Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 91 of 255
Found at i:27844124 original size:14 final size:15
Alignment explanation
Indices: 27844089--27844129 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
27844079 GATTAGTCTC
27844089 TAATTATAATAAACA
1 TAATTATAATAAACA
*
27844104 TAA-TATAATAAATA
1 TAATTATAATAAACA
*
27844118 -AATTATAGTAAA
1 TAATTATAATAAA
27844130 ATATACCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
TAATTATAATAAACA
Found at i:27847039 original size:42 final size:42
Alignment explanation
Indices: 27846927--27847092 Score: 169
Period size: 42 Copynumber: 3.9 Consensus size: 42
27846917 CGGAAAGCTC
* * *
27846927 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
*
27846969 ATATCGATGCC-ACTGT-CCAAACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAA
* * *
27847011 ATACGATGCCAACATCCTAGACGTGGTCTTACATGTAAATCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCA-A
* *
27847055 AGT-CGATTCCAACTTCCCAGACGTGGTCTTACACGAAA
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACACGAAA
27847093 ATACATATCG
Statistics
Matches: 103, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
41 9 0.09
42 45 0.44
43 18 0.17
44 30 0.29
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:27847250 original size:12 final size:12
Alignment explanation
Indices: 27847233--27847257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27847223 TATCATAATA
27847233 ACATATATATAT
1 ACATATATATAT
27847245 ACATATATATAT
1 ACATATATATAT
27847257 A
1 A
27847258 ACTTATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:27847752 original size:12 final size:13
Alignment explanation
Indices: 27847725--27847749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27847715 TTGACATTTT
27847725 TATAACATCAAAA
1 TATAACATCAAAA
27847738 TATAACATCAAA
1 TATAACATCAAA
27847750 TATTCATAAT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TATAACATCAAAA
Found at i:27852022 original size:42 final size:42
Alignment explanation
Indices: 27851963--27852110 Score: 188
Period size: 42 Copynumber: 3.5 Consensus size: 42
27851953 AGGGTTACTA
* *
27851963 AGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * *
27852005 AGACTACGTTTAAGACCATATTTGAGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * *
27852047 AGACTTCGTGTAAGACCATAGCTGGGCTATTGACATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* *
27852090 AGATTACATGTAAGACCATAT
1 AGACTACGTGTAAGACCATAT
27852111 GAGATCTCCT
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 60 0.67
43 29 0.33
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:27853219 original size:19 final size:20
Alignment explanation
Indices: 27853176--27853221 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27853166 CACGGCCTGC
* *
27853176 CCACAAGGGCGTGTACCAAG
1 CCACACGGGAGTGTACCAAG
*
27853196 CCACACGGGAGTGT-CCAGG
1 CCACACGGGAGTGTACCAAG
27853215 CCACACG
1 CCACACG
27853222 AGCTTGTGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.26, C:0.35, G:0.30, T:0.09
Consensus pattern (20 bp):
CCACACGGGAGTGTACCAAG
Found at i:27860944 original size:40 final size:40
Alignment explanation
Indices: 27860753--27860937 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
27860743 TCGAATGATG
* * * * *
27860753 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
27860793 TCCGGACTAAGAT-TCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27860833 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27860872 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
27860913 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27860938 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27860959 original size:79 final size:79
Alignment explanation
Indices: 27860807--27860970 Score: 181
Period size: 79 Copynumber: 2.1 Consensus size: 79
27860797 GACTAAGATT
* **
27860807 CGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
*
27860872 TCCGGGTTAAGTCC
66 TCCGGGTTAAATCC
* * * * *
27860886 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
27860949 ATATCC-GGTTAAATTC
63 AAATCCGGGTTAAATCC
27860965 CGAAGG
1 CGAAGG
27860971 TACGTGATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATCC
Found at i:27869128 original size:40 final size:39
Alignment explanation
Indices: 27868932--27869133 Score: 191
Period size: 40 Copynumber: 5.1 Consensus size: 39
27868922 CGAATGATGT
* *
27868932 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAC-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT--ACTATAA
* *
27868972 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
*
27869012 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
*
27869049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* ** *
27869090 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAA
27869130 CCGG
1 CCGG
27869134 TTAAATTCTG
Statistics
Matches: 139, Mismatches: 12, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
38 15 0.11
39 42 0.30
40 71 0.51
41 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:27884070 original size:27 final size:27
Alignment explanation
Indices: 27884040--27884217 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
27884030 ATATTGAGTC
*
27884040 CGCACA-TTCAGTGCTATATAATCAACT
1 CGCACACTT-AGTGCTACATAATCAACT
* *
27884067 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27884094 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
27884122 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27884149 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
27884176 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
27884203 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27884218 GTATAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27884179 original size:82 final size:81
Alignment explanation
Indices: 27884061--27884216 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27884051 TGCTATATAA
* *
27884061 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27884126 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27884143 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27884207 CACTTAGTGC
65 CACTTAGTGC
27884217 TGTATAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27884716 original size:12 final size:12
Alignment explanation
Indices: 27884699--27884724 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27884689 ATGGCATACT
27884699 TATGTATATATA
1 TATGTATATATA
27884711 TATGTATATATA
1 TATGTATATATA
27884723 TA
1 TA
27884725 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:27887213 original size:43 final size:41
