Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003949.1 Hibiscus syriacus cultivar Beakdansim tig00008537_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: 268680
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:125 original size:21 final size:20
Alignment explanation
Indices: 101--143 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
91 AATGTATTGA
101 TTTTTT-TTT-TTTTCACATT
1 TTTTTTGTTTGTTTTC-CATT
120 TTTTTTGTTTGTTTTCCATT
1 TTTTTTGTTTGTTTTCCATT
140 TTTT
1 TTTT
144 GTGCATGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTGTTTGTTTTCCATT
Found at i:5475 original size:78 final size:78
Alignment explanation
Indices: 5346--5499 Score: 281
Period size: 78 Copynumber: 2.0 Consensus size: 78
5336 TCGACGCAAA
* * *
5346 ACATTTGTCAAGTTTAATAGACACTCATTGAATGAATTACCGTAAATAGTGAAGTCATCCATGAA
1 ACATTTGTCAAGTTTAATAGACACTCACTGAATGAATTACCATAAACAGTGAAGTCATCCATGAA
5411 GACTTCAATACAC
66 GACTTCAATACAC
5424 ACATTTGTCAAGTTTAATAGACACTCACTGAATGAATTACCATAAACAGTGAAGTCATCCATGAA
1 ACATTTGTCAAGTTTAATAGACACTCACTGAATGAATTACCATAAACAGTGAAGTCATCCATGAA
5489 GACTTCAATAC
66 GACTTCAATAC
5500 CTTTCTCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (78 bp):
ACATTTGTCAAGTTTAATAGACACTCACTGAATGAATTACCATAAACAGTGAAGTCATCCATGAA
GACTTCAATACAC
Found at i:11339 original size:74 final size:74
Alignment explanation
Indices: 11218--11371 Score: 299
Period size: 74 Copynumber: 2.1 Consensus size: 74
11208 TGATATGATT
11218 CAAAATATCAAGGAATTATATAAGGGAAAAGCACATCAAGAGAGGTACAAAACCTCTAAATCTAT
1 CAAAATATCAAGGAATTATATAAGGGAAAAGCACATCAAGAGAGGTACAAAACCTCTAAATCTAT
*
11283 ATTTCAATG
66 ATTTCAATA
11292 CAAAATATCAAGGAATTATATAAGGGAAAAGCACATCAAGAGAGGTACAAAACCTCTAAATCTAT
1 CAAAATATCAAGGAATTATATAAGGGAAAAGCACATCAAGAGAGGTACAAAACCTCTAAATCTAT
11357 ATTTCAATA
66 ATTTCAATA
11366 CAAAAT
1 CAAAAT
11372 GAGTGAACGG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (74 bp):
CAAAATATCAAGGAATTATATAAGGGAAAAGCACATCAAGAGAGGTACAAAACCTCTAAATCTAT
ATTTCAATA
Found at i:12753 original size:44 final size:44
Alignment explanation
Indices: 12701--13096 Score: 540
Period size: 44 Copynumber: 9.0 Consensus size: 44
12691 GAGTGGCATA
** * * *
12701 TTTCTGCCAATAATATATCGTTATGTATTTTCATTTATGGCATC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * * *
12745 TTTATGCCAATAATGCAACATTATGCATTTTTATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * *
12789 TTTCTGTCAATAATGCACCGTTATACATTTTCATTTGTGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
*
12833 TTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * * * * *
12877 TTTCTACTAATAATGGACCGTTATGCCTTCTCATTTATGGCACT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* * * * * *
12921 TTTCTCCCAATTATGCACTGTTATTCATTTTTATTTATGGTACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
*
12965 TTTCTACCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
13009 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
* *
13053 TTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATAGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
13097 ATTATACATT
Statistics
Matches: 306, Mismatches: 46, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 306 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (44 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACC
Found at i:12863 original size:132 final size:132
Alignment explanation
Indices: 12701--13242 Score: 580
Period size: 132 Copynumber: 4.0 Consensus size: 132
12691 GAGTGGCATA
** * * * * * *
12701 TTTCTGCCAATAATATATCGTTATGTATTTTCATTTATGGCATCTTTATGCCAATAATGCAACAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGT
* * * *
12766 TATGCATTTTTATTTATGGCACCTTTCTGTCAATAATGCACCGTTATACATTTTCATTTGTGGCA
66 TATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATACATTTTTATTTATGGCA
12831 CC
131 CC
* * * *
12833 TTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATGGCACCTTTCTACTAATAATGGACCGT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGT
* * * * * * * *
12898 TATGCCTTCTCATTTATGGCACTTTTCTCCCAATTATGCACTGTTATTCATTTTTATTTATGGTA
66 TATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATACATTTTTATTTATGGCA
12963 CC
131 CC
*
12965 TTTCTACCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGT
* *
13030 TATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATAGCA
66 TATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATACATTTTTATTTATGGCA
13095 CC
131 CC
** * *
13097 ATTATACATTTTTATTTATGGCACCTTTATGCCAGTACCGTTATGCATTCTCATTTATGGCACCT
1 -TT-T-C-----------T-GC-CAATAATG-C---ACCGTTATGCATTTTCATTTATGGCACCT
* * *
13162 TTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACATTTATGCTAATAATGCACCGTT
46 TTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTT
* *
13227 ATGCATTTTCATTTAT
111 ATACATTTTTATTTAT
13243 TTTAGAGTAG
Statistics
Matches: 343, Mismatches: 47, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
132 226 0.66
133 2 0.01
134 1 0.00
135 1 0.00
146 1 0.00
147 1 0.00
148 5 0.01
149 1 0.00
152 105 0.31
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (132 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGT
TATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATACATTTTTATTTATGGCA
CC
Found at i:13007 original size:25 final size:25
Alignment explanation
Indices: 12979--13128 Score: 90
Period size: 25 Copynumber: 6.5 Consensus size: 25
12969 TACCAATAAT
12979 GCACCGTTATGCATTTTCATTTATG
1 GCACCGTTATGCATTTTCATTTATG
** * *
13004 GCACC-TT-T-C--TGCCAATAAT-
1 GCACCGTTATGCATTTTCATTTATG
13023 GCACCGTTATGCATTTTCATTTATG
1 GCACCGTTATGCATTTTCATTTATG
** * *
13048 GCACC-TT-T-C--TGCCAATAAT-
1 GCACCGTTATGCATTTTCATTTATG
* *
13067 GCACCGTTATGCATTTTTATTTATA
1 GCACCGTTATGCATTTTCATTTATG
* * *
13092 GCACCATTATACATTTTTATTTATG
1 GCACCGTTATGCATTTTCATTTATG
*
13117 GCACCTTTATGC
1 GCACCGTTATGC
13129 CAGTACCGTT
Statistics
Matches: 91, Mismatches: 22, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
19 10 0.11
20 16 0.18
21 2 0.02
22 4 0.04
23 2 0.02
24 15 0.16
25 42 0.46
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (25 bp):
GCACCGTTATGCATTTTCATTTATG
Found at i:13173 original size:108 final size:110
Alignment explanation
Indices: 12979--13203 Score: 337
Period size: 108 Copynumber: 2.0 Consensus size: 110
12969 TACCAATAAT
* * * *
12979 GCACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATT
1 GCACCATTATACATTTTCATTTATGGCACCTTTATGCC---AATGCACCGTTATGCATTCTCATT
*
13044 TATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTTATTTATA
63 TATGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATA
* *
13092 GCACCATTATACATTTTTATTTATGGCACCTTTATGCC-A-GTACCGTTATGCATTCTCATTTAT
1 GCACCATTATACATTTTCATTTATGGCACCTTTATGCCAATGCACCGTTATGCATTCTCATTTAT
*
13155 GGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATG
66 GGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATA
13200 GCAC
1 GCAC
13204 ATTTATGCTA
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
108 69 0.66
109 1 0.01
113 34 0.33
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (110 bp):
GCACCATTATACATTTTCATTTATGGCACCTTTATGCCAATGCACCGTTATGCATTCTCATTTAT
GGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATA
Found at i:13181 original size:44 final size:44
Alignment explanation
Indices: 13092--13242 Score: 186
Period size: 44 Copynumber: 3.5 Consensus size: 44
13082 TTTATTTATA
* * * *
13092 GCACCATTATACATTTTTATTTATGGCACCTTTATGCC----A-
1 GCACCGTTATGCATTTTCATTTATGGCACATTTATGCCAATAAT
* * * *
13131 GTACCGTTATGCATTCTCATTTATGGCACCTTTCTGCCAATAAT
1 GCACCGTTATGCATTTTCATTTATGGCACATTTATGCCAATAAT
*
13175 GCACCGTTATGCATTTTCATTTATGGCACATTTATGCTAATAAT
1 GCACCGTTATGCATTTTCATTTATGGCACATTTATGCCAATAAT
13219 GCACCGTTATGCATTTTCATTTAT
1 GCACCGTTATGCATTTTCATTTAT
13243 TTTAGAGTAG
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 32 0.33
43 1 0.01
44 63 0.66
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (44 bp):
GCACCGTTATGCATTTTCATTTATGGCACATTTATGCCAATAAT
Found at i:13203 original size:25 final size:24
Alignment explanation
Indices: 13173--13242 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 24
13163 TCTGCCAATA
13173 ATGCACCGTTATGCATTTTCATTT
1 ATGCACCGTTATGCATTTTCATTT
** * *
13197 ATGGCACATTTATGC----T-AATA
1 AT-GCACCGTTATGCATTTTCATTT
13217 ATGCACCGTTATGCATTTTCATTT
1 ATGCACCGTTATGCATTTTCATTT
13241 AT
1 AT
13243 TTTAGAGTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 10 0.31
20 4 0.12
21 1 0.03
23 1 0.03
24 6 0.19
25 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (24 bp):
ATGCACCGTTATGCATTTTCATTT
Found at i:16363 original size:40 final size:40
Alignment explanation
Indices: 16319--16396 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
16309 TTCAACTCCA
16319 CATGAAAGAGATTGAATGAATAAGATTCCATATGCCTTGG
1 CATGAAAGAGATTGAATGAATAAGATTCCATATGCCTTGG
*
16359 CATGAAAGAGATTGAATTAATAAGATTCCATATGCCTT
1 CATGAAAGAGATTGAATGAATAAGATTCCATATGCCTT
16397 AGATATTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (40 bp):
CATGAAAGAGATTGAATGAATAAGATTCCATATGCCTTGG
Found at i:20440 original size:20 final size:20
Alignment explanation
Indices: 20415--20477 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
20405 TCGAAAATTG
*
20415 TCAAAGTCAACAGTCAATGGT
1 TCAAAGTCAACAGCCAAT-GT
* *
20436 T-AAAGTGAACAACCAATGT
1 TCAAAGTCAACAGCCAATGT
*
20455 TCAAAGTCAACAGGCAATAGT
1 TCAAAGTCAACAGCCAAT-GT
20476 TC
1 TC
20478 GATTCAGTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.76
21 5 0.15
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (20 bp):
TCAAAGTCAACAGCCAATGT
Found at i:38587 original size:2 final size:2
Alignment explanation
Indices: 38580--38640 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
38570 CAGCTTAAGC
38580 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
38622 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
38641 CAATTGGCTA
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:45157 original size:23 final size:23
Alignment explanation
Indices: 45079--45189 Score: 120
Period size: 23 Copynumber: 4.8 Consensus size: 23
45069 TTCAGGACAA
*
45079 TTCTACGTAGTCCTTCGGGATAT
1 TTCTACGTGGTCCTTCGGGATAT
* * *
