Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_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: 4276731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:12095 original size:20 final size:21
Alignment explanation
Indices: 12070--12131 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
12060 TCTGTGCACT
12070 TAGTATCGATATTGTTCAT-A
1 TAGTATCGATATTGTTCATCA
* * * * *
12090 TAGTATCAATACTGATCTTGCT
1 TAGTATCGATATTGTTCAT-CA
12112 TAGTATCGATATTGTTCATC
1 TAGTATCGATATTGTTCATC
12132 CAGTACCGAT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 15 0.48
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
TAGTATCGATATTGTTCATCA
Found at i:12229 original size:20 final size:20
Alignment explanation
Indices: 12200--12237 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12190 GTCTAGTTTG
*
12200 CCTTGAAGTATCGATACTCC
1 CCTTGAAGTACCGATACTCC
*
12220 CCTTGGAGTACCGATACT
1 CCTTGAAGTACCGATACT
12238 ACTCGACAAT
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:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (20 bp):
CCTTGAAGTACCGATACTCC
Found at i:18702 original size:17 final size:17
Alignment explanation
Indices: 18678--18719 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18668 TTTATATGGA
*
18678 TATT-TTATTCATTTAT
1 TATTATTATTCATGTAT
*
18694 TTTTATTATTCATGTAT
1 TATTATTATTCATGTAT
18711 TATTATTAT
1 TATTATTAT
18720 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATGTAT
Found at i:21841 original size:8 final size:8
Alignment explanation
Indices: 21828--21866 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
21818 GAACATTTCA
*
21828 TGCATTCT
1 TGCATTTT
21836 TGCA-TTT
1 TGCATTTT
21843 TGCATTTT
1 TGCATTTT
*
21851 TGCCTTTT
1 TGCATTTT
21859 TGCATTTT
1 TGCATTTT
21867 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:23062 original size:18 final size:17
Alignment explanation
Indices: 23048--23106 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 17
23038 AATAAAAAGG
23048 GCAAAAAGAAAAAAAAA
1 GCAAAAAGAAAAAAAAA
**
23065 GCAAAAA-AAAAAGCAA
1 GCAAAAAGAAAAAAAAA
*
23081 --AAAAAG-AACAAAAA
1 GCAAAAAGAAAAAAAAA
23095 G-AAAAAGAAAAA
1 GCAAAAAGAAAAA
23107 GGGACAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 10 0.30
15 6 0.18
16 10 0.30
17 7 0.21
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (17 bp):
GCAAAAAGAAAAAAAAA
Found at i:23073 original size:12 final size:12
Alignment explanation
Indices: 23056--23106 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
23046 GGGCAAAAAG
23056 AAAAAAAAAGCA
1 AAAAAAAAAGCA
23068 AAAAAAAAAGCA
1 AAAAAAAAAGCA
*
23080 AAAAAAGAA-CA
1 AAAAAAAAAGCA
23091 AAAAGAAAAAG-A
1 AAAA-AAAAAGCA
23103 AAAA
1 AAAA
23107 GGGACAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 6 0.17
12 29 0.83
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGCA
Found at i:23076 original size:31 final size:32
Alignment explanation
Indices: 23041--23117 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 32
23031 TAATCAGAAT
23041 AAAAAGGGCAAAAAGAA-AA-AAAAAGCAAAAA-
1 AAAAAGGGCAAAAA-AAGAACAAAAAG-AAAAAG
23072 AAAAA--GCAAAAAAAGAACAAAAAGAAAAAG
1 AAAAAGGGCAAAAAAAGAACAAAAAGAAAAAG
23102 AAAAAGGGACAAAAAA
1 AAAAAGGG-CAAAAAA
23118 CACATGCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
28 2 0.05
29 14 0.35
30 11 0.28
31 5 0.12
32 1 0.03
33 7 0.17
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (32 bp):
AAAAAGGGCAAAAAAAGAACAAAAAGAAAAAG
Found at i:23107 original size:12 final size:11
Alignment explanation
Indices: 23050--23106 Score: 62
Period size: 12 Copynumber: 5.0 Consensus size: 11
23040 TAAAAAGGGC
23050 AAAAAG-AAAA
1 AAAAAGAAAAA
23060 AAAAAGCAAAAA
1 AAAAAG-AAAAA
23072 AAAAAGCAAAAA
1 AAAAAG-AAAAA
* *
23084 AAGAACAAAAA
1 AAAAAGAAAAA
23095 GAAAAAGAAAAA
1 -AAAAAGAAAAA
23107 GGGACAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
10 6 0.15
11 5 0.12
12 29 0.73
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:23731 original size:22 final size:22
Alignment explanation
Indices: 23703--23746 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
23693 AGCTACCCCA
23703 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
23725 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
23747 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:24757 original size:36 final size:36
Alignment explanation
Indices: 24710--24972 Score: 263
Period size: 36 Copynumber: 7.4 Consensus size: 36
24700 ATTGAAAACA
* *
24710 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
24746 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
24783 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
24819 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
24848 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * ** *
24884 TTTCTTTTGGAACTATGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
24921 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
24957 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
24973 ATCTTTGAAT
Statistics
Matches: 186, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 98 0.53
37 64 0.34
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:24821 original size:138 final size:137
Alignment explanation
Indices: 24649--25035 Score: 497
Period size: 138 Copynumber: 2.8 Consensus size: 137
24639 TGATTGATTT
* * * *
24649 TCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTT
1 TCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAACATTGAATATATTT
* * * *
24713 CCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGA
64 CCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGA
24778 GACAGTTTC
129 GACAGTTTC
* * * *
24787 TCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTT
1 TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACA-TTGAATATATTTC
* * * * **
24852 CTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTATGTTTTGTCTCTCTTGAG
65 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAG
24917 ACAGTTTC
130 ACAGTTTC
* * * *
24925 TCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTC
1 TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-CATTGAATATATTTC
* * * *
24990 CCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
65 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
25036 CAAAATCTTC
Statistics
Matches: 212, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
137 5 0.02
138 207 0.98
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTGAATATATTTCC
CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGA
CAGTTTC
Found at i:24858 original size:102 final size:102
Alignment explanation
Indices: 24752--24936 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
24742 ATAGTTTCCC
* *
24752 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGA
24816 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* * **
24854 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTATGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
*
24919 AGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
24937 TTTCGTCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 28 0.37
102 47 0.63
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:25034 original size:65 final size:65
Alignment explanation
Indices: 24930--25104 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
24920 GTTTCTCTTG
* ** * **
24930 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
24995 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
25060 TA
64 TA
* * *
25062 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
25105 CATATATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:25873 original size:105 final size:105
Alignment explanation
Indices: 25708--26154 Score: 658
Period size: 105 Copynumber: 4.3 Consensus size: 105
25698 GCCATCCGCG
* * * * *
25708 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGATAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
25773 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
25816 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
25881 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
25921 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
25986 ACCGCTGCTTGT---CAATAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
26023 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
26088 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
26123 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
26155 TGAACAATGC
Statistics
Matches: 316, Mismatches: 20, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
100 37 0.12
101 2 0.01
102 99 0.31
103 2 0.01
104 2 0.01
105 149 0.47
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:26053 original size:207 final size:203
Alignment explanation
Indices: 25708--26154 Score: 662
Period size: 207 Copynumber: 2.2 Consensus size: 203
25698 GCCATCCGCG
* * *
25708 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGATAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACGACGGAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
25773 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
63 GGGACCGCTGCTTGT--ACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
25838 TATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAAC
126 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-
25903 TTCCCAATCGCAGAGCCA
189 TT-CC-AT-GCAGAGCCA
* * *
25921 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACGACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
25986 ACCGCTGCTTGT-CAATAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 ACCGCTGCTTGTACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * *
26050 GACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTCCATG
**
26115 CAGATTCA
196 CAGAGCCA
26123 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACGACGGAGGATATTGGACTC
26155 TGAACAATGC
Statistics
Matches: 217, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
202 36 0.17
203 2 0.01
204 1 0.00
205 2 0.01
206 2 0.01
207 103 0.47
210 46 0.21
211 3 0.01
213 22 0.10
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (203 bp):
ATTTCAACTTCACGACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTCCATG
CAGAGCCA
Found at i:27275 original size:18 final size:17
Alignment explanation
Indices: 27236--27278 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
27226 ATTATATGGA
27236 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
27252 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
27270 TATTATTAT
1 TATTATTAT
27279 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:37270 original size:45 final size:44
Alignment explanation
Indices: 37180--37271 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 44
