Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 190 of 311
Found at i:65387071 original size:6 final size:6
Alignment explanation
Indices: 65387059--65387098 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
65387049 TTGGACTTTG
* *
65387059 TTTTAT TTCTAT TTTTAT TTTTAT CTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
65387099 TTTGAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:65426245 original size:25 final size:24
Alignment explanation
Indices: 65426211--65426257 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
65426201 TAAAGAAATG
*
65426211 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
65426236 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
65426258 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:65427631 original size:79 final size:81
Alignment explanation
Indices: 65427495--65427677 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
65427485 TCGAATGATG
* *
65427495 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65427559 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
65427574 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
65427636 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
65427654 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65427678 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:65427693 original size:40 final size:40
Alignment explanation
Indices: 65427496--65427679 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
65427486 CGAATGATGT
* * * *
65427496 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
65427536 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
65427576 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65427614 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65427655 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65427680 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65427701 original size:79 final size:79
Alignment explanation
Indices: 65427548--65427712 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
65427538 GGACTAAGAT
* **
65427548 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
65427613 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
65427627 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
65427690 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
65427706 CCGAAGG
1 CCGAAGG
65427713 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:65439904 original size:93 final size:93
Alignment explanation
Indices: 65439775--65439946 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65439765 CGCCCATAAG
* * *
65439775 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65439840 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
65439868 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65439933 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65439947 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65439943 original size:46 final size:46
Alignment explanation
Indices: 65439768--65439943 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
65439758 TGTAACCCGC
* * * *
65439768 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65439814 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65439864 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65439907 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65439944 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65439962 original size:46 final size:46
Alignment explanation
Indices: 65439817--65439955 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
65439807 TTCGCATCCA
65439817 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
65439865 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
65439910 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
65439956 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:65447060 original size:93 final size:93
Alignment explanation
Indices: 65446948--65447119 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
65446938 CGCCCATAAG
*
65446948 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
65447012 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
65447041 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65447106 ACGTGTTCGGATGC
66 ACGAGTTCGGATGC
65447120 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65447114 original size:46 final size:46
Alignment explanation
Indices: 65446941--65447116 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
65446931 TGTAACCCGC
* *
65446941 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
65446987 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65447037 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65447080 CCATAAGTGAACTCGGACTCAACTCAACGTGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65447117 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65447135 original size:46 final size:44
Alignment explanation
Indices: 65446949--65447135 Score: 139
Period size: 46 Copynumber: 4.0 Consensus size: 44
65446939 GCCCATAAGC
* * * * *
65446949 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATCTAGT
*
65446995 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
65447042 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
*
65447088 GAACTCGGACTCAACTCAACGTGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
65447134 GA
1 GA
65447136 CATGTCACTT
Statistics
Matches: 113, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 60 0.53
47 31 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:65449930 original size:47 final size:47
Alignment explanation
Indices: 65449856--65450220 Score: 241
Period size: 47 Copynumber: 7.7 Consensus size: 47
65449846 GGGTATAATG
* *
65449856 CCGATGCCATGTCCCAGACATGATCTTACAGTGGCTCATCAATCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAATCAAGT
* * ** *
65449904 -CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AATCAAGT
* * * *
65449952 CCGACGCCGTGTCCCAGACATGGTCTTACACTAGCTCTGACATATC-TGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CA-ATCAAGT
* * * * * *
65450001 ACCAATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTAT-ACGTT
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCAATCAAG-T
* * * *
65450050 CCGATGCCATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA-ATCAAGT
* * **
65450097 CCGATG-CATGTCTCAGACAT-GTCTTACACTAGCTCTCGTCTCAA-T
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AATCAAGT
* * *
65450142 ACCAATGCTATGTCCCAGACATGGTCTTACACTAGCTCTC-AT-AATGT
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAATCAA-GT
*
65450189 GGCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 --CCGATGCCATGTCCCAGACATGGTCTTACACT
65450221 AGTAGACAAA
Statistics
Matches: 248, Mismatches: 48, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
45 3 0.01
46 49 0.20
47 78 0.31
48 48 0.19
49 36 0.15
50 31 0.12
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAATCAAGT
Found at i:65450167 original size:141 final size:145
Alignment explanation
Indices: 65449859--65450174 Score: 360
Period size: 146 Copynumber: 2.2 Consensus size: 145
65449849 TATAATGCCG
* * * * * * * *
65449859 ATGCCATGTCCCAGACATGATCTTACAGTGGCTCATCAATCAAG-T-CGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGTTCCGATGCCATGTCCCAAAC
*
65449922 ATGGTCTTACACTGACTATCAAAATTGAGGCCGACGCCGTGTCCCAGACATGGTCTTACACTAGC
65 ATGGTCTTACACTGACTAT-AAAATTGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGC
**
65449987 TCTGACATATCTGTACCA
129 TCT-ACATATCAATACCA
*
65450005 ATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGTTCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTTCCGATGCCATGTCCCAAACA
* * * *
65450070 T-GTCTTACACTGGCT-T-ACATCTCGAGGCCGATG-CATGTCTCAGACAT-GTCTTACACTAGC
66 TGGTCTTACACTGACTATAAAAT-T-GAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGC
* *
65450130 TCT-CGTCTCAATACCA
129 TCTACATATCAATACCA
*
65450146 ATGCTATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
65450175 AGCTCTCATA
Statistics
Matches: 146, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
141 36 0.25
143 19 0.13
144 13 0.09
145 12 0.08
146 47 0.32
147 19 0.13
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (145 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTTCCGATGCCATGTCCCAAACA
TGGTCTTACACTGACTATAAAATTGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC
TACATATCAATACCA
Found at i:65456983 original size:28 final size:28
Alignment explanation
Indices: 65456943--65457033 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
65456933 ATTGCATGAT
**
65456943 TATGAATGTGATTGGGCCTGACAGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
65456971 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
65456999 TATGAATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
65457027 TATGAAT
1 TATGAAT
65457034 AAGATTGGAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 2 0.03
28 56 0.97
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:65458736 original size:13 final size:13
Alignment explanation
Indices: 65458718--65458742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65458708 ACAAATGATA
65458718 AAATTTTCACACG
1 AAATTTTCACACG
65458731 AAATTTTCACAC
1 AAATTTTCACAC
65458743 AAGTCAATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:65461892 original size:46 final size:46
Alignment explanation
Indices: 65461791--65461878 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
65461781 TGTAACCCGC
* * * *
65461791 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* * *
65461837 CCATAAGTGAACTTGGACTCAACTCAACGAGCTTGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
65461879 AACCATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:65472979 original size:30 final size:31
Alignment explanation
Indices: 65472905--65472987 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
65472895 TCAATCTTAA
65472905 CATAT-ACTGGGCCGAAGCCTTTCCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
* * *