45102 TTCTTCGTAGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGATAT
*
45125 TTCTATGTGGTCCTTCGGGATAT
1 TTCTACGTGGTCCTTCGGGATAT
45148 TTCTACGTGG-CACTTCGGTGCATA-
1 TTCTACGTGGTC-CTTCGG-G-ATAT
45172 TTCTACGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
45190 CGTAATTTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
22 1 0.01
23 55 0.71
24 19 0.24
25 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.38
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGATAT
Found at i:51909 original size:18 final size:18
Alignment explanation
Indices: 51867--51902 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51857 GTTACTAATT
51867 GAACATGCATTGTTTATA
1 GAACATGCATTGTTTATA
51885 GAACATGCATTGTTTATA
1 GAACATGCATTGTTTATA
51903 TTTCATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
GAACATGCATTGTTTATA
Found at i:51961 original size:44 final size:44
Alignment explanation
Indices: 51911--52014 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
51901 TATTTCATGT
51911 TATGTGACATGATCA-ATGTGATTATTTGAAAATGTGATATAAGC
1 TATGTGACATGAT-ATATGTGATTATTTGAAAATGTGATATAAGC
****
51955 TATGTGACATGATATATGTGATTATTTTTCTATGTGATATAAGC
1 TATGTGACATGATATATGTGATTATTTGAAAATGTGATATAAGC
* *
51999 TATGTGAAATGGTATA
1 TATGTGACATGATATA
52015 AATGATAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (44 bp):
TATGTGACATGATATATGTGATTATTTGAAAATGTGATATAAGC
Found at i:52114 original size:23 final size:23
Alignment explanation
Indices: 52082--52178 Score: 131
Period size: 23 Copynumber: 4.2 Consensus size: 23
52072 GAGTCGAGGG
*
52082 TTCTACGCAGTCCTTCGGGACAT
1 TTCTATGCAGTCCTTCGGGACAT
52105 TTCTATGCAGTCCTTCGGGACAT
1 TTCTATGCAGTCCTTCGGGACAT
** *
52128 TTCTATGTGGTCCTTCGGAACAT
1 TTCTATGCAGTCCTTCGGGACAT
** *
52151 TTCTATGTGGTCCTTCAGGACAT
1 TTCTATGCAGTCCTTCGGGACAT
52174 TTCTA
1 TTCTA
52179 CGTGGCACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (23 bp):
TTCTATGCAGTCCTTCGGGACAT
Found at i:52183 original size:23 final size:23
Alignment explanation
Indices: 52082--52213 Score: 108
Period size: 23 Copynumber: 5.7 Consensus size: 23
52072 GAGTCGAGGG
** *
52082 TTCTACGCAGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCAGGACAT
* ** *
52105 TTCTATGCAGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCAGGACAT
*
52128 TTCTATGTGGTCCTTC-GGAACAT
1 TTCTACGTGGTCCTTCAGG-ACAT
*
52151 TTCTATGTGGTCCTTCAGGACAT
1 TTCTACGTGGTCCTTCAGGACAT
*
52174 TTCTACGTGG-CACTT-AGGTGCAT
1 TTCTACGTGGTC-CTTCAGG-ACAT
*
52197 ATTCTACGTGGTACTTC
1 -TTCTACGTGGTCCTTC
52214 GGTGCAATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.06
23 75 0.78
24 15 0.16
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCAGGACAT
Found at i:52201 original size:24 final size:24
Alignment explanation
Indices: 52174--52219 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
52164 TTCAGGACAT
52174 TTCTACGTGGCACTTAGGTGCATA
1 TTCTACGTGGCACTTAGGTGCATA
* *
52198 TTCTACGTGGTACTTCGGTGCA
1 TTCTACGTGGCACTTAGGTGCA
52220 ATTTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (24 bp):
TTCTACGTGGCACTTAGGTGCATA
Found at i:59708 original size:20 final size:20
Alignment explanation
Indices: 59665--59716 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
59655 ATCTAATTTT
*
59665 GGTATCGATACC-TAGAGGG
1 GGTATCGATACCATAGAGAG
59684 GGTATCGATACCAT-GATGAG
1 GGTATCGATACCATAGA-GAG
59704 GGTATCGATACCA
1 GGTATCGATACCA
59717 AGTTTACTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (20 bp):
GGTATCGATACCATAGAGAG
Found at i:59767 original size:74 final size:73
Alignment explanation
Indices: 59609--59769 Score: 198
Period size: 74 Copynumber: 2.2 Consensus size: 73
59599 CCCAAGCAAT
* * *
59609 GAGGTATCGATACCATGGTAAAGGTATCGATACCAATTAATTTCGAATCTAATTTTGGTATCGAT
1 GAGGTATCGATACCATGATAAAGGTATCGATACCAATTAACTTCGAAGCTAATTTTGGTATCGAT
* *
59674 ACCTAGAG
66 ACATAGAC
* * * * * *
59682 GGGGTATCGATACCATGATGAGGGTATCGATACCAAGTTTACTTCGAAGCTAATTTTTGTATTGA
1 GAGGTATCGATACCATGATAAAGGTATCGATACCAA-TTAACTTCGAAGCTAATTTTGGTATCGA
59747 TACAT-GAAC
65 TACATAG-AC
59756 GAGGTATCGATACC
1 GAGGTATCGATACC
59770 TTAATAGGGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
73 33 0.45
74 41 0.55
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (73 bp):
GAGGTATCGATACCATGATAAAGGTATCGATACCAATTAACTTCGAAGCTAATTTTGGTATCGAT
ACATAGAC
Found at i:59787 original size:22 final size:21
Alignment explanation
Indices: 59758--59813 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
59748 ACATGAACGA
59758 GGTATCGATACCTTAA-TAGG
1 GGTATCGATACCTTAAGTAGG
*
59778 GTAGTATCGATACCATAAGTAGG
1 G--GTATCGATACCTTAAGTAGG
*
59801 GGTATTGATACCT
1 GGTATCGATACCT
59814 AAGGGCTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 10 0.33
22 14 0.47
23 5 0.17
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCTTAAGTAGG
Found at i:60203 original size:59 final size:59
Alignment explanation
Indices: 60132--60538 Score: 504
Period size: 59 Copynumber: 6.9 Consensus size: 59
60122 GAATTACCAA
* *
60132 AGGGCACTTTGTGTACTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCTAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCAGAT
* *
60191 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTATGTGTATGAATTTCCAG-T
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCAGAT
* *
60249 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCAT-A-ATGTGTATGAATTTCCATAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCAGAT
* *
60306 AGGGTACTTTGTGTGCTAAAATGGTAAGGAAATCATACA-A-AGGGTATGAATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATA-ATATA-TGTATGAATTTCCAGAT
* * * *
60365 AGGGCACTTTGTGTGCTAAAATGGCAAGGAAATCATACTATGTGTAAGAATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCAGAT
* * * * *
60424 AGGGCATTTTGTATGCT-AAAGGAGTAAGAAAATCATACTA-AGTGTATGAATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATG-GTAAGGAAATCATAATATA-TGTATGAATTTCCAGAT
* * * * * * * *
60483 AGGGCACTCTGTGTGCTAAATTGATAAGGAATTCATACTGTTTGTATGAAATTCCA
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCA
60539 ATTGAATTTA
Statistics
Matches: 304, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
56 17 0.06
57 36 0.12
58 41 0.13
59 207 0.68
60 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (59 bp):
AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCCAGAT
Found at i:60538 original size:118 final size:117
Alignment explanation
Indices: 60132--60538 Score: 559
Period size: 118 Copynumber: 3.5 Consensus size: 117
60122 GAATTACCAA
* *
60132 AGGGCACTTTGTGTACTAAAATGGTAAGGAAATCATAATATATGTATGAATTTCTAGATAGGGCA
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATAT-TGTATGAATTTCCAGATAGGGCA
*
60197 CTTTGTGTGCTAAAATGGTAAGGAAATCATACTATGTGTATGAATTTCCAG-T
65 CTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * *
60249 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAAT-GTGTATGAATTTCCATATAGGGTAC
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATTGTATGAATTTCCAGATAGGGCAC
* *
60313 TTTGTGTGCTAAAATGGTAAGGAAATCATACAAAGGGTATGAATTTCCAGAT
66 TTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * *
60365 AGGGCACTTTGTGTGCTAAAATGGCAAGGAAATCATACTATGTGTAAGAATTTCCAGATAGGGCA
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATAT-TGTATGAATTTCCAGATAGGGCA
* * * *
60430 TTTTGTATGCT-AAAGGAGTAAGAAAATCATACTAAGTGTATGAATTTCCAGAT
65 CTTTGTGTGCTAAAATG-GTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * * * * * *
60483 AGGGCACTCTGTGTGCTAAATTGATAAGGAATTCATACTGTTTGTATGAAATTCCA
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAAT-ATTGTATGAATTTCCA
60539 ATTGAATTTA
Statistics
Matches: 257, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
115 68 0.26
116 38 0.15
117 42 0.16
118 108 0.42
119 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (117 bp):
AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATAATATTGTATGAATTTCCAGATAGGGCAC
TTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
Found at i:60972 original size:145 final size:145
Alignment explanation
Indices: 60709--61002 Score: 527
Period size: 145 Copynumber: 2.0 Consensus size: 145
60699 TATGTAATAC
60709 GTAACGTGTACTCATTTCACGTGTAGGTTAAATACAGCTAAGTAAGGAGATCTTTTGGACATCCA
1 GTAACGTGTACTCATTTCACGTGTAGGTTAAATACAGCTAAGTAAGGAGATCTTTTGGACATCCA
*
60774 GTCAGAGCCGCCTCATCGGTAACCGTATGACACACCTATCTACTTTTTGTTATATTTTAATTGGC
66 GTCAGAGCCGCCTCATCGGTAACCGTATGACACACATATCTACTTTTTGTTATATTTTAATTGGC
60839 ATGTAATAGGGTTTA
131 ATGTAATAGGGTTTA
60854 GTAACGTGTGA-TCATTTCACGTGTAGGTTAAATACAGCTAAGTAAGGAGATCTTTTGGACATCC
1 GTAACGTGT-ACTCATTTCACGTGTAGGTTAAATACAGCTAAGTAAGGAGATCTTTTGGACATCC
* * * *
60918 AGTCAGAGTCGCCTCATCGGTAACTGTATGACACACATGTCTACTTTTTGTTATATTTTAGTTGG
65 AGTCAGAGCCGCCTCATCGGTAACCGTATGACACACATATCTACTTTTTGTTATATTTTAATTGG
60983 CATGTAATAGGGTTTA
130 CATGTAATAGGGTTTA
60999 GTAA
1 GTAA
61003 AAAAACTCTG
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
145 142 0.99
146 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (145 bp):
GTAACGTGTACTCATTTCACGTGTAGGTTAAATACAGCTAAGTAAGGAGATCTTTTGGACATCCA
GTCAGAGCCGCCTCATCGGTAACCGTATGACACACATATCTACTTTTTGTTATATTTTAATTGGC
ATGTAATAGGGTTTA
Found at i:66435 original size:60 final size:60
Alignment explanation
Indices: 66367--66544 Score: 182
Period size: 60 Copynumber: 3.0 Consensus size: 60
66357 TGAATTTAAG
* * * *
66367 GATGAAATTAGAAGGTTTAGAAGTTTAGGGACTAATTTAT-AATGAGTATTATAGTTTGAT
1 GATGAAATTAGAAGGTTCAAAAGTTTAAGGACTAATTTATAAAT-AGTATCATAGTTTGAT
* * *
66427 GATGAAATTATAATGTTCAAAAGTTTAAGGACTAATTTCTAAATAGTATCATAGTTTGAT
1 GATGAAATTAGAAGGTTCAAAAGTTTAAGGACTAATTTATAAATAGTATCATAGTTTGAT
* ** ** * *
66487 AATGAAATTAGAATATTCAAAAGTAGAGGGACCAATTTA-AAATGAAG-ATCATAGTTTG
1 GATGAAATTAGAAGGTTCAAAAGTTTAAGGACTAATTTATAAAT--AGTATCATAGTTTG
66545 GGGACATATA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 4 0.04
60 91 0.91
61 5 0.05
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (60 bp):
GATGAAATTAGAAGGTTCAAAAGTTTAAGGACTAATTTATAAATAGTATCATAGTTTGAT
Found at i:68695 original size:32 final size:32
Alignment explanation
Indices: 68659--68790 Score: 129
Period size: 32 Copynumber: 4.1 Consensus size: 32
68649 ATTTCAATTT
**
68659 GTTCGGGTTGCTTTCGGATATGGTTAAATTCG