37170 TGAAGTATAG
37180 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAAAAGTTCATAT
1 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAAAAGTTCATAT
*
37224 GGCCATGAGGAAGTAGTTTTGGAAAAATTGTAGAACAA-TTCCTAT
1 GGCCATGAGGAAGTAG-TTTGGAAAAATTGTAGAA-AAGTTCATAT
37269 GGC
1 GGC
37272 TTAGAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 16 0.36
45 27 0.60
46 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (44 bp):
GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAAAAGTTCATAT
Found at i:39055 original size:18 final size:18
Alignment explanation
Indices: 39020--39064 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
39010 TTCTCTTATT
*
39020 TTTATTTAAATTGCTTTTA
1 TTTATTT-AATTGATTTTA
39039 TTTATTTAATTGATTTTA
1 TTTATTTAATTGATTTTA
39057 -TTATTTAA
1 TTTATTTAA
39065 ATATCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTAATTGATTTTA
Found at i:47486 original size:26 final size:26
Alignment explanation
Indices: 47447--47496 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
47437 TTAGGATTAA
*
47447 CCATTCAGCGACGTTTTCTAGAAGGT
1 CCATTCAGCAACGTTTTCTAGAAGGT
47473 CCATTCAGCAACGTTTTCTAGAAG
1 CCATTCAGCAACGTTTTCTAGAAG
47497 ACTTTCTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (26 bp):
CCATTCAGCAACGTTTTCTAGAAGGT
Found at i:48356 original size:21 final size:20
Alignment explanation
Indices: 48332--48380 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
48322 CTCTATTCTC
*
48332 TTATTTTTATTTAAATTGCTT
1 TTATTTTTATTT-AATCGCTT
48353 TTA--TTTATTTAATCGCTT
1 TTATTTTTATTTAATCGCTT
48371 TTATTATTTA
1 TTATT-TTTA
48381 AATATCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
21 7 0.29
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTAATCGCTT
Found at i:48372 original size:18 final size:18
Alignment explanation
Indices: 48337--48381 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
48327 TTCTCTTATT
*
48337 TTTATTTAAATTGCTTTTA
1 TTTATTT-AATCGCTTTTA
48356 TTTATTTAATCGCTTTTA
1 TTTATTTAATCGCTTTTA
48374 -TTATTTAA
1 TTTATTTAA
48382 ATATCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATTTAATCGCTTTTA
Found at i:49939 original size:19 final size:20
Alignment explanation
Indices: 49894--49940 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
49884 TCAAACGACC
49894 GAAAACATGTCATAAAGACAG
1 GAAAA-ATGTCATAAAGACAG
*
49915 GAAAAATGTTATAAAGACA-
1 GAAAAATGTCATAAAGACAG
49934 GAAAAAT
1 GAAAAAT
49941 ACGTGTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 13 0.52
21 5 0.20
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAAATGTCATAAAGACAG
Found at i:49954 original size:23 final size:21
Alignment explanation
Indices: 49901--49959 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
49891 ACCGAAAACA
49901 TGTCATAAAGACAGGAAAAATG
1 TGTCATAAAGACA-GAAAAATG
49923 T-T-ATAAAGACAGAAAAATACG
1 TGTCATAAAGACAGAAAAAT--G
*
49944 TGTCATAAAGATAGAA
1 TGTCATAAAGACAGAA
49960 TTAATAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 3 0.09
22 2 0.06
23 11 0.34
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.20
Consensus pattern (21 bp):
TGTCATAAAGACAGAAAAATG
Found at i:50470 original size:12 final size:13
Alignment explanation
Indices: 50455--50486 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
50445 AATTTCGAAT
50455 TAAAATAAA-TTA
1 TAAAATAAATTTA
50467 TAAAATAAATTTA
1 TAAAATAAATTTA
50480 TAAAATA
1 TAAAATA
50487 TAAGATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATAAATTTA
Found at i:50639 original size:39 final size:41
Alignment explanation
Indices: 50576--50652 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 41
50566 ATATAAAATC
*
50576 TATGAAAAGCATACTATTAATTATATAT-ATTATAGTAAGA
1 TATGAAAAGCATACTATTAATTATATATAAATATAGTAAGA
* *
50616 TATGAGAA-CATATTATTAATTATATATAAATATAGTA
1 TATGAAAAGCATACTATTAATTATATATAAATATAGTA
50653 GGTTTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (41 bp):
TATGAAAAGCATACTATTAATTATATATAAATATAGTAAGA
Found at i:51980 original size:6 final size:6
Alignment explanation
Indices: 51966--51998 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
51956 GTTGTTGTTC
*
51966 TTTTTA TTTTGA TTTTGA TTTTGA TTTTGA TTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTT
51999 CGTGGCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:54815 original size:15 final size:15
Alignment explanation
Indices: 54795--54826 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54785 AGTTTTGCTC
54795 CTAGTGAAGATGCAT
1 CTAGTGAAGATGCAT
54810 CTAGTGAAGATGCAT
1 CTAGTGAAGATGCAT
54825 CT
1 CT
54827 GCTGTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (15 bp):
CTAGTGAAGATGCAT
Found at i:55561 original size:43 final size:42
Alignment explanation
Indices: 55420--55814 Score: 319
Period size: 43 Copynumber: 9.3 Consensus size: 42
55410 CAGAGTGCAT
* ** *
55420 ATTTGGCGGCGTTTG-TTCTAAAAACAACGCTATAGGTCTGAC
1 ATTTTGCGGCGTTTGTTTC-AAAAACGCCGCTATAGATCTGAC
* * * * * *
55462 ATTTTTCGGCGTTTGTATCCAAAACGTCGCTATAGATATGTC
1 ATTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
* * *
55504 ATTTTTCGGTGTTTGTATTCAAAAACGTCGCTATAGATCTGAC
1 ATTTTGCGGCGTTTGT-TTCAAAAACGCCGCTATAGATCTGAC
* * * * *
55547 CTTTTGCGGCGTTTGTTCCAAAAATGTCACTATAGATCTGAC
1 ATTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
** * * * *
55589 ATTTTGCGGCGTTTGTACCAAAAAATGCCGCTATATAACTGGC
1 ATTTTGCGGCGTTTGTTTC-AAAAACGCCGCTATAGATCTGAC
* * * * *
55632 CTTTTGCGGCGTTTG-TTCCAAAATGCCGCTATAGATATGAT
1 ATTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
* * ** *
55673 ATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAAATTAC
1 ATTTTGCGGCGTTTGTTTC-AAAAACGCCGCTATAGATCTGAC
* * *
55716 CTTTTGCGGCGTTTG-TTCTAAAAACGCTGCTATAGATCTCTAC
1 ATTTTGCGGCGTTTGTTTC-AAAAACGCCGCTATAGATCT-GAC
* * * * *
55759 CTTTTGCGGCGTTTGTTCCGAAAACGCCGCAATAGATCTTGAT
1 ATTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATC-TGAC
*
55802 TTTTTGCGGCGTT
1 ATTTTGCGGCGTT
55815 CTTTTGTTCT
Statistics
Matches: 289, Mismatches: 56, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
41 31 0.11
42 106 0.37
43 149 0.52
44 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
ATTTTGCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTGAC
Found at i:55683 original size:84 final size:84
Alignment explanation
Indices: 55418--55814 Score: 354
Period size: 85 Copynumber: 4.7 Consensus size: 84
55408 AACAGAGTGC
* * *** ** * *
55418 ATATTTGGCGGCGTTTGT-TCTAAAAACAACGCTATAGGTCTGACATTTTTCGGCGTTTGTATCC
1 ATATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAACTGACCTTTTGCGGCGTTTGT-TCC
*
55482 AAAACGTCGCTATAGATATG
65 AAAACGCCGCTATAGATATG
* * * * *
55502 -TCATTTTTCGGTGTTTGTATTC-AAAAACGTCGCTATAGATCTGACCTTTTGCGGCGTTTGTTC
1 AT-ATTTTGCGGCGTTTGTA-TCAAAAAATGCCGCTATAGAACTGACCTTTTGCGGCGTTTGTTC
* * * *
55565 CAAAAATGTCACTATAGATCTG
64 C-AAAACGCCGCTATAGATATG
* * * *
55587 ACATTTTGCGGCGTTTGTACCAAAAAATGCCGCTATATAACTGGCCTTTTGCGGCGTTTGTTCCA
1 ATATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAACTGACCTTTTGCGGCGTTTGTTCCA
*
55652 AAATGCCGCTATAGATATG
66 AAACGCCGCTATAGATATG
* * *
55671 ATATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAAATTACCTTTTGCGGCGTTTGTTCTA
1 ATATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAACTGACCTTTTGCGGCGTTTGTTC-C
* *
55736 AAAACGCTGCTATAGATCT-
65 AAAACGCCGCTATAGATATG
* ** * * * **
55755 CTACCTTTTGCGGCGTTTGT-TCCGAAAACGCCGCAATAGATCTTGATTTTTTGCGGCGTT
1 ATA--TTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAAC-TGACCTTTTGCGGCGTT
55815 CTTTTGTTCT
Statistics
Matches: 260, Mismatches: 43, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.00
84 93 0.36
85 135 0.52
86 31 0.12
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (84 bp):
ATATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAACTGACCTTTTGCGGCGTTTGTTCCA
AAACGCCGCTATAGATATG
Found at i:66473 original size:18 final size:18
Alignment explanation
Indices: 66422--66473 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
66412 CCCTAAAATT
* * *
66422 TGTCTCGTATGACCAATA
1 TGTCTCGAAGGACCACTA
*
66440 TGTCACGAAGGACCACTA
1 TGTCTCGAAGGACCACTA
66458 TGTCTCGAAGGACCAC
1 TGTCTCGAAGGACCAC
66474 ATAGAACACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (18 bp):
TGTCTCGAAGGACCACTA
Found at i:67463 original size:20 final size:20
Alignment explanation
Indices: 67446--67488 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
67436 TAGGTATCAG
67446 TACCCTCTATAGGGTATCGA
1 TACCCTCTATAGGGTATCGA
67466 TACCCTCTATAGGGTATCGA
1 TACCCTCTATAGGGTATCGA
67486 TAC
1 TAC
67489 ATCCCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (20 bp):
TACCCTCTATAGGGTATCGA
Found at i:70123 original size:147 final size:146
Alignment explanation
Indices: 69864--70384 Score: 604
Period size: 144 Copynumber: 3.6 Consensus size: 146
69854 CTCAAATATG
* * ** * *
69864 AGACAATAATAATCTT-AATTGATATAGAATCTTAACTATTCACGTTGTTATGGTTTCAATGAAA
1 AGACAATAATAAT-TTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAA
* * *
69928 CATCACCTCATATCAAAAGT-TATTTTATATTGACACATAGCGAA-CATGTAATTA-ATTGTTAT
65 CATCACCTCATATCAAAAGTAT-TTTTATATTGACACATAAC-AATCATGTAATTATA-GGTGAT
69990 CTGAAAAAAAAATCAAATCCA
127 CTG-AAAAAAAATCAAATCCA
* * *
70011 TGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGCCCTTATGGTTTCAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* * * *
70076 ATCGCCTCATATGATAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGAT-T-T
66 ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGATCTGA
* *
70139 AAAAAAATTAAATTCA
131 AAAAAAATCAAATCCA
* * *
70155 AGATAATAATAATTTCAATGGATAGAGAATCTTAATTATTCACGTCCTTATGCTTTCAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* * * * * * * *
70220 ATCACCTTATATCAAAAGTAGTTTTATATTGGCACATAATAGTCAAGTAATTATAGGTGCTCCGA
66 ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGATCTGA
* *
70285 AAAAATATCAAATCTA
131 AAAAAAATCAAATCCA
* * * * * *
70301 GGACAATAATAATTTCAATGGATAAAAAATCTTAATTATTCACATTCTTATGCTTTTAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* *
70366 ATCACCTCAAATCGAAAGT
66 ATCACCTCATATCAAAAGT
70385 TCGAATATCA
Statistics
Matches: 320, Mismatches: 48, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
144 124 0.39
146 91 0.28
147 103 0.32
148 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (146 bp):
AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGATCTGA
AAAAAAATCAAATCCA
Found at i:71491 original size:2 final size:2
Alignment explanation
Indices: 71484--71544 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
71474 TTCGTAAATT
71484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71526 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
71545 TAGATTGACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75955 original size:23 final size:23