65472935 CATGTCACTAGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
65472965 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65472988 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 26 0.55
31 21 0.45
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATTATT
Found at i:65473236 original size:25 final size:25
Alignment explanation
Indices: 65473208--65473278 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
65473198 CTCTTTTAAT
65473208 AACTGGGGAAAAGCCC-TTTCTGATA
1 AACTGGGGAAAAGCCCTTTTC-GATA
* * *
65473233 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGAAAAGCCCTTTTCGATA
* *
65473258 AATTGGGACAAAAGCCCTTTT
1 AACTGGG-GAAAAGCCCTTTT
65473279 GCACTTCCTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 22 0.59
26 15 0.41
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (25 bp):
AACTGGGGAAAAGCCCTTTTCGATA
Found at i:65480908 original size:30 final size:31
Alignment explanation
Indices: 65480838--65480920 Score: 134
Period size: 30 Copynumber: 2.7 Consensus size: 31
65480828 TCAATCTCAA
65480838 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
65480868 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
65480898 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65480921 ACTGTAAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 27 0.55
31 22 0.45
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:65481166 original size:24 final size:24
Alignment explanation
Indices: 65481116--65481211 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 24
65481106 TTTATCATAT
65481116 AACTGGAGGCATAA-CCTCTTTTAAT-
1 AACTGG-GGCA-AAGCC-CTTTTAATA
*
65481141 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTGGGGCAAAGCCCTTT-TAATA
* *
65481166 AACTAGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTT-AATA
*
65481191 AACTGGGGCAAAAGCTCTTTT
1 AACTGGGGC-AAAGCCCTTTT
65481212 GCAGCTCCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.10
24 10 0.17
25 34 0.57
26 10 0.17
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTAATA
Found at i:65481204 original size:26 final size:26
Alignment explanation
Indices: 65481141--65481211 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
65481131 CTCTTTTAAT
*
65481141 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAGATA
*
65481166 AACTAGGGCAAAGCCCTTTTCAG-TA
1 AACTGGGGCAAAGCCCTTTTCAGATA
*
65481191 AACTGGGGCAAAAGCTCTTTT
1 AACTGGGGC-AAAGCCCTTTT
65481212 GCAGCTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.62
26 15 0.38
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCAGATA
Found at i:65483422 original size:17 final size:16
Alignment explanation
Indices: 65483396--65483429 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
65483386 CGAGCTCATA
65483396 TAAAATTTTTAAAACT
1 TAAAATTTTTAAAACT
*
65483412 TAAACATTTTTCAAACT
1 TAAA-ATTTTTAAAACT
65483429 T
1 T
65483430 GTACAGGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAATTTTTAAAACT
Found at i:65488832 original size:43 final size:42
Alignment explanation
Indices: 65488683--65488854 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 42
65488673 ATATTAGGTT
*
65488683 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATAT-TGATTACATGTAAGACCATGTCTGGGACATTGGC
* *
65488726 ATTG-TATTGAGTTACATGTAAGACCATGTTTGGGACATTGGC
1 ATCGATATTGA-TTACATGTAAGACCATGTCTGGGACATTGGC
* * * * * * *
65488768 ATC-ATTAATCGATTTCGTGTAAGACCCTGTGTGGAACAATGGC
1 ATCGA-T-ATTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * *
65488811 ATCGATATGTGATAACATGTAAGACCATATCTGGGATA-TGGC
1 ATCGATAT-TGATTACATGTAAGACCATGTCTGGGACATTGGC
65488853 AT
1 AT
65488855 TGTACAAGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
41 3 0.03
42 42 0.41
43 53 0.51
44 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
ATCGATATTGATTACATGTAAGACCATGTCTGGGACATTGGC
Found at i:65492227 original size:28 final size:27
Alignment explanation
Indices: 65492141--65492230 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
65492131 GTGACAGAGT
*
65492141 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
65492170 CACCAGAATAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
65492197 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
65492225 CACCAG
1 CACCAG
65492231 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:65492383 original size:28 final size:28
Alignment explanation
Indices: 65492336--65492400 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
65492326 AAATTAACCC
*
65492336 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
65492364 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
65492392 TAGGGGTAT
1 TAGGGGTAT
65492401 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:65500071 original size:28 final size:27
Alignment explanation
Indices: 65499985--65500074 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
65499975 GTGACAGAGT
* *
65499985 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ATAGATAATTTGTGGCA-TGC
**
65500014 CACCAGAATAGAT-ATACGTGGCATGGC
1 CACCAGAATAGATAATTTGTGGCAT-GC
65500041 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAATAGATAATTTGTGGCAT-GC
65500069 CACCAG
1 CACCAG
65500075 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (27 bp):
CACCAGAATAGATAATTTGTGGCATGC
Found at i:65500366 original size:19 final size:19
Alignment explanation
Indices: 65500342--65500396 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 19
65500332 ATTGGGCCCG
65500342 TTGGCCCCTTAACCCAGTT
1 TTGGCCCCTTAACCCAGTT
65500361 TTGGCCCCTTAACCCAGTT
1 TTGGCCCCTTAACCCAGTT
*
65500380 TTGGCCCATTAAGCCCA
1 TTGGCCCCTTAA-CCCA
65500397 AAATATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 30 0.88
20 4 0.12
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.29
Consensus pattern (19 bp):
TTGGCCCCTTAACCCAGTT
Found at i:65502041 original size:43 final size:43
Alignment explanation
Indices: 65501980--65502095 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
65501970 AAAAATGCCA
65501980 CTAAAAGTCGTGGCTTTTAGCGGCGTTTGTT-GGGAAAGCGCCG
1 CTAAAAGTCGTGGCTTTTAGCGGCGTTT-TTGGGGAAAGCGCCG
* * *
65502023 CTAAAGGTCGTGGCTTTTAGCGGCATTTTTGGGGAAAGTGCCG
1 CTAAAAGTCGTGGCTTTTAGCGGCGTTTTTGGGGAAAGCGCCG
* *
65502066 CTAAAAGTTGTGGCTTTTAGCAGCGTTTTT
1 CTAAAAGTCGTGGCTTTTAGCGGCGTTTTT
65502096 TTTGGCAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (43 bp):
CTAAAAGTCGTGGCTTTTAGCGGCGTTTTTGGGGAAAGCGCCG
Found at i:65502112 original size:44 final size:42
Alignment explanation
Indices: 65501980--65502113 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 42
65501970 AAAAATGCCA
*
65501980 CTAAAAGTCGTGGCTTTTAGCGGCGTTTGTTGGGAAAGCGCCG
1 CTAAAAGTCGTGGCTTTTAGC-GCGTTTTTTGGGAAAGCGCCG
* * * *
65502023 CTAAAGGTCGTGGCTTTTAGCGGCATTTTTGGGGAAAGTGCCG
1 CTAAAAGTCGTGGCTTTTAGC-GCGTTTTTTGGGAAAGCGCCG
* *
65502066 CTAAAAGTTGTGGCTTTTAGCAGCGTTTTTTTTGGCAAA-CGCCG
1 CTAAAAGTCGTGGCTTTTAGC-GCG--TTTTTTGGGAAAGCGCCG
65502110 CTAA
1 CTAA
65502114 TTTTGACAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
43 59 0.77
44 8 0.10
45 10 0.13
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (42 bp):
CTAAAAGTCGTGGCTTTTAGCGCGTTTTTTGGGAAAGCGCCG
Found at i:65502505 original size:21 final size:21
Alignment explanation
Indices: 65502481--65502534 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
65502471 TCTATTGCCA
*
65502481 TCGCTGTTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
65502502 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
65502523 TCTCTGCTGCCT
1 TCGCTGCTGCCT
65502535 TTGCTCTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.20, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:65508041 original size:16 final size:16
Alignment explanation
Indices: 65508020--65508121 Score: 95
Period size: 16 Copynumber: 6.4 Consensus size: 16
65508010 ATTAAGTTAA
65508020 GTAAGTCATGTATTAT
1 GTAAGTCATGTATTAT
65508036 GTAAGTCATGTATTAT
1 GTAAGTCATGTATTAT
*
65508052 GTAAGTTATGTAAATTAT
1 GTAAGTCATGT--ATTAT
*
65508070 GTAAGTCATGAATT-T
1 GTAAGTCATGTATTAT
* *
65508085 -TGA-TC-TTTAAATTAT
1 GTAAGTCATGT--ATTAT
*
65508100 GTAAGTTATGTATTAT
1 GTAAGTCATGTATTAT
65508116 GTAAGT
1 GTAAGT
65508122 TATGAAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
12 1 0.01
13 2 0.03
14 5 0.07
15 2 0.03
16 42 0.61
17 1 0.01
18 16 0.23
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (16 bp):
GTAAGTCATGTATTAT
Found at i:65508060 original size:9 final size:9
Alignment explanation
Indices: 65508012--65508347 Score: 94
Period size: 9 Copynumber: 37.7 Consensus size: 9
65508002 TAAGTATAAT
*
65508012 TAAGTTAAG
1 TAAGTTATG
*
65508021 TAAGTCATG
1 TAAGTTATG
65508030 T-A-TTATG
1 TAAGTTATG
*
65508037 TAAGTCATG
1 TAAGTTATG
65508046 T-A-TTATG
1 TAAGTTATG
65508053 TAAGTTATG
1 TAAGTTATG
*
65508062 TAAATTATG
1 TAAGTTATG
*
65508071 TAAGTCATG
1 TAAGTTATG
* *
65508080 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
65508092 TAAATTATG
1 TAAGTTATG
65508101 TAAGTTATG
1 TAAGTTATG
65508110 T-A-TTATG
1 TAAGTTATG
65508117 TAAGTTATG
1 TAAGTTATG
*
65508126 -AAATT-TG
1 TAAGTTATG
* **
65508133 -AACTTTAAA
1 TAA-GTTATG
*
65508142 TTA-TTATG
1 TAAGTTATG
*
65508150 TAAATTATG
1 TAAGTTATG
*
65508159 TAAATTATG
1 TAAGTTATG
*
65508168 TAACTTATG
1 TAAGTTATG
* * * *
65508177 AAATTTGGTCTT
1 TAA---GTTATG
* *
65508189 TAAATTATA
1 TAAGTTATG
65508198 TAAGTTATG
1 TAAGTTATG
*
65508207 T-A-TCATG
1 TAAGTTATG
65508214 TAAGTTATG
1 TAAGTTATG
* * *
65508223 AAATTTGATCTT
1 TAAGTT-A--TG
*
65508235 TAAATTATG
1 TAAGTTATG
*
65508244 TAAGTCATG
1 TAAGTTATG
65508253 T-A-TTATG
1 TAAGTTATG
*
65508260 TAAGTTAAG
1 TAAGTTATG
*
65508269 TAAATTATG
1 TAAGTTATG
65508278 TAAGTTATG
1 TAAGTTATG
* * *
65508287 AAATTTGAACTT
1 TAAGTT--A-TG
*
65508299 TAAATTATG
1 TAAGTTATG
65508308 TAAGTTATG
1 TAAGTTATG
65508317 T-A-TTATG
1 TAAGTTATG
*
65508324 TAAATTATG
1 TAAGTTATG
*
65508333 TAAATTATG
1 TAAGTTATG
*
65508342 TGAGTT
1 TAAGTT
65508348 GCTGGTGAAC
Statistics
Matches: 238, Mismatches: 59, Indels: 60
0.67 0.17 0.17
Matches are distributed among these distances:
7 36 0.15
8 25 0.11
9 151 0.63
10 4 0.02
11 3 0.01
12 17 0.07
13 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65508133 original size:46 final size:46
Alignment explanation
Indices: 65508047--65508266 Score: 296
Period size: 46 Copynumber: 4.6 Consensus size: 46
65508037 TAAGTCATGT
* *
65508047 ATTATGTAAGTTATGTAAATTATGTAAGTCATGAATTTTGATCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
*
65508095 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTT-AA
* * *
65508142 TTATTATGTAAATTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAA
1 --ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
* *
65508192 ATTATATAAGTTATGTATCATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
*
65508238 ATTATGTAAGTCATGTATTATGTAAGTTA
1 ATTATGTAAGTTATGTATTATGTAAGTTA
65508267 AGTAAATTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 78 0.51
47 2 0.01
48 30 0.20
49 15 0.10
50 2 0.01
51 25 0.16
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:65508215 original size:97 final size:97
Alignment explanation
Indices: 65508046--65508242 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 97
65508036 GTAAGTCATG
* * * *
65508046 TATTATGTAAGTTATGTAAATTATGTAAGTCATGAATTTTGATCTTTAAATTATGTAAGTTATGT
1 TATTATGTAAATTATGTAAATTATGTAACTCATGAAATTTGATCTTTAAATTATATAAGTTATGT
*
65508111 ATTATGTAAGTTATGAAATTTGAACTTTAAAT
66 ATCATGTAAGTTATGAAATTTGAACTTTAAAT
* *
65508143 TATTATGTAAATTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAAATTATATAAGTTATGT
1 TATTATGTAAATTATGTAAATTATGTAACTCATGAAATTTGATCTTTAAATTATATAAGTTATGT
*
65508208 ATCATGTAAGTTATGAAATTTGATCTTTAAAT
66 ATCATGTAAGTTATGAAATTTGAACTTTAAAT
65508240 TAT
1 TAT
65508243 GTAAGTCATG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.47
Consensus pattern (97 bp):
TATTATGTAAATTATGTAAATTATGTAACTCATGAAATTTGATCTTTAAATTATATAAGTTATGT
ATCATGTAAGTTATGAAATTTGAACTTTAAAT
Found at i:65508245 original size:30 final size:30
Alignment explanation
Indices: 65508211--65508316 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 30
65508201 GTTATGTATC
*
65508211 ATGTAAGTTATGAAATTTGATCTTTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATT
* * *
65508241 ATGTAAGTCATG-TATTATGTAAGTTAAGTAAATT
1 ATGTAAGTTATGAAATT-TG-AACTT---TAAATT
65508275 ATGTAAGTTATGAAATTTGAACTTTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATT
65508305 ATGTAAGTTATG
1 ATGTAAGTTATG
65508317 TATTATGTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
29 3 0.05
30 31 0.49
31 3 0.05
33 4 0.06
34 19 0.30
35 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (30 bp):
ATGTAAGTTATGAAATTTGAACTTTAAATT
Found at i:65508278 original size:34 final size:33
Alignment explanation
Indices: 65508235--65508347 Score: 126
Period size: 34 Copynumber: 3.5 Consensus size: 33
65508225 ATTTGATCTT
* *
65508235 TAAATTATGTAAGTCATGTATTATGTAAGTTAAG
1 TAAATTATGTAAGTTATGTATTATGTAAATT-AG
* *
65508269 TAAATTATGTAAGTTATGAAATT-TG-AACTT--
1 TAAATTATGTAAGTTATG-TATTATGTAAATTAG
65508299 TAAATTATGTAAGTTATGTATTATGTAAATTATG
1 TAAATTATGTAAGTTATGTATTATGTAAATTA-G
*
65508333 TAAATTATGTGAGTT
1 TAAATTATGTAAGTT
65508348 GCTGGTGAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.04
30 20 0.30
31 4 0.06
33 4 0.06
34 33 0.49
35 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (33 bp):
TAAATTATGTAAGTTATGTATTATGTAAATTAG
Found at i:65508279 original size:64 final size:64
Alignment explanation
Indices: 65508211--65508347 Score: 229
Period size: 64 Copynumber: 2.1 Consensus size: 64
65508201 GTTATGTATC
* *
65508211 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATGTAAGTTAAGTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTATTATGTAAATTAAGTAAATT
* *
65508275 ATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATTATGTAAATTATGTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTATTATGTAAATTAAGTAAATT
*
65508339 ATGTGAGTT
1 ATGTAAGTT
65508348 GCTGGTGAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (64 bp):
ATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTATTATGTAAATTAAGTAAATT
Found at i:65508291 original size:97 final size:95
Alignment explanation
Indices: 65508046--65508274 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 95
65508036 GTAAGTCATG
* * * * * * * * *
65508046 TATTATGTAAGTTATGTAAATTATGTAAGTCATGAATTTTGATCTTTAAATTATGTAAGTTATGT
1 TATTATGTAAATCATGT-AATTATGTAACTTAAGAAATTTGGTCTTGAAATTATATAAGTTATGT
*
65508111 ATTATGTAAGTTATGAAATTTGAACTTTAAA
65 ATCATGTAAGTTATGAAATTTGAACTTTAAA
* * *
65508142 TTATTATGTAAATTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAAATTATATAAGTTATG
1 -TATTATGTAAATCATGT-AATTATGTAACTTAAGAAATTTGGTCTTGAAATTATATAAGTTATG
*
65508207 TATCATGTAAGTTATGAAATTTGATCTTT-AA
64 TATCATGTAAGTTATGAAATTTGAACTTTAAA
* *
65508238 -ATTATGTAAGTCATGT-ATTATGTAAGTTAAGTAAATT
1 TATTATGTAAATCATGTAATTATGTAACTTAAG-AAATT
65508275 ATGTAAGTTA
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
92 13 0.11
93 5 0.04
94 14 0.12
96 2 0.02
97 85 0.71
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (95 bp):
TATTATGTAAATCATGTAATTATGTAACTTAAGAAATTTGGTCTTGAAATTATATAAGTTATGTA
TCATGTAAGTTATGAAATTTGAACTTTAAA
Found at i:65508389 original size:17 final size:17
Alignment explanation
Indices: 65508367--65508400 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65508357 CTTGAAAAAA
*
65508367 ATATATTACTTTTGAAT
1 ATATATTAATTTTGAAT
65508384 ATATATTAATTTTGAAT
1 ATATATTAATTTTGAAT
65508401 TAGAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATTAATTTTGAAT
Found at i:65509417 original size:30 final size:30
Alignment explanation
Indices: 65509377--65509437 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65509367 TCCCTAACTC
* *
65509377 AAACTTTTGCAAAATTACAATTTTTCCCCT
1 AAACATTTGCAAAATTACAATTTTGCCCCT
* * *
65509407 AAACATTTGCATATTTACACTTTTGCCCCT
1 AAACATTTGCAAAATTACAATTTTGCCCCT
65509437 A
1 A
65509438 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACATTTGCAAAATTACAATTTTGCCCCT
Found at i:65514677 original size:40 final size:40
Alignment explanation
Indices: 65514593--65514817 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
65514583 TTGAATGATG
* * * *
65514593 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
65514633 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65514673 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65514712 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65514752 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65514793 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65514818 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65514839 original size:119 final size:119
Alignment explanation
Indices: 65514593--65514850 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
65514583 TTGAATGATG
* *
65514593 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
65514658 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
65514712 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
65514775 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
65514832 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65514851 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:65519569 original size:38 final size:39
Alignment explanation
Indices: 65519484--65519573 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
65519474 GCGTACACAC
* * *
65519484 AAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGCT
1 AAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGCT
* * *
65519523 AAGTCCCGAAGGCATTTATGC-AGTGACCATATCCGGTT
1 AAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGCT
65519561 AAGACCCGAAGGC
1 AAGACCCGAAGGC
65519574 CTGTGCGAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 26 0.59
39 18 0.41
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGACCCGAAGGCATTTATGCTAGCGACCATATCCGGCT
Found at i:65526184 original size:35 final size:35
Alignment explanation
Indices: 65526145--65526213 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
65526135 TTCATCCTTT
65526145 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAA
65526180 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGA
65526214 GGAAGGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (35 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAA
Found at i:65527498 original size:40 final size:40
Alignment explanation
Indices: 65527404--65527548 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
65527394 TACTCGAATG
*
65527404 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
65527445 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
65527485 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
65527525 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
65527549 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:65529064 original size:22 final size:21
Alignment explanation
Indices: 65528990--65529064 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
65528980 TTAATTATCG
* *
65528990 TTATAGTTTAGGGTTTATAGT
1 TTATAGTTTAAGGTTTATAGA
** *
65529011 TTAGGGTTTAAGGTTTA-GGA
1 TTATAGTTTAAGGTTTATAGA
*
65529031 GTTACTATTTTAAGGTTTATAGA
1 -TTA-TAGTTTAAGGTTTATAGA
65529054 TTATGAGTTTA
1 TTAT-AGTTTA
65529065 GGGATTATGG
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.45
22 19 0.47
23 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.24, T:0.48
Consensus pattern (21 bp):
TTATAGTTTAAGGTTTATAGA
Found at i:65529085 original size:7 final size:7
Alignment explanation
Indices: 65528990--65529156 Score: 79
Period size: 7 Copynumber: 23.4 Consensus size: 7
65528980 TTAATTATCG
*
65528990 TTATAGT
1 TTATGGT
*
65528997 TTAGGGT
1 TTATGGT
*
65529004 TTATAGT
1 TTATGGT
*
65529011 TTAGGGT
1 TTATGGT
*
65529018 TTAAGGT
1 TTATGGT
*
65529025 TTAGGAGT
1 TTATG-GT
65529033 TACTAT--T
1 T--TATGGT
*
65529040 TTAAGGT
1 TTATGGT
* *
65529047 TTATAGA
1 TTATGGT
65529054 TTATGAGT
1 TTATG-GT
* *
65529062 TTAGGGA
1 TTATGGT
65529069 TTATGGT
1 TTATGGT
*
65529076 TTATGTT
1 TTATGGT
65529083 TTATGGT
1 TTATGGT
65529090 TTATGGT
1 TTATGGT