1 GTTCGGGTTGCTTTCGGATCGGGTTAAATTCG
** *
68691 GTTCGGGTTGCTTTCAAATCGGGTTAAAATTTG
1 GTTCGGGTTGCTTTCGGATCGGGTT-AAATTCG
* * * *
68724 GTTTGGGTTGCTTTAGGTTCGGGTTAATTTCG
1 GTTCGGGTTGCTTTCGGATCGGGTTAAATTCG
* * * * *
68756 GTTCGGATTGCTTTTGGTTCAGGTTAATTTCG
1 GTTCGGGTTGCTTTCGGATCGGGTTAAATTCG
68788 GTT
1 GTT
68791 TAGGTTTGGG
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
32 57 0.69
33 26 0.31
ACGTcount: A:0.14, C:0.11, G:0.30, T:0.44
Consensus pattern (32 bp):
GTTCGGGTTGCTTTCGGATCGGGTTAAATTCG
Found at i:68747 original size:16 final size:16
Alignment explanation
Indices: 68723--68780 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
68713 GTTAAAATTT
*
68723 GGTTTGGGTTGCTTTA
1 GGTTCGGGTTGCTTTA
** *
68739 GGTTCGGGTTAATTTC
1 GGTTCGGGTTGCTTTA
* *
68755 GGTTCGGATTGCTTTT
1 GGTTCGGGTTGCTTTA
*
68771 GGTTCAGGTT
1 GGTTCGGGTT
68781 AATTTCGGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.09, C:0.10, G:0.34, T:0.47
Consensus pattern (16 bp):
GGTTCGGGTTGCTTTA
Found at i:68790 original size:16 final size:16
Alignment explanation
Indices: 68739--68796 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
68729 GGTTGCTTTA
*
68739 GGTTCGGGTTAATTTC
1 GGTTCAGGTTAATTTC
** *
68755 GGTTC-GGATTGCTTTT
1 GGTTCAGG-TTAATTTC
68771 GGTTCAGGTTAATTTC
1 GGTTCAGGTTAATTTC
*
68787 GGTTTAGGTT
1 GGTTCAGGTT
68797 TGGGTTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 2 0.06
16 29 0.88
17 2 0.06
ACGTcount: A:0.12, C:0.10, G:0.31, T:0.47
Consensus pattern (16 bp):
GGTTCAGGTTAATTTC
Found at i:68796 original size:22 final size:22
Alignment explanation
Indices: 68771--68812 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
68761 GATTGCTTTT
68771 GGTTCAGGTTAATTTCGGTTTA
1 GGTTCAGGTTAATTTCGGTTTA
** *
68793 GGTTTGGGTTAATTTTGGTT
1 GGTTCAGGTTAATTTCGGTT
68813 CTAATTGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.05, G:0.31, T:0.50
Consensus pattern (22 bp):
GGTTCAGGTTAATTTCGGTTTA
Found at i:71154 original size:15 final size:15
Alignment explanation
Indices: 71130--71163 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
71120 TCGTAGGACC
71130 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
71145 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
71160 ACTA
1 ACTA
71164 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:71759 original size:64 final size:64
Alignment explanation
Indices: 71690--71846 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
71680 TAATGAAGGT
* * **
71690 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCAATGTTTTTATT-TTAAAAG
71753 A
64 A
* * *
71754 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCAATGTTTTTATTTTAAAAGA
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCAATGTTTTTATTTTAAAAGA
* * *
71818 GTGCATCGATGAACTACCTGTGCATCGAT
1 ATGCATCGATGCACTACTTGTGCATCGAT
71847 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 67 0.87
65 9 0.12
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCAATGTTTTTATTTTAAAAGA
Found at i:73158 original size:2 final size:2
Alignment explanation
Indices: 73151--73190 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
73141 AAATATTTGG
73151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73191 TATTTTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73796 original size:52 final size:51
Alignment explanation
Indices: 73733--73896 Score: 168
Period size: 51 Copynumber: 3.2 Consensus size: 51
73723 TATGATTGAT
*
73733 TTATTATTTTATT-ATAAATTAAGATAGAGTTAAAAACATCATCTTTAGTTTA
1 TTATTATTTTATTGA-AAATTAAGATAGA-ATAAAAACATCATCTTTAGTTTA
* * *** *
73785 TTATTATTTTATTGAGAATTAGGATAGAATCGCAACATTATCTTTAGTTTA
1 TTATTATTTTATTGAAAATTAAGATAGAATAAAAACATCATCTTTAGTTTA
* * * * * * *
73836 TTATTATTTTATTGAGAATTAGGAAAGAATCACAACATTATATTTAGTTTA
1 TTATTATTTTATTGAAAATTAAGATAGAATAAAAACATCATCTTTAGTTTA
*
73887 TTATTCTTTT
1 TTATTATTTT
73897 TTATTTAGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
51 75 0.75
52 24 0.24
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (51 bp):
TTATTATTTTATTGAAAATTAAGATAGAATAAAAACATCATCTTTAGTTTA
Found at i:73842 original size:51 final size:51
Alignment explanation
Indices: 73767--73896 Score: 215
Period size: 51 Copynumber: 2.5 Consensus size: 51
73757 TAGAGTTAAA
* * *
73767 AACATCATCTTTAGTTTATTATTATTTTATTGAGAATTAGGATAGAATCGC
1 AACATTATCTTTAGTTTATTATTATTTTATTGAGAATTAGGAAAGAATCAC
73818 AACATTATCTTTAGTTTATTATTATTTTATTGAGAATTAGGAAAGAATCAC
1 AACATTATCTTTAGTTTATTATTATTTTATTGAGAATTAGGAAAGAATCAC
* *
73869 AACATTATATTTAGTTTATTATTCTTTT
1 AACATTATCTTTAGTTTATTATTATTTT
73897 TTATTTAGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (51 bp):
AACATTATCTTTAGTTTATTATTATTTTATTGAGAATTAGGAAAGAATCAC
Found at i:74295 original size:22 final size:21
Alignment explanation
Indices: 74269--74309 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
74259 CTAAATGTTA
74269 TTATTTTATCTT-TTTAGTTATC
1 TTATTTT-TCTTCTTT-GTTATC
74291 TTATTTTTCTTCTTTGTTA
1 TTATTTTTCTTCTTTGTTA
74310 GTTCTCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (21 bp):
TTATTTTTCTTCTTTGTTATC
Found at i:74389 original size:25 final size:25
Alignment explanation
Indices: 74361--74417 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
74351 GCAACCCTAT
74361 CTAAAACCCTAATTTGCAACAAATC
1 CTAAAACCCTAATTTGCAACAAATC
74386 CTAAAACCCTAATTTGCAACAAATC
1 CTAAAACCCTAATTTGCAACAAATC
74411 CTAAAAC
1 CTAAAAC
74418 TCCATTCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.23
Consensus pattern (25 bp):
CTAAAACCCTAATTTGCAACAAATC
Found at i:74644 original size:31 final size:30
Alignment explanation
Indices: 74609--74666 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
74599 ATTTATTTAA
*
74609 TGATCAAATTATAAAATTTGGTAAAGTTTGG
1 TGATCAAAGTATAAAATTTGG-AAAGTTTGG
*
74640 TGATCAAAGTATAAACTTTGGAAAGTT
1 TGATCAAAGTATAAAATTTGGAAAGTT
74667 CAGGGGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (30 bp):
TGATCAAAGTATAAAATTTGGAAAGTTTGG
Found at i:76739 original size:45 final size:45
Alignment explanation
Indices: 76650--76849 Score: 289
Period size: 45 Copynumber: 4.4 Consensus size: 45
76640 GTAAGCATGC
* *
76650 AAATAAGCTTACGAGCTTATG-GAAT-AATGGCAAGTATATGGTA
1 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGTA
76693 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGTA
1 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGTA
76738 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGGTAA
1 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATAT-GGT-A
* * * * *
76785 AAATAAGCTTACAAGCTTATGGGA-CAAATGGTAATTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTA-TATGGTA
76830 AAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTAT
76850 AGAAATAATG
Statistics
Matches: 144, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
43 21 0.15
44 3 0.02
45 78 0.54
46 17 0.12
47 25 0.17
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGTA
Found at i:76805 original size:92 final size:88
Alignment explanation
Indices: 76650--76860 Score: 289
Period size: 92 Copynumber: 2.3 Consensus size: 88
76640 GTAAGCATGC
* *
76650 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGTAAAATAAGCTTACGAGCTTATGT
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGTAAAATAAGCTTACAAGCTTATGG
*
76715 GATTAAATGGTAAGTA-TATGGTA
66 GA-CAAATGGTAAGTATTATGGTA
* *
76738 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGGTAAAAATAAGCTTACAAGCTT
1 AAATAAGCTTACGAGCTTATG-GAAT-AATGGCAAGTATAT-GGT-AAAATAAGCTTACAAGCTT
* *
76803 ATGGGACAAATGGTAATTATTTTGGTA
62 ATGGGACAAATGGTAAGTATTATGGTA
*
76830 AAATAAGCTTACGAGCTTATAGAAATAATGG
1 AAATAAGCTTACGAGCTTAT-GGAATAATGG
76861 TAAAATATTG
Statistics
Matches: 108, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
88 21 0.19
89 3 0.03
90 13 0.12
91 19 0.18
92 51 0.47
93 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (88 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATGGTAAAATAAGCTTACAAGCTTATGG
GACAAATGGTAAGTATTATGGTA
Found at i:77345 original size:22 final size:23
Alignment explanation
Indices: 77306--77360 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
77296 CGCATCGATG
* *
77306 CACTGTTCATGGGTACTGTTTAT
1 CACTGTTCATCGGTACTGTTCAT
77329 CACTGTTCA-CGGTACTGTTCAT
1 CACTGTTCATCGGTACTGTTCAT
*
77351 CACTATTCAT
1 CACTGTTCAT
77361 AAAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (23 bp):
CACTGTTCATCGGTACTGTTCAT
Found at i:81111 original size:51 final size:51
Alignment explanation
Indices: 81007--81119 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
80997 AGGATTAGAT
*
81007 TTATTATTTTATTAGGAATTAAAATAAAGTTAAAAACATTATCTTTAGTTTA
1 TTATTATTTTAGTAGGAATTAAAATAAAG-TAAAAACATTATCTTTAGTTTA
* * *
81059 TTATTATTTTAGTAGGAATTAGGAATAAA-TCACAACATTATCTTTAGTTTA
1 TTATTATTTTAGTAGGAATTA-AAATAAAGTAAAAACATTATCTTTAGTTTA
*
81110 TTATTCTTTT
1 TTATTATTTT
81120 TAATTTAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 29 0.53
52 20 0.36
53 6 0.11
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (51 bp):
TTATTATTTTAGTAGGAATTAAAATAAAGTAAAAACATTATCTTTAGTTTA
Found at i:84617 original size:6 final size:6
Alignment explanation
Indices: 84608--84701 Score: 143
Period size: 6 Copynumber: 15.7 Consensus size: 6
84598 TTTAAAATAT
* *
84608 AAATTC AAATCC AAATCC AAATCC AAATCC AAATCC AAATCT AAATCC
1 AAATCC AAATCC AAATCC AAATCC AAATCC AAATCC AAATCC AAATCC
* * *
84656 AAATCT AAATCT AAATCC AAATCC AAATCA AAATCC AAATCC AAAT
1 AAATCC AAATCC AAATCC AAATCC AAATCC AAATCC AAATCC AAAT
84702 GCAACCTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATCC
Found at i:85174 original size:20 final size:21
Alignment explanation
Indices: 85149--85257 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
85139 TTTTCCCAAT
*
85149 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
85169 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
85190 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
85210 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
85231 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCGA-ATTAAGAAAA
85252 TCGCAA
1 TCGCAA
85258 CGAGATACTT
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
20 27 0.39
21 41 0.59