Alignment explanation
Indices: 75929--75980 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
75919 AATAACATAT
* **
75929 TAGGTAGCTCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
75952 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
75975 TAGGTA
1 TAGGTA
75981 TTTAACCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:76039 original size:87 final size:87
Alignment explanation
Indices: 75902--76131 Score: 388
Period size: 87 Copynumber: 2.6 Consensus size: 87
75892 CATTTAGCTA
*
75902 GAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
*
75967 TAATAAAATAGGTATTTAACCG
66 TAATAAAATAAGTATTTAACCG
*
75989 GAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
76054 TAATAAAATAAGTATTTAACCG
66 TAATAAAATAAGTATTTAACCG
* * * **
76076 GAAATATTATCAAGTATAATAACATATTTGGTAGCGTTTATATAATAAAATAGGTA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
76132 TTTAACCAGA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 134 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (87 bp):
GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
TAATAAAATAAGTATTTAACCG
Found at i:76063 original size:23 final size:23
Alignment explanation
Indices: 76016--76063 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
76006 AATAACATAT
**
76016 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
76039 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
76062 TA
1 TA
76064 AGTATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:76117 original size:64 final size:64
Alignment explanation
Indices: 76039--76182 Score: 243
Period size: 64 Copynumber: 2.2 Consensus size: 64
76029 TATAATGTAA
* *
76039 TAGGTAGCGCTTATATAATAAAATAAGTATTTAACCGGAAATATTATCAAGTATAATAACATAT
1 TAGGTAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATAT
* * *
76103 TTGGTAGCGTTTATATAATAAAATAGGTATTTAACCAGAAATATTATCAAGTACAATAACATAT
1 TAGGTAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATAT
76167 TAGGTAGCGCTTATAT
1 TAGGTAGCGCTTATAT
76183 TGATCTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (64 bp):
TAGGTAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATAT
Found at i:76642 original size:200 final size:198
Alignment explanation
Indices: 76200--76665 Score: 639
Period size: 200 Copynumber: 2.3 Consensus size: 198
76190 TTTTCTAACT
* *
76200 AAACCGGTATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
76265 TATTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
* * *
76330 ATTCTGGAAAAAAGTATTGACACAAACTTAAAACGTGTCGATACATTATATAGACTTATTTTCTC
131 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATATAGACATATTCTCTC
76395 ATA
196 ATA
* * * *
76398 AAACCGGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTTGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
76463 TGTTTTTGGGATCGATAC-TTTTAATAAATGTTTCGACACTTTATGCGTGCACCTTGTTTGGCAT
66 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCAT
* * *** ** * * *
76527 TCATTTTGGACAAAATGTATCGACAC-TTTTTAAATTTGTTTCGATACATTATGTTGACATATTC
129 TCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ACGTGTCGATACATTATATAGACATATTC
76591 TCTCATA
192 TCTCATA
* *
76598 AAACCGATATATTTATACCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
76663 TGT
66 TGT
76666 AACATATGTG
Statistics
Matches: 233, Mismatches: 31, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
197 3 0.01
198 76 0.33
199 50 0.21
200 104 0.45
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATATAGACATATTCTCTC
ATA
Found at i:76807 original size:31 final size:32
Alignment explanation
Indices: 76766--76854 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
76756 TTATAATAAA
*
76766 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAATATATAATAATTTTATTAT
* * *
76796 TAATAAAATATAATAAATTATAATTTTTTTAT
1 TAATAAAATATAATATATAATAATTTTATTAT
*
76828 TTATAAAATTATAA-ATATAAT-ATTTTA
1 TAATAAAA-TATAATATATAATAATTTTA
76855 AGAATAATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 4 0.08
31 26 0.54
32 13 0.27
33 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TAATAAAATATAATATATAATAATTTTATTAT
Found at i:77095 original size:17 final size:17
Alignment explanation
Indices: 77073--77105 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
77063 ATATCGTGTC
77073 TTTTTCATTAGTTATAT
1 TTTTTCATTAGTTATAT
77090 TTTTTCATTAGTTATA
1 TTTTTCATTAGTTATA
77106 CTGTGGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTCATTAGTTATAT
Found at i:77565 original size:42 final size:43
Alignment explanation
Indices: 77497--77580 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
77487 CTCTTATTAT
*
77497 AATATAATTAATGATATATTATTTTT-ATTATAATA-AATAATA
1 AATATAATTAATAATATATTATTTTTAATTA-AATATAATAATA
* *
77539 AATATAATTTATAATA-ATTTTATTTTAATTAAATATAATAAT
1 AATATAATTAATAATATATTAT-TTTTAATTAAATATAATAAT
77581 CATAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 4 0.11
42 22 0.61
43 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (43 bp):
AATATAATTAATAATATATTATTTTTAATTAAATATAATAATA
Found at i:77714 original size:24 final size:24
Alignment explanation
Indices: 77663--77714 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
77653 ATTATCCTAA
77663 TATT-TTAAAAATAATAGTATTAT
1 TATTGTTAAAAATAATAGTATTAT
*
77686 T-TTGTTAATAAATAATATTATT-T
1 TATTGTTAA-AAATAATAGTATTAT
77709 TATTGT
1 TATTGT
77715 ATTTAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
TATTGTTAAAAATAATAGTATTAT
Found at i:77986 original size:24 final size:24
Alignment explanation
Indices: 77954--78002 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
77944 ATTAAAGGTC
*
77954 TATTTTTACCGGTTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
77978 TATTTTTACCGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
78002 T
1 T
78003 GGGTATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.63
Consensus pattern (24 bp):
TATTTTTACCGATTTTGTTATTGT
Found at i:78327 original size:816 final size:807
Alignment explanation
Indices: 77302--81526 Score: 6385
Period size: 816 Copynumber: 5.3 Consensus size: 807
77292 GCCTAATAAC
* * *
77302 AACAAAACCGGTAGCGTTTTACCGGTTTTATTAAAATAATGATG-TTTCGGTAATTTTTACCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
*
77366 TTTGTTATTGTTGTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
77431 TGTAACATATGTATCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTTATTA
131 TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
77496 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
196 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
*
77561 TTTTAATTAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
261 TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
* *
77626 AATATTGACATAAATAATATTAAATAAATTATCCTAATATTTTAAAAATAATAGTATTATTTTGT
326 AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGT
77691 TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTC
391 TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTC
* * *
77756 AGCATTTCATTATGATTATTTTAAAACTATATTGTAATTATATATAATTTTTTATTTTTTTATTT
456 ATCACTTCATTATGATTATTTTAAAATTATATTGTAATTATATATAATTTTTT-TTTTTTTATTT
* *
77821 TTTATTAGAAAGCTAATATAGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGC
520 TTTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGC
77886 AACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAG
585 AACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAA-
*
77951 GTCTATTTTTACCGGTTTTGTTATTGTTATTTTTACCGATTTTGTTATTGTTGGGTATAACAAAA
649 -TCTATTTTTACC------GTT-TTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAA
* *
78016 CTGGTAAAAATTACCTAAAACATTATTATTTCTACTTAAAACATCAATG-TTTTTAACATTTCCG
706 CCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCG
* * *
78080 GTAAAATGCCCAATAATAACAAAACCTGTAAAAAAAG
771 GTAAAATGCCCAACAATAACAAAACCAGTAAAAAAAT
* *
78117 AACAAAATCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCGGTAATTTTTATCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
** *
78182 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTGTCTATTACATTATAATTATCGGCTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
78247 TGTACCATATGTGTCAATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
131 TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
*
78312 TAATATAATTAATGATATATTATTTTTATTATAATAAATAACAAATATAATTTATAATAATTTTA
196 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
* *
78377 TTTAAATAAAATATAATAATCATAATTTTTTATTTATAAAACTATAGATATAATATTTTAATAAT
261 TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
* *
78442 AATATTGACATAAATAATATTAAATAATTTATTCTAATATTTTAAAACTAATATTATTATTATTT
326 AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTT-AAA--AATAATATTATTATTT
*
78507 TGTTAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATACTGTAATTATGATTATTT
388 TGTTAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTT
* ** *
78572 TTCTTCACTTCATTACAATTATTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTATTTT
453 TTCATCACTTCATTATGATTA--TTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTT
*
78637 A----TTATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTG
516 ATTTTTTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTG
*
78698 TGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGATTACTAATTTTATCATT
581 TGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATT
78763 AAAAGGTCTATTTTTACCGATTTTGTTATTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAA
646 -AAA--TCTATTTTTACC------GTT-TTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAA
*
78828 CAAAACCGGTAAAAATTACCT-AAACATTATTATTTCTACTTAAAACATCAATG-TTTTTAACAT
701 CAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACAT
* * * * *
78891 TTCCGGTAAAATACTCAATAATAACAAAACCTGTAAAAAAAG
766 TTCCGGTAAAATGCCCAACAATAACAAAACCAGTAAAAAAAT
* *
78933 AACAAAATCAGTAGAGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
* *
78998 TTTGTTATTG-TGTATACCGATT--ATTGTAAATTTGCCTATTACATTATAATTATCGGTTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
79060 TGTACCATATGTGTCAATAGTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
131 TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
*
79125 TAATATAATTAATGATATATTATTTTTATTATAATAAATAACAAATATAATTTATAATAA-TTTA
196 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
*
79189 TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAACTATAGATATAATATTTTAATAAT
261 TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
* *
79254 AATATTGACATAAATAATATTAAATAATTTATTCTAATATTTTAAAACTAATATTATTATTTTGT
326 AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGT
*
79319 TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATACTGTAATTATGATTATTTTTC
391 TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTC
* ** *
79384 TTCACTTCATTACAATTATTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTATTTTA--