*
65529097 TTAAGGT
1 TTATGGT
* *
65529104 TTAGGGG
1 TTATGGT
*
65529111 TTA-GAGG
1 TTATG-GT
* *
65529118 TTAAGGG
1 TTATGGT
65529125 TTAGTGGT
1 TTA-TGGT
65529133 TTATGGT
1 TTATGGT
*
65529140 TTATGAT
1 TTATGGT
*
65529147 TTAGGGT
1 TTATGGT
65529154 TTA
1 TTA
65529157 GGGGATAAGG
Statistics
Matches: 122, Mismatches: 29, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 103 0.84
8 14 0.11
10 2 0.02
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:65529140 original size:50 final size:50
Alignment explanation
Indices: 65529082--65529176 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
65529072 TGGTTTATGT
* *
65529082 TTTATGGTTTATGGTTTAAGGTTTAGGGGTTAGAGG-TTAAGGGTTAGTGG
1 TTTATGGTTTATGATTTAAGGTTTAGGGGATA-AGGATTAAGGGTTAGTGG
*
65529132 TTTATGGTTTATGATTTAGGGTTTAGGGGATAAGGATTAAGGGTT
1 TTTATGGTTTATGATTTAAGGTTTAGGGGATAAGGATTAAGGGTT
65529177 TAGATTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (50 bp):
TTTATGGTTTATGATTTAAGGTTTAGGGGATAAGGATTAAGGGTTAGTGG
Found at i:65529177 original size:43 final size:43
Alignment explanation
Indices: 65529086--65529178 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
65529076 TTATGTTTTA
* * *
65529086 TGGTTTATGGTTTAAGGTTTAGGGGTTAGAGGTTAAGGGTTAG
1 TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGATTAG
* * *
65529129 TGGTTTATGGTTTATGATTTAGGGTTTAGGGGATAAGGATTAAG
1 TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGATT-AG
65529173 -GGTTTA
1 TGGTTTA
65529179 GATTAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.41
Consensus pattern (43 bp):
TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGATTAG
Found at i:65530583 original size:207 final size:207
Alignment explanation
Indices: 65530228--65530643 Score: 760
Period size: 207 Copynumber: 2.0 Consensus size: 207
65530218 AAAAAAAGAT
** *
65530228 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCATGGTCTATGGGAACTGTTAGCTCCCGTT
1 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTT
65530293 GGCCGCTGAGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
66 GGCCGCTGAGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
*
65530358 TAACACTTGTAATTTTAAATTGTTTTAAAAACTTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
131 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
65530423 AATATGCAAGTA
196 AATATGCAAGTA
* *
65530435 TTTGAATTCTTATTGAGCAAGCCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTT
1 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTT
* *
65530500 GGCCGCTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCT
66 GGCCGCTGAGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
65530565 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
131 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
65530630 AATATGCAAGTA
196 AATATGCAAGTA
65530642 TT
1 TT
65530644 AGGATGGTTT
Statistics
Matches: 201, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 201 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (207 bp):
TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTT
GGCCGCTGAGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
AATATGCAAGTA
Found at i:65532486 original size:27 final size:25
Alignment explanation
Indices: 65532451--65532561 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 25
65532441 AGCATGGCTG
*
65532451 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTG-CAGAGCCA
65532477 CCAGATACAGATAATCGTGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGCAGAGCCA
*
65532504 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGT-GCAGAGCCA
* *
65532531 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGT-GCAGAGCCA
65532558 CCAG
1 CCAG
65532562 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.19
27 58 0.77
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
CCAGAACAGATAATGTGCAGAGCCA
Found at i:65532510 original size:53 final size:54
Alignment explanation
Indices: 65532451--65532561 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
65532441 AGCATGGCTG
* *
65532451 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGT-GCAGAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
65532504 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
65532558 CCAG
1 CCAG
65532562 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 21 0.41
54 30 0.59
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:65534001 original size:24 final size:24
Alignment explanation
Indices: 65533974--65534044 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
65533964 CTAGATTTCC
**
65533974 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
65533998 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
65534022 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
65534045 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:65534138 original size:17 final size:17
Alignment explanation
Indices: 65534116--65534152 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
65534106 CTTATTGCTG
65534116 TCATTGTGACTTGAACC
1 TCATTGTGACTTGAACC
65534133 TCATTGTGACTTGAACC
1 TCATTGTGACTTGAACC
65534150 TCA
1 TCA
65534153 GCTCTCCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (17 bp):
TCATTGTGACTTGAACC
Found at i:65540223 original size:27 final size:26
Alignment explanation
Indices: 65540188--65540299 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
65540178 AGCATGGTTG
* *
65540188 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65540214 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
65540242 CTAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
65540269 CCAGATCAGATAATTGTGGCACAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
65540296 CCAG
1 CCAG
65540300 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65540282 original size:54 final size:54
Alignment explanation
Indices: 65540190--65540296 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
65540180 CATGGTTGCC
* * *
65540190 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCACT
* *
65540244 AGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCACAGCCAC
1 AGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCAC
65540297 CAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCACT
Found at i:65541561 original size:13 final size:13
Alignment explanation
Indices: 65541543--65541569 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65541533 GAAAGAAGAA
65541543 GAAAAGAATAAGT
1 GAAAAGAATAAGT
65541556 GAAAAGAATAAGT
1 GAAAAGAATAAGT
65541569 G
1 G
65541570 GAGGAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (13 bp):
GAAAAGAATAAGT
Found at i:65541757 original size:24 final size:24
Alignment explanation
Indices: 65541708--65541801 Score: 111
Period size: 24 Copynumber: 3.9 Consensus size: 24
65541698 ACCTCTTGTT
* *
65541708 CCTTGATCAGCTCCTAGAT-TTCATC
1 CCTT-ATCAGCTCCTAAATCCT-ATC
*
65541733 CCTTATCTGCTCCTAAATCCTATC
1 CCTTATCAGCTCCTAAATCCTATC
65541757 CCTTATCAAG-TCCTAAATCCTATC
1 CCTTATC-AGCTCCTAAATCCTATC
*
65541781 CCTTATCAACTCCTAAATCCT
1 CCTTATCAGCTCCTAAATCCT
65541802 CTCCTGATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
23 1 0.02
24 54 0.89
25 6 0.10
ACGTcount: A:0.24, C:0.35, G:0.05, T:0.35
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCCTATC
Found at i:65548047 original size:27 final size:26
Alignment explanation
Indices: 65548010--65548117 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
65548000 AGCATGGCTG
* *
65548010 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65548036 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
65548064 CTAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
65548091 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
65548118 GCAGGACGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65548101 original size:54 final size:54
Alignment explanation
Indices: 65548012--65548117 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
65548002 CATGGCTGCC
* *
65548012 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
* * * *
65548066 AGAACAGAAATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCA
1 AGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
65548118 GCAGGACGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.62
55 17 0.38
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.18
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
Found at i:65549567 original size:24 final size:24
Alignment explanation
Indices: 65549540--65549586 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
65549530 TTAGATTTCC
* *
65549540 TCCCTTATCTATTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
65549564 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
65549587 CTCCTAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:65551859 original size:43 final size:43
Alignment explanation
Indices: 65551576--65551852 Score: 324
Period size: 43 Copynumber: 6.5 Consensus size: 43
65551566 AAATATTTTT
* * * *
65551576 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AGAGCGTCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
65551618 TAAAAGTCATGTTCTATAGTGGCATTTGTGGGAAAAGCGCCAC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
65551661 TAAAGGTCTTGTTCTATAACGACGTTTGTGGG-AAAGACGCCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAG-CGCCGC
* * * *
65551704 TAAAGGTTTTGTTCTATAGCAGCGTTTGTGGGAAAAACGCTGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
65551747 TAAAGGTCTTATTCTATAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
65551790 TAAAAGTTTTGTTCTATAGCGGCGTTTGTGGGAGAAGCACTGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
65551833 TAAAGGTCATGTTCTATAGC
1 TAAAGGTCTTGTTCTATAGC
65551853 TACGTTTTTC
Statistics
Matches: 198, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
42 32 0.16
43 163 0.82
44 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:65552798 original size:118 final size:118
Alignment explanation
Indices: 65552641--65552877 Score: 429
Period size: 118 Copynumber: 2.0 Consensus size: 118