22 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:85194 original size:41 final size:41
Alignment explanation
Indices: 85149--85259 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
85139 TTTTCCCAAT
85149 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
85190 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
85231 TCGCAATGCGATAATAA-AAAATCGCAACG
1 TCGCAATGCG--AATAAGTAAATCGCAACG
85260 AGATACTTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
41 51 0.76
42 11 0.16
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:85277 original size:20 final size:20
Alignment explanation
Indices: 85252--85304 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
85242 TAATAAAAAA
* *
85252 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
85272 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
85292 TCGCAACGCGATA
1 TCGCAACGCGATA
85305 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:85520 original size:22 final size:22
Alignment explanation
Indices: 85492--85535 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
85482 CACTCTCTCA
85492 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGGCGAAATCCGTC
85514 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGGCGAAATCCGTC
85536 TATCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGGCGAAATCCGTC
Found at i:85824 original size:20 final size:20
Alignment explanation
Indices: 85799--85836 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85789 CGATTCTCTC
85799 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
85819 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
85837 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:87200 original size:18 final size:18
Alignment explanation
Indices: 87156--87200 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
87146 TCCACTTCGG
*
87156 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
**
87174 GAGTTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
87192 GAGCCATCA
1 GAGCCATCA
87201 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:87707 original size:20 final size:19
Alignment explanation
Indices: 87684--87728 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
87674 CGCAACACGA
* *
87684 AAATTACTATTGCAATGCGG
1 AAATGACTATCGCAATGC-G
*
87704 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAATGCG
87723 AAATGA
1 AAATGA
87729 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:87727 original size:19 final size:20
Alignment explanation
Indices: 87690--87727 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87680 ACGAAAATTA
*
87690 CTATTGCAATGCGGAAATGG
1 CTATCGCAATGCGGAAATGG
87710 CTATCGCAATGC-GAAATG
1 CTATCGCAATGCGGAAATG
87728 AAAATCGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
CTATCGCAATGCGGAAATGG
Found at i:87747 original size:14 final size:14
Alignment explanation
Indices: 87728--87785 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
87718 ATGCGAAATG
87728 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
87742 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
87758 ATGAAATCTCAACGAC
1 A--AAATCGCAACGAC
87774 AAAATCGCAACG
1 AAAATCGCAACG
87786 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:87754 original size:33 final size:33
Alignment explanation
Indices: 87712--87802 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
87702 GGAAATGGCT
87712 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
87745 ATCGCAATGCGAAATG-AAATCTCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
87777 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
87803 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:87842 original size:14 final size:14
Alignment explanation
Indices: 87819--87876 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
87809 TTGTGTTTCG
*
87819 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
87833 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
87849 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
87865 CGTTGCGATTTT
1 CGTTGCGATTTT
87877 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:87853 original size:32 final size:33
Alignment explanation
Indices: 87814--87892 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
87804 GCGATTTGTG
*
87814 TTTCGCGTTGTGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
87846 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
87879 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
87893 AGCCATTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:87891 original size:19 final size:19
Alignment explanation
Indices: 87833--87950 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
87823 GTGATTTTGT
87833 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
87851 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
87865 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
87884 CATTGCGATAGCCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
**
87904 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
87923 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
87943 TGTTGCGA
1 CGTTGCGA
87951 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:87942 original size:39 final size:37
Alignment explanation
Indices: 87833--87950 Score: 102
Period size: 39 Copynumber: 3.2 Consensus size: 37
87823 GTGATTTTGT
87833 CGTTGCGATTTCATTTCGCGTTGCGATTTT-G--T--
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTAGTTTCG
* *** *
87865 CGTTGCGATTTTCATTTCGCATTGCGATAGCCATTTTCG
1 CGTTGCGA-TTTCATTTCGCGTTGCGAT-TTTAGTTTCG
*
87904 CGTTGCGATAGTCATTTCGCGTTGCGATTTTAAGTTTCG
1 CGTTGCGAT-TTCATTTCGCGTTGCGATTTT-AGTTTCG
*
87943 TGTTGCGA
1 CGTTGCGA
87951 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
32 8 0.12
33 18 0.28
37 1 0.02
38 1 0.02
39 37 0.57
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (37 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTTTAGTTTCG
Found at i:89965 original size:33 final size:36
Alignment explanation
Indices: 89920--90035 Score: 139
Period size: 38 Copynumber: 3.2 Consensus size: 36
89910 AAAACAAACT
* ***
89920 ATCGCAACGCGAAATGGCTATCGCAAT-G-A-GAAA
1 ATCGCAATGCGAAATGAAAATCGCAATCGAATGAAA
89953 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAAT-CG-AATGAAA
89991 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAAT-CG-AATGAAA
90029 ATCGCAA
1 ATCGCAA
90036 CGAGAAAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
33 23 0.31
35 1 0.01
37 1 0.01
38 49 0.66
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAATCGAATGAAA
Found at i:89971 original size:19 final size:19
Alignment explanation
Indices: 89949--90054 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
89939 ATCGCAATGA
89949 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
89968 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
89987 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
90006 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
90025 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
90039 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
90055 TTTTCATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
19 68 0.81
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:91196 original size:24 final size:24
Alignment explanation
Indices: 91169--91222 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
91159 GTATTCGAAA
* *
91169 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
91193 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
91217 TTTGAT
1 TTTGAT
91223 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:93752 original size:33 final size:33
Alignment explanation
Indices: 93709--93874 Score: 219
Period size: 33 Copynumber: 5.0 Consensus size: 33
93699 CGGAAATTAC
93709 TATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGA-A
**
93743 -ATCGCAATGCGAAATGAAAATCGCAACGCTAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* **
93775 TTTCGCAATGCGAAATGAAAATCGCAACGCTAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* *
93808 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 TATCGCAATGCGAAATGAAAATCGCAACGA-GAA
* *
93842 -ATCGTAATGCGAAATGAAAATCGCAACGCGAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
93874 T
1 T
93875 TTAATTTCGC
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
32 3 0.03
33 115 0.97
34 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (33 bp):
TATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:93891 original size:19 final size:20
Alignment explanation
Indices: 93869--93911 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
93859 AAATCGCAAC
93869 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
93888 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
93908 GCGA
1 GCGA
93912 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:93896 original size:14 final size:14
Alignment explanation
Indices: 93897--93930 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
93887 TGCGATTTTC
93897 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
93911 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
93925 ATTTTC
1 ATTTTC
93931 ATTTTGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:94071 original size:14 final size:14
Alignment explanation
Indices: 94052--94088 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
94042 CATCAATTAA
*
94052 ACAAATTAACTTTT
1 ACAAATCAACTTTT
*
94066 ACAAATCACCTTTT
1 ACAAATCAACTTTT
94080 ACAAATCAA
1 ACAAATCAA
94089 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:95511 original size:21 final size:21
Alignment explanation
Indices: 95445--95511 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
95435 GTGAATCGGG
*
95445 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
95465 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
95487 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
95508 CTCT
1 CTCT
95512 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:95530 original size:42 final size:41
Alignment explanation
Indices: 95445--95567 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
95435 GTGAATCGGG
* * * * *