456 ATCACTTCATTATGATTA--TTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATT
*
79447 --TTATTAGAAAGCTAATATCGAAATAGAAATACCGTG-CCCTTTTTTCATTAGTTATATTGTGG
519 TTTTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGG
* *
79509 CAACTTACAAACTAAAATATTAAAATTAATTTATATAA---GTGTTTACTAATTTTATCATTAAA
584 CAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAA
* *
79571 ---A-----A--G---T-TTATTTTTACCGGTTTTGTTATTGTTGGGCATAAAAAAACCGGTTAA
649 TCTATTTTTACCGTTTTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGG-TAA
* **
79622 AAATTACCTAAAACATTATTATTTCTACCTAAAACATCAAAGTTTTTTAACATTTCCAATAAAAT
713 AAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAAT
*
79687 GCCCAACAATAACAAAATCAGTAAAAAAAT
778 GCCCAACAATAACAAAACCAGTAAAAAAAT
*
79717 AACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
*
79782 TTTGTTATTGTTGTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * *
79847 TGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACGCATATGTTTAACTATTCACTCATTC
131 TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
79912 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
196 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
* *
79977 TTTTAATGAAATATAATAATCTTAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
261 TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
80042 AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTT-AAAATAATATTATTATTTTGT
326 AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGT
* *
80106 TAATAAATAATATTATTTTGTTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTC
391 TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTC
* * * *
80171 ATCGCTTTATTATGATTTTTTTTTAAAA-TATATTGTAA-T-TATAT-ATTTTTTTATTTTTATT
456 ATCACTTCATTATGA--TTATTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATT
80232 TTATTATTAGAAAGCTAATATCGAAATAG--A-ACC-TGTCCTTTTTTTCATTAGTTATATTGTG
519 TT-TTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTG
* *
80293 GCAACTTACAAACTAAAAGATTTAAATTAATTTGTATAATTTGTGTTTACTAA-TTTATCATTAA
583 GCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAA
* * *
80357 A---A-----A------T-CTATTTTTACCGGTTTTGTTATTGTTAGGCATAACAAAACCGGTAA
648 ATCTATTTTTACCGTTTTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAA
*
80407 AAATTACCTAAAATATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAAT
713 AAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAAT
*
80472 GCCCAACAATAACAAAACCGGTAAAAAAAT
778 GCCCAACAATAACAAAACCAGTAAAAAAAT
80502 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
* * *
80567 TTTGTTGTTGTTGTATACCGTTTACATTGTAAATTTACCTATT--ATTATAATTATCAGTTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
80630 TGTAACATATGTGTCGATACTTTTAA-AAAATGTATCGACGCATATGTTTAAATATTCTCTCATT
131 TGTAACATATGTGTCGATAC-TTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATT
80694 ATAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAAT-A----
195 ATAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTT
*
80754 A---TAATAAAACATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAA
260 ATTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAA
*
80816 TAATATTGACATAAATAATATTAAATAAATTATTTTAATATTTTAAAAATAATATTATTATTTTG
325 TAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTG
* *
80881 TTAATAAATAATATTATTTTATTGTATTTGATGTTTATAGTTATATTTTAATTATGATTA-TTTT
390 TTAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTT
* *
80945 CATCACTTCATTATGATT-TGTTTTAAATTATATTGTAATTATAGATAATTTTTTTATTTTTTAT
455 CATCACTTCATTATGATTAT-TTTAAAATTATATTGTAATTATATATAATTTTTTT-TTTTTTAT
81009 TTTATTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCC-TTTTTTCATTAGTTATATTGT
518 TTT-TTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGT
* * * *
81073 GGAAACTTACAAACTAAAAAATTAAAAATAA-TTATATAATTTGTGTTTACTGATTTTATCATTA
582 GGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTA
* * * * *
81137 AA---A-----A--G---T-CTATTTTTACCGGTTTTGTTATTGTTGGGTATTACAAAACCAGTA
647 AATCTATTTTTACCGTTTTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTA
*
81188 AAAATTACCTAAAATATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAA
712 AAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAA
81253 TGCCCAACAATAACAAAACCAGTAAAAAAAT
777 TGCCCAACAATAACAAAACCAGTAAAAAAAT
* * *
81284 AACAAAATCGGTAGTGCTTTATCGGTTTTGTTAAAATAATGTTGTTTTCGGTAATTTTTACCGGT
1 AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
* * * * *
81349 TTTGTTGTTGTTGGATACTGTTTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGA
66 TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * *
81414 TGTAACATATGTGTCGATACTTTTAGAAAATATATCGACGCATATGTTTAAATATTCTCTCATTA
131 TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
*
81479 TAATATAATTAATGATATATTATTCTTATTATAATAAATAATAAATAT
196 TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATAT
81527 GTTGAAAACA
Statistics
Matches: 3220, Mismatches: 148, Indels: 115
0.92 0.04 0.03
Matches are distributed among these distances:
772 1 0.00
773 8 0.00
774 10 0.00
775 120 0.04
776 82 0.03
777 8 0.00
778 38 0.01
780 21 0.01
781 106 0.03
782 259 0.08
783 180 0.06
784 250 0.08
785 270 0.08
786 53 0.02
787 270 0.08
788 145 0.05
789 2 0.00
794 1 0.00
799 1 0.00
804 3 0.00
805 20 0.01
808 61 0.02
809 181 0.06
811 3 0.00
812 111 0.03
813 162 0.05
815 53 0.02
816 581 0.18
817 85 0.03
819 94 0.03
820 7 0.00
821 34 0.01
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (807 bp):
AACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGT
TTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTAACATATGTGTCGATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTA
TAATATAATTAATGATATATTATTTTTATTATAATAAATAATAAATATAATTTATAATAATTTTA
TTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAAT
AATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGT
TAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTC
ATCACTTCATTATGATTATTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATTTT
TTATTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCA
ACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAATC
TATTTTTACCGTTTTGTTATTTTTACCGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAA
TTACCTAAAACATTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCC
CAACAATAACAAAACCAGTAAAAAAAT
Found at i:78539 original size:27 final size:26
Alignment explanation
Indices: 78462--78540 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
78452 TAAATAATAT
* * *
78462 TAAATAAT-TTATTCTAATATTTTAA
1 TAAATAATATTATTATTATTTTTTAA
*
78487 -AACTAATATTATTATTATTTTGTTAA
1 TAAATAATATTATTATTATTTT-TTAA
78513 TAAATAATATTATT-TTATTGTATTTAA
1 TAAATAATATTATTATTATT-T-TTTAA
78540 T
1 T
78541 GTTTATAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.14
25 10 0.23
26 9 0.20
27 18 0.41
28 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (26 bp):
TAAATAATATTATTATTATTTTTTAA
Found at i:78803 original size:24 final size:24
Alignment explanation
Indices: 78771--78819 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
78761 TTAAAAGGTC
78771 TATTTTTACCGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
78795 TATTTTTACCGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
78819 T
1 T
78820 GGGCATAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.12, T:0.63
Consensus pattern (24 bp):
TATTTTTACCGATTTTGTTATTGT
Found at i:79207 original size:42 final size:42
Alignment explanation
Indices: 79126--79207 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
79116 CTCTCATTAT
* * *
79126 AATATAATTAATGATATATTATTTTTATTATAATAAATAACA
1 AATATAATTAATAATATATTATTTTTAATAAAATAAATAACA
*
79168 AATATAATTTATAATA-ATT-TATTTTAATAAAATATAATAA
1 AATATAATTAATAATATATTAT-TTTTAATAAAATA-AATAA
79208 TCATAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.03
41 14 0.41
42 19 0.56
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (42 bp):
AATATAATTAATAATATATTATTTTTAATAAAATAAATAACA
Found at i:79229 original size:30 final size:30
Alignment explanation
Indices: 79167--79243 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
79157 AATAAATAAC
*
79167 AAATATAATTTATAATAATTTATTTTAATA
1 AAATATAATTAATAATAATTTATTTTAATA
* * *
79197 AAATATAA-TAATCATAATTTTTTATTTATA
1 AAATATAATTAATAATAATTTATT-TTAATA
79227 AAACTATAGATATAATA
1 AAA-TATA-AT-TAATA
79244 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 12 0.32
30 16 0.43
31 4 0.11
32 1 0.03
34 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
AAATATAATTAATAATAATTTATTTTAATA
Found at i:80767 original size:23 final size:23
Alignment explanation
Indices: 80723--80768 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
80713 ATTATTTTTA
*
80723 TTATAATAAATAATAAATATAAT
1 TTATAATAAATAATAAACATAAT
80746 TTATAAT-AATAATAAAACATAAT
1 TTATAATAAATAAT-AAACATAAT
80769 AATCATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TTATAATAAATAATAAACATAAT
Found at i:80905 original size:24 final size:24
Alignment explanation
Indices: 80837--80905 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
80827 TAAATAATAT
*
80837 TAAATAA-ATTATTTTAATATTTTAA
1 TAAATAATATTATTTT-AT-TGTTAA
80862 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATT-TTATTGTTAA
80885 TAAATAATATTATTTTATTGT
1 TAAATAATATTATTTTATTGT
80906 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 7 0.18
24 24 0.62
25 6 0.15
26 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (24 bp):
TAAATAATATTATTTTATTGTTAA
Found at i:90125 original size:21 final size:20
Alignment explanation
Indices: 90078--90124 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
90068 TAGGGAACCC
90078 ATTCCCCATAGGGGGTACAG
1 ATTCCCCATAGGGGGTACAG
*
90098 ATTCCCCATAGGGGGTACCG
1 ATTCCCCATAGGGGGTACAG
90118 ATTCCCC
1 ATTCCCC
90125 CCACGCTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (20 bp):
ATTCCCCATAGGGGGTACAG
Found at i:90767 original size:30 final size:30
Alignment explanation
Indices: 90731--90813 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
90721 TTAACTCAAC
90731 AAAATATAATTTATAATAATTTATT-TTAAT
1 AAAATATAA-TTATAATAATTTATTATTAAT
* * * *
90761 AAAATATAATAATCATAATTTTTTATTTAT
1 AAAATATAATTATAATAATTTATTATTAAT
* *
90791 AAAATTATAAATATAATATTTTA
1 AAAA-TATAATTATAATAATTTA
90814 AGAATAATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
29 12 0.29
30 17 0.40
31 13 0.31
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AAAATATAATTATAATAATTTATTATTAAT
Found at i:90992 original size:30 final size:29
Alignment explanation
Indices: 90917--91003 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
90907 GTATTTGATG
90917 TTTATAATTATATTGTAATTATGATTA-TT
1 TTTA-AATTATATTGTAATTATGATTATTT
* * *
90946 TTT-CATCA-A-T-TCATTATGATTATTT
1 TTTAAATTATATTGTAATTATGATTATTT