65552631 TGAATGGATG
*
65552641 TGAATGTTTTATATTTGAAAATGGAAAAGTGTATGAGAAATGTATGTTTAATTGTGTTATAAGTT
1 TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
*
65552706 TGGTAATACTCCGTAACCCTATTATGGCAATGAATATTGGTGAGGGCTGTCCT
66 TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
*
65552759 TGAATGTTTTATATTTGAAAATGGAAAATTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
1 TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
* *
65552824 TGGTAATACTCCGTAACCCTATTCTGGCAATGAATACTGGTGAGGGGTGTCCT
66 TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
65552877 T
1 T
65552878 ATGGGCCAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (118 bp):
TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
Found at i:65554416 original size:24 final size:25
Alignment explanation
Indices: 65554389--65554441 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
65554379 GCCTAGCCTC
65554389 TTTTAAT-AACT-GGGACAAAGCCCT
1 TTTTAATAAACTAGGG-CAAAGCCCT
*
65554413 TTTTGATAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
65554438 TTTT
1 TTTT
65554442 CGGTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.23
25 17 0.65
26 3 0.12
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:65554424 original size:25 final size:25
Alignment explanation
Indices: 65554396--65554466 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
65554386 CTCTTTTAAT
65554396 AACTGGGACAAAGCCCTTTTT-GATA
1 AACTGGG-CAAAGCCCTTTTTCGATA
*
65554421 AACTAGGGCAAAGCCCTTTTTCGGTA
1 AACT-GGGCAAAGCCCTTTTTCGATA
* *
65554447 AATTGGGGCATAGCCCTTTT
1 AACT-GGGCAAAGCCCTTTT
65554467 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 17 0.43
26 23 0.57
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
AACTGGGCAAAGCCCTTTTTCGATA
Found at i:65554627 original size:25 final size:25
Alignment explanation
Indices: 65554599--65554647 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
65554589 ATAATTAAAC
* *
65554599 CCTAGGGGTATAACAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
65554624 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
65554648 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:65561079 original size:26 final size:25
Alignment explanation
Indices: 65561020--65561097 Score: 113
Period size: 25 Copynumber: 3.1 Consensus size: 25
65561010 GCCTAGCCTC
65561020 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
65561044 TTTTAATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
** *
65561069 TTTTCGGTAAACTGGGGCATAGCCCT
1 TTTT-AATAAACTGGGGCAAAGCCCT
65561095 TTT
1 TTT
65561098 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
24 7 0.14
25 21 0.43
26 21 0.43
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:65561258 original size:25 final size:25
Alignment explanation
Indices: 65561230--65561278 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
65561220 ATAATTAAAC
* *
65561230 CCTAGGGGTATAACAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
65561255 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
65561279 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:65561723 original size:16 final size:18
Alignment explanation
Indices: 65561702--65561736 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
65561692 AATGCCAGAA
65561702 TTTCGGCAT-T-TCGACT
1 TTTCGGCATATATCGACT
65561718 TTTCGGCATATATCGACT
1 TTTCGGCATATATCGACT
65561736 T
1 T
65561737 AAGCTACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (18 bp):
TTTCGGCATATATCGACT
Found at i:65563654 original size:18 final size:18
Alignment explanation
Indices: 65563610--65563654 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
65563600 GCCTAGGCCC
*
65563610 AAAACCAAATAAACAAAA
1 AAAACCAAACAAACAAAA
*
65563628 AATAA-CAAACAAAGAAAA
1 AA-AACCAAACAAACAAAA
65563646 AAAACCAAA
1 AAAACCAAA
65563655 ATAAATAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.78, C:0.16, G:0.02, T:0.04
Consensus pattern (18 bp):
AAAACCAAACAAACAAAA
Found at i:65564945 original size:28 final size:28
Alignment explanation
Indices: 65564914--65564967 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
65564904 TTGTACATTT
* *
65564914 TTATTTCTATTTTATTTTACTTATTTAC
1 TTATTTATATTGTATTTTACTTATTTAC
*
65564942 TTATTTATATTGTATTTTTCTTATTT
1 TTATTTATATTGTATTTTACTTATTT
65564968 GGTGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (28 bp):
TTATTTATATTGTATTTTACTTATTTAC
Found at i:65568552 original size:98 final size:98
Alignment explanation
Indices: 65568383--65568579 Score: 394
Period size: 98 Copynumber: 2.0 Consensus size: 98
65568373 TTTAGAGCTA
65568383 ATTTAGAGTAATGCTCAAAACACGCTTGTTGCTTTAAGCCTAGAAGCAAGAAGAATCCTTTTGTG
1 ATTTAGAGTAATGCTCAAAACACGCTTGTTGCTTTAAGCCTAGAAGCAAGAAGAATCCTTTTGTG
65568448 AAATAGGCTCATGTTCAACATTTTTATTTTAAT
66 AAATAGGCTCATGTTCAACATTTTTATTTTAAT
65568481 ATTTAGAGTAATGCTCAAAACACGCTTGTTGCTTTAAGCCTAGAAGCAAGAAGAATCCTTTTGTG
1 ATTTAGAGTAATGCTCAAAACACGCTTGTTGCTTTAAGCCTAGAAGCAAGAAGAATCCTTTTGTG
65568546 AAATAGGCTCATGTTCAACATTTTTATTTTAAT
66 AAATAGGCTCATGTTCAACATTTTTATTTTAAT
65568579 A
1 A
65568580 AAATGCATCT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (98 bp):
ATTTAGAGTAATGCTCAAAACACGCTTGTTGCTTTAAGCCTAGAAGCAAGAAGAATCCTTTTGTG
AAATAGGCTCATGTTCAACATTTTTATTTTAAT
Found at i:65576384 original size:46 final size:47
Alignment explanation
Indices: 65576334--65576509 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 47
65576324 TGGTTGAGCA
65576334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* * *
65576380 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G
*
65576425 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* * *
65576473 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65576510 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 28 0.25
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
Found at i:65576490 original size:93 final size:93
Alignment explanation
Indices: 65576331--65576502 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
65576321 GGATGGTTGA
*
65576331 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
65576396 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
65576424 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
65576488 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
65576503 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65582011 original size:42 final size:42
Alignment explanation
Indices: 65581965--65582048 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
65581955 TCGATGCCAT
65581965 GGTCTTGCTCGCATATCACATATCAGAATTCTATGTCATGAA
1 GGTCTTGCTCGCATATCACATATCAGAATTCTATGTCATGAA
65582007 GGTCTTGCTCGCATATCACATATCAGAATTCTATGTCATGAA
1 GGTCTTGCTCGCATATCACATATCAGAATTCTATGTCATGAA
65582049 ATATGTATCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (42 bp):
GGTCTTGCTCGCATATCACATATCAGAATTCTATGTCATGAA
Found at i:65583801 original size:11 final size:11
Alignment explanation
Indices: 65583785--65583810 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65583775 CAGAGGCAAC
65583785 AAAAAAAACAA
1 AAAAAAAACAA
65583796 AAAAAAAACAA
1 AAAAAAAACAA
65583807 AAAA
1 AAAA
65583811 TATTATGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:65585159 original size:46 final size:45
Alignment explanation
Indices: 65585109--65585252 Score: 182
Period size: 46 Copynumber: 3.1 Consensus size: 45
65585099 TCAATTGATA
* * *
65585109 GAAGAAGTCACAAGTCTTGTACCCCTGAGTTACAGTGGGATGGATT
1 GAAGAAGT-ACAAGTCCTATACCCCTGAGTTGCAGTGGGATGGATT
* *
65585155 GAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATGCATT
1 GAAGAAG-TACAAGTCCTATACCCCTGAGTTGCAGTGGGATGGATT
* *
65585201 GAAGATGGTACAAAG-CCTATACCCCTGAGTTGCAGTGGGATGGATG
1 GAAGA-AGTAC-AAGTCCTATACCCCTGAGTTGCAGTGGGATGGATT
65585247 GAAGAA
1 GAAGAA
65585253 ACCACAAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
46 81 0.95
47 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (45 bp):
GAAGAAGTACAAGTCCTATACCCCTGAGTTGCAGTGGGATGGATT
Found at i:65585929 original size:44 final size:44
Alignment explanation
Indices: 65585851--65585951 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
65585841 AGTTCCAGCA
* * *
65585851 GAGTAGACTGAAACTAAAAATCTCTTCTCCCTGAAATTACATTG
1 GAGTAGATTGAAGCTAAAAATCTCTTCTCCCTGAAATTACAGTG
* * *
65585895 GAGTAGATTGAAGCT-AAAATC-CTTATCTCTCTGAAGTTGCAGTG
1 GAGTAGATTGAAGCTAAAAATCTC-T-TCTCCCTGAAATTACAGTG
*
65585939 GAGCAGATTGAAG
1 GAGTAGATTGAAG
65585952 GCACCAGCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 7 0.15
44 40 0.83
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
GAGTAGATTGAAGCTAAAAATCTCTTCTCCCTGAAATTACAGTG
Found at i:65586179 original size:143 final size:143
Alignment explanation
Indices: 65585916--65586226 Score: 415
Period size: 143 Copynumber: 2.2 Consensus size: 143
65585906 AGCTAAAATC
* * * * * * * *
65585916 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGGCACCAGCCTTATCTCCCTGAAGTTGTAG
1 CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
* * * * *
65585981 CGGAGTAGACTGAAGATAGCGAATCTTATTTCCATGAAATTATAGTGGAATAGATTGAAGCTACA
66 CGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTACAGTGGAACAGATTGAAGCTACA
65586046 AACTATGGCGGAT
131 AACTATGGCGGAT
* * *
65586059 CTTATCTTTCTAAAGTTGTAGTGAACCAAATTGGAGCCACCAGCCTTATCTTCCTGAAATTGCAG
1 CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
* * *
65586124 CGGAGCAGACTGAAGAAAGCGAATCTTATGTCCTTGGAATTGCAGTGGAACAGATTGAAGCTACA
66 CGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTACAGTGGAACAGATTGAAGCTACA
* *
65586189 AATTATGGTGGAT
131 AACTATGGCGGAT
* *
65586202 CTTATCTTCCTAAAATTGCAGTGAA
1 CTTATCTTTCTAAAGTTGCAGTGAA
65586227 GTAGATCGAA
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (143 bp):
CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
CGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTACAGTGGAACAGATTGAAGCTACA
AACTATGGCGGAT
Found at i:65586249 original size:143 final size:143
Alignment explanation
Indices: 65585959--65586266 Score: 391
Period size: 143 Copynumber: 2.2 Consensus size: 143