95445 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
95487 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
95529 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
95568 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:97651 original size:33 final size:33
Alignment explanation
Indices: 97594--97692 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
97584 GCGAGATAAT
*
97594 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
97628 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
97661 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
97693 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:97686 original size:19 final size:19
Alignment explanation
Indices: 97569--97753 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
97559 TCTTTTGGTT
* * *
97569 GAAATGAAAATCGTAGCGA
1 GAAATGAAAATCGCAACGC
*
97588 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
97608 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
97626 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
97642 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
97660 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
97675 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
97695 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
97714 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
97733 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
97752 GA
1 GA
97754 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.46
20 43 0.32
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:97707 original size:39 final size:38
Alignment explanation
Indices: 97664--97753 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
97654 GCGACCAGAC
97664 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
97703 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
97741 AATCGCAATGCGA
1 AATCGCAACGCGA
97754 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:97782 original size:19 final size:19
Alignment explanation
Indices: 97749--97815 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
97739 AAAATCGCAA
**
97749 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
97768 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
97787 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
97807 TGCGATTTT
1 TGCGATTTT
97816 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:98403 original size:41 final size:41
Alignment explanation
Indices: 98351--98428 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
98341 CGAAAGTCAG
* * *
98351 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
*
98392 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
98429 CCCAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:98425 original size:20 final size:20
Alignment explanation
Indices: 98332--98425 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
98322 CGCTATGTAA
* *
98332 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
98352 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
98372 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
98393 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
98413 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
98426 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:98444 original size:41 final size:41
Alignment explanation
Indices: 98351--98446 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
98341 CGAAAGTCAG
* * * ** *
98351 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
*
98392 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
98434 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
98447 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:99857 original size:23 final size:23
Alignment explanation
Indices: 99815--99858 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
99805 CATAATAACA
*
99815 TAATAAGTAGCGCTTATTTAATG
1 TAATAAGTAACGCTTATTTAATG
99838 TAATAAGTAACGACTT-TTTAA
1 TAATAAGTAACG-CTTATTTAA
99859 AGTTGATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
TAATAAGTAACGCTTATTTAATG
Found at i:99990 original size:226 final size:226
Alignment explanation
Indices: 99543--100014 Score: 603
Period size: 226 Copynumber: 2.1 Consensus size: 226
99533 ATATTGATTT
* * * * * *
99543 TAACATAATCGGTGAATTACTAGAAATATTATCAACCATAATAACATAATAATTAGCGCTTAAGT
1 TAACAAAATAGGTTAATTACAAGAAATATTACCAACCATAATAACATAATAAGTAGCGCTTAAGT
* * **
99608 AACGTAATAGGTATCACCTTTTTAAAACTGATAGGGTTTTAGAAATCCAACGATAACAAAATAGG
66 AACGTAATAAGTAACACCTTTTTAAAACTGATAGGGCCTTAGAAATCCAACGATAACAAAATAGG
* *
99673 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATACCTAAAATGTTACCAAATT
131 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATACCTAAAATATTACCAAAGT
* * *
99738 TTAAGTCGATGGAGCCTTAGAAATCCGGCTA
196 TTAAGTCGATGGAGCCTTAAAAATCCGACGA
* **
99769 TAACAAGATAGGTTAATTACAAGAAATATTACCAACCATAATAACATAATAAGTAGCGCTTATTT
1 TAACAAAATAGGTTAATTACAAGAAATATTACCAACCATAATAACATAATAAGTAGCGCTTAAGT
* ** **
99834 AATGTAATAAGTAACGA-CTTTTTAAAGTTGAT-GGAGCCTTAGAAATCTGACGATAACAAAATA
66 AACGTAATAAGTAAC-ACCTTTTTAAAACTGATAGG-GCCTTAGAAATCCAACGATAACAAAATA
* * *
99897 GGTTAATTACTTAATTTGTTATCAATATTATCAACTTATTAGGTAGA-GCCTAAAATATTATCAA
129 GGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTA-ATACCTAAAATATTACCAA
*
99961 AGTTTAAG-CTGAT-GAGGCTTTAAAAATCCGACGA
193 AGTTTAAGTC-GATGGA-GCCTTAAAAATCCGACGA
* *
99995 TAAGAAAATATGTTAATTAC
1 TAACAAAATAGGTTAATTAC
100015 TTATTTTATT
Statistics
Matches: 211, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
225 5 0.02
226 204 0.97
227 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (226 bp):
TAACAAAATAGGTTAATTACAAGAAATATTACCAACCATAATAACATAATAAGTAGCGCTTAAGT
AACGTAATAAGTAACACCTTTTTAAAACTGATAGGGCCTTAGAAATCCAACGATAACAAAATAGG
TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAATACCTAAAATATTACCAAAGT
TTAAGTCGATGGAGCCTTAAAAATCCGACGA
Found at i:100056 original size:108 final size:108
Alignment explanation
Indices: 99862--100139 Score: 335
Period size: 108 Copynumber: 2.6 Consensus size: 108
99852 TTTTTAAAGT
* * * * * *
99862 TGATGGAGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTA
1 TGATGGTGCATTAAAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAATATTA
** * *
99927 TCAACTTATTAGGTAGAGCCTAAAATATTATCAAAGTTTAAGC
66 TCAAAATATTAGGTAGAGCCTAAAATATTACCAAAATTTAAGC
* * * * *
99970 TGATGAG-GCTTTAAAAATCCGACGATAAGAAAATATGTTAATTACTTATTTTATTATTAATATT
1 TGATG-GTGCATTAAAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAATATT
* *
100034 ATCAAAATATTAGGTAGCGCCTAAAATGTTACCAAAATTTAAGC
65 ATCAAAATATTAGGTAGAGCCTAAAATATTACCAAAATTTAAGC
** * *
100078 TGATGGTGCATTCGAAATCCCACGACAACAAAATAGGTTAA-TATCTTATTTTGTTATAAATA
1 TGATGGTGCATTAAAAATCCGACGATAACAAAATAGGTTAATTA-CTTATTTTGTTATAAATA
100140 AATATTAACA
Statistics
Matches: 144, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
107 3 0.02
108 140 0.97
109 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (108 bp):
TGATGGTGCATTAAAAATCCGACGATAACAAAATAGGTTAATTACTTATTTTGTTATAAATATTA
TCAAAATATTAGGTAGAGCCTAAAATATTACCAAAATTTAAGC
Found at i:100724 original size:75 final size:75
Alignment explanation
Indices: 100599--100980 Score: 503
Period size: 75 Copynumber: 5.1 Consensus size: 75
100589 AAGTTGTATA
* * * * *
100599 TATTTTACCGTTTACATTATTATTAATCTTTAAACAAACAGGTAGATAGTTTAACATAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
*
100664 ACGCCTATTT
66 GCGCCTATTT
* * * *
100674 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGTTAGTTTAACGTAATAGATA
1 TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
*
100739 GCGTCTATTT
66 GCGCCTATTT
* ** * *
100749 TATTTTACTGTTTACATTATTAGTAACCTTTAAACAAACATGTAGGTAGTTTGACGTAATAGATA
1 TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
*
100814 GTGCCTATTT
66 GCGCCTATTT
* * *
100824 TATTTTACTGTTTACATTATTAGTAACATTTAAACAAACCGGTAGGTATTTTAACGTAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
100889 GCGCCTATTT
66 GCGCCTATTT
* * * ** * * *
100899 TATTTTACCGTTTACGTTATTAGTAACCTTCAAACAAAACAATAAGTAATTTAACATAATAGGTA
1 TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
*
100964 ACGCCTATTT
66 GCGCCTATTT
100974 TATTTTA
1 TATTTTA
100981 ACCGGTTAAG
Statistics
Matches: 272, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 272 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (75 bp):
TATTTTACCGTTTACATTATTAGTAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAATAGGTA
GCGCCTATTT
Found at i:104803 original size:23 final size:23
Alignment explanation
Indices: 104773--104849 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
104763 ATGCACAGCA
104773 GAGTGCATCGATGCACATTCAAT
1 GAGTGCATCGATGCACATTCAAT
*
104796 GAGTGCATCGGTGCATC-TTC-AT
1 GAGTGCATCGATGCA-CATTCAAT
**
104818 GA-TATATCGATGCACATTCAA-
1 GAGTGCATCGATGCACATTCAAT
104839 GAGATGCATCG
1 GAG-TGCATCG
104850 GTACACTGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 5 0.12
23 22 0.51
24 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (23 bp):
GAGTGCATCGATGCACATTCAAT
Found at i:104837 original size:21 final size:22
Alignment explanation
Indices: 104759--104837 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 22
104749 CGATGGGTGT
* *
104759 ATCGATGCACA-GCA-GAGTGC
1 ATCGATGCACATTCATGAGTAC
*
104779 ATCGATGCACATTCAATGAGTGC
1 ATCGATGCACATTC-ATGAGTAC
* *
104802 ATCGGTGCATC-TTCATGA-TAT
1 ATCGATGCA-CATTCATGAGTAC
104823 ATCGATGCACATTCA
1 ATCGATGCACATTCA
104838 AGAGATGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.24
21 14 0.29
22 5 0.10
23 17 0.35
24 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (22 bp):
ATCGATGCACATTCATGAGTAC
Found at i:104847 original size:44 final size:43
Alignment explanation
Indices: 104779--104876 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 43
104769 AGCAGAGTGC
*
104779 ATCGATGCACATTCAATGAGTGCATCGGTGCATCT-TCATGATAT
1 ATCGATGCACATTCAATGAGTGCATCGGTACA-CTGTCATG-TAT
* *
104823 ATCGATGCACATTCAA-GAGATGCATCGGTACACTGTCTTGTGT
1 ATCGATGCACATTCAATGAG-TGCATCGGTACACTGTCATGTAT
104866 ATCGATGCACA
1 ATCGATGCACA
104877 AAGCATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 18 0.37
44 31 0.63
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