Alignment explanation
Indices: 27887114--27887226 Score: 106
Period size: 41 Copynumber: 2.7 Consensus size: 41
27887104 ATATGGTTAC
* * * *
27887114 GTGTAAGACCATGTCTAGGACA-TCGGCTTCGCATTTGATTC
1 GTGTAAGACCATGTCTAGGACAGT-GGCATCGCATATGAATA
*
27887155 GTGTAAGACCCTGTCTAGGACAGTGGCATCG-ATATGAGATA
1 GTGTAAGACCATGTCTAGGACAGTGGCATCGCATATGA-ATA
*
27887196 GAATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 G--TGTAAGACCATGTCTAGGACAG-TGGCAT
27887227 TGTTTGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 5 0.08
41 29 0.48
42 2 0.03
43 24 0.40
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (41 bp):
GTGTAAGACCATGTCTAGGACAGTGGCATCGCATATGAATA
Found at i:27889158 original size:47 final size:47
Alignment explanation
Indices: 27888984--27889474 Score: 798
Period size: 47 Copynumber: 10.6 Consensus size: 47
27888974 CCCTTCGGGA
* * * * * *
27888984 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27889031 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27889077 C-TATCACATATATACA-TTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27889122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27889169 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27889217 CTTATCACATATATACACTTTCACATTCATCACATTGG-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27889262 CTTATCACATATATACACTTTCA-ATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27889308 CTTATCACATTATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
27889356 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27889402 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27889449 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
27889475 CACAATTATC
Statistics
Matches: 418, Mismatches: 18, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
44 13 0.03
45 59 0.14
46 129 0.31
47 140 0.33
48 77 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27889337 original size:139 final size:141
Alignment explanation
Indices: 27888984--27889474 Score: 818
Period size: 139 Copynumber: 3.5 Consensus size: 141
27888974 CCCTTCGGGA
* * * * * * *
27888984 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCACA-TATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
27889047 CTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACA-TTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
27889110 CGGCTATTAGGC
131 CGGC-ATTAGGC
27889122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
27889187 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
27889252 TGGCATTA-GC
131 CGGCATTAGGC
27889262 CTTATCACATATATACACTTTCA-ATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
* *
27889326 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
27889391 CGGCATTAGGC
131 CGGCATTAGGC
27889402 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-TATATAC
27889467 A--TTCACAT
65 ACTTTCACAT
27889475 CACAATTATC
Statistics
Matches: 335, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
138 42 0.13
139 117 0.35
140 96 0.29
141 52 0.16
142 28 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCATTAGGC
Found at i:27892951 original size:40 final size:40
Alignment explanation
Indices: 27892894--27893173 Score: 420
Period size: 40 Copynumber: 7.0 Consensus size: 40
27892884 CGAATACACG
* * * *
27892894 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
27892934 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27892974 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27893014 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
27893054 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27893093 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
27893133 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
27893172 TC
1 TC
27893174 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 41 0.19
40 176 0.81
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:27893130 original size:119 final size:120
Alignment explanation
Indices: 27892894--27893173 Score: 420
Period size: 119 Copynumber: 2.4 Consensus size: 120
27892884 CGAATACACG
* * * * * *
27892894 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * *
27892959 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
27893014 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * *
27893078 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
27893133 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATC
27893174 GTCGAGACCT
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
118 4 0.03
119 87 0.60
120 54 0.37
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:27895628 original size:49 final size:48
Alignment explanation
Indices: 27895409--27895842 Score: 418
Period size: 47 Copynumber: 8.8 Consensus size: 48
27895399 CCCTTCGGGA
* * * * *
27895409 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
* * *
27895456 CCTGTCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
* * *
27895503 CTCTATCACCACATATACACCTTTCACACATTCATCACATCGGCCATTAGGC
1 CT-TATCA-CATATATATACATTT--CACATTCATCACATCGGCCATTAGGC
27895555 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
** ** ** *
27895603 CTTATCACATATATCATTACATTTCACATTTTTTTTTTTTCATTCATCACATCGGCCATTGGC
1 CTTATCACATATAT-A-TACATTTCACA-----TTCATCACA-TCGGC-CAT------TAGGC
*
27895666 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
27895713 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
*
27895762 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
27895809 CTTATCAC-TATATATACACTTTCACA-T-ATCACAT
1 CTTATCACATATATATACA-TTTCACATTCATCACAT
27895843 TCCATCCATA
Statistics
Matches: 328, Mismatches: 31, Indels: 57
0.79 0.07 0.14
Matches are distributed among these distances:
46 15 0.05
47 92 0.28
48 29 0.09
49 90 0.27
50 16 0.05
51 8 0.02
52 28 0.09
53 3 0.01
54 8 0.02
55 8 0.02
56 3 0.01
60 7 0.02
61 2 0.01
62 2 0.01
63 17 0.05
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (48 bp):
CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
Found at i:27895696 original size:109 final size:111
Alignment explanation
Indices: 27895531--27895741 Score: 367
Period size: 109 Copynumber: 1.9 Consensus size: 111
27895521 ACCTTTCACA
27895531 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGC
27895596 CATT-GGCCTTATCACATATATCATTACA-TTTCACATTTTTTTTTTTT
65 CATTAGGCCTTATCACATATAT-A-TACACTTTCACATTTTTTTTTTTT
27895643 CATTCATCACATCGGCCATT-GGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCC
1 CATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCC
27895706 ATTAGGCCTTATCACATATATATACACTTTCACATT