65585949 AAGGCACCAG
* * * * *
65585959 CCTTATCTCCCTGAAGTTGTAGCGGAGTAGACTGAAGATAGCGAATCTTATTTCCATGAAATTAT
1 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTAC
* * * *
65586024 AGTGGAATAGATTGAAGCTACAAACTATGGCGGATCTTATCTTTCTAAAGTTGTAGTGAACCAAA
66 AGTGGAACAGATTGAAGCTACAAACTATGGCGGATCTTATCTTCCTAAAATTGCAGTGAACCAAA
* * * *
65586089 TTGGAGCCACCAG
131 TCGAAGCCACAAA
* * * * *
65586102 CCTTATCTTCCTGAAATTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATGTCCTTGGAATTGC
1 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTAC
* * ** *
65586167 AGTGGAACAGATTGAAGCTACAAATTATGGTGGATCTTATCTTCCTAAAATTGCAGTGAAGTAGA
66 AGTGGAACAGATTGAAGCTACAAACTATGGCGGATCTTATCTTCCTAAAATTGCAGTGAACCAAA
**
65586232 TCGAATTCACAAA
131 TCGAAGCCACAAA
65586245 CCTTATCTCCCTGAAGTTGCAG
1 CCTTATCTCCCTGAAGTTGCAG
65586267 TGAAATTACC
Statistics
Matches: 138, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (143 bp):
CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATGTCCATGAAATTAC
AGTGGAACAGATTGAAGCTACAAACTATGGCGGATCTTATCTTCCTAAAATTGCAGTGAACCAAA
TCGAAGCCACAAA
Found at i:65588066 original size:28 final size:28
Alignment explanation
Indices: 65588035--65588088 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
65588025 TTGTACATTT
* *
65588035 TTATTTCTATTTTATTTTACTTATTTAC
1 TTATTTATATTGTATTTTACTTATTTAC
*
65588063 TTATTTATATTGTATTTTTCTTATTT
1 TTATTTATATTGTATTTTACTTATTT
65588089 GGTGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (28 bp):
TTATTTATATTGTATTTTACTTATTTAC
Found at i:65601115 original size:16 final size:17
Alignment explanation
Indices: 65601094--65601127 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65601084 AATGTTAGGG
*
65601094 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
65601110 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
65601127 G
1 G
65601128 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:65602439 original size:151 final size:151
Alignment explanation
Indices: 65602162--65602440 Score: 355
Period size: 151 Copynumber: 1.8 Consensus size: 151
65602152 GCAGTTACAT
* * ** *
65602162 GGCCTGGCACACGGGCGTGTGGCTTGGCCGTATGACCTAACTTAGAGAGTTACACAGGCACAGAC
1 GGCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACACAGGCACAGAC
* * * * **
65602227 ACGAGCTGGGACACGACCATGTGACCCTATTTTGATTGTTACATGGCCTAAGGCATGGGCGTGTG
66 ACGAGCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTGTG
65602292 TCTCAGCTATGTGTATCACAC
131 TCTCAGCTATGTGTATCACAC
* * * *
65602313 GGCCTGGCACACGGACATGCAGCTTGGCCATGTGACCTAATTTAGAGATTTACACTA-GCACGGA
1 GGCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACAC-AGGCACAGA
* * * *
65602377 CAC-AGGCTGGTACACGGCCATGTGTCCCTATTTCGATTGTTAAACGGCCTGAGACACAGGCGTG
65 CACGA-GCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTG
65602441 CATCTCAACC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
150 1 0.01
151 105 0.98
152 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (151 bp):
GGCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACACAGGCACAGAC
ACGAGCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTGTG
TCTCAGCTATGTGTATCACAC
Found at i:65602469 original size:151 final size:151
Alignment explanation
Indices: 65602163--65602472 Score: 336
Period size: 151 Copynumber: 2.1 Consensus size: 151
65602153 CAGTTACATG
* * ** *
65602163 GCCTGGCACACGGGCGTGTGGCTTGGCCGTATGACCTAACTTAGAGAGTTACACAGGCACAGACA
1 GCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACACAGGCACAGACA
* * * * ** **
65602228 CGAGCTGGGACACGACCATGTGACCCTATTTTGATTGTTACATGGCCTAAGGCATGGGCGTGTGT
66 CGAGCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTGCAT
* * * *
65602293 CTCAGCTATGTGTATCACACG
131 CTCAACCATGTGTATCAAACA
* * * *
65602314 GCCTGGCACACGGACATGCAGCTTGGCCATGTGACCTAATTTAGAGATTTACACTA-GCACGGAC
1 GCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACAC-AGGCACAGAC
* * * *
65602378 AC-AGGCTGGTACACGGCCATGTGTCCCTATTTCGATTGTTAAACGGCCTGAGACACAGGCGTGC
65 ACGA-GCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTGC
* * *
65602442 ATCTCAACCGTGTGTGTCAAATA
129 ATCTCAACCATGTGTATCAAACA
65602465 GCCTGGCA
1 GCCTGGCA
65602473 ACACAGCCGT
Statistics
Matches: 129, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
150 1 0.01
151 127 0.98
152 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (151 bp):
GCCTGGCACACGGACATGCAGCTTGGCCATATGACCTAACTTAGAGAGTTACACAGGCACAGACA
CGAGCTGGGACACGACCATGTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAGGCGTGCAT
CTCAACCATGTGTATCAAACA
Found at i:65604083 original size:15 final size:15
Alignment explanation
Indices: 65604043--65604085 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65604033 AAATTATTTC
65604043 TATTTTATTAAAAAA
1 TATTTTATTAAAAAA
* *
65604058 TATATTT-TTAAATAT
1 TAT-TTTATTAAAAAA
65604073 TATTTTATTAAAA
1 TATTTTATTAAAA
65604086 CTACTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTATTAAAAAA
Found at i:65620597 original size:30 final size:30
Alignment explanation
Indices: 65620563--65620623 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65620553 TCCTTAACTC
65620563 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65620593 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65620623 A
1 A
65620624 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65621560 original size:45 final size:43
Alignment explanation
Indices: 65621511--65621687 Score: 182
Period size: 45 Copynumber: 4.0 Consensus size: 43
65621501 TAGGATTTTG
65621511 ATATGTATTTCTGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATG-ATTTC-GAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
65621556 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATA--TGATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
65621601 ATACATGGTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T
1 AT--ATGATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * *
65621645 AT-TAGA-TTCGAGTAAGACCCTGTTTGGGAAG-TGGCATCGAT
1 ATAT-GATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
65621686 AT
1 AT
65621688 GAGATAGCAT
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
40 8 0.07
41 23 0.20
42 1 0.01
44 3 0.03
45 72 0.63
46 4 0.04
47 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
ATATGATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:65622541 original size:6 final size:6
Alignment explanation
Indices: 65622488--65622757 Score: 198
Period size: 6 Copynumber: 44.3 Consensus size: 6
65622478 AAGAAACATT
** * * * *
65622488 ATCAGA ATTGGA ACCAGA ATGAGA ATTAGA ATAAGA ATCAGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
*
65622536 ATCAGA ATCAGA ATCA-A TATTAGTA A-CAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA -ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
65622584 ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGTA A-CAAA ATCAGA ATCAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA
* * * *
65622633 ATCAGT ATTAGTA A-CAGA ATCAGA ATCAGA ATCAGA ATTACGTG A-CAGA
1 ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
65622682 ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
65622731 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
65622758 GTGAATGCAA
Statistics
Matches: 208, Mismatches: 34, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
5 14 0.07
6 173 0.83
7 16 0.08
8 5 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:65622616 original size:85 final size:85
Alignment explanation
Indices: 65622509--65622757 Score: 363
Period size: 85 Copynumber: 2.8 Consensus size: 85
65622499 AACCAGAATG
* *
65622509 AGAATTAGAATAAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
65622574 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
65622594 AGAATTAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
65622659 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
* *
65622679 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGAATCAGTATCAGGTAACAGA
1 AGAAT-----T-AGAATCAGAATCA-GTAACAGAATCAGAATCAGAATCAGTATTA-GTAACAGA
*
65622744 ATCAAAATCAGAAT
58 ATCAGAATCAGAAT
65622758 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
85 86 0.58
90 1 0.01
91 13 0.09
92 27 0.18
93 21 0.14
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:65622661 original size:24 final size:24
Alignment explanation
Indices: 65622571--65622757 Score: 98
Period size: 25 Copynumber: 7.6 Consensus size: 24
65622561 ACAGAATCAG
* * *
65622571 AATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCA-GTAACAA
*
65622596 AATTAGAATCAGAATCAGTAACAA
1 AATCAGAATCAGAATCAGTAACAA
** *
65622620 AATCAGAATCAGAATCAGTATTAGT
1 AATCAGAATCAGAATCAGTAACA-A
*
65622645 AA-CAGAATCAGAATCAG-AATCAG
1 AATCAGAATCAGAATCAGTAA-CAA
* * *
65622668 AATTACGTGA-CAGAATCAG-AATCAG
1 AATCA-G-AATCAGAATCAGTAA-CAA
* *
65622693 AATCAGAATCAG-GTGACAG-AATCAG
1 AATCAGAATCAGAAT--CAGTAA-CAA
* *
65622718 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCA-GTAACAA
*
65622743 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
65622758 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
23 5 0.04
24 48 0.36
25 75 0.57
26 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AATCAGAATCAGAATCAGTAACAA
Found at i:65622924 original size:27 final size:28
Alignment explanation
Indices: 65622876--65622951 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
65622866 GTGAAGCTGC
* *
65622876 CAGATATTGTGAC-GAAGTCACCAG-AT
1 CAGATATTGTGGCAGAAGCCACCAGAAT
65622902 ACAGATATTGTGGCAG-AGCCACCAGAAT
1 -CAGATATTGTGGCAGAAGCCACCAGAAT
* *
65622930 CAGATAATGTGGCA-AACCCACC
1 CAGATATTGTGGCAGAAGCCACC
65622952 TAACAGAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 39 0.93
28 3 0.07
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (28 bp):
CAGATATTGTGGCAGAAGCCACCAGAAT
Found at i:65623319 original size:27 final size:26
Alignment explanation
Indices: 65623254--65623336 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
65623244 TCGATCGGTC
* * *
65623254 AACAGATATTGTGACAAAGTCACCAA
1 AACAGATATTGTGGCAAAGCCACCAG
*