ATCGATGCACATTCAATGAGTGCATCGGTACACTGTCATGTAT
Found at i:110762 original size:65 final size:65
Alignment explanation
Indices: 110649--110789 Score: 169
Period size: 65 Copynumber: 2.2 Consensus size: 65
110639 TACACTAGGG
* * * ** *
110649 GTGCATCGGTACACTAATTATATTTGATGTTTCAAATGAGCCTGGAGTGTATCGATGCATGG-TC
1 GTGCATCGGTACACAAAATATATTCGATGTTTCAAATGAGCCAAGAGTGCATCGATGCATGGCT-
110713 T
65 T
* **
110714 GTGCATCGGTACACAAAATGTATTCGATGTTTCAAAAT-ATTCAAGAGTGCATCGATGCATGGCT
1 GTGCATCGGTACACAAAATATATTCGATGTTTC-AAATGAGCCAAGAGTGCATCGATGCATGGCT
110778 T
65 T
110779 GTGCATCGGTA
1 GTGCATCGGTA
110790 AAATGTATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 60 0.92
66 5 0.08
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATATATTCGATGTTTCAAATGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:118529 original size:3 final size:3
Alignment explanation
Indices: 118521--118568 Score: 69
Period size: 3 Copynumber: 15.0 Consensus size: 3
118511 CGGGTCTTTT
118521 TTA TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
118569 AATTTTTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 34 0.81
4 7 0.17
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:127023 original size:28 final size:28
Alignment explanation
Indices: 126977--127064 Score: 99
Period size: 28 Copynumber: 3.0 Consensus size: 28
126967 GAGACAGTTG
126977 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
127008 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
127036 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
127064 C
1 C
127065 CCTTGAAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
28 38 0.73
29 3 0.06
30 3 0.06
31 8 0.15
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:127070 original size:28 final size:28
Alignment explanation
Indices: 127010--127072 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
127000 GCTTGTTTTT
* * *
127010 CTTGAAACAAATCTTTGAGTCTGTTTCT
1 CTTGAAACAAATCTTTGAATCGGTTTCC
*
127038 TTTGAAACAAATCTTTGAATCGGTTTCC
1 CTTGAAACAAATCTTTGAATCGGTTTCC
127066 CTTGAAA
1 CTTGAAA
127073 TCATAGCTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (28 bp):
CTTGAAACAAATCTTTGAATCGGTTTCC
Found at i:127319 original size:84 final size:84
Alignment explanation
Indices: 127182--127425 Score: 409
Period size: 84 Copynumber: 2.9 Consensus size: 84
127172 TAACCAGCCG
*
127182 TCCTCATCAAGTAGGAACCGAGTCATCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGC
1 TCCTCATCACGTAGGAACCGAG---TCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGC
127247 AGTGTCATCCCCTGACCAGATT
63 AGTGTCATCCCCTGACCAGATT
127269 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
127334 GTCATCCCCTGACCAGATT
66 GTCATCCCCTGACCAGATT
* * *
127353 TCCTCATCACGTAGGAACCGAGTCACCCTTAGACGACC-AGAACTCTTCATCACGTATGAGCAGT
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
*
127417 GTCGTCCCC
66 GTCATCCCC
127426 ACCAACACGC
Statistics
Matches: 152, Mismatches: 5, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
83 33 0.22
84 98 0.64
87 21 0.14
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (84 bp):
TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
GTCATCCCCTGACCAGATT
Found at i:127365 original size:40 final size:40
Alignment explanation
Indices: 127232--127365 Score: 135
Period size: 40 Copynumber: 3.2 Consensus size: 40
127222 CAAAAACTCT
127232 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGATTTCC
1 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGATTTCC
* * * * * * ** *
127272 TCATCACGTAGGAACCGAGTCA-CCCTTAGATGGCCAAAAACTCT
1 TCATCACGTATGAGCAGTGTCATCCCCT-GA---CC-AGATTTCC
127316 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGATTTCC
1 TCATCACGTATGAGCAGTGTCATCCCCTGACCAGATTTCC
127356 TCATCACGTA
1 TCATCACGTA
127366 GGAACCGAGT
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
39 4 0.06
40 34 0.49
41 2 0.03
43 2 0.03
44 24 0.34
45 4 0.06
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (40 bp):
TCATCACGTATGAGCAGTGTCATCCCCTGACCAGATTTCC
Found at i:127403 original size:43 final size:42
Alignment explanation
Indices: 127185--127408 Score: 127
Period size: 40 Copynumber: 5.2 Consensus size: 42
127175 CCAGCCGTCC
* * *
127185 TCATCAAGTAGGAACCGAGTCATCACCCTTAGATGGCCAAAAACTCT
1 TCATCACGTAGGAACCGAG---TCACCCTTAGA-GACC-AGAACTCT
* * * * * ** *
127232 TCATCACGTATGAGCAGTGTCATCCCCT---GACCAGATTTCC
1 TCATCACGTAGGAACCGAGTCA-CCCTTAGAGACCAGAACTCT
* *
127272 TCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCT
1 TCATCACGTAGGAACCGAGTCACCCTTAGA-GACC-AGAACTCT
* * * * * ** *
127316 TCATCACGTATGAGCAGTGTCATCCCCT---GACCAGATTTCC
1 TCATCACGTAGGAACCGAGTCA-CCCTTAGAGACCAGAACTCT
127356 TCATCACGTAGGAACCGAGTCACCCTTAGACGACCAGAACTCT
1 TCATCACGTAGGAACCGAGTCACCCTTAGA-GACCAGAACTCT
127399 TCATCACGTA
1 TCATCACGTA
127409 TGAGCAGTGT
Statistics
Matches: 127, Mismatches: 39, Indels: 26
0.66 0.20 0.14
Matches are distributed among these distances:
39 8 0.06
40 44 0.35
41 6 0.05
43 22 0.17
44 25 0.20
45 8 0.06
47 14 0.11
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATCACGTAGGAACCGAGTCACCCTTAGAGACCAGAACTCT
Found at i:127577 original size:3 final size:3
Alignment explanation
Indices: 127569--127617 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
127559 CGGGTCTTTT
127569 TTA TTA TTA TTA TTA TATA TTA -TA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
127615 TTA
1 TTA
127618 AATTTTTGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:127594 original size:21 final size:22
Alignment explanation
Indices: 127569--127617 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
127559 CGGGTCTTTT
127569 TTATTATTATTATTATATATTA
1 TTATTATTATTATTATATATTA
*
127591 -TATTATTATTATTATTTATTA
1 TTATTATTATTATTATATATTA
127612 TTATTA
1 TTATTA
127618 AATTTTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATTATTATTATTATATATTA
Found at i:130514 original size:15 final size:14
Alignment explanation
Indices: 130475--130514 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
130465 GTAAATTTTG
130475 GAAATTTAAAGTTA
1 GAAATTTAAAGTTA
*
130489 GTAATTTAAAGTTCA
1 GAAATTTAAAGTT-A
*
130504 GAAAATTAAAG
1 GAAATTTAAAG
130515 GGTTGAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.33
Consensus pattern (14 bp):
GAAATTTAAAGTTA
Found at i:133618 original size:21 final size:21
Alignment explanation
Indices: 133588--133702 Score: 135
Period size: 21 Copynumber: 5.5 Consensus size: 21
133578 TATGCCATCT
*
133588 CCGCAGGGTTACATTTCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
133609 CCGTAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
133630 CCGCCA-GGTTACATTCCGAGC
1 CCG-CAGGGTTACATTCCGAGC
* *
133651 CCGCATGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
133672 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
133693 CCGCAGGGTT
1 CCGCAGGGTT
133703 TTATACCATA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
20 4 0.05
21 76 0.92
22 3 0.04
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.23
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:133641 original size:42 final size:42
Alignment explanation
Indices: 133594--133702 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
133584 ATCTCCGCAG
* *
133594 GGTTACATTTCGAGCCCGTAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
*
133636 GGTTACATTCCGAGCCCGCATGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
* *
133678 GGTTACATGCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
133703 TTATACCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
Found at i:134261 original size:34 final size:34
Alignment explanation
Indices: 134221--134327 Score: 124
Period size: 40 Copynumber: 3.0 Consensus size: 34
134211 GATAAATGTT
*
134221 TTTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTTAAAATAAAAATTATATTATTCAAAATTTAAA
134255 TTTAAAATAAAAATAAAAATAATATTATTCAAAATTTAAA
1 TTTAAAATAAAAAT-----T-ATATTATTCAAAATTTAAA
* * *
134295 ATTAAAATATAAATTATAGTATTCAAAATTTAA
1 TTTAAAATAAAAATTATATTATTCAAAATTTAA
134328 CATTAAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
34 30 0.48
35 1 0.02
39 1 0.02
40 31 0.49
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (34 bp):
TTTAAAATAAAAATTATATTATTCAAAATTTAAA
Found at i:134268 original size:40 final size:40
Alignment explanation
Indices: 134224--134308 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
134214 AAATGTTTTT
* * *
134224 AAAATACAAATTATATTATTCAAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTCAAAATTTAAAATTAAAATA
134264 AAAATAAAAATAATATTATTCAAAATTTAAAATTAAAATA
1 AAAATAAAAATAATATTATTCAAAATTTAAAATTAAAATA
*
134304 TAAAT
1 AAAAT
134309 TATAGTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (40 bp):
AAAATAAAAATAATATTATTCAAAATTTAAAATTAAAATA
Found at i:134334 original size:40 final size:39
Alignment explanation
Indices: 134222--134334 Score: 128
Period size: 34 Copynumber: 3.0 Consensus size: 39
134212 ATAAATGTTT
*
134222 TTAAAATACAAATTATATTATTCAAAATTTAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAA-TTAAAA
* *
134262 TAAAAATAAAAATAATATTATTCAAAA--T---TTAAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAAATTAAAA
* *
134296 TTAAAATATAAATTATAGTATTCAAAATTTAACATTAAA
1 TTAAAATAAAAATTATATTATTCAAAATTTAA-ATTAAA
134335 TTTCAACTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
34 29 0.48
36 1 0.02
38 1 0.02
40 29 0.48
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (39 bp):
TTAAAATAAAAATTATATTATTCAAAATTTAAATTAAAA
Found at i:135046 original size:8 final size:8
Alignment explanation
Indices: 135033--135073 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
135023 TCACAAGCTT
135033 TCAAATTC
1 TCAAATTC
135041 TCAAATTC
1 TCAAATTC
* *
135049 CCAAACTC
1 TCAAATTC
135057 T-AAATTC
1 TCAAATTC
135064 TCAAATTC
1 TCAAATTC
135072 TC
1 TC
135074 TAAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:139145 original size:21 final size:20
Alignment explanation
Indices: 139103--139145 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
139093 TTTTATAAAA
* * *
139103 TTTTACTTAAAATTTTATTT
1 TTTTAATTAAAATGTTAATT
139123 TTTTAATTGAAAATGTTAATT
1 TTTTAATT-AAAATGTTAATT