66 ATTAGGCCTTATCACATATATATACACTTTCACATT
27895742 CATCACATCG
Statistics
Matches: 97, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
108 4 0.04
109 45 0.46
110 17 0.18
111 11 0.11
112 20 0.21
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (111 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATATACACTTTCACATTTTTTTTTTTT
Found at i:27895713 original size:158 final size:164
Alignment explanation
Indices: 27895479--27895775 Score: 534
Period size: 158 Copynumber: 1.8 Consensus size: 164
27895469 TACACTTTCA
27895479 CATTCATCACATCGGCCATTAGGCCTCTATCACCACATATACACCTTTCACACATTCATCACATC
1 CATTCATCACATCGGCCATTAGGCCTCTATCACCACATATACACCTTT-ACACATTCATCACATC
27895544 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT-GGCCTTAT
65 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
27895608 CACATATATCATTACATTTCACATTTTTTTTTTTT
130 CACATATATCATTACATTTCACATTTTTTTTTTTT
*
27895643 CATTCATCACATCGGCCATT-GGCCT-TATCA-CATATATACA-CTTT-CACATTCATCACATCG
1 CATTCATCACATCGGCCATTAGGCCTCTATCACCACATATACACCTTTACACATTCATCACATCG
27895703 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
27895768 ACATATAT
131 ACATATAT
27895776 ACACTTTCAC
Statistics
Matches: 131, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
158 71 0.54
159 17 0.13
160 4 0.03
161 9 0.07
162 5 0.04
163 5 0.04
164 20 0.15
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (164 bp):
CATTCATCACATCGGCCATTAGGCCTCTATCACCACATATACACCTTTACACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATCATTACATTTCACATTTTTTTTTTTT
Found at i:27895806 original size:96 final size:94
Alignment explanation
Indices: 27895643--27895842 Score: 368
Period size: 96 Copynumber: 2.1 Consensus size: 94
27895633 TTTTTTTTTT
27895643 CATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
1 CATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
27895708 TAGGCCTTATCACATATATATACACTTTCA
66 TAGGCCTTATCAC-TATATATACACTTTCA
27895738 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 CATTCATCACATCGGCCATT-GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
27895803 TTAGGCCTTATCACTATATATACACTTTCA
65 TTAGGCCTTATCACTATATATACACTTTCA
27895833 CA-T-ATCACAT
1 CATTCATCACAT
27895843 TCCATCCATA
Statistics
Matches: 104, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
93 7 0.07
94 1 0.01
95 38 0.37
96 58 0.56
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTATCACTATATATACACTTTCA
Found at i:27895894 original size:28 final size:30
Alignment explanation
Indices: 27895820--27895896 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 30
27895810 TTATCACTAT
*
27895820 ATATACACTTTCACATATCAC-ATTCCATCCAT
1 ATATACA--TTCACATATCACAATT-CATCCAA
27895852 ATATACATT-AC--ATCACAATT-ATCCAA
1 ATATACATTCACATATCACAATTCATCCAA
27895878 ATATAC-TTCACATATCACA
1 ATATACATTCACATATCACA
27895897 TATACTATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
25 2 0.05
26 13 0.32
27 5 0.12
28 9 0.22
29 2 0.05
30 2 0.05
32 7 0.17
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.32
Consensus pattern (30 bp):
ATATACATTCACATATCACAATTCATCCAA
Found at i:27899039 original size:41 final size:41
Alignment explanation
Indices: 27898994--27899076 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
27898984 CGCCTGACAT
*
27898994 ACGCCCATGTCAATGGCCCGTGTCCCTCACACGGCCACGAC
1 ACGCCCATGTCAATGGACCGTGTCCCTCACACGGCCACGAC
* *
27899035 ACGCCCGTGTTAATGGACCGTGTCCCTCACACGGCCACGAC
1 ACGCCCATGTCAATGGACCGTGTCCCTCACACGGCCACGAC
27899076 A
1 A
27899077 AGCCTGTGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (41 bp):
ACGCCCATGTCAATGGACCGTGTCCCTCACACGGCCACGAC
Found at i:27900109 original size:47 final size:47
Alignment explanation
Indices: 27900034--27900166 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 47
27900024 TGGGTAAGGT
27900034 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCGAA
* * * *
27900081 GTCGATGCCATATCCCAGACATGTTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTCGAA
*
27900129 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCAC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCAC
27900167 GCAAGTAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 14 0.19
47 53 0.72
48 7 0.09
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAA
Found at i:27903281 original size:16 final size:17
Alignment explanation
Indices: 27903247--27903285 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27903237 GACCTTGCGT
27903247 TTCTTTCTCCTCTTCTC
1 TTCTTTCTCCTCTTCTC
* *
27903264 TTCTTTCT-TTCTTTTC
1 TTCTTTCTCCTCTTCTC
27903280 TTCTTT
1 TTCTTT
27903286 TAATTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTTTCTCCTCTTCTC
Found at i:27907146 original size:27 final size:27
Alignment explanation
Indices: 27907116--27907169 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27907106 GTGGAAGGGA
27907116 AAGTGAAAACACATAAATTTAGACTTT
1 AAGTGAAAACACATAAATTTAGACTTT
27907143 AAGTGAAAACACATAAATTTAGACTTT
1 AAGTGAAAACACATAAATTTAGACTTT
27907170 TAGGGAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGTGAAAACACATAAATTTAGACTTT
Found at i:27907177 original size:27 final size:27
Alignment explanation
Indices: 27907120--27907177 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
27907110 AAGGGAAAGT
*
27907120 GAAAACACATAAATTTAGACTTTAAGT
1 GAAAACACATAAATTTAGACTTTAAGG
*
27907147 GAAAACACATAAATTTAGACTTTTAGG
1 GAAAACACATAAATTTAGACTTTAAGG
27907174 GAAA
1 GAAA
27907178 GGCTACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (27 bp):
GAAAACACATAAATTTAGACTTTAAGG
Found at i:27909937 original size:40 final size:40
Alignment explanation
Indices: 27909882--27910153 Score: 379
Period size: 40 Copynumber: 6.8 Consensus size: 40
27909872 ATAACCACAA
* * * *
27909882 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27909922 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
27909962 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
27910002 GCACAATTGCCTTCGGGTCTTAACCCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-GGATATATCAACTC
27910042 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
27910082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
27910122 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
27910154 CATTCAAATG
Statistics
Matches: 208, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
39 6 0.03
40 192 0.92
41 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:27910079 original size:120 final size:120
Alignment explanation
Indices: 27909862--27910143 Score: 494
Period size: 120 Copynumber: 2.4 Consensus size: 120
27909852 TCTTCAGAAT