65623280 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
* *
65623307 AACAGATATTTGTGGCATACCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
65623334 AAC
1 AAC
65623337 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:65623384 original size:16 final size:16
Alignment explanation
Indices: 65623363--65623393 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65623353 ATCCCAACCC
*
65623363 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
65623379 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
65623394 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:65623729 original size:27 final size:27
Alignment explanation
Indices: 65623535--65623729 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
65623525 GGGGAAAAAT
* * *
65623535 GGTAATTTTACCAC-ACAAGGGTATCTC
1 GGTAATTCTACC-CTACAGGGGTATTTC
* *
65623562 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65623589 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65623616 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65623643 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65623670 AGTAATT-TACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65623696 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65623723 AGTAATT
1 GGTAATT
65623730 GGTAAACTAA
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 23 0.17
27 115 0.83
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65625656 original size:40 final size:41
Alignment explanation
Indices: 65625601--65625751 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 41
65625591 GGATATAACT
* *
65625601 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* *
65625641 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* *
65625681 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATT--AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* ** *
65625720 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
65625752 TTTTCATCCA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 30 0.31
40 66 0.67
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:65633216 original size:40 final size:41
Alignment explanation
Indices: 65633161--65633277 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 41
65633151 GGATATAACT
*
65633161 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTAGAGTA
* * *
65633201 ACTCGCACAATTGCCTTCGGGACGTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTAGAGTA
* * *
65633241 ACTCGGACAAATGCCTTCGAGACATGGCCCGGATTAG
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTAG
65633278 TCACTAGTGC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 63 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTAGAGTA
Found at i:65640212 original size:16 final size:18
Alignment explanation
Indices: 65640191--65640223 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
65640181 AATACCAGAT
65640191 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
65640207 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
65640224 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:65640906 original size:45 final size:45
Alignment explanation
Indices: 65640709--65640917 Score: 289
Period size: 45 Copynumber: 4.7 Consensus size: 45
65640699 CATCGGCATT
*
65640709 TAGCCTGCTAGGCTCAAA-GCCCG-ATA-TCATTTCACCGGCATTA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACCGGCATCA
* * *
65640752 TAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGTATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
* *
65640797 TAGCCTACTAGGCTCAAAAGCCCGAATAGTATTTCACCGGCATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
*
65640842 TAGCCTGCTAGGCTAAAAGGCCCGAATAGTATTTCACCGGCATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
** * *
65640887 TAGCCTGCTACTCTTAAAGGCTCGAATAGTA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
65640918 CTATACGATA
Statistics
Matches: 147, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 17 0.12
44 5 0.03
45 124 0.84
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
Found at i:65656485 original size:30 final size:30
Alignment explanation
Indices: 65656451--65656510 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65656441 ATTTAATACG
65656451 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
65656481 AACTTTTGCATAATTGCACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65656511 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65661270 original size:46 final size:46
Alignment explanation
Indices: 65661208--65661372 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 46
65661198 GCCCATAAAC
* * *
65661208 GAACTCAAACTTAACTCAACGAGCTCGGGCGTTACCGTCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTACCATCCATAAGT
* * * *
65661254 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT--TTCA-C
1 GAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTACCATCCATAAGT
* * *
65661301 GAACTCAGACTCAACTCAACGAGTTCAGACGTT-CGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTAC-CATCCATAAGT
*
65661347 GAACTCAGATTCAACTCAACGAGCTC
1 GAACTCAGACTCAACTCAACGAGCTC
65661373 AGATGACTAG
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 49 0.52
47 27 0.28
48 3 0.03
49 1 0.01
50 2 0.02
51 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGCTCGGGCGTTACCATCCATAAGT
Found at i:65661311 original size:47 final size:46
Alignment explanation
Indices: 65661254--65661515 Score: 196
Period size: 47 Copynumber: 5.6 Consensus size: 46
65661244 GTCCATAAGT
65661254 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATG-CTAGTTACATTTCAC
* * * * * * * *
65661301 GAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCA--TAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCTAG-TTACATTTCA-C
* * *
65661347 GAACTCAGATTCAACTCAACGAGCTCAGATGACTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATG-CTAGTTACATTTCAC
* * * * * *
65661394 GAACTCGGACTCAACTCAATGAGTTCGGA--C-A-TTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCTAGTT-ACAT--TTCA-C
* * *
65661440 GAACTC-GAACTCAACTCCACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAG-ACTCAACTCAACGAGTTCGGATG-CTAGTTACATTTCAC
*
65661487 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
65661516 ACTCAACCAT
Statistics
Matches: 164, Mismatches: 35, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 1 0.01
45 5 0.03
46 57 0.35
47 83 0.51
48 5 0.03
49 1 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCTAGTTACATTTCAC
Found at i:65661318 original size:93 final size:93
Alignment explanation
Indices: 65661206--65661515 Score: 444
Period size: 93 Copynumber: 3.3 Consensus size: 93
65661196 CCGCCCATAA
* * * * *
65661206 ACGAACTCAAACTTAACTCAACGAGCTCGGGCGTTAC-CGTCCATAAGTGAACTCAGACTCAACT
1 ACGAACTCAGACTCAACTCAACGAGTTCGGACGTT-CGCATCCATAAGTGAACTCAGACTCAACT
*
65661270 CAACGAGTTCGGATGCCTAGTTACATTTC
65 CAACGAGCTCGGATGCCTAGTTACATTTC
* *
65661299 ACGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCAGATTCAACTC
1 ACGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
* *
65661364 AACGAGCTCAGATGACTAGTTACATTTC
66 AACGAGCTCGGATGCCTAGTTACATTTC
* * *
65661392 ACGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTC-GAACTCAACT
1 ACGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAG-ACTCAACT
* *
65661456 CCACGAGCTCGGATGCCTAGTTACATCTC
65 CAACGAGCTCGGATGCCTAGTTACATTTC
*
65661485 ACGAACTCGGACTCAACTCAACGAGTTCGGA
1 ACGAACTCAGACTCAACTCAACGAGTTCGGA
65661516 ACTCAACCAT
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.01
93 193 0.99
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (93 bp):
ACGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
AACGAGCTCGGATGCCTAGTTACATTTC
Found at i:65666671 original size:47 final size:45
Alignment explanation
Indices: 65666602--65666864 Score: 183
Period size: 47 Copynumber: 5.7 Consensus size: 45
65666592 CGCCCATAAG
* *
65666602 CGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCA
1 CGAACTCGAACTCAACTCAACGAGTTCGGATG-CTAGTTACA-TTCA
* * * * * * *
65666649 CGAACTCGAACTCAACTCAACGAGTTTGGACGTTCGCATCCA-TAA
1 CGAACTCGAACTCAACTCAACGAGTTCGGATGCTAG-TTACATTCA
* * *
65666694 GTGAACTCGGACTCAACTCAACGAGTTTGGATGACTAGTTACATTTCA
1 -CGAACTCGAACTCAACTCAACGAGTTCGGATG-CTAGTTACA-TTCA
* * * * * * * *
65666742 TGAACTC-AGACTCAACTCAACAAGTTCGGAAGTTCGCATCCA-TAA
1 CGAACTCGA-ACTCAACTCAACGAGTTCGGATGCTAG-TTACATTCA
* *
65666787 GTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCA
1 -CGAACTCGAACTCAACTCAACGAG-TTCGGATG-CTAGTTACAT-TCA
*
65666835 CGAACTCAAACTCAACTCAACGAGTTCGGA
1 CGAACTCGAACTCAACTCAACGAGTTCGGA
65666865 ACTCAACCAT
Statistics
Matches: 165, Mismatches: 37, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
45 4 0.02
46 66 0.40
47 91 0.55
48 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (45 bp):
CGAACTCGAACTCAACTCAACGAGTTCGGATGCTAGTTACATTCA
Found at i:65666713 original size:46 final size:46
Alignment explanation
Indices: 65666650--65666817 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
65666640 TACATTTCAC
* *
65666650 GAACTCGAACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCGCATCCATAAGT
* * * * * *
65666696 GAACTCGGACTCAACTCAACGAGTTTGGATGACTAG-TTACATTTCA-T
1 GAACTCGGACTCAACTCAACGAGTTTGGAAG-TTCGCATCCA--TAAGT
* * *
65666743 GAACTCAGACTCAACTCAACAAGTTCGGAAGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCGCATCCATAAGT
*
65666789 GAACTCGGACTCAACTCAACGAGCTTGGA
1 GAACTCGGACTCAACTCAACGAGTTTGGA
65666818 TGCCTAGTTA
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 60 0.62
47 33 0.34
48 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTTGGAAGTTCGCATCCATAAGT
Found at i:65666755 original size:93 final size:93
Alignment explanation
Indices: 65666595--65666865 Score: 427
Period size: 93 Copynumber: 2.9 Consensus size: 93
65666585 TGTAACCCGC
* **
65666595 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCACGAACTC-GAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCAG-A
* *
65666659 CTCAACTCAACGAGTTTGGACGTTCGCAT
65 CTCAACTCAACGAGTTCGGAAGTTCGCAT
* *