90971 TTTAAAATTATATTGTAATTAT-ATATATTT
1 TTT-AAATTATATTGTAATTATGAT-TATTT
91001 TTT
1 TTT
91004 TATTTTATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
24 11 0.24
25 6 0.13
26 1 0.02
27 6 0.13
28 1 0.02
29 6 0.13
30 14 0.31
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTAAATTATATTGTAATTATGATTATTT
Found at i:91221 original size:21 final size:21
Alignment explanation
Indices: 91182--91222 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91172 CGGTAAAAAT
* *
91182 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
91203 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
91223 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:91814 original size:12 final size:12
Alignment explanation
Indices: 91797--91839 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
91787 TAAATAAAAA
91797 AAATATAATATT
1 AAATATAATATT
*
91809 AAATATAATTTT
1 AAATATAATATT
*
91821 AAAAAATAATAATT
1 -AAATATAAT-ATT
91835 AAATA
1 AAATA
91840 GTTAAAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 11 0.44
13 12 0.48
14 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATAATATT
Found at i:94069 original size:39 final size:38
Alignment explanation
Indices: 94010--94086 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 38
94000 CAAATATATC
*
94010 GCTTAATACAATCATATTTCAAAGGTAATAGTATTTTTT
1 GCTTAATACAATCATATTTCAAAGGTAATAAT-TTTTTT
94049 GCTTGAAT-CAATCATATTTCAAAGGTAATAATTTTTTT
1 GCTT-AATACAATCATATTTCAAAGGTAATAATTTTTTT
94087 AAAATCACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 6 0.17
39 27 0.75
40 3 0.08
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (38 bp):
GCTTAATACAATCATATTTCAAAGGTAATAATTTTTTT
Found at i:94515 original size:21 final size:19
Alignment explanation
Indices: 94483--94521 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
94473 TCATAAAATG
94483 TTTTCTTCATTATATTTTTA
1 TTTTCTTCATTAT-TTTTTA
*
94503 TTTTTTTCTATTATTTTTT
1 TTTTCTTC-ATTATTTTTT
94522 CAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTTCATTATTTTTTA
Found at i:95662 original size:50 final size:49
Alignment explanation
Indices: 95559--95669 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 49
95549 TTGTAGTAAG
* * ** * * *
95559 GCGCGCCCCTGCAGTGCGCTTTACGTTGATATGCGCCACGTGGGGTAAG
1 GCGCGCCCCTGCAGCGCGCTTTACGCTGATATGAACCAAGTGGGCTAAA
*
95608 GCGCGCCCCCTGCAGCGCGCTTTACGCTGATATGAACACAAGT-GTCTAAA
1 GCGCG-CCCCTGCAGCGCGCTTTACGCTGATATGAAC-CAAGTGGGCTAAA
95658 GCGCGGCCCCTG
1 GCGC-GCCCCTG
95670 GGGCGCGTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 5 0.10
50 41 0.80
51 5 0.10
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (49 bp):
GCGCGCCCCTGCAGCGCGCTTTACGCTGATATGAACCAAGTGGGCTAAA
Found at i:95993 original size:16 final size:16
Alignment explanation
Indices: 95974--96016 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
95964 GGTAACTTTG
95974 TTATAATATATT-TTTA
1 TTATAAT-TATTGTTTA
*
95990 TTATACTTATTGTTTA
1 TTATAATTATTGTTTA
*
96006 TTATGATTATT
1 TTATAATTATT
96017 TGAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
TTATAATTATTGTTTA
Found at i:99171 original size:11 final size:11
Alignment explanation
Indices: 99134--99194 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
99124 AAACTCGAAA
99134 CTCGATTCAAG
1 CTCGATTCAAG
**
99145 CTCGACTTTGAG
1 CTCGA-TTCAAG
99157 CTCGATTCAAG
1 CTCGATTCAAG
* *
99168 CTCGAAACTCGAG
1 CTCG--ATTCAAG
99181 CTCGATTCAAG
1 CTCGATTCAAG
99192 CTC
1 CTC
99195 AAAAATGGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 21 0.54
12 9 0.23
13 9 0.23
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:99186 original size:24 final size:24
Alignment explanation
Indices: 99124--99194 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
99114 AATTCAATTA
*
99124 AAACTCGAAACTCGATTCAAGCTCG
1 AAACTCG-AGCTCGATTCAAGCTCG
*
99149 --ACTTTGAGCTCGATTCAAGCTCG
1 AAAC-TCGAGCTCGATTCAAGCTCG
99172 AAACTCGAGCTCGATTCAAGCTC
1 AAACTCGAGCTCGATTCAAGCTC
99195 AAAAATGGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 18 0.45
24 20 0.50
25 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (24 bp):
AAACTCGAGCTCGATTCAAGCTCG
Found at i:100637 original size:7 final size:7
Alignment explanation
Indices: 100627--100741 Score: 68
Period size: 7 Copynumber: 16.4 Consensus size: 7
100617 ATATATCTGA
100627 GTTTAGG
1 GTTTAGG
*
100634 GTTTAGT
1 GTTTAGG
* *
100641 GATTATG
1 GTTTAGG
*
100648 GTTTAAG
1 GTTTAGG
**
100655 GTTTAAA
1 GTTTAGG
*
100662 GATTAGG
1 GTTTAGG
*
100669 ATTTAGG
1 GTTTAGG
* *
100676 GCTTAGT
1 GTTTAGG
**
100683 GTTTAAT
1 GTTTAGG
*
100690 GTTTATG
1 GTTTAGG
*
100697 GCTTAGG
1 GTTTAGG
*
100704 GCTTAGG
1 GTTTAGG
*
100711 GCTTAGG
1 GTTTAGG
*
100718 GTTTAGA
1 GTTTAGG
*
100725 GATTAGG
1 GTTTAGG
100732 GTTTAGG
1 GTTTAGG
100739 GTT
1 GTT
100742 CATTACAAAT
Statistics
Matches: 82, Mismatches: 26, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 82 1.00
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:100687 original size:35 final size:35
Alignment explanation
Indices: 100647--100722 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
100637 TAGTGATTAT
*
100647 GGTTTAAGGTTTAAAGATTAGGATTTAGGGCTTAG
1 GGTTTAAGGTTTAAAGATTAGGACTTAGGGCTTAG
* * ** * *
100682 TGTTTAATGTTTATGGCTTAGGGCTTAGGGCTTAG
1 GGTTTAAGGTTTAAAGATTAGGACTTAGGGCTTAG
100717 GGTTTA
1 GGTTTA
100723 GAGATTAGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (35 bp):
GGTTTAAGGTTTAAAGATTAGGACTTAGGGCTTAG
Found at i:100730 original size:21 final size:21
Alignment explanation
Indices: 100627--100741 Score: 95
Period size: 21 Copynumber: 5.5 Consensus size: 21
100617 ATATATCTGA
* *
100627 GTTTAGGGTTTAGTGATTATG
1 GTTTAGGGTTTAGAGATTAGG
* *
100648 GTTTAAGGTTTAAAGATTAGG
1 GTTTAGGGTTTAGAGATTAGG
* * * * **
100669 ATTTAGGGCTTAGTGTTTAAT
1 GTTTAGGGTTTAGAGATTAGG
* * * *
100690 GTTTATGGCTTAGGGCTTAGG
1 GTTTAGGGTTTAGAGATTAGG
*
100711 GCTTAGGGTTTAGAGATTAGG
1 GTTTAGGGTTTAGAGATTAGG
100732 GTTTAGGGTT
1 GTTTAGGGTT
100742 CATTACAAAT
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGATTAGG
Found at i:101354 original size:20 final size:20
Alignment explanation
Indices: 101329--101377 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
101319 ATATAAAATT
101329 TTTTCGAGTAGCTCACGAGC
1 TTTTCGAGTAGCTCACGAGC
101349 TTTTCGAGTAGCTCACGAGC
1 TTTTCGAGTAGCTCACGAGC
101369 TTTTCGAGT
1 TTTTCGAGT
101378 CGAATATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
TTTTCGAGTAGCTCACGAGC
Found at i:105379 original size:24 final size:24
Alignment explanation
Indices: 105347--105405 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
105337 TACACCATGT
105347 ATCGATGCA-TCCCTTGACGGGTGC
1 ATCGATGCACT-CCTTGACGGGTGC
105371 ATCGATGCACTCCTTGACGGGTGC
1 ATCGATGCACTCCTTGACGGGTGC
105395 ATCGATGCACT
1 ATCGATGCACT
105406 ATCTATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (24 bp):
ATCGATGCACTCCTTGACGGGTGC
Found at i:109120 original size:35 final size:34
Alignment explanation
Indices: 109035--109121 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
109025 AATATAATTT
*
109035 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
109069 TAAATGATAA-ACAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
109107 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
109122 ACAAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:109154 original size:34 final size:33
Alignment explanation
Indices: 109112--109199 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
109102 AATGGTAATA
*
109112 AACAAAATTAACAAAAATACATTAACAA-AAAGTCC
1 AACAAAATTAAC-AAAATAAATTAA-AATAAA-TCC
*
109147 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAAATTAACAAAATAAATTAAAATAAATCC
**
109180 AACAAAATTAATGAAATAAA
1 AACAAAATTAACAAAATAAA
109200 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 14 0.30
35 11 0.23
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.20
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTAAAATAAATCC
Found at i:111208 original size:4 final size:4
Alignment explanation
Indices: 111199--111223 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
111189 AATCATGCAT
111199 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
111224 TACTAATAAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:111368 original size:18 final size:18
Alignment explanation
Indices: 111347--111386 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111337 AAAAATTAAA
111347 TAAAATA-TTAAAAAAAT
1 TAAAATACTTAAAAAAAT
* *
111364 TTAAATACTTAAATAAAT
1 TAAAATACTTAAAAAAAT
111382 TAAAA
1 TAAAA
111387 ACAAAATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAAAAAAT
Found at i:111384 original size:17 final size:16
Alignment explanation
Indices: 111343--111385 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
111333 GCAAAAAAAT
*
111343 TAAATAAAATATTAAA
1 TAAATTAAATATTAAA
*
111359 AAAATTTAAATACTTAAA
1 TAAA-TTAAATA-TTAAA
111377 TAAATTAAA
1 TAAATTAAA
111386 AACAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATTAAATATTAAA
Found at i:116191 original size:49 final size:45
Alignment explanation
Indices: 116116--116256 Score: 110
Period size: 44 Copynumber: 3.1 Consensus size: 45
116106 CCTCGTCCTG
* * *
116116 TTTCTTTTTTGTGATCATCT-TCAGAGGGCTATATCACAATTCTAA
1 TTTCTTTTTCGAGATCCTCTAT-AGAGGGCTATATCACAATTCTAA
* * * *
116161 TTTCTGATCTTCTTGGGATCCTCTATAGAGGGCGATAT-ACTTATTCTAA
1 TTTCT--T-TT-TCGAGATCCTCTATAGAGGGCTATATCAC-AATTCTAA
**
116210 -TTCTTTTTCGAGATCCTCTATAGAGGGCTGCATC-CATATTCTAA
1 TTTCTTTTTCGAGATCCTCTATAGAGGGCTATATCACA-ATTCTAA
116254 TTT
1 TTT
116257 TTGTATTCTG
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
44 29 0.38
45 9 0.12
46 1 0.01
47 1 0.01
48 8 0.10
49 28 0.36
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTCTTTTTCGAGATCCTCTATAGAGGGCTATATCACAATTCTAA
Found at i:116634 original size:19 final size:20
Alignment explanation
Indices: 116589--116634 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
116579 ACATTTTCGG
*
116589 ATTATATTAATATTTTTATT
1 ATTATATTAATATTTCTATT
116609 ATT-TATTAATA-TTCTATT
1 ATTATATTAATATTTCTATT
116627 ATTATATT
1 ATTATATT
116635 GAGATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 12 0.50
20 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATATTAATATTTCTATT
Found at i:122107 original size:134 final size:134
Alignment explanation
Indices: 121620--122193 Score: 638
Period size: 133 Copynumber: 4.3 Consensus size: 134
121610 TCGAGAAACG
* ** *
121620 TTGATTCATTCCACTGTTTTTCAGGGAAGATTGAATCGGGGTAGACTTGTTCCACTGTTACTCAG
1 TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
* * * * * **
121685 GGAATATCAAATCTTGAAA-ACGAGGGATCTGTTCCACTTCTTCATAAGGAAAAAT-AAATCTTT
66 AGAATATCAAATCTTGAAAGA-GAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