* * * *
27909862 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
27909926 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
27909981 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
27910046 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
27910101 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTA
27910144 GCCCGGATAT
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 4 0.03
120 151 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:27911066 original size:40 final size:40
Alignment explanation
Indices: 27911011--27911282 Score: 379
Period size: 40 Copynumber: 6.8 Consensus size: 40
27911001 ATAACCACAA
* * * *
27911011 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
27911051 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
27911091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
27911131 GCACAATTGCCTTCGGGTCTTAACCCAGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-GGATATATCAACTC
27911171 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
27911211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
27911251 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
27911283 CATTCAAATG
Statistics
Matches: 208, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
39 6 0.03
40 192 0.92
41 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:27911208 original size:120 final size:120
Alignment explanation
Indices: 27910991--27911272 Score: 494
Period size: 120 Copynumber: 2.4 Consensus size: 120
27910981 TCTTCAGAAT
* * * *
27910991 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
27911055 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
27911110 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
27911175 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
27911230 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTA
27911273 GCCCGGATAT
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 4 0.03
120 151 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCAGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:27919340 original size:40 final size:40
Alignment explanation
Indices: 27919295--27919526 Score: 270
Period size: 40 Copynumber: 5.8 Consensus size: 40
27919285 ATAACCACAA
* * *
27919295 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
27919335 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
27919375 GCACAAATGCCTTCGGGTCTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * *
27919415 GCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
27919455 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
27919495 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
27919527 CATTCAAATG
Statistics
Matches: 162, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 4 0.02
40 151 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:27919379 original size:80 final size:80
Alignment explanation
Indices: 27919295--27919526 Score: 313
Period size: 80 Copynumber: 2.9 Consensus size: 80
27919285 ATAACCACAA
* * * * * *
27919295 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
*
27919359 CCGGATATATCAACGC
65 CCGGATATAGCAACGC
* * * *
27919375 GCACAAATGCCTTCGGGTCTTAGCTCGGATAAAATCACTAGCACAATTGCCTTCGAGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
27919440 CGGGTATAGCAACTC
66 CGGATATAGCAACGC
* *
27919455 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
27919520 CGGATAT
66 CGGATAT
27919527 CATTCAAATG
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 128 0.98
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATATAGCAACGC
Found at i:27919503 original size:120 final size:119
Alignment explanation
Indices: 27919266--27919525 Score: 387
Period size: 120 Copynumber: 2.2 Consensus size: 119
27919256 ACCCAAGTTT
* * * *
27919266 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCA
1 CTTCGGGACTTAGCCGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCA
* *
27919331 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACGCGCACAAATGC
66 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACGAGCACAAATGC
* * *
27919385 CTTCGGGTCTTAGCTCGGATAAAATCACTAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGC-CGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGC
* *
27919450 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGC
65 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACGAGCACAAATGC
27919505 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAG-CCGGATA
27919526 TCATTCAAAT
Statistics
Matches: 126, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
119 11 0.09
120 110 0.87
121 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATAAAACCACAAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCA
ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACGAGCACAAATGC
Found at i:27940994 original size:40 final size:40
Alignment explanation
Indices: 27940936--27941031 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
27940926 ATGGGCCTGC
*
27940936 TCACACAAGCTATTAGTCAGGACGTAGCTACACAGTGCTGA
1 TCACA-AAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
* * *
27940977 TCACAAAGCTGTCAGTCAGGACGTAGCTACATAGTGCTGC
1 TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
27941017 TCACAAAGCTATCAG
1 TCACAAAGCTATCAG
27941032 GTATCGGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (40 bp):
TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
Found at i:27947377 original size:27 final size:27
Alignment explanation
Indices: 27947347--27947402 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
27947337 ACTTAGTTAG
*
27947347 TCCAACGTTAATGTATAGTTAGGCAAA
1 TCCAACGTCAATGTATAGTTAGGCAAA
27947374 TCCAACGTCAATGTATAGTTAGGCAAA
1 TCCAACGTCAATGTATAGTTAGGCAAA
27947401 TC
1 TC
27947403 ACTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
TCCAACGTCAATGTATAGTTAGGCAAA
Found at i:27953171 original size:28 final size:28
Alignment explanation
Indices: 27953122--27953233 Score: 108
Period size: 27 Copynumber: 4.1 Consensus size: 28
27953112 AGCATGGCTG
* *
27953122 CCAGA-ACAGATAA-CGTGACAGAGTCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
*
27953148 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
* * *
27953176 CCAGA-ACA-AAAATATGTGGCAAAGCCA
1 CCAGATACAGATAAT-CGTGGCAGAGCCA
* *
27953203 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
27953230 CCAG
1 CCAG
27953234 GACACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.11
27 45 0.62
28 19 0.26
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (28 bp):
CCAGATACAGATAATCGTGGCAGAGCCA
