAAGAGATAGATTAGCATCAACC
66 AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
*
109377 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAGAAGTTCACAATGAGA
* * * *
109442 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
64 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
* *
109501 ---CCAGCGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGA-AGAAGAA
109550 TTTATTCAAC
Statistics
Matches: 153, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
120 38 0.25
121 15 0.10
122 30 0.20
123 2 0.01
124 68 0.44
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (122 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCACAATGAGAAG
AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
Found at i:109699 original size:3 final size:3
Alignment explanation
Indices: 109693--109758 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
109683 TTACCCATTT
* * *
109693 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109740 TATA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
109759 AATAAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:109710 original size:12 final size:12
Alignment explanation
Indices: 109695--109758 Score: 103
Period size: 12 Copynumber: 5.3 Consensus size: 12
109685 ACCCATTTTT
109695 ATTATTATTATA
1 ATTATTATTATA
109707 ATTATTATTATA
1 ATTATTATTATA
109719 ATTATTATTATA
1 ATTATTATTATA
109731 ATTATTA-TATA
1 ATTATTATTATA
*
109742 TATTATTATTATT
1 -ATTATTATTATA
109755 ATTA
1 ATTA
109759 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
11 4 0.08
12 42 0.86
13 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:111360 original size:23 final size:22
Alignment explanation
Indices: 111314--111358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
111304 TATTATAAAA
111314 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
111336 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
111359 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:111439 original size:20 final size:23
Alignment explanation
Indices: 111414--111455 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
111404 CTGATATTTC
111414 TAAATA-A-ATAAA-TATTTTTA
1 TAAATATATATAAATTATTTTTA
111434 TAAATATATATAAATTATTTTT
1 TAAATATATATAAATTATTTTT
111456 TTCTCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 5 0.26
23 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATATATAAATTATTTTTA
Found at i:115031 original size:20 final size:20
Alignment explanation
Indices: 115006--115046 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
114996 AACAAATTAC
*
115006 TCACTAACATTATCGATTTG
1 TCACTAACATCATCGATTTG
115026 TCACTAACATCATCGATTTG
1 TCACTAACATCATCGATTTG
115046 T
1 T
115047 TACACGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (20 bp):
TCACTAACATCATCGATTTG
Found at i:119873 original size:17 final size:19
Alignment explanation
Indices: 119853--119891 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
119843 TTAGATATAA
119853 TAATT-TTT-AATATACTG
1 TAATTATTTAAATATACTG
*
119870 TAATTATTTAAATATATTG
1 TAATTATTTAAATATACTG
119889 TAA
1 TAA
119892 AAATAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATTATTTAAATATACTG
Found at i:120105 original size:19 final size:17
Alignment explanation
Indices: 120083--120130 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
120073 TTTTATAATT
120083 TTAAAATTAATTACATTAA
1 TTAAAATTAATTACA-T-A
*
120102 TTAAAAATAATTACATA
1 TTAAAATTAATTACATA
*
120119 GTAAAATTAATT
1 TTAAAATTAATT
120131 TTTACAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 1 0.04
19 14 0.54