*
121748 GAACGT
130 GAA-TT
* * * * * * *
121754 TT-ATTTATTCTACTGTT-CTTTAGGGAAGATTAAATCGGGGTAGACTTGTTCTACTATCACTCA
1 TTGATTCATTCTACTGTTAC-TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCA
* * *** * *
121817 GGGTATATCAAATCTTGAAAGAGAGGGATAAATTCCGCTTCTTCTTGAGGGAAAATTAGATCTGG
65 GAGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGG
* *
121882 AAATG
130 GAATT
* * * * *
121887 TTGATTAATTCTACTGTTCCTCAGGGAA-ATTGAATCGAGGCAGACTTATTCCACTGTTACTTAG
1 TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
* * *
121951 AGGATATCAAATCTTGAAAGAGAAGGATCTGTTACACTTCTT-TATGAGGGAAAATCAGATCTGG
66 AGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCT-TGAGGGAAAATCAGATCTGG
*
122015 GGATT
130 GAATT
* * * * * *
122020 TTGATTCATTCCACTATAACTCAGGGAAGATTGAATTGAGGTAGAGTTGTTCCACTGTTACTCAT
1 TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
* ***
122085 AGAATATCAAATCTTGAAAGAGATGGATCTGTTTTGCTTCTTCTTGAGGGAAAATCAGATCTGGG
66 AGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGG
*
122150 GATT
131 AATT
122154 TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAG
1 TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAG
122194 TTCGATTTGC
Statistics
Matches: 368, Mismatches: 64, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
132 1 0.00
133 206 0.56
134 159 0.43
135 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (134 bp):
TTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG
AGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGG
AATT
Found at i:122129 original size:267 final size:267
Alignment explanation
Indices: 121604--122193 Score: 679
Period size: 267 Copynumber: 2.2 Consensus size: 267
121594 TTCAGGGTAG
* * ** * *
121604 ATCAGATC-GAGAAACGTTGATTCATTCCACTGTTTTTCAGGGAAGATTGAATCGGGGTAGACTT
1 ATCAGATCTG-GAAATGTTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGCAGACTT
* * *
121668 GTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAACGAGGGATCTGTTCCACTTCTTCATAAG
65 ATTCCACTGTTACTCAGGGAATATCAAATCTTGAAAACGAAGGATCTGTTACACTTCTTCATAAG
** * * * * * *
121733 GAAAAATAAATCTTTGAACGTTTATTTATTCTACTGTTCTTTAGGGAAGATTAAATCGGGGTAGA
130 GAAAAATAAATCTGGGAACGTTTATTCATTCCACTATACTTCAGGGAAGATTAAATCGAGGTAGA
* * *
121798 CTTGTTCTACTATCACTCAGGGTATATCAAATCTTGAAAGAGAGGGATAAATTCCGCTTCTTCTT
195 CTTGTTCCACTATCACTCAGAGAATATCAAATCTTGAAAGAGAGGGATAAATTCCGCTTCTTCTT
121863 GAGGGAAA
260 GAGGGAAA
* * *
121871 ATTAGATCTGGAAATGTTGATTAATTCTACTGTTCCTCAGGGAA-ATTGAATCGAGGCAGACTTA
1 ATCAGATCTGGAAATGTTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGCAGACTTA
* * *
121935 TTCCACTGTTACTTAGAGG-ATATCAAATCTTGAAAGA-GAAGGATCTGTTACACTTCTTTATGA
66 TTCCACTGTTACTCAG-GGAATATCAAATCTTGAAA-ACGAAGGATCTGTTACACTTCTTCATAA
* * * * * *
121998 GGGAAAATCAGATCTGGGGA-TTTTGATTCATTCCACTATAAC-TCAGGGAAGATTGAATTGAGG
129 GGAAAAAT-AAATCTGGGAACGTTT-ATTCATTCCACTAT-ACTTCAGGGAAGATTAAATCGAGG
* * * * * *** **
122061 TAGAGTTGTTCCACTGTTACTCATAGAATATCAAATCTTGAAAGAGATGGATCTGTTTTGCTTCT
191 TAGACTTGTTCCACTATCACTCAGAGAATATCAAATCTTGAAAGAGAGGGATAAATTCCGCTTCT
122126 TCTTGAGGGAAA
256 TCTTGAGGGAAA
** *
122138 ATCAGATCTGGGGATTTTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAG
1 ATCAGATCTGGAAATGTTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAG
122194 TTCGATTTGC
Statistics
Matches: 269, Mismatches: 47, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
266 80 0.30
267 176 0.65
268 13 0.05
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (267 bp):
ATCAGATCTGGAAATGTTGATTCATTCTACTGTTACTCAGGGAAGATTGAATCGAGGCAGACTTA
TTCCACTGTTACTCAGGGAATATCAAATCTTGAAAACGAAGGATCTGTTACACTTCTTCATAAGG
AAAAATAAATCTGGGAACGTTTATTCATTCCACTATACTTCAGGGAAGATTAAATCGAGGTAGAC
TTGTTCCACTATCACTCAGAGAATATCAAATCTTGAAAGAGAGGGATAAATTCCGCTTCTTCTTG
AGGGAAA
Found at i:125195 original size:18 final size:17
Alignment explanation
Indices: 125161--125201 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
125151 CATTTTTTAA
125161 TTTTTCTTTCTTATTTT
1 TTTTTCTTTCTTATTTT
* *
125178 TTTTATCTTTTTTTTTTT
1 TTTT-TCTTTCTTATTTT
125196 TTTTTC
1 TTTTTC
125202 AGTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTCTTATTTT
Found at i:125197 original size:32 final size:33
Alignment explanation
Indices: 125142--125211 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
125132 ACTTGATTTA
* *
125142 TTTTTTTCTCATTTTTTAATTTTTCTTTC-TTAT
1 TTTTTTTATCATTTTTTAATTTTT-TTTCAGTAT
**
125175 TTTTTTTATC-TTTTTTTTTTTTTTTTCAGTAT
1 TTTTTTTATCATTTTTTAATTTTTTTTCAGTAT
125207 TTTTT
1 TTTTT
125212 CATTTTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.12
32 19 0.59
33 9 0.28
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (33 bp):
TTTTTTTATCATTTTTTAATTTTTTTTCAGTAT
Found at i:125237 original size:20 final size:20
Alignment explanation
Indices: 125186--125239 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
125176 TTTTTTATCT
* *
125186 TTTTTTTTTTTTTTTCAGTA
1 TTTTTTCTTTTTATTCAGTA
*
125206 TTTTTTCATTTTATTCTA-TA
1 TTTTTTCTTTTTATTC-AGTA
*
125226 TTTTTTGTTTTTAT
1 TTTTTTCTTTTTAT
125240 ATTTTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTTTATTCAGTA
Found at i:131710 original size:3 final size:3
Alignment explanation
Indices: 131702--131734 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
131692 AAGAAAAAAG
131702 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
131735 TTGGTTTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:140595 original size:20 final size:20
Alignment explanation
Indices: 140570--140614 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
140560 GCTCATCGTC
140570 TATAAGTGATATAATAAATG
1 TATAAGTGATATAATAAATG
140590 TATAAGTGATATAATAAATG
1 TATAAGTGATATAATAAATG
140610 TATAA
1 TATAA
140615 AACAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
TATAAGTGATATAATAAATG
Found at i:141633 original size:28 final size:28
Alignment explanation
Indices: 141589--141669 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
141579 GAAGGACCAC
* *
141589 TATGTCCCGAAGAACCACATAGAACACA
1 TATGTCCCAAAGGACCACATAGAACACA
*
141617 TATGTCCCAAAGGACCACGTAGAACACA
1 TATGTCCCAAAGGACCACATAGAACACA
141645 TATGTCCCAAAGGACCACATAGAAC
1 TATGTCCCAAAGGACCACATAGAAC
141670 CCTCGACTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.15
Consensus pattern (28 bp):
TATGTCCCAAAGGACCACATAGAACACA
Found at i:142503 original size:21 final size:22
Alignment explanation
Indices: 142477--142529 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
142467 TGTTCCTCGT
142477 GTATCGATACC-C-TCCACATAG
1 GTATCGATACCTCATCCACAT-G
** *
142498 GTATCGGCACCTCATCCATATG
1 GTATCGATACCTCATCCACATG
142520 GTATCGATAC
1 GTATCGATAC
142530 TGTGTTCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 9 0.36
22 10 0.40
23 6 0.24
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (22 bp):
GTATCGATACCTCATCCACATG
Found at i:147716 original size:27 final size:27
Alignment explanation
Indices: 147686--147772 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 27
147676 GAAGATGAAG
147686 AAATGAGAGAGAAGAAGAAAAAGTTAA
1 AAATGAGAGAGAAGAAGAAAAAGTTAA
147713 AAAT----GA-AAG-AGAAAAAGTTAA
1 AAATGAGAGAGAAGAAGAAAAAGTTAA
* * *
147734 AAATGAAAGAGAAAAATAAAAAGTT-A
1 AAATGAGAGAGAAGAAGAAAAAGTTAA
147760 AAATGAGAGAGAA
1 AAATGAGAGAGAA
147773 ATGGGTGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
21 16 0.31
22 3 0.06
23 2 0.04
25 2 0.04
26 15 0.29
27 13 0.25
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.13
Consensus pattern (27 bp):
AAATGAGAGAGAAGAAGAAAAAGTTAA
Found at i:147719 original size:48 final size:48
Alignment explanation
Indices: 147664--147773 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 48
147654 AGCTATGGGG
* * *
147664 AAAATG-AAG-GAAGAAGATGAAGAAATGAGAGAGAAGAAGAAAAAGTTA
1 AAAATGAAAGAGAAAAAG-TGAA-AAATGAAAGAGAAAAAGAAAAAGTTA
* *
147712 AAAATGAAAGAGAAAAAGTTAAAAATGAAAGAGAAAAATAAAAAGTT-
1 AAAATGAAAGAGAAAAAGTGAAAAATGAAAGAGAAAAAGAAAAAGTTA
*
147759 AAAATGAGAGAGAAA
1 AAAATGAAAGAGAAA
147774 TGGGTGATAG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 14 0.26
48 28 0.52
49 6 0.11
50 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (48 bp):
AAAATGAAAGAGAAAAAGTGAAAAATGAAAGAGAAAAAGAAAAAGTTA
Found at i:155434 original size:2 final size:2
Alignment explanation
Indices: 155427--155456 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
155417 TAACTTCTAG
155427 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
155457 CTCATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:155895 original size:22 final size:21
Alignment explanation
Indices: 155848--155903 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
155838 AAGTTTCCCG
*
155848 GGTATTGATACCCTTCATATA
1 GGTATCGATACCCTTCATATA
155869 GGTATCGATACCTCTTCCATAT-
1 GGTATCGATACC-CTT-CATATA
*
155891 TGTATCGATACCC
1 GGTATCGATACCC
155904 CATGCATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.39
22 14 0.45
23 5 0.16
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (21 bp):
GGTATCGATACCCTTCATATA
Found at i:158502 original size:20 final size:20
Alignment explanation
Indices: 158477--158528 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
158467 GGAGAAGGTA
158477 GTATCGATACCATAATGGAG
1 GTATCGATACCATAATGGAG
158497 GTATCGATACCATAATGGAG
1 GTATCGATACCATAATGGAG
158517 GTATCGATACCA
1 GTATCGATACCA
158529 GGGAAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATAATGGAG
Found at i:159274 original size:13 final size:13
Alignment explanation
Indices: 159256--159280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159246 ATAGTTGAAC
159256 AGTCTTCATATGA
1 AGTCTTCATATGA
159269 AGTCTTCATATG
1 AGTCTTCATATG
159281 CGTGTCTGTA
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
AGTCTTCATATGA
Found at i:163705 original size:22 final size:22
Alignment explanation
Indices: 163677--163740 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
163667 ATGTGAAATT
163677 TGTCCCGAAGGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
* * * *
163699 TGTCCCGAACGACCTTTTTATT
1 TGTCCCGAAGGACCTATGTATA
*
163721 TTTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
163741 ACCCTCATCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:165433 original size:28 final size:28
Alignment explanation
Indices: 165393--165473 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
165383 AGAGTCGAGG
*
165393 GTTCTACGTGGTCATTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
165421 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
** *
165449 GTTCTATATAGTCCTTCGGGACATA
1 GTTCTACGTGGTCCTTCGGGACATA
165474 GTGGTCCTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (28 bp):
GTTCTACGTGGTCCTTCGGGACATATGT
Found at i:165482 original size:18 final size:18
Alignment explanation