Found at i:27961048 original size:27 final size:27
Alignment explanation
Indices: 27961010--27961097 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
27961000 GTGATAGAGT
*
27961010 CACCAGATACAGATAATCGTGGCACAGC
1 CACCAGA-ACAGATAATTGTGGCACAGC
*
27961038 CACCAGAACAGA-AATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCACAGC
* *
27961065 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCACAGC
27961092 CACCAG
1 CACCAG
27961098 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.06
27 41 0.76
28 10 0.19
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCACAGC
Found at i:27961247 original size:25 final size:25
Alignment explanation
Indices: 27961200--27961247 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27961190 ACAAAATTAA
*
27961200 CCCTAGGGGCATATCGGTCATTTAC
1 CCCTAGGGGCATATCGGTAATTTAC
*
27961225 CCCTAGGGGTATCAT-GGTAATTT
1 CCCTAGGGGCAT-ATCGGTAATTT
27961248 TCCACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (25 bp):
CCCTAGGGGCATATCGGTAATTTAC
Found at i:27963222 original size:55 final size:55
Alignment explanation
Indices: 27963151--27963259 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
27963141 CCAGAGCAAA
*
27963151 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAATTTCATTG
1 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATTG
* * *
27963206 CACAGCCTCAACTACAATTTAAATAAATAATTTATACATATTACTAAGTTCATT
1 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATT
27963260 ACATCATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (55 bp):
CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATTG
Found at i:27964050 original size:15 final size:14
Alignment explanation
Indices: 27964030--27964086 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
27964020 TAGATTATAT
27964030 AATTAAATAATTAGG
1 AATTAAATAATTA-G
* *
27964045 AATTAAATAAATAAA
1 AATTAAAT-AATTAG
27964060 ATATTATAATAATTAG
1 A-ATTA-AATAATTAG
27964076 AATT-AATAATT
1 AATTAAATAATT
27964087 TTAGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.20
15 12 0.34
16 13 0.37
17 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTAAATAATTAG
Found at i:27964054 original size:23 final size:21
Alignment explanation
Indices: 27964016--27964059 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
27964006 CTGAAAATCG
* *
27964016 TAATTAGATTATATAATTAAA
1 TAATTAGATTAAATAAATAAA
27964037 TAATTAGGAATTAAATAAATAAA
1 TAATTA-G-ATTAAATAAATAAA
27964060 ATATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
TAATTAGATTAAATAAATAAA
Found at i:27968301 original size:42 final size:43
Alignment explanation
Indices: 27968161--27968320 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
27968151 TATCGAGATG
* *
27968161 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* *
27968204 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * *
27968247 TGATTTCGTGTAAGACCCTCTCTGGGAC-GTGGCATCG-ATATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
* * *
27968289 TGATAACATGTAAGACCATATCTGGGATATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTG
27968321 CATTGTGCGA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 2 0.02
42 32 0.32
43 65 0.66
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:27978492 original size:18 final size:19
Alignment explanation
Indices: 27978469--27978511 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
27978459 CTTTCCCTTA
27978469 TCTTTCTTTCCTT-CTCTT
1 TCTTTCTTTCCTTCCTCTT
* *
27978487 TTTTTCTTTCTTTCCTCTT
1 TCTTTCTTTCCTTCCTCTT
27978506 TCTTTC
1 TCTTTC
27978512 ACTTTCTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTCTTTCCTTCCTCTT
Found at i:27978748 original size:3 final size:3
Alignment explanation
Indices: 27978740--27978773 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
27978730 TTTTAATTAA
* *
27978740 ATT ATT ATT ATT TTT ATT AGT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
27978774 GTTCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:27978755 original size:21 final size:21
Alignment explanation
Indices: 27978729--27978772 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27978719 CTTTTACATC
*
27978729 ATTTTAATTA-AATTATTATT
1 ATTTTTATTAGAATTATTATT
*
27978749 ATTTTTATTAGTATTATTATT
1 ATTTTTATTAGAATTATTATT
27978770 ATT
1 ATT
27978773 AGTTCTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTATTAGAATTATTATT
Found at i:27988512 original size:21 final size:20
Alignment explanation
Indices: 27988447--27988515 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
27988437 CACAAAAGCA
*
27988447 CATAAGTGCTAAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
* * * * *
27988468 CGTAAGGTTGAACGGAAGCT
1 CATAAGGCTGAACGAAAACC
27988488 CATAAGAGCTGAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
27988509 CATAAGG
1 CATAAGG
27988516 GTTAAATTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.14
Consensus pattern (20 bp):
CATAAGGCTGAACGAAAACC
Found at i:27988550 original size:42 final size:42
Alignment explanation
Indices: 27988483--27988562 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
27988473 GGTTGAACGG
* *
27988483 AAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAAATTA
1 AAGCTCAAAAGAGCTGAAAGAAAACCCATAAGGGTTAAATTA
*
27988525 AAGCTCAAAAGAGCT-AAAGAGAAACCCATTAGGGTTAA
1 AAGCTCAAAAGAGCTGAAAGA-AAACCCATAAGGGTTAA
27988563 TCGGAAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGCTCAAAAGAGCTGAAAGAAAACCCATAAGGGTTAAATTA
Found at i:27988846 original size:76 final size:76
Alignment explanation
Indices: 27988720--27988872 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
27988710 GTTCCACTTT
27988720 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
1 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
27988785 TAATATCATTC
66 TAATATCATTC
27988796 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
1 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
27988861 TAATATCATTC
66 TAATATCATTC
27988872 A
1 A
27988873 TCAATTCAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (76 bp):
AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
TAATATCATTC
Found at i:27995133 original size:18 final size:19
Alignment explanation
Indices: 27995110--27995146 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27995100 GATATGATTC
*
27995110 TAAAAT-TATTAAAAAAAT
1 TAAAATATATAAAAAAAAT
27995128 TAAAATATATAAAAAAAAT
1 TAAAATATATAAAAAAAAT
27995147 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATATAAAAAAAAT
Found at i:27995492 original size:35 final size:37
Alignment explanation