139144 TT
1 TT
139146 AGACGTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAATTAAAATGTTAATT
Found at i:142145 original size:392 final size:391
Alignment explanation
Indices: 141411--142197 Score: 1414
Period size: 391 Copynumber: 2.0 Consensus size: 391
141401 CTTCAATCGA
*
141411 GTTTCTAATTTTTTTTTGAGTTCGAGCCTTTTTGAGTTCAAGTTTCAATATTACATTTCGAGTTT
1 GTTTCTAATTTTTTTTTGAGTTCGAGCCGTTTTGAGTTCAAGTTTCAATATTACATTTCGAGTTT
141476 GAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTT
66 GAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTT
141541 TCAAGTTTGAGTCGAGCTCAGCAATACTCGAGTTCTACTCAGCTCGTTTAACAAACGACGTCGTT
131 TCAAGTTTGAGTCGAGCTCAGCAATACTCGAGTTCTACTCAGCTCGTTTAACAAACGACGTCGTT
*
141606 TGATTTAATTTTTTTAGAAGAAAAAATAGAATACTGGTTTTCAACCGGTTCACGGTCCGGTCTAG
196 TGATTTAATTTTTTTAGAAGAAAAAATAGAATACCGGTTTTCAACCGGTTCACGGTCCGGTCTAG
141671 TTCGAAAGATTCACAGTCGGTTCAGCGGTTCCTTCCGGTTCACTAATAACGGTTTAACCGGTGTA
261 TTCGAAAGATTCACAGTCGGTTCAGCGGTTCCTTCCGGTTCACTAATAACGGTTTAACCGGTGTA
*
141736 GAATGAATCGAACCAGACAGCGGTTCCCGGTTGAGCCGGCCGGTCCGTTCCAGTTTTCAAAACAC
326 GAATGAATCGAACCAGACAGCGGTTCCCGGTTGAACCGGCCGGTCCGTTCCAGTTTTCAAAACAC
141801 T
391 T
* *
141802 GTTTCTAATTTTTTTTTGAGTTCGAGCCGTTTTGAGTTCAAGTTTTAATATTATATTTCGAGTTT
1 GTTTCTAATTTTTTTTTGAGTTCGAGCCGTTTTGAGTTCAAGTTTCAATATTACATTTCGAGTTT
*
141867 GAGTTGAACTTGATAATTTTTTGCTCGTGAGTTTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTT
66 GAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTT
* *
141932 TTAAGTTCT-AGTCGAGCTTAGCAATACTCGAGTTCTACTCAGCTCGTTTAACAAACGACGTCGT
131 TCAAGTT-TGAGTCGAGCTCAGCAATACTCGAGTTCTACTCAGCTCGTTTAACAAACGACGTCGT
141996 TTGATTTAATTTTTTTTAGAAGAAAAAATAGAATACCGGTTTTCAACCGGTTCACGGTCCGGTCT
195 TTGATTTAA-TTTTTTTAGAAGAAAAAATAGAATACCGGTTTTCAACCGGTTCACGGTCCGGTCT
* * *
142061 GGTTCGAAAGATTCACAGTCGGTTCAGCGGTTTCTTCCGGTTCACTAATAGCGGTTTAACCGGTG
259 AGTTCGAAAGATTCACAGTCGGTTCAGCGGTTCCTTCCGGTTCACTAATAACGGTTTAACCGGTG
* * * *
142126 TAGAATGAATCGGACCAGACATCGGTTCTCGGTTGAACCGGCCGGTCCGTTCCATTTTTCAAAAC
324 TAGAATGAATCGAACCAGACAGCGGTTCCCGGTTGAACCGGCCGGTCCGTTCCAGTTTTCAAAAC
142191 ACT
389 ACT
142194 GTTT
1 GTTT
142198 ATGAGAGCCT
Statistics
Matches: 379, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
391 195 0.51
392 184 0.49
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (391 bp):
GTTTCTAATTTTTTTTTGAGTTCGAGCCGTTTTGAGTTCAAGTTTCAATATTACATTTCGAGTTT
GAGTTGAACTTGATAATTTTTAGCTCGTGAGTTTTTGAGTCGAGTTGAGCTTACTTTTAAAGTTT
TCAAGTTTGAGTCGAGCTCAGCAATACTCGAGTTCTACTCAGCTCGTTTAACAAACGACGTCGTT
TGATTTAATTTTTTTAGAAGAAAAAATAGAATACCGGTTTTCAACCGGTTCACGGTCCGGTCTAG
TTCGAAAGATTCACAGTCGGTTCAGCGGTTCCTTCCGGTTCACTAATAACGGTTTAACCGGTGTA
GAATGAATCGAACCAGACAGCGGTTCCCGGTTGAACCGGCCGGTCCGTTCCAGTTTTCAAAACAC
T
Found at i:142625 original size:93 final size:93
Alignment explanation
Indices: 142496--142681 Score: 336
Period size: 93 Copynumber: 2.0 Consensus size: 93
142486 GGACGGGAGC
*
142496 ACTCGGGCCAGCATTATCATTTTGTGGAATAAGCTCCACACCCACGTCATCATCACAAGGTTGCT
1 ACTCGGGCCAGCATTATCATTTTGTGGAATAAGCTCCACACCCACGTCATCATCACAAGATTGCT
142561 GAGCAGGTGTTGAAACAACTGGCAGACA
66 GAGCAGGTGTTGAAACAACTGGCAGACA
* *
142589 ACTCGGGCCAGCATTATCATTTTGTGGAATATGCTCCACACCCACGTCATCATCACAAGATTGTT
1 ACTCGGGCCAGCATTATCATTTTGTGGAATAAGCTCCACACCCACGTCATCATCACAAGATTGCT
*
142654 GAGCAGGTGTTGAAACAAGTGGCAGACA
66 GAGCAGGTGTTGAAACAACTGGCAGACA
142682 GTCCCTACTG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (93 bp):
ACTCGGGCCAGCATTATCATTTTGTGGAATAAGCTCCACACCCACGTCATCATCACAAGATTGCT
GAGCAGGTGTTGAAACAACTGGCAGACA
Found at i:145789 original size:17 final size:17
Alignment explanation
Indices: 145767--145826 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
145757 CTAGTTTCGT
145767 TTTTTCTTATTTTTTCC
1 TTTTTCTTATTTTTTCC
* * *
145784 TTTTTCATCTATTTTCC
1 TTTTTCTTATTTTTTCC
*
145801 TTTTT-TAATTCTTTTCC
1 TTTTTCTTATT-TTTTCC
145818 ATTTTTCTT
1 -TTTTTCTT
145827 TTTCTTTTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 1 0.03
17 25 0.78
18 5 0.16
19 1 0.03
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTATTTTTTCC
Found at i:146118 original size:44 final size:44
Alignment explanation
Indices: 146067--146273 Score: 195
Period size: 44 Copynumber: 4.7 Consensus size: 44
146057 AAGGGAAATC
* * *
146067 CTGATCCAACTCCTTATGAGATAGAATTTAGCAAAAGGGTGATG
1 CTGATCCAACTCTTTATGTGATAGAATTGAGCAAAAGGGTGATG
* * *
146111 CTAATCCAACTTTTTAGGTGAT-GAAATTGAGCAAAAGGGTGATG
1 CTGATCCAACTCTTTATGTGATAG-AATTGAGCAAAAGGGTGATG
* **
146155 TTGATTTAACTCTTTATGAT-ATAGAATCT-AGCAAAAGGGTGATG
1 CTGATCCAACTCTTTATG-TGATAGAAT-TGAGCAAAAGGGTGATG
* * * * * *
146199 CTGATCTAACTTTTTATGTGATGGAATCGAGTAAAAGAGTGATG
1 CTGATCCAACTCTTTATGTGATAGAATTGAGCAAAAGGGTGATG
* * * *
146243 CTGATCCGACTCCTCATGTGGTAGAATTGAG
1 CTGATCCAACTCTTTATGTGATAGAATTGAG
146274 TTTGTAGAAA
Statistics
Matches: 130, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.02
44 125 0.96
45 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (44 bp):
CTGATCCAACTCTTTATGTGATAGAATTGAGCAAAAGGGTGATG
Found at i:146118 original size:88 final size:88
Alignment explanation
Indices: 146002--146235 Score: 222
Period size: 88 Copynumber: 2.7 Consensus size: 88
145992 TTCTATGATT
* * * * *
146002 GAATCTAGCAAAA-GGTCGATGTTGATCCATCTCCTTATA-G-GATTAAATCGAGCGAAAGGGAA
1 GAATCTAGCAAAAGGGT-GATGCTAATCCAACT--TTATAGGTGATGAAATCGAGCAAAAGGGAA
146064 ATCCTGATCCAACTCCTTATGAGATA
63 ATCCTGATCCAACTCCTTATGAGATA
* * * ** *
146090 GAATTTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGATGAAATTGAGCAAAAGGGTGATG
1 GAATCTAGCAAAAGGGTGATGCTAATCCAACTTTATAGGTGATGAAATCGAGCAAAAGGGAAATC
* ** * *
146155 TTGATTTAACTCTTTATGATATA
66 CTGATCCAACTCCTTATGAGATA
* * * * * *
146178 GAATCTAGCAAAAGGGTGATGCTGATCTAACTTTTTATGTGATGGAATCGAGTAAAAG
1 GAATCTAGCAAAAGGGTGATGCTAATCCAACTTTATAGGTGATGAAATCGAGCAAAAG
146236 AGTGATGCTG
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
86 4 0.03
87 1 0.01
88 112 0.93
89 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (88 bp):
GAATCTAGCAAAAGGGTGATGCTAATCCAACTTTATAGGTGATGAAATCGAGCAAAAGGGAAATC
CTGATCCAACTCCTTATGAGATA
Found at i:146241 original size:88 final size:88
Alignment explanation
Indices: 146074--146247 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 88
146064 ATCCTGATCC
* *
146074 AACTCCTTATGAGATAGAATTTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGATGAAATT
1 AACTCCTTATGAGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGATGAAATC
* *
146139 GAGCAAAAGGGTGATGTTGATTT
66 GAGCAAAAGAGTGATGCTGATTT
* * * * * *
146162 AACTCTTTATGATATAGAATCTAGCAAAAGGGTGATGCTGATCTAACTTTTTATGTGATGGAATC
1 AACTCCTTATGAGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGATGAAATC
*
146227 GAGTAAAAGAGTGATGCTGAT
66 GAGCAAAAGAGTGATGCTGAT
146248 CCGACTCCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (88 bp):
AACTCCTTATGAGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGATGAAATC
GAGCAAAAGAGTGATGCTGATTT
Found at i:146268 original size:88 final size:88
Alignment explanation
Indices: 146067--146269 Score: 246
Period size: 88 Copynumber: 2.3 Consensus size: 88
146057 AAGGGAAATC
* *
146067 CTGATCCAACTCCTTATGAGATAGAATTTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGA
1 CTGATCCAACTCCTTATGTGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGA
* *
146132 TGAAATTGAGCAAAAGGGTGATG
66 TGAAATCGAGCAAAAGAGTGATG
* ** * * * *
146155 TTGATTTAACTCTTTATGAT-ATAGAATCTAGCAAAAGGGTGATGCTGATCTAACTTTTTATGTG
1 CTGATCCAACTCCTTATG-TGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTG
* *
146219 ATGGAATCGAGTAAAAGAGTGATG
65 ATGAAATCGAGCAAAAGAGTGATG
* * *
146243 CTGATCCGACTCCTCATGTGGTAGAAT
1 CTGATCCAACTCCTTATGTGATAGAAT
146270 TGAGTTTGTA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
87 1 0.01
88 92 0.99
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (88 bp):
CTGATCCAACTCCTTATGTGATAGAATCTAGCAAAAGGGTGATGCTAATCCAACTTTTTAGGTGA
TGAAATCGAGCAAAAGAGTGATG
Found at i:155636 original size:14 final size:14
Alignment explanation
Indices: 155617--155650 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
155607 TGAGTTCATG
*
155617 GATGATGTGAGGAA
1 GATGATGTAAGGAA
155631 GATGATGTAAGGAA
1 GATGATGTAAGGAA
155645 GATGAT
1 GATGAT
155651 ATCATGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (14 bp):
GATGATGTAAGGAA
Found at i:157118 original size:102 final size:104
Alignment explanation
Indices: 156964--157151 Score: 265
Period size: 103 Copynumber: 1.8 Consensus size: 104
156954 GTGCCAACAA
* * * *
156964 TATCGATACTGAACCGTTGGGTATCGATACTCTCATGATTATTGATATCAAATTT-GCTTTAATG
1 TATCGATACTGAACCGTTGGGTATCGATACTCCCATGAGTATTGATACCAAATTTGGCTTCAATG
*
157028 TTTTTAAAAATACCTTGGTATTAAAACTCCTATGAGGAG
66 TTTTTAAAAATACCTTAGTATTAAAACTCCTATGAGGAG
** *
157067 TATCGATACTTTACC-TTGGGTATCGATACTCCCATGAGTATCT-ATACCAAATTTGGCTTCGAT
1 TATCGATACTGAACCGTTGGGTATCGATACTCCCATGAGTAT-TGATACCAAATTTGGCTTCAAT
*
157130 GTTTTTAAAAATGCCTTAGTAT
65 GTTTTTAAAAATACCTTAGTAT
157152 CGATACCAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
102 34 0.46
103 40 0.54
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (104 bp):
TATCGATACTGAACCGTTGGGTATCGATACTCCCATGAGTATTGATACCAAATTTGGCTTCAATG
TTTTTAAAAATACCTTAGTATTAAAACTCCTATGAGGAG
Found at i:167674 original size:18 final size:18
Alignment explanation
Indices: 167651--167693 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
167641 ATGCAATTAA
167651 TATCGATACTGAGGTGGG
1 TATCGATACTGAGGTGGG
167669 TATCGATACTGAGGTGGG
1 TATCGATACTGAGGTGGG
167687 TATCGAT
1 TATCGAT
167694 TCTATGGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (18 bp):
TATCGATACTGAGGTGGG
Found at i:167786 original size:22 final size:19
Alignment explanation
Indices: 167740--167790 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
167730 TGCATAAATG
*
167740 GTATCGATACCATATGAGA
1 GTATCGGTACCATATGAGA
167759 GTATCGGTACCATAGTGTAGAA
1 GTATCGGTACCATA-TG-AG-A
167781 GTATCGGTAC
1 GTATCGGTAC
167791 TAAGCGACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 2 0.07
22 11 0.39
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (19 bp):
GTATCGGTACCATATGAGA
Found at i:168298 original size:55 final size:55