Indices: 165459--165507 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
165449 GTTCTATATA
165459 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
165477 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
*
165495 GTCCTTCGAGACA
1 GTCCTTCGGGACA
165508 AATTCTACGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:174323 original size:26 final size:25
Alignment explanation
Indices: 174249--174317 Score: 120
Period size: 25 Copynumber: 2.7 Consensus size: 25
174239 AAAAACAAAG
174249 CTTGAAAATAAAAGAAAAATGAAAA
1 CTTGAAAATAAAAGAAAAATGAAAA
174274 CTTGAAAATAAAAGAAAAATGAAAA
1 CTTGAAAATAAAAGAAAAATGAAAA
*
174299 CTTGAAAAATAAAATAAAA
1 CTTG-AAAATAAAAGAAAA
174318 GAGAAAGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 29 0.69
26 13 0.31
ACGTcount: A:0.68, C:0.04, G:0.10, T:0.17
Consensus pattern (25 bp):
CTTGAAAATAAAAGAAAAATGAAAA
Found at i:174332 original size:25 final size:25
Alignment explanation
Indices: 174245--174337 Score: 116
Period size: 25 Copynumber: 3.7 Consensus size: 25
174235 ATTTAAAAAC
174245 AAAGCTTGAAAATAAAAGAAAAATG
1 AAAGCTTGAAAATAAAAGAAAAATG
*
174270 AAAACTTGAAAATAAAAGAAAAATG
1 AAAGCTTGAAAATAAAAGAAAAATG
* *
174295 AAAACTTGAAAAATAAAATAAAAGA-G
1 AAAGCTTG-AAAATAAAAGAAAA-ATG
* *
174321 AAAGCTTTAAAAAAAAA
1 AAAGCTTGAAAATAAAA
174338 CTAGAAAGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
25 40 0.66
26 20 0.33
27 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.12, T:0.16
Consensus pattern (25 bp):
AAAGCTTGAAAATAAAAGAAAAATG
Found at i:174345 original size:27 final size:26
Alignment explanation
Indices: 174245--174351 Score: 89
Period size: 25 Copynumber: 4.2 Consensus size: 26
174235 ATTTAAAAAC
*
174245 AAAGCTTG-AAAATAAAAGAAAA-ATG
1 AAAGCTTGAAAAATAAAATAAAAGA-G
* *
174270 AAAACTTG-AAAATAAAAGAAAA-ATG
1 AAAGCTTGAAAAATAAAATAAAAGA-G
*
174295 AAAACTTGAAAAATAAAATAAAAGAG
1 AAAGCTTGAAAAATAAAATAAAAGAG
* *
174321 AAAGCTTTAAAAA-AAAACTAGAAAGAA
1 AAAGCTTGAAAAATAAAA-TA-AAAGAG
174348 AAAG
1 AAAG
174352 AAGATTGTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
25 36 0.49
26 27 0.37
27 10 0.14
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.15
Consensus pattern (26 bp):
AAAGCTTGAAAAATAAAATAAAAGAG
Found at i:178938 original size:84 final size:81
Alignment explanation
Indices: 178764--179186 Score: 306
Period size: 83 Copynumber: 5.3 Consensus size: 81
178754 ATAAAATGGT
* * * * *
178764 AACTTTAGCGGCGTTTTTATACAAATG-TCGCAATAGAGTTCATCTATAGAGGC-TTTTTTCAAC
1 AACTTTAGCGGTGTTTTTATA-AAATGCT-GTAATAGGGTTCATCTATAGTGGCATTTTTTTAAC
*
178827 AAACGCCGTAATAGAGTA
64 AAATGCCGTAATAGAGTA
* * *
178845 ATACTTTAGCGGTGTTTTTATATAAATGCTGTAATAGGGTTCCTTTATAGTGACATTGTTTTTAA
1 A-ACTTTAGCGGTGTTTTTATA-AAATGCTGTAATAGGGTTCATCTATAGTGGCATT-TTTTTAA
*
178910 CAAATGTCGTAATAGAGTA
63 CAAATGCCGTAATAGAGTA
* * ** *
178929 GAACTTTAGCGCT-TTTTTATACAATCGCCATAATAGGGTTCATCTATAATGGCATTTTTTTAAC
1 -AACTTTAGCGGTGTTTTTATAAAAT-GCTGTAATAGGGTTCATCTATAGTGGCATTTTTTTAAC
* *
178993 AAA-----TACT---GCA
64 AAATGCCGTAATAGAGTA
* * * * *
179003 AA----AGTGGTGTTTTTATACAAATGCCGTAATAGGGTTCATCTATTGTGGTATTTTTTCAACA
1 AACTTTAGCGGTGTTTTTATA-AAATGCTGTAATAGGGTTCATCTATAGTGGCATTTTTTTAACA
*
179064 AATGCCGTAATATAGTA
65 AATGCCGTAATAGAGTA
* * * * * *
179081 GTACTTTAGCGTTATTTTTATATAAATGCCGTAATAGGGTTAATCTATAGTGGC--TTTTTTAAA
1 -AACTTTAGCGGTGTTTTTATA-AAATGCTGTAATAGGGTTCATCTATAGTGGCATTTTTTTAAC
* * *
179144 AAATGCCATAACAAAGTA
64 AAATGCCGTAATAGAGTA
*
179162 TTACTTTAGCGACGT-TTTTTATAAA
1 -AACTTTAGCG--GTGTTTTTATAAA
179187 CGCCGCAATA
Statistics
Matches: 273, Mismatches: 46, Indels: 46
0.75 0.13 0.13
Matches are distributed among these distances:
69 4 0.01
70 44 0.16
71 3 0.01
73 2 0.01
74 2 0.01
75 3 0.01
77 3 0.01
78 2 0.01
79 1 0.00
81 35 0.13
82 64 0.23
83 76 0.28
84 33 0.12
85 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (81 bp):
AACTTTAGCGGTGTTTTTATAAAATGCTGTAATAGGGTTCATCTATAGTGGCATTTTTTTAACAA
ATGCCGTAATAGAGTA
Found at i:179140 original size:41 final size:40
Alignment explanation
Indices: 179012--179150 Score: 111
Period size: 41 Copynumber: 3.4 Consensus size: 40
179002 AAAAGTGGTG
* *
179012 TTTTTATACAAATGCCGTAATAGGGTTCATCTATTGTGGTAT
1 TTTTTA-ACAAATGCCGTAATAGGGTTAATCTATAGTGG-AT
** * * * *
179054 TTTTTCAACAAATGCCGTAATATAG-TAGTACTTTAG-CGTT
1 TTTTT-AACAAATGCCGTAATAGGGTTAAT-CTATAGTGGAT
* *
179094 ATTTTTATATAAATGCCGTAATAGGGTTAATCTATAGTGGCT
1 -TTTTTA-ACAAATGCCGTAATAGGGTTAATCTATAGTGGAT
*
179136 TTTTTAAAAAATGCC
1 TTTTTAACAAATGCC
179151 ATAACAAAGT
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
40 10 0.13
41 34 0.45
42 30 0.40
43 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (40 bp):
TTTTTAACAAATGCCGTAATAGGGTTAATCTATAGTGGAT
Found at i:179140 original size:153 final size:153
Alignment explanation
Indices: 178855--179140 Score: 389
Period size: 153 Copynumber: 1.9 Consensus size: 153
178845 ATACTTTAGC
* * * * * *
178855 GGTGTTTTTATATAAATGCTGTAATAGGGTTCCTTTATAGTGACATTGTTTTTAACAAATGTCGT
1 GGTGTTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGACATTGTTTTCAACAAATGCCGT
* *
178920 AATAGAGTAGAACTTTAGCGCTTTTTTATACAATCGCCATAATAGGGTTCATCTATAATGGCATT
66 AATAGAGTAGAACTTTAGCGCTTTTTTATAAAATCGCCATAATAGGGTTAATCTATAATGGCATT
178985 TTTTTAACAAATACTGCAAAAGT
131 TTTTTAACAAATACTGCAAAAGT
* **
179008 GGTGTTTTTATACAAATGCCGTAATAGGGTTCATCTATTGTGGTATT-TTTTCAACAAATGCCGT
1 GGTGTTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGACATTGTTTTCAACAAATGCCGT
* * * * *
179072 AATATAGTAGTACTTTAGCGTTATTTTTATATAAAT-GCCGTAATAGGGTTAATCTATAGTGGC-
66 AATAGAGTAGAACTTTAGCGCT-TTTTTATA-AAATCGCCATAATAGGGTTAATCTATAATGGCA
179135 TTTTTT
129 TTTTTT
179141 AAAAAATGCC
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
152 40 0.35
153 72 0.63
154 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (153 bp):
GGTGTTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGACATTGTTTTCAACAAATGCCGT
AATAGAGTAGAACTTTAGCGCTTTTTTATAAAATCGCCATAATAGGGTTAATCTATAATGGCATT
TTTTTAACAAATACTGCAAAAGT
Found at i:180576 original size:29 final size:29
Alignment explanation
Indices: 180543--180603 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
180533 AATCCATTAT
180543 TCTTTTACTCAACAATGTTTAACCGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
* * *
180572 TCTTTTACTCAACATTTTTTAACTGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
180601 TCT
1 TCT
180604 AACTAGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.48
Consensus pattern (29 bp):
TCTTTTACTCAACAATGTTTAACCGTTCA
Found at i:181077 original size:59 final size:59
Alignment explanation
Indices: 181012--181697 Score: 1023
Period size: 59 Copynumber: 11.8 Consensus size: 59
181002 TTTCTCATAC
** * * *
181012 GGAAATTCATACACTTAGTATGATTTTCC-TAACATTTTAGCACACAAAGTGTCCTATAC
1 GGAAATTCATACACTTAGTATGA-AATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
* * * * *
181071 GAAAATTC--ACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGTCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
* * ** *
181128 GGAAATTCATACACATAGCATGAAATCCTTAACATTTTAGCACATAAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
*
181187 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAG
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
181246 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
*
181305 AGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACA-GAAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACG-AAGTGCCCTATAT
*
181364 GGAAATTCATACACTTAGTATGAAATCCTTAACATTGTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
* *
181423 GGAAATTCATACACTTAGTATGAAATCCTTAACAATTTAGCACACAAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
* * * *
181482 GGAAATTCATACACTTAGTATGAAA----T--CATTTTAACACACGAAGTGACCTACAC
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
* * * *
181535 GAAAATTCATACACTTAGTATGAAATCCTTAACAGTTTAGTACACGAAGTACCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
181594 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
*
181653 GGAAATTCACACACTTAGTATGAAATCCTTAACATTTTAGCACAC
1 GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACAC
181698 TTAGTGTCAA
Statistics
Matches: 573, Mismatches: 43, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
53 45 0.08
55 1 0.00
56 3 0.01
57 50 0.09
58 1 0.00
59 472 0.82
60 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAAATCCTTAACATTTTAGCACACGAAGTGCCCTATAT
Found at i:182194 original size:95 final size:95
Alignment explanation
Indices: 182036--182243 Score: 254
Period size: 95 Copynumber: 2.2 Consensus size: 95
182026 TCGATACTTC
* * * * * ** **
182036 TACCCTGGTACCGATACTTCCATACTATGGTACCAATACCCCTTTCTGGTATTGATACCAAATTT
1 TACCATGGTATCGATACTACAATACTATGGTACCAATACCCCCTTCCAGTATCAATACCAAATTT
* * *
182101 AGGTTCGATGTTTCCTGGTATCAATACCCT
66 AGATTCGATGTTGCCTGGTATCAATACCAT
* *
182131 TACCATGGTATCGATACTACAATACTATGGTACCGATACCCCCTTCCAGTATCAATACGAAATTT
1 TACCATGGTATCGATACTACAATACTATGGTACCAATACCCCCTTCCAGTATCAATACCAAATTT
* *
182196 AGATTCGATGTTGCTTGGTATCGATACCAT
66 AGATTCGATGTTGCCTGGTATCAATACCAT
* *
182226 TATCATGGTATCGGTACT
1 TACCATGGTATCGATACT
182244 GATTGAATCC
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (95 bp):
TACCATGGTATCGATACTACAATACTATGGTACCAATACCCCCTTCCAGTATCAATACCAAATTT
AGATTCGATGTTGCCTGGTATCAATACCAT
Found at i:186592 original size:18 final size:20
Alignment explanation
Indices: 186564--186603 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
186554 AATTTTATCT
186564 CTCTCTTGATCATTCCA-AA
1 CTCTCTTGATCATTCCAGAA
*
186583 CTCT-TTGATCGTTCCAGAA
1 CTCTCTTGATCATTCCAGAA
186602 CT
1 CT
186604 TCCTTATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (20 bp):
CTCTCTTGATCATTCCAGAA
Found at i:189282 original size:21 final size:21
Alignment explanation
Indices: 189258--189308 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
189248 ATATGATCTC
*
189258 TGATTTCTGCATTTTTATATT
1 TGATTTCTGCATTTTTATATA
*
189279 TGATTTCTACATTTTTATATA
1 TGATTTCTGCATTTTTATATA
189300 TGATTTCTG
1 TGATTTCTG
189309 AGTCTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
TGATTTCTGCATTTTTATATA
Found at i:194293 original size:20 final size:24
Alignment explanation
Indices: 194268--194321 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
194258 GAAAACAATG
*
194268 GTATCGATACT-CT-CA-AG-GGA
1 GTATCGATACTGCTACATAGAGCA
194288 GTATCGATACTGCTACATAGAGCA
1 GTATCGATACTGCTACATAGAGCA
194312 GTATCGATAC
1 GTATCGATAC
194322 CATTTAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 2 0.07
23 2 0.07
24 12 0.41
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (24 bp):
GTATCGATACTGCTACATAGAGCA
Found at i:199854 original size:17 final size:17
Alignment explanation
Indices: 199832--199874 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