Indices: 27995436--27995526 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
27995426 AAGTATATCT
27995436 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
27995473 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
27995509 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
27995527 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.37
36 16 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:27995534 original size:17 final size:19
Alignment explanation
Indices: 27995436--27995526 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
27995426 AAGTATATCT
27995436 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27995455 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
27995473 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
27995490 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27995509 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
27995527 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27995931 original size:44 final size:45
Alignment explanation
Indices: 27995875--27996058 Score: 162
Period size: 44 Copynumber: 4.1 Consensus size: 45
27995865 GGAAGGTGAT
* *
27995875 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGTCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
27995920 ATCTGCT-TCTTTAATCTGCTCCCCGTCTAATAAAGAGATGCCAA
1 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
27995964 ATATG-TCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTTGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
27996009 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
27996056 ATC
1 ATC
27996059 ATCTTGGATC
Statistics
Matches: 106, Mismatches: 22, Indels: 20
0.72 0.15 0.14
Matches are distributed among these distances:
43 6 0.06
44 42 0.40
45 27 0.25
46 1 0.01
47 19 0.18
48 5 0.05
49 6 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:27996127 original size:78 final size:78
Alignment explanation
Indices: 27995998--27996214 Score: 380
Period size: 78 Copynumber: 2.8 Consensus size: 78
27995988 ATGTAAACAC
27995998 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
27996063 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
27996076 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCCTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
27996141 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
27996154 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
27996215 TGTTTCTTCG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 131 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:27996554 original size:220 final size:220
Alignment explanation
Indices: 27996156--27996745 Score: 930
Period size: 220 Copynumber: 2.7 Consensus size: 220
27996146 CTGCTTCAAT
*
27996156 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * *
27996221 TTCGATTTGTTTTTTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTT-AGGGTAAACAC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTG-TTTCAGCGTAAACAC
* *
27996285 GTGAAAGCCAAATCTGCTATATCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAACTCATCTT
130 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
*
27996350 GGATCTACTTCGATGTGAAGACATCC
195 GGATCTACTTCGATGTGAAAACATCC
* * * *
27996376 GAAGGTTAGATTTGCCATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTATTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * *
27996441 TTCGATTTGTTCTCTGACAGTACAGAGATACCAAATCATCTTAGATCTGTTTCAGCATAAATACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACG
27996506 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
27996571 GATCTACTTCGATGTGAAAACATCC
196 GATCTACTTCGATGTGAAAACATCC
* *
27996596 GAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * ** * * * *
27996661 TTCGATTTGTTCTCTGACAATACAAAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACG
* *
27996726 TGAAGGTCAAATCTGCTATG
131 TGAAAGCCAAATCTGCTATG
27996746 CTTTATCCTG
Statistics
Matches: 336, Mismatches: 33, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
219 3 0.01
220 333 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACG
TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:28002115 original size:39 final size:40
Alignment explanation
Indices: 28002020--28002281 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
28002010 TTGAATGATG
*
28002020 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
28002058 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
28002099 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
28002138 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
28002177 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
28002216 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
28002255 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
28002282 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:28007320 original size:17 final size:18
Alignment explanation
Indices: 28007288--28007322 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28007278 GATATGATTC
*
28007288 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
28007306 TAAAA-TATAAAAAAAAT
1 TAAAATTATAAAAAAAAT
28007323 AGGGAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:28007618 original size:23 final size:22
Alignment explanation
Indices: 28007588--28007632 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
28007578 AAATTAAATC
28007588 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
28007611 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
28007633 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:28007667 original size:35 final size:37
Alignment explanation
Indices: 28007604--28007682 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
28007594 ATTACAAAAT
28007604 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
28007640 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
28007675 CATATCAT
1 CATATCAT
28007683 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:28007680 original size:14 final size:15
Alignment explanation
Indices: 28007625--28007680 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
28007615 AGATTGCATA
28007625 TCATATCTAAGATTG
1 TCATATCTAAGATTG
28007640 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
28007658 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
28007675 -CATATC
1 TCATATC
28007681 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:28007690 original size:17 final size:19
Alignment explanation
Indices: 28007611--28007682 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
28007601 AATCATATCT
28007611 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