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAAATTAATTACATA
Found at i:120868 original size:21 final size:20
Alignment explanation
Indices: 120814--120874 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
120804 TGTCTAAGGT
120814 ATATTTTATT-ATATT-TTTA
1 ATATTTTATTAAT-TTATTTA
120833 ATATTTTGTATTTAATTTATTTA
1 ATA-TTT-TA-TTAATTTATTTA
120856 ATATTTTACTTAA-TTATTT
1 ATATTTTA-TTAATTTATTT
120875 TTTTTGCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 3 0.08
20 9 0.25
21 8 0.22
22 7 0.19
23 9 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATATTTTATTAATTTATTTA
Found at i:123038 original size:14 final size:12
Alignment explanation
Indices: 122991--123064 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 12
122981 TCGATAGATT
122991 TTGT-TTTTTTA
1 TTGTATTTTTTA
*
123002 TTATATTTGTATT-
1 TTGTATTT-T-TTA
* *
123015 TAGTACTTTTTA
1 TTGTATTTTTTA
123027 TTGTAGTTTTTTA
1 TTGTA-TTTTTTA
*
123040 TTGGACTTTTTTA
1 TTGTA-TTTTTTA
123053 TTGTAATTTTTT
1 TTGT-ATTTTTT
123065 TATTATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
11 5 0.10
12 8 0.17
13 32 0.67
14 3 0.06
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.69
Consensus pattern (12 bp):
TTGTATTTTTTA
Found at i:123068 original size:14 final size:13
Alignment explanation
Indices: 123017--123064 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
123007 TTTGTATTTA
123017 GTAC-TTTTTATT
1 GTACTTTTTTATT
*
123029 GTAGTTTTTTATT
1 GTACTTTTTTATT
*
123042 GGACTTTTTTATT
1 GTACTTTTTTATT
*
123055 GTAATTTTTT
1 GTACTTTTTT
123065 TATTATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 3 0.10
13 27 0.90
ACGTcount: A:0.17, C:0.04, G:0.12, T:0.67
Consensus pattern (13 bp):
GTACTTTTTTATT
Found at i:132742 original size:31 final size:31
Alignment explanation
Indices: 132704--132775 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
132694 AATGTATTTA
132704 TGAACAGTACTATATGGTACGAGTAGTACCG
1 TGAACAGTACTATATGGTACGAGTAGTACCG
132735 TGAACAGTACTATATGGTACGAGTAGTACCG
1 TGAACAGTACTATATGGTACGAGTAGTACCG
132766 TGAACAGTAC
1 TGAACAGTAC
132776 CGTGAACAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
TGAACAGTACTATATGGTACGAGTAGTACCG
Found at i:132776 original size:12 final size:12
Alignment explanation
Indices: 132759--132805 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
132749 TGGTACGAGT
132759 AGTACCGTGAAC
1 AGTACCGTGAAC
132771 AGTACCGTGAAC
1 AGTACCGTGAAC
*
132783 AGTACTGTGAAC
1 AGTACCGTGAAC
* *
132795 AATACCATGAA
1 AGTACCGTGAA
132806 TAGTGAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (12 bp):
AGTACCGTGAAC
Found at i:133743 original size:63 final size:63
Alignment explanation
Indices: 133620--133932 Score: 475
Period size: 63 Copynumber: 5.0 Consensus size: 63
133610 AACCTCGGCA
* * * * ** * *
133620 ACTGTCCATAGGTCCCTAAAAACCTAGGTAA-AATGTTCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
* * * *
133682 ACTATCCATATGTCCCGAAAGACATAGGTAATTATGTCCATATATTCCATAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
*
133745 ACTGTCCATATGTCCTGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
* *
133808 ACTGTTCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
*
133871 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCAATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTA
133933 AACCCTCGAC
Statistics
Matches: 230, Mismatches: 20, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
62 26 0.11
63 204 0.89
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (63 bp):
ACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:134097 original size:21 final size:22