65666688 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGACTAGTTACATTTCATGAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCAGAC
*
65666753 TCAACTCAACAAGTTCGGAAGTTCGCAT
66 TCAACTCAACGAGTTCGGAAGTTCGCAT
* * *
65666781 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCACGAACTCAAAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCAGAC
65666846 TCAACTCAACGAGTTCGGAA
66 TCAACTCAACGAGTTCGGAA
65666866 CTCAACCATC
Statistics
Matches: 163, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
93 162 0.99
94 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACGAACTCAGAC
TCAACTCAACGAGTTCGGAAGTTCGCAT
Found at i:65686418 original size:13 final size:13
Alignment explanation
Indices: 65686400--65686424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65686390 TAAGCCACTC
65686400 CACACGGGCGTGT
1 CACACGGGCGTGT
65686413 CACACGGGCGTG
1 CACACGGGCGTG
65686425 CCCCTGTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:65695127 original size:37 final size:37
Alignment explanation
Indices: 65695078--65695153 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
65695068 ATCACTTTAG
*
65695078 TATTTATTTGCAACAAGGGAACTGGGTGTTATGATAT
1 TATTTATTTGCAACAAGGGAACTGAGTGTTATGATAT
*
65695115 TATTTATTTGCAACAAGGTAACTGAGTGTTATGATAT
1 TATTTATTTGCAACAAGGGAACTGAGTGTTATGATAT
65695152 TA
1 TA
65695154 GTTACAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (37 bp):
TATTTATTTGCAACAAGGGAACTGAGTGTTATGATAT
Found at i:65698514 original size:52 final size:52
Alignment explanation
Indices: 65698436--65698542 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
65698426 GTGAGTTCTG
65698436 GTTAAGTGAAGTTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGA
1 GTTAAGTGAAGTTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGA
*
65698488 GTTAATTGAAGTTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGA
1 GTTAAGTGAAGTTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGA
65698540 GTT
1 GTT
65698543 GATCCGACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (52 bp):
GTTAAGTGAAGTTAGTTTTCTGGGCCATGTAGTATCAGCATCAGGTATTCGA
Found at i:65707276 original size:42 final size:42
Alignment explanation
Indices: 65707181--65707340 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
65707171 ATATGTGTTA
* * * *
65707181 TCGTGTAACACCACGTCTAGGACGTTGGCACCG-ATTTGTTATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTG--ATT
* *
65707224 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
* *
65707267 TCGTGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
* * * *
65707310 ACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
65707341 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 28 0.29
45 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:65707331 original size:43 final size:42
Alignment explanation
Indices: 65707223--65707340 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
65707213 GATTTGTTAT
* *
65707223 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCACGTCTGGGACAGTGGCATCGTATATGA
* * *
65707265 TTTCGTGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATATGA
* *
65707308 TTACATGTAAGACCACGTTTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
65707341 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 31 0.49
43 31 0.49
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACAGTGGCATCGTATATGA
Found at i:65708960 original size:13 final size:13
Alignment explanation
Indices: 65708942--65708973 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
65708932 TTCGAATGGT
65708942 ACACGGGCTAGAC
1 ACACGGGCTAGAC
65708955 ACACGGGCTAGAC
1 ACACGGGCTAGAC
65708968 ACACGG
1 ACACGG
65708974 ACATGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.06
Consensus pattern (13 bp):
ACACGGGCTAGAC
Found at i:65709648 original size:43 final size:43
Alignment explanation
Indices: 65709555--65709705 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
65709545 GATTACCGAG
* *
65709555 ATGTGATTACATGTAAAACCATGTCTAGGACATTGGCAT--TGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCAT-T
* *
65709597 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
* * * * * * *
65709641 ATATGATTTCGTATAAGACCCTGTCTAGGACAGTAGCATCAAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
*
65709684 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
65709706 ATCTGGGATA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 85 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATCATT
Found at i:65712500 original size:96 final size:96
Alignment explanation
Indices: 65712331--65712525 Score: 322
Period size: 96 Copynumber: 2.0 Consensus size: 96
65712321 TGAAACCAAA
*
65712331 TCGACCTGAATATAGACAGTGTAGAAAATAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
1 TCGACCTGAATATAGACAGTGTAGAAAAGAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
65712396 GTTTTAAATGTGGATCATTAGATCATTTCAT
66 GTTTTAAATGTGGATCATTAGATCATTTCAT
* * *
65712427 TCGACCTGAATGTAGACAGTGTGGAAAACGA-TATATCGGTGATTGTAGATTGAATGATCGGGCC
1 TCGACCTGAATATAGACAGTGTAGAAAA-GAGCATATCGGTGATTGTAGATTGAATGATCGGGCC
65712491 T-TTTCTAAATGTGGATCATTAGATCATTTCAT
65 TGTTT-TAAATGTGGATCATTAGATCATTTCAT
65712523 TCG
1 TCG
65712526 TAACTGTCCT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
95 3 0.03
96 89 0.96
97 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (96 bp):
TCGACCTGAATATAGACAGTGTAGAAAAGAGCATATCGGTGATTGTAGATTGAATGATCGGGCCT
GTTTTAAATGTGGATCATTAGATCATTTCAT
Found at i:65719198 original size:43 final size:42
Alignment explanation
Indices: 65719149--65719375 Score: 183
Period size: 43 Copynumber: 5.4 Consensus size: 42
65719139 ATGCCGTTAT
* *
65719149 AGAACATGACCTTTAGCGACGCTTTTACAACAAATGCTGCTAA
1 AGAACATGACCTTTAGCG-CGCTTTTACAACAAACGCCGCTAA
* * *
65719192 AGAACATGGCCTTTAGCTGCGCTTTTCCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGC-GCGCTTTTACAACAAACGCCGCTAA
* * *
65719235 AGAACATGACCTTTAGCG-GCATTTTTGCCACAAACGCCGCTAT
1 AGAACATGACCTTTAGCGCGC--TTTTACAACAAACGCCGCTAA
* * * * *
65719278 AGAACA-AACCTTTAGCG-GCATTTTTGCCACAAACGCCACTAT
1 AGAACATGACCTTTAGCGCGC--TTTTACAACAAACGCCGCTAA
* * * * * * *
65719320 AGAACA-GGCCTTTAGCGCACTTTTCCCATAAACACCACTAA
1 AGAACATGACCTTTAGCGCGCTTTTACAACAAACGCCGCTAA
*
65719361 AGAACATGACATTTA
1 AGAACATGACCTTTA
65719376 AAAAAATATT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
41 25 0.16
42 56 0.35
43 78 0.49
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGCGCTTTTACAACAAACGCCGCTAA
Found at i:65719302 original size:42 final size:42
Alignment explanation
Indices: 65719141--65719336 Score: 203
Period size: 43 Copynumber: 4.6 Consensus size: 42
65719131 TAAAGAAAAT
* * ** * * *
65719141 GCCGTTATAGAACATGACCTTTAGCGACGCTTTTACAACAAAT
1 GCCGCTATAGAACA-GACCTTTAGCGGCATTTTTGCCACAAAC
* * * * ** *
65719184 GCTGCTAAAGAACATGGCCTTTAGCTGCGCTTTTCCCACAAAC
1 GCCGCTATAGAACA-GACCTTTAGCGGCATTTTTGCCACAAAC
*
65719227 GCCGCTAAAGAACATGACCTTTAGCGGCATTTTTGCCACAAAC
1 GCCGCTATAGAACA-GACCTTTAGCGGCATTTTTGCCACAAAC
*
65719270 GCCGCTATAGAACAAACCTTTAGCGGCATTTTTGCCACAAAC
1 GCCGCTATAGAACAGACCTTTAGCGGCATTTTTGCCACAAAC
* *
65719312 GCCACTATAGAACAGGCCTTTAGCG
1 GCCGCTATAGAACAGACCTTTAGCG
65719337 CACTTTTCCC
Statistics
Matches: 133, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 49 0.37
43 84 0.63
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
GCCGCTATAGAACAGACCTTTAGCGGCATTTTTGCCACAAAC
Found at i:65719546 original size:35 final size:35
Alignment explanation
Indices: 65719507--65719575 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
65719497 TTTCTATTAA
*
65719507 AATTTTAACTTAAAAACTAAATATAA-AAATTAATG
1 AATTTAAACTTAAAAACTAAA-ATAATAAATTAATG
* * *
65719542 AATTTAAATTTAGAATCTAAAATAATAAATTAAT
1 AATTTAAACTTAAAAACTAAAATAATAAATTAAT
65719576 AACACAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (35 bp):
AATTTAAACTTAAAAACTAAAATAATAAATTAATG
Found at i:65725632 original size:10 final size:11
Alignment explanation
Indices: 65725606--65725631 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65725596 GAGTTTCAGA
65725606 GGGGGAAATTT
1 GGGGGAAATTT
65725617 GGGGGAAATTT
1 GGGGGAAATTT
65725628 GGGG
1 GGGG
65725632 ATAAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.54, T:0.23
Consensus pattern (11 bp):
GGGGGAAATTT
Found at i:65726542 original size:7 final size:7
Alignment explanation
Indices: 65726530--65726603 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
65726520 ACCCACTATC
65726530 CCCTAAA
1 CCCTAAA
65726537 CCCTAAA
1 CCCTAAA
*
65726544 CCCTTAA
1 CCCTAAA
*
65726551 CCATAAA
1 CCCTAAA
65726558 CCCCTAAA
1 -CCCTAAA
*
65726566 CCC-CAA
1 CCCTAAA
* *
65726572 CTCTTAAC
1 C-CCTAAA
*
65726580 CCCTAAC
1 CCCTAAA
65726587 CCCTAAA
1 CCCTAAA
*
65726594 CCTTAAA
1 CCCTAAA
65726601 CCC
1 CCC
65726604 CAAGCTATTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 3 0.06
7 41 0.79
8 8 0.15
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:65726557 original size:21 final size:21
Alignment explanation
Indices: 65726533--65726603 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
65726523 CACTATCCCC
* *
65726533 TAAACCCTAAACCCTTAACCA
1 TAAACCCTAAACCCTAAACCT
*
65726554 TAAACCCCTAAACCC-CAACTCT
1 TAAA-CCCTAAACCCTAAAC-CT
* *
65726576 TAACCCCTAACCCCTAAACCT
1 TAAACCCTAAACCCTAAACCT
65726597 TAAACCC
1 TAAACCC
65726604 CAAGCTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACCT
Found at i:65726587 original size:28 final size:29
Alignment explanation
Indices: 65726504--65726603 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
65726494 CTACTTAATT
* *
65726504 TAAACCCTAAACCCCT-ACCCACTATCCCC
1 TAAACCCTAAACCCTTAACCC-CTAACCCC
*
65726533 TAAACCCTAAACCCTTAA-CCATAAACCCC
1 TAAACCCTAAACCCTTAACCCCT-AACCCC
* *
65726562 TAAACCC-CAACTCTTAACCCCTAACCCC
1 TAAACCCTAAACCCTTAACCCCTAACCCC
*
65726590 TAAACCTTAAACCC
1 TAAACCCTAAACCC
65726604 CAAGCTATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 21 0.36
29 36 0.62
30 1 0.02
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (29 bp):
TAAACCCTAAACCCTTAACCCCTAACCCC
Done.