28007630 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
28007648 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
28007665 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
28007683 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:28008704 original size:7 final size:7
Alignment explanation
Indices: 28008692--28008818 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
28008682 ACTAATTAAT
28008692 CTAAACC
1 CTAAACC
28008699 CTAAACC
1 CTAAACC
*
28008706 CTTAATCC
1 C-TAAACC
*
28008714 CTAAACT
1 CTAAACC
*
28008721 TTAAACC
1 CTAAACC
*
28008728 CTAAAATC
1 CT-AAACC
*
28008736 CTAAAAC
1 CTAAACC
*
28008743 ATAAACC
1 CTAAACC
* *
28008750 ATTAACC
1 CTAAACC
* *
28008757 TTGAACCC
1 CT-AAACC
28008765 CT-AACC
1 CTAAACC
28008771 CTTAAACC
1 C-TAAACC
*
28008779 TTAAACC
1 CTAAACC
*
28008786 C-CAACC
1 CTAAACC
28008792 CTTAAACC
1 C-TAAACC
* *
28008800 ATAATCC
1 CTAAACC
*
28008807 ATAAACC
1 CTAAACC
*
28008814 TTAAA
1 CTAAA
28008819 ATAGTAACTC
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 9 0.10
7 56 0.63
8 24 0.27
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:28008717 original size:15 final size:14
Alignment explanation
Indices: 28008693--28008876 Score: 63
Period size: 14 Copynumber: 12.9 Consensus size: 14
28008683 CTAATTAATC
28008693 TAAACCCTAAACCCT
1 TAAACCCTAAA-CCT
* *
28008708 TAATCCCTAAACTT
1 TAAACCCTAAACCT
28008722 TAAACCCTAAAATCC-
1 TAAACCCT-AAA-CCT
* *
28008737 TAAAACATAAACCAT
1 TAAACCCTAAACC-T
* * *
28008752 T-AACCTTGAACCCC
1 TAAACCCT-AAACCT
28008766 T-AACCCTTAAACCT
1 TAAACCC-TAAACCT
* *
28008780 TAAACCCCAACCCT
1 TAAACCCTAAACCT
* * *
28008794 TAAACCATAATCCA
1 TAAACCCTAAACCT
* *
28008808 TAAACCTTAAA--A
1 TAAACCCTAAACCT
* *
28008820 TAGTAACTCATAAACAT
1 TA--AAC-CCTAAACCT
* *
28008837 TAAACCCTTAACCA
1 TAAACCCTAAACCT
* * *
28008851 TATACCCTAAATCG
1 TAAACCCTAAACCT
28008865 TAAACCCTAAAC
1 TAAACCCTAAAC
28008877 TATAATAATA
Statistics
Matches: 124, Mismatches: 33, Indels: 25
0.68 0.18 0.14
Matches are distributed among these distances:
12 3 0.02
13 2 0.02
14 78 0.63
15 38 0.31
16 1 0.01
17 2 0.02
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:28008775 original size:21 final size:20
Alignment explanation
Indices: 28008746--28008796 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
28008736 CTAAAACATA
* *
28008746 AACCATTAACCTTGAACCCC
1 AACCCTTAACCTTAAACCCC
28008766 TAACCCTTAAACCTTAAACCCC
1 -AACCCTT-AACCTTAAACCCC
28008788 AACCCTTAA
1 AACCCTTAA
28008797 ACCATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 12 0.44
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (20 bp):
AACCCTTAACCTTAAACCCC
Found at i:28008797 original size:21 final size:22
Alignment explanation
Indices: 28008753--28008799 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
28008743 ATAAACCATT
*
28008753 AACCTTGAACCCCTAACCCTTA
1 AACCTTAAACCCCTAACCCTTA
28008775 AACCTTAAACCCC-AACCCTTA
1 AACCTTAAACCCCTAACCCTTA
28008796 AACC
1 AACC
28008800 ATAATCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCTTAAACCCCTAACCCTTA
Found at i:28008987 original size:7 final size:7
Alignment explanation
Indices: 28008975--28009129 Score: 67
Period size: 7 Copynumber: 21.7 Consensus size: 7
28008965 ACTAATTAAT
28008975 CTAAACC
1 CTAAACC
28008982 CTAAACC
1 CTAAACC
* *
28008989 CTTAATCT
1 C-TAAACC
*
28008997 CTAATCC
1 CTAAACC
28009004 CTAAACC
1 CTAAACC
*
28009011 GTAAACC
1 CTAAACC
*
28009018 CTAAATC
1 CTAAACC
*
28009025 CTAAAAC
1 CTAAACC
**
28009032 AAAAACC
1 CTAAACC
*
28009039 CTGAACCC
1 CT-AAACC
* *
28009047 CTAATCT
1 CTAAACC
* *
28009054 TTAACCC
1 CTAAACC
*
28009061 CTAACCC
1 CTAAACC
*
28009068 CTAAGCC
1 CTAAACC
*
28009075 ATAAACC
1 CTAAACC
* *
28009082 CCAATCC
1 CTAAACC
*
28009089 TTAAACC
1 CTAAACC
* *
28009096 ATAATCC
1 CTAAACC
28009103 CTAAACC
1 CTAAACC
*
28009110 CATAATCC
1 C-TAAACC
*
28009118 ATAAACC
1 CTAAACC
*
28009125 TTAAA
1 CTAAA
28009130 ATAGTAACTC
Statistics
Matches: 108, Mismatches: 37, Indels: 6
0.72 0.25 0.04
Matches are distributed among these distances:
7 92 0.85
8 16 0.15
ACGTcount: A:0.41, C:0.36, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:28009083 original size:15 final size:15
Alignment explanation
Indices: 28009063--28009124 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
28009053 TTTAACCCCT
* *
28009063 AACCCCTAAGCCATA
1 AACCCATAATCCATA
* *
28009078 AACCC-CAATCCTTA
1 AACCCATAATCCATA
*
28009092 AA-CCATAATCCCTA
1 AACCCATAATCCATA
28009106 AACCCATAATCCATA
1 AACCCATAATCCATA
28009121 AACC
1 AACC
28009125 TTAAAATAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.05
14 17 0.44
15 20 0.51
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:28009129 original size:22 final size:21
Alignment explanation
Indices: 28009092--28009163 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
28009082 CCAATCCTTA
* *
28009092 AACCATAATCCCTAAACCCAT
1 AACCATAAACCTTAAACCCAT
**
28009113 AATCCATAAACCTTAAA-ATAGT
1 AA-CCATAAACCTTAAACCCA-T
*
28009135 AACTCATAAACCTTAAACCCTT
1 AAC-CATAAACCTTAAACCCAT
28009157 AACCATA
1 AACCATA
28009164 TGCCCTAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 8 0.20
22 32 0.80
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (21 bp):
AACCATAAACCTTAAACCCAT
Found at i:28009773 original size:134 final size:135
Alignment explanation
Indices: 28009620--28009878 Score: 321
Period size: 135 Copynumber: 1.9 Consensus size: 135
28009610 GCATTAGTGT
28009620 CGTTTTTTAAAAAGCGCCACTAAAGGT-GTA-C-TATAG-GGACGCTTTTTAAAAAACAACGCTA
1 CGTTTTTTAAAAAGCGCCACTAAAGGTCG-AGCAT-TAGCGG-CGCTTTTTAAAAAACAACGCTA
** * * *
28009681 ATACTTGATCTATAGTTGCGTTTTTAAAAAAGCGCCGTTAAAGCCACTAAAAGCTCAA-TAAAAT
63 ATACTTGATCTATAGCGGCCTTGTTAAAAAAGCGCCGCTAAAGCCACT-AAAGCTCAATTAAAAT
28009745 TTTTTGCAG
127 TTTTTGCAG
** * * **
28009754 CGTTTTTTTGAAAGCGCCACTAAAGGTCGAGCATTAGCGGCGTTTTTTAAAAAGCGCCGCTAATA
1 CGTTTTTTAAAAAGCGCCACTAAAGGTCGAGCATTAGCGGCGCTTTTTAAAAAACAACGCTAATA
* * *
28009819 CTTGATCTATAGCGGCCTTGTTAAAAAAGTGCCGCTAACGCCACTGAAGCTCAATTAAAA
66 CTTGATCTATAGCGGCCTTGTTAAAAAAGCGCCGCTAAAGCCACTAAAGCTCAATTAAAA
28009879 CGATGGCGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
134 34 0.32
135 69 0.65
136 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (135 bp):
CGTTTTTTAAAAAGCGCCACTAAAGGTCGAGCATTAGCGGCGCTTTTTAAAAAACAACGCTAATA
CTTGATCTATAGCGGCCTTGTTAAAAAAGCGCCGCTAAAGCCACTAAAGCTCAATTAAAATTTTT
TGCAG
Found at i:28010028 original size:40 final size:40
Alignment explanation
Indices: 28009902--28010032 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