Alignment explanation
Indices: 168235--168772 Score: 706
Period size: 55 Copynumber: 9.8 Consensus size: 55
168225 GGCACTATAC
*
168235 GTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGTACTGTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * *
168289 GTGCAAAACTAAGTAATTCATAATAAGTTTAT-AAATTTCTGTATGGGCACTTTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTGTGT
* * *
168344 GTTCAAAACTAAGTAATTCATAATAAGTTTAT-AAATTTCTGTATGGGCACTGTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTGTGT
* *
168399 GTGCAAAACTAAGAAATTCATAACAAGTTTATGAATTTCCGTATGGGCACTGTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * * * *
168454 GTGCAAGACTAAGAAATTCATAATAAGTTTATTAATTTCCTTATGGGCACTTTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * * * *
168509 GTGTAAGACTAATAAATTCATAATAA-TTCTATGAATTTACATATGGGCACTGTGT
1 GTGCAAAACTAAGAAATTCATAATAAGTT-TATGAATTTTCGTATGGGCACTGTGT
* * *
168564 GTGCAAGACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGGCACTATGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * * *
168619 GTGCAAGACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCACTATGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * * * *
168674 GTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGAATGGGAAATATGT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
* * * *
168729 GTACGAAACTAAAAAATTCATAATAAGTTTATGAATTTCCGTAT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
168773 TGGTAGTGGG
Statistics
Matches: 435, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
54 12 0.03
55 416 0.96
56 7 0.02
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (55 bp):
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGTGT
Found at i:170476 original size:20 final size:19
Alignment explanation
Indices: 170426--170478 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
170416 TAATAAAAAC
* *
170426 ATATAAAAAGATAACAATA
1 ATATAAAAATATTACAATA
* *
170445 ATAATAATAATATTACTATA
1 AT-ATAAAAATATTACAATA
170465 TATATAAAAATATT
1 -ATATAAAAATATT
170479 TTCCAAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATAAAAATATTACAATA
Found at i:170559 original size:37 final size:37
Alignment explanation
Indices: 170483--170780 Score: 268
Period size: 37 Copynumber: 8.3 Consensus size: 37
170473 AATATTTTCC
* * *
170483 AAAAC-ATATAATATATA-AATTTCTAAAATGTTTTG
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
* *
170518 AAAACTATATAATATATATGTTTTCAAAAATGATTTA
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
*
170555 AAAACTATATAATATATATATTTT-AAAAATTATTTTAA
1 AAAACTATATAATATATATATTTTCAAAAA-TGTTTT-A
*
170593 AAAACTATATTATATATATATATATTC-AAAATGTTTTCA
1 AAAACTATA-TA-ATATATATATTTTCAAAAATGTTTT-A
*
170632 AAAAC--TAT-ATA-ATATA---T---AAATGTTTTC
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
* * ** *
170659 AAAACCATATATTATATAAGTTTTCAAAAAATGTTTTC
1 AAAACTATATAATATATATATTTTC-AAAAATGTTTTA
* **
170697 AAAACTATATATTATATATATTTTCTTAAATGTTTTA
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
170734 AAAACTATAT-AT-TATATAGTTTTCAAAAATGTTTTA
1 AAAACTATATAATATATATA-TTTTCAAAAATGTTTTA
*
170770 AAAAATATATA
1 AAAACTATATA
170781 TTTTCAAAAT
Statistics
Matches: 218, Mismatches: 25, Indels: 38
0.78 0.09 0.14
Matches are distributed among these distances:
27 5 0.02
28 9 0.04
29 3 0.01
30 3 0.01
31 3 0.01
33 5 0.02
34 4 0.02
35 11 0.05
36 43 0.20
37 61 0.28
38 42 0.19
39 13 0.06
40 16 0.07
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (37 bp):
AAAACTATATAATATATATATTTTCAAAAATGTTTTA
Found at i:170640 original size:28 final size:28
Alignment explanation
Indices: 170605--170687 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 28
170595 AACTATATTA
170605 TATATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATATATA-T--AAATGTTTTC-AAAAC
170637 TATATA-ATATATAAATGTTTTCAAAAC
1 TATATATATATATAAATGTTTTCAAAAC
*
170664 CATATAT-TATAT-AA-GTTTTCAAAA
1 TATATATATATATAAATGTTTTCAAAA
170688 AATGTTTTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
25 10 0.20
26 2 0.04
27 15 0.31
28 10 0.20
30 1 0.02
31 5 0.10
32 6 0.12
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (28 bp):
TATATATATATATAAATGTTTTCAAAAC
Found at i:170653 original size:104 final size:102
Alignment explanation
Indices: 170545--170751 Score: 258
Period size: 104 Copynumber: 2.0 Consensus size: 102
170535 ATGTTTTCAA
* *
170545 AAATGATTTAAAAACTATATAATATATATA-TTTT-AAAAATTATTTTAAAAAACTATATTATAT
1 AAATGATTTAAAAACCATATAATATATA-AGTTTTCAAAAAATATTTT-AAAAACTATA-TAT-T
170608 ATATATATATTC-AAAATGTTTTCAAAAACTATATAATATAT
62 ATATATATATTCTAAAATGTTTT-AAAAACTATATAATATAT
* * * * *
170649 AAATGTTTTCAAAACCATATATTATATAAGTTTTCAAAAAATGTTTTCAAAACTATATATTATAT
1 AAATGATTTAAAAACCATATAATATATAAGTTTTCAAAAAATATTTTAAAAACTATATATTATAT
* * *
170714 ATATTTTCTTAAATGTTTTAAAAACTATATATTATAT
66 ATATATTCTAAAATGTTTTAAAAACTATATAATATAT
170751 A
1 A
170752 GTTTTCAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
102 30 0.33
103 13 0.14
104 37 0.41
105 10 0.11
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (102 bp):
AAATGATTTAAAAACCATATAATATATAAGTTTTCAAAAAATATTTTAAAAACTATATATTATAT
ATATATTCTAAAATGTTTTAAAAACTATATAATATAT
Found at i:170689 original size:27 final size:28
Alignment explanation
Indices: 170621--170688 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
170611 TATATATTCA
*
170621 AAATGTTTTCAAAAACTATATAATATAT
1 AAATGTTTTCAAAAACCATATAATATAT
*
170649 AAATGTTTTC-AAAACCATATATTATAT
1 AAATGTTTTCAAAAACCATATAATATAT
170676 -AA-GTTTTCAAAAA
1 AAATGTTTTCAAAAA
170689 ATGTTTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 6 0.16
26 6 0.16
27 15 0.41
28 10 0.27
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (28 bp):
AAATGTTTTCAAAAACCATATAATATAT
Found at i:170789 original size:27 final size:29
Alignment explanation
Indices: 170746--170805 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 29
170736 AACTATATAT
*
170746 TATATAGTTTTCAAAAATGTTTTAAAAAA
1 TATATAGTTTTCAAAAATATTTTAAAAAA
*
170775 TATATA-TTTTC-AAAATATTTTAAAAAC
1 TATATAGTTTTCAAAAATATTTTAAAAAA
170802 TATA
1 TATA
170806 ATCATATACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.62
28 5 0.17
29 6 0.21
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (29 bp):
TATATAGTTTTCAAAAATATTTTAAAAAA
Found at i:171737 original size:3 final size:3
Alignment explanation
Indices: 171716--171757 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
171706 ATTTTATCAT
171716 TAA TAA TATA TACA T-A TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
171758 TATTTTCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:171791 original size:2 final size:2
Alignment explanation
Indices: 171779--171816 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
171769 CACATATAAC
* *
171779 AT AT AT GT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
171817 GCATGTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:171865 original size:22 final size:22
Alignment explanation
Indices: 171839--171880 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
171829 TAACTATTTT
*
171839 CATACTCATAATATATATTTCA
1 CATACACATAATATATATTTCA
* *
171861 CATACACATCATATTTATTT
1 CATACACATAATATATATTT
171881 AATAATAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (22 bp):
CATACACATAATATATATTTCA
Found at i:174385 original size:21 final size:20
Alignment explanation
Indices: 174360--174399 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
174350 ATTGCAAAGG
174360 CAGTATCGATAATCACCTTCC
1 CAGTATCGATAATC-CCTTCC
* *
174381 CAGTATTGATACTCCCTTC
1 CAGTATCGATAATCCCTTC
174400 TGAAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
CAGTATCGATAATCCCTTCC
Found at i:183340 original size:209 final size:210
Alignment explanation
Indices: 182980--183396 Score: 782
Period size: 209 Copynumber: 2.0 Consensus size: 210
182970 GTTGAGCTTA
* * *
182980 ACATCAATCATCGAAGGCTACTTGCTGGTAATAATAATGACATCCTACTATTGATCTGATTTCTA
1 ACATCAATCATCGAAGACTACTTACCGGTAATAATAATGACATCCTACTATTGATCTGATTTCTA
*
183045 GTTGGCATGTATACATATAATAAATGTTTGCAATATCTTAATATGTTATATTTTGAATTGGGTTA
66 GTTGGCATGTATACATATAATAAATGTATGCAATATCTTAATATGTTATATTTTGAATTGGGTTA
183110 GAAAAGATCTGATATATTTATAATGCTTAAAAGATTTGTTATAGATTATATTTGTGTACTTAGTA
131 GAAAAGATCTGATATATTTATAATGCTTAAAAGATTTGTTATAGATTATATTTGTGTACTTAGTA
183175 TATATATA-ATAATG
196 TATATATATATAATG
183189 ACATCAATCATCGAAGACTACTTACCGGTAATAATAATGACATCCTACTATTGATCTGATTTCTA
1 ACATCAATCATCGAAGACTACTTACCGGTAATAATAATGACATCCTACTATTGATCTGATTTCTA
183254 GTTGGCATGTATACATATAATAAATGTATGCAATATCTTAATATGTTATATTTTGAATTGGGTTA
66 GTTGGCATGTATACATATAATAAATGTATGCAATATCTTAATATGTTATATTTTGAATTGGGTTA
*
183319 GAAAAGATCTGATATATTTATAATGCTTAAAAGATTTGTTATAGATTATATTTGTGTACTTAGTG
131 GAAAAGATCTGATATATTTATAATGCTTAAAAGATTTGTTATAGATTATATTTGTGTACTTAGTA
183384 TATATATATATAA
196 TATATATATATAA
183397 GTTGTTTTTG
Statistics
Matches: 202, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
209 198 0.98
210 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (210 bp):
ACATCAATCATCGAAGACTACTTACCGGTAATAATAATGACATCCTACTATTGATCTGATTTCTA
GTTGGCATGTATACATATAATAAATGTATGCAATATCTTAATATGTTATATTTTGAATTGGGTTA
GAAAAGATCTGATATATTTATAATGCTTAAAAGATTTGTTATAGATTATATTTGTGTACTTAGTA
TATATATATATAATG
Found at i:188685 original size:55 final size:55
Alignment explanation
Indices: 188619--188878 Score: 414
Period size: 55 Copynumber: 4.7 Consensus size: 55
188609 AATGAGACTA
*
188619 TGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTG
*
188673 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTG
* * *
188728 TGTGTGCAAAACTAAGAATTTCATAATAAGTTTATGAATTTCCTTATAGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTG
* * * *
188783 TGTTTGCAAAACTAAGAAATTCATAGTAAGTTTATGAATTACCTTATGGGAACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTG
* *
188838 TATGTGCAAAACTAAGCAATTCATAATAAGTTTATGAATTT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
188879 TCGTATTGAT
Statistics
Matches: 188, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
54 7 0.04
55 181 0.96
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (55 bp):
TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTG
Done.