199822 AGCATATTTA
*
199832 AAAAAAAGATTTAAAA-T
1 AAAAAAA-ATTGAAAAGT
199849 AAAAAAAATTGAAAAGT
1 AAAAAAAATTGAAAAGT
199866 AAAAGAAAA
1 AAAA-AAAA
199875 GAGAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 12 0.52
18 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (17 bp):
AAAAAAAATTGAAAAGT
Found at i:203308 original size:39 final size:38
Alignment explanation
Indices: 203265--203396 Score: 115
Period size: 39 Copynumber: 3.4 Consensus size: 38
203255 CTTTGCGCTT
*
203265 AGGGTAAGTCCTTATCGCAGGCTCTTCGACTTTGTACTA
1 AGGGTAAGTCCTTA-CGCAGGCTCCTCGACTTTGTACTA
* * * *
203304 AGGGTAATTCTTTACCGTAGGCTCCTCTG-CTTTGTACTC
1 AGGGTAAGTCCTTA-CGCAGGCTCCTC-GACTTTGTACTA
* * * * *
203343 AGTGTAAGTCCTTACTGCAGGATCCTCTACTTTTTTC-A
1 AGGGTAAGTCCTTAC-GCAGGCTCCTCGACTTTGTACTA
203381 CAGGGTAAGTCCTTAC
1 -AGGGTAAGTCCTTAC
203397 CGTAGGTCCT
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
38 1 0.01
39 71 0.97
40 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (38 bp):
AGGGTAAGTCCTTACGCAGGCTCCTCGACTTTGTACTA
Found at i:206809 original size:39 final size:38
Alignment explanation
Indices: 206731--206907 Score: 167
Period size: 39 Copynumber: 4.6 Consensus size: 38
206721 CTCTCCTCGT
* * * * *
206731 CTTTGTGCTTAGGGTAAGTTCTTACTGCAATGTCTTCAG
1 CTTTGTGCTCAGGGTAAGTCCTTACTAC-AGGTCCTCAG
*
206770 CTTTGTGCTCAGGGTAAGTCCTTACTACAGGAACCTCAG
1 CTTTGTGCTCAGGGTAAGTCCTTACTACAGG-TCCTCAG
* * * **
206809 CTTTGTGCTCAGGGTAATTCCTTACCACAGGCTCTTTGG
1 CTTTGTGCTCAGGGTAAGTCCTTACTACAGG-TCCTCAG
* * *
206848 CTTTGTGCTCAAGGTAAGTCCTTA-TCGCATGGTCCTCTG
1 CTTTGTGCTCAGGGTAAGTCCTTACT-ACA-GGTCCTCAG
*
206887 CTTTGTGCACAGGGTAAGTCC
1 CTTTGTGCTCAGGGTAAGTCC
206908 CTACCACAAG
Statistics
Matches: 113, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 2 0.02
39 109 0.96
40 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (38 bp):
CTTTGTGCTCAGGGTAAGTCCTTACTACAGGTCCTCAG
Found at i:206931 original size:78 final size:78
Alignment explanation
Indices: 206771--206950 Score: 204
Period size: 78 Copynumber: 2.3 Consensus size: 78
206761 TGTCTTCAGC
* * *
206771 TTTGTGCTCAGGGTAAGTCCTTACTACAGGAACCTCAGCTTTGTGCTCAGGGTAATTCCTTACCA
1 TTTGTGCTCAGGGTAAGTCCTTACTACAGGAACCTCAGCTTTGTGCACAGGGTAAGTCCCTACCA
* **
206836 CAGGCTCTTTGGC
66 CAAGCTCTTTGAA
* * * *
206849 TTTGTGCTCAAGGTAAGTCCTTA-TCGCATGG-TCCTCTGCTTTGTGCACAGGGTAAGTCCCTAC
1 TTTGTGCTCAGGGTAAGTCCTTACT-ACA-GGAACCTCAGCTTTGTGCACAGGGTAAGTCCCTAC
206912 CACAAGCTCTTCT-AA
64 CACAAGCTCTT-TGAA
* *
206927 TTTGTGCACAGGGTAAGTCTTTAC
1 TTTGTGCTCAGGGTAAGTCCTTAC
206951 CGTAAGTCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 81 0.95
79 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (78 bp):
TTTGTGCTCAGGGTAAGTCCTTACTACAGGAACCTCAGCTTTGTGCACAGGGTAAGTCCCTACCA
CAAGCTCTTTGAA
Found at i:211682 original size:19 final size:19
Alignment explanation
Indices: 211644--211738 Score: 118
Period size: 19 Copynumber: 4.9 Consensus size: 19
211634 TCGTTTGCCG
*
211644 AATTCGCAACACTGAATTTCA
1 AATTCGC-A-ACTCAATTTCA
211665 AATTCGCAACTCAATTTCA
1 AATTCGCAACTCAATTTCA
*
211684 AATTCACAACTCAATTTCA
1 AATTCGCAACTCAATTTCA
* *
211703 AATTCGTAACTGAATTTCA
1 AATTCGCAACTCAATTTCA
* *
211722 AATTCACAACTCGATTT
1 AATTCGCAACTCAATTT
211739 TTGAATTTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
19 57 0.88
20 1 0.02
21 7 0.11
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (19 bp):
AATTCGCAACTCAATTTCA
Found at i:211703 original size:38 final size:38
Alignment explanation
Indices: 211658--211738 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
211648 CGCAACACTG
211658 AATTTCAAATTCGCAACTCAATTTCAAATTCACAACTC
1 AATTTCAAATTCGCAACTCAATTTCAAATTCACAACTC
* *
211696 AATTTCAAATTCGTAACTGAATTTCAAATTCACAACTC
1 AATTTCAAATTCGCAACTCAATTTCAAATTCACAACTC
*
211734 GATTT
1 AATTT
211739 TTGAATTTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (38 bp):
AATTTCAAATTCGCAACTCAATTTCAAATTCACAACTC
Found at i:211771 original size:19 final size:19
Alignment explanation
Indices: 211747--211790 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
211737 TTTTGAATTT
*
211747 GCAACACGAATTTATTTTC
1 GCAACACGAATTTAGTTTC
**
211766 GCAACA-GGTTTTAGTTTC
1 GCAACACGAATTTAGTTTC
211784 GCAACAC
1 GCAACAC
211791 AAATCTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (19 bp):
GCAACACGAATTTAGTTTC
Found at i:212749 original size:24 final size:24
Alignment explanation
Indices: 212703--212756 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
212693 ATATTCGAAA
* *
212703 TTTGATCTTGGTTAATACCCAGAC
1 TTTGATCTTGGTCAATAACCAGAC
* *
212727 TTTGATCTTGGTCAATAATCAGAT
1 TTTGATCTTGGTCAATAACCAGAC
212751 TTTGAT
1 TTTGAT
212757 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATAACCAGAC
Found at i:214268 original size:95 final size:95
Alignment explanation
Indices: 214105--214294 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
214095 GCTTATCGAG
214105 AAGTGGAGTTTAATAAGCATATAAATTGTTTAAGACGTGTTTTGACTCAATGTGCTCAAACACTA
1 AAGTGGAGTTTAATAAGCATATAAATTGTTTAAGACGTGTTTTGACTCAATGTGCTCAAACACTA
214170 GAAGATGTTAAGTTTGAAAGATGGTCAAGA
66 GAAGATGTTAAGTTTGAAAGATGGTCAAGA
214200 AAGTGGAGTTTAATAAGCATATAAATTGTTTAAGACGTGTTTTGACTCAATGTGCTCAAACACTA
1 AAGTGGAGTTTAATAAGCATATAAATTGTTTAAGACGTGTTTTGACTCAATGTGCTCAAACACTA
214265 GAAGATGTTAAGTTTGAAAGATGGTCAAGA
66 GAAGATGTTAAGTTTGAAAGATGGTCAAGA
214295 GTATATCAAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (95 bp):
AAGTGGAGTTTAATAAGCATATAAATTGTTTAAGACGTGTTTTGACTCAATGTGCTCAAACACTA
GAAGATGTTAAGTTTGAAAGATGGTCAAGA
Found at i:215392 original size:62 final size:61
Alignment explanation
Indices: 215318--215512 Score: 190
Period size: 54 Copynumber: 3.3 Consensus size: 61
215308 GTTTTCCTTG
*
215318 AATTCGCAACGCGAAAGTCAAATTCTCGTTGCGATTTTTTGTTGCGATTGATGCGAAAGTCA
1 AATTCGCAACGCGAAAGTCAAATTCTCATTGCGATTTTTTGTTGCGATTG-TGCGAAAGTCA
*
215380 AATTCGCAACGCGAAAGTCAAATT-TGCATTGCGA---TTT-TTGCG--T-TGCGATAGTCA
1 AATTCGCAACGCGAAAGTCAAATTCT-CATTGCGATTTTTTGTTGCGATTGTGCGAAAGTCA
* * * ** ***
215434 AATTAGCAATGCGAAAGTCAAATTCACAACGCGATTATGGCGTTGCGATTGTTGCGAAAGTCA
1 AATTCGCAACGCGAAAGTCAAATTCTCATTGCGATT-TTTTGTTGCGATTG-TGCGAAAGTCA
* *
215497 AATTCGAAATGCGAAA
1 AATTCGCAACGCGAAA
215513 TCGCAAACCG
Statistics
Matches: 109, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
54 38 0.35
56 1 0.01
58 5 0.05
59 8 0.07
61 2 0.02
62 31 0.28
63 24 0.22
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (61 bp):
AATTCGCAACGCGAAAGTCAAATTCTCATTGCGATTTTTTGTTGCGATTGTGCGAAAGTCA
Found at i:215413 original size:20 final size:20
Alignment explanation
Indices: 215368--215457 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 20
215358 GTTGCGATTG
*
215368 ATGCGAAAGTCAAATTCGCA
1 ATGCGAAAGTCAAATTTGCA
*
215388 ACGCGAAAGTCAAATTTGCA
1 ATGCGAAAGTCAAATTTGCA
* * *
215408 TTGCG--A-T---TTTTGCG
1 ATGCGAAAGTCAAATTTGCA
* * *
215422 TTGCGATAGTCAAATTAGCA
1 ATGCGAAAGTCAAATTTGCA
215442 ATGCGAAAGTCAAATT
1 ATGCGAAAGTCAAATT
215458 CACAACGCGA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 10 0.19
16 1 0.02
17 2 0.04
18 1 0.02
20 39 0.74
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (20 bp):
ATGCGAAAGTCAAATTTGCA
Found at i:215467 original size:20 final size:20
Alignment explanation
Indices: 215424--215467 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
215414 TTTTTGCGTT
* *
215424 GCGATAGTCAAATTAGCAAT
1 GCGAAAGTCAAATTAGCAAC
215444 GCGAAAGTCAAATTCA-CAAC
1 GCGAAAGTCAAATT-AGCAAC
215464 GCGA
1 GCGA
215468 TTATGGCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTAGCAAC
Found at i:215663 original size:26 final size:26
Alignment explanation
Indices: 215633--215714 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
215623 CTTTTACAAA
215633 TTATTTAAACAAGCAAATAATAATTC
1 TTATTTAAACAAGCAAATAATAATTC
* * * * *
215659 TTATTTACAC-ATCAATTAAACAAATC
1 TTATTTAAACAAGCAAAT-AATAATTC
* *
215685 --AATTAAACAAGCAAAAAATAATTC
1 TTATTTAAACAAGCAAATAATAATTC
215709 TTATTT
1 TTATTT
215715 CCTCATCAAT
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
24 12 0.31
25 9 0.23
26 18 0.46
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.34
Consensus pattern (26 bp):
TTATTTAAACAAGCAAATAATAATTC
Found at i:215687 original size:13 final size:13
Alignment explanation
Indices: 215669--215694 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
215659 TTATTTACAC
215669 ATCAATTAAACAA
1 ATCAATTAAACAA
215682 ATCAATTAAACAA
1 ATCAATTAAACAA
215695 GCAAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCAATTAAACAA
Found at i:215691 original size:50 final size:50
Alignment explanation
Indices: 215628--215736 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
215618 ATCAACTTTT
* * *
215628 ACAAATTATTTAAACAAGCAAATAATAATTCTTATTTACACATCAATTAA
1 ACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAA
* *
215678 ACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAA
1 ACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAA
215728 ACAAATCAA
1 ACAAATCAA
215737 CTTTTACAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (50 bp):
ACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAA
Found at i:216778 original size:42 final size:41
Alignment explanation
Indices: 216719--216930 Score: 206
Period size: 42 Copynumber: 5.2 Consensus size: 41
216709 GTGAATCGGG
*
216719 CTCTTGAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGA
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATG-CAGGGGA
* *
216761 CTCTTGAACGGTGGGAGGGGA-CTCTTGAACGGTGGAGGGG-
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGCAGGGGA
*
216801 -----GAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGA
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATG-CAGGGGA
* * *
216838 CTCTTGAACGGTGGGAGGGGA-CTCTTGAACGGTGGAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGCAGGGGA
* * * * * *
216879 CTCTTGAACGATGAGAGGGGCCTCTTGAACGATAGGAGGCGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGAT-GCAGGGGA
216921 CTCTTGAACG
1 CTCTTGAACG
216931 ATGATAGGTG
Statistics
Matches: 143, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
34 4 0.03
35 22 0.15
36 5 0.03
40 3 0.02
41 35 0.24
42 66 0.46
43 8 0.06
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGCAGGGGA
Found at i:216837 original size:35 final size:35
Alignment explanation
Indices: 216770--216837 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
216760 ACTCTTGAAC
* *
216770 GGTGGGAGGGGACTCTTGAACGGTGGAGGGGGAAT
1 GGTGGGAGGGGACTCTTGAACGATGGAAGGGGAAT
216805 GGTGGGA-GGGACCTCTTGAACGAT-GACAGGGGA
1 GGTGGGAGGGGA-CTCTTGAACGATGGA-AGGGGA
216838 CTCTTGAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.22, C:0.12, G:0.50, T:0.16
Consensus pattern (35 bp):
GGTGGGAGGGGACTCTTGAACGATGGAAGGGGAAT
Done.