Alignment explanation
Indices: 134073--134117 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
134063 TGTATGTGTA
*
134073 AACATCTATCTCATAT-CATAT
1 AACATCTATCACATATGCATAT
* *
134094 AACATGTATCACATGTGCATAT
1 AACATCTATCACATATGCATAT
134116 AA
1 AA
134118 TCACGTAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (22 bp):
AACATCTATCACATATGCATAT
Found at i:134770 original size:20 final size:21
Alignment explanation
Indices: 134732--134771 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
134722 TACCATATTC
* *
134732 ATATCAATAACATATATATAT
1 ATATCAATAACAAACATATAT
134753 ATATC-ATAACAAACATATA
1 ATATCAATAACAAACATATA
134772 CTTCTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATCAATAACAAACATATAT
Found at i:135136 original size:21 final size:20
Alignment explanation
Indices: 135093--135136 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
135083 ATTCCCATGC
**
135093 ATCGATGCACTTCTTAATGT
1 ATCGATGCACTTCAAAATGT
*
135113 ATCGATGCACCTTCAAAATTT
1 ATCGATGCA-CTTCAAAATGT
135134 ATC
1 ATC
135137 TTAGTGCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCGATGCACTTCAAAATGT
Found at i:138628 original size:32 final size:32
Alignment explanation
Indices: 138561--138630 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
138551 AAGGTGATCT
* * **
138561 TTGGGTAGGCTCTGAGGCCTCAAGAAACTTTC
1 TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCC
**
138593 TTGGGTAGGCTCTCAGGCCCCAAGGCACTCCC
1 TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCC
138625 TTGGGT
1 TTGGGT
138631 TAATCATGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (32 bp):
TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCC
Found at i:139957 original size:3 final size:3
Alignment explanation
Indices: 139949--140004 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
139939 TAGGGCCTTG
139949 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
139995 TAA TAA TAA T
1 TAA TAA TAA T
140005 GTAAGGTAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:144835 original size:31 final size:31
Alignment explanation
Indices: 144797--144882 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 31
144787 ATATATAGCG
*
144797 GCGTTTTTAAGCGTCGCTAAAAATACATGCA
1 GCGTTTTTAAGCGTCGCTAAAAACACATGCA
* *
144828 GCGTTTTTAAGCGCCGCTAAAAACACATGCG
1 GCGTTTTTAAGCGTCGCTAAAAACACATGCA
*
144859 GCGCTTTTTAAAACGTCGC-AAAAA
1 GCG-TTTTT-AAGCGTCGCTAAAAA
144883 GCGCCGCTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 31 0.65
32 10 0.21
33 7 0.15
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (31 bp):
GCGTTTTTAAGCGTCGCTAAAAACACATGCA
Found at i:144988 original size:43 final size:42
Alignment explanation
Indices: 144930--145226 Score: 188
Period size: 43 Copynumber: 6.9 Consensus size: 42
144920 TTTTTTAACA
* *
144930 AAAAATGCCGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCAC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCAC
* * * * *
144973 AAAAATGCCGTAATAGGTTTTGATGTTTAGCGGCGTTTTCCC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* * *
145015 TACAAACGCCGCAGTAGGTGTTGATATTTTGCGGCGTTTTTTCA-
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCG--TTTTCAC
* * *
145059 AAAAACGCCGCAATAGGTGATGATGTTTAGCGGCGTTTCTCCC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCAC
* * * * * * *
145102 ACAAACGTCGCAGTAGGTTTTCAGATTAAGCGGCGTTTGT-ATC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCA-C
* * * * * * *
145145 GAAAATGACTCAATAAGG-GTTGAGAATTAGCGGCG-TTTCTATT
1 AAAAACGCCGCAAT-AGGTGTTGATATTTAGCGGCGTTTTC-A-C
* * ** *
145188 GAAAACGCCGTAATAGGTGTTGAGCTTTAGGGGCGTTTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTT
145227 TTATTAAAAC
Statistics
Matches: 195, Mismatches: 48, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
41 4 0.02
42 10 0.05
43 170 0.87
44 6 0.03
45 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
Found at i:145063 original size:86 final size:86
Alignment explanation
Indices: 144936--145141 Score: 263
Period size: 86 Copynumber: 2.4 Consensus size: 86
144926 AACAAAAAAT
* * * * **
144936 GCCGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAATGCCGTAATAGGTTTTGATGTTT
1 GCCGCAGTAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTGATGATGTTT
145001 AGCGGCGTTT-TCCCTACAAAC
66 AGCGGCGTTTCTCCC-ACAAAC
* *
145022 GCCGCAGTAGGTGTTGATATTTTGCGGCGTTTTTTCA-AAAAACGCCGCAATAGGTGATGATGTT
1 GCCGCAGTAGGTGTTGATATTTAGCGGCG-TTTGTCACAAAAACGCCGCAATAGGTGATGATGTT
145086 TAGCGGCGTTTCTCCCACAAAC
65 TAGCGGCGTTTCTCCCACAAAC
* * * * *
145108 GTCGCAGTAGGTTTTCAGATTAAGCGGCGTTTGT
1 GCCGCAGTAGGTGTTGATATTTAGCGGCGTTTGT
145142 ATCGAAAATG
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 4 0.04
86 89 0.86
87 10 0.10
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (86 bp):
GCCGCAGTAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTGATGATGTTT
AGCGGCGTTTCTCCCACAAAC
Found at i:145159 original size:86 final size:87
Alignment explanation
Indices: 144958--145184 Score: 234
Period size: 86 Copynumber: 2.6 Consensus size: 87
144948 GTTGTTATTT
*
144958 AGCGGCGTTTGTCA-CAAAAATGCCGT-AATAGGTTTTGATGTTTAGCGGCGTTT-TCCCTACAA
1 AGCGGCGTTTGT-ATCAAAAATGCC-TCAATAGGTGTTGATGTTTAGCGGCGTTTCTCCCTACAA
* * *
145020 ACGCCGCAGTAGGTGTTGATATTT
64 ACGCCGCAGTAGGTGTTCAGATTA
* * * * *
145044 TGCGGCGTTT-TTTCAAAAAACGCCGCAATAGGTGATGATGTTTAGCGGCGTTTCTCCC-ACAAA
1 AGCGGCGTTTGTATC-AAAAATGCCTCAATAGGTGTTGATGTTTAGCGGCGTTTCTCCCTACAAA
* *
145107 CGTCGCAGTAGGTTTTCAGATTA
65 CGCCGCAGTAGGTGTTCAGATTA
* * *
145130 AGCGGCGTTTGTATCGAAAATGACTCAATAAGG-GTTGA-GAATTAGCGGCGTTTCT
1 AGCGGCGTTTGTATCAAAAATGCCTCAAT-AGGTGTTGATG-TTTAGCGGCGTTTCT
145185 ATTGAAAACG
Statistics
Matches: 115, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.03
86 102 0.89
87 10 0.09
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (87 bp):
AGCGGCGTTTGTATCAAAAATGCCTCAATAGGTGTTGATGTTTAGCGGCGTTTCTCCCTACAAAC
GCCGCAGTAGGTGTTCAGATTA
Found at i:145329 original size:41 final size:44
Alignment explanation
Indices: 145233--145330 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
145223 TTTTTTATTA
*
145233 AAACGCCGCTAAA-GTTTGGTATATCGCGGCGTTTATAGTATAC
1 AAACGCCGCTAAATGTATGGTATATCGCGGCGTTTATAGTATAC
** * **
145276 AAACATCGCTAAATGTATGGTATATTGCGGC-TTT-TTTTA-AC
1 AAACGCCGCTAAATGTATGGTATATCGCGGCGTTTATAGTATAC
145317 AAACGCCGCTAAAT
1 AAACGCCGCTAAAT
145331 AACACAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 14 0.30
42 3 0.07
43 14 0.30
44 15 0.33
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
AAACGCCGCTAAATGTATGGTATATCGCGGCGTTTATAGTATAC
Found at i:145702 original size:21 final size:21
Alignment explanation
Indices: 145646--145725 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
145636 TGATATGTTA
* * *
145646 CTTCTCTCTGTGCTACCGCTA
1 CTTCTCTCTCTGCTTCCGCTG
*
145667 CTTCTCTCTGTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
145688 CTTCTTTCTCTGCTTCCGTTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
145709 CTGCTCTCTCTACTTCC
1 CTTCTCTCTCTGCTTCC
145726 CTTACTTCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.04, C:0.39, G:0.14, T:0.44
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Done.