28009892 CATAAGTTTT
* * * * **
28009902 GCGGCTTTTTTTAAAAAGCGCCGCTAAAGGT-GAACCTATA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCG-TGCTATA
* *
28009942 GCGGCGTTTGTTAAAAAGTGCCGCTAATGCTCGTGCTTTA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCGTGCTATA
* *
28009982 GCGGCGTTTTTTGAAAAA-TGTCGCTAATGCTTGAT-CTATA
1 GCGGCGTTTTTT-AAAAAGTGCCGCTAATGCTCG-TGCTATA
*
28010022 GTGGCGTTTTT
1 GCGGCGTTTTT
28010033 CATTCAAACA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 68 0.91
41 7 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCGTGCTATA
Found at i:28015818 original size:40 final size:40
Alignment explanation
Indices: 28015770--28015845 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
28015760 TGGTACACTA
* *
28015770 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCTATGTT
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTATGTT
*
28015810 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCTA
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTA
28015846 CATAGTGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.09, G:0.37, T:0.41
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCTATGTT
Found at i:28023371 original size:40 final size:40
Alignment explanation
Indices: 28023310--28023385 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
28023300 CGGTACACTA
* * *
28023310 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATGTT
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
*
28023350 TGGTGTGTAGAGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCA
28023386 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGAGATGGATGGGTCGATTTTATCCCCATGTT
Found at i:28026966 original size:47 final size:47
Alignment explanation
Indices: 28026903--28028167 Score: 1726
Period size: 47 Copynumber: 26.6 Consensus size: 47
28026893 CCCTTCGGGA
* * *
28026903 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
28026950 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
28026997 CTTATCTCAAATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027044 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027091 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027138 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027185 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027232 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027279 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027326 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
28027373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027422 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027469 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
28027518 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027565 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
28027614 CTTATCACATATATATACACTTTCACATTCATCACATTGGCAATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027663 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
** *
28027710 CTTATCACACGTACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027757 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
28027804 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
28027851 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027900 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28027947 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
28027996 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28028043 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
28028092 CTTATCATATATATATATACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
28028141 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
28028168 TATTCAAATA
Statistics
Matches: 1135, Mismatches: 65, Indels: 36
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 773 0.68
49 357 0.31
50 2 0.00
51 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:28027067 original size:94 final size:95
Alignment explanation
Indices: 28026903--28028167 Score: 1719
Period size: 96 Copynumber: 13.3 Consensus size: 95
28026893 CCCTTCGGGA
* *
28026903 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
28026966 ACTTTCACATTCATCACATTGGCCATTCGGC
66 A-TTTCACATTCATCACATTGGCCATTCGGC
* * * *
28026997 CTTATCTCA-A-ATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027059 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
28027091 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027153 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
28027185 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027247 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
28027279 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027341 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
*
28027373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
28027438 ACTTTCACATTCATCACATCGGCCATTAGGC
66 A-TTTCACATTCATCACATTGGCCATTCGGC
* *
28027469 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
28027534 ACTTTCACATTCATCACATCGGCTATTAGGC
66 A-TTTCACATTCATCACATTGGCCATTCGGC
* *
28027565 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
*
28027630 ACACTTTCACATTCATCACATTGGCAATTCGGC
64 ACA-TTTCACATTCATCACATTGGCCATTCGGC
* * ** *
28027663 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACGTACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027725 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
28027757 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
28027819 CATGTTCACATTCATCACATTGGCCATTCGGC
65 CAT-TTCACATTCATCACATTGGCCATTCGGC
28027851 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
28027916 ACTTTCACATTCATCACATCGGCCATTAGGC
66 A-TTTCACATTCATCACATTGGCCATTCGGC
* *
28027947 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
28028012 ACTTTCACATTCATCACATCGGCTATTAGGC
66 A-TTTCACATTCATCACATTGGCCATTCGGC
* * *
28028043 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC--ACATATAT
* *
28028108 ATACTTTCACATTCATCACATTGGCCATTAGGC
64 ACA-TTTCACATTCATCACATTGGCCATTCGGC
28028141 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
28028168 TATTCAAATA
Statistics
Matches: 1095, Mismatches: 57, Indels: 36
0.92 0.05 0.03
Matches are distributed among these distances:
93 4 0.00
94 487 0.44
95 1 0.00
96 511 0.47
97 4 0.00
98 88 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ATTTCACATTCATCACATTGGCCATTCGGC
Found at i:28027804 original size:478 final size:478
Alignment explanation
Indices: 28026903--28028167 Score: 2133
Period size: 478 Copynumber: 2.7 Consensus size: 478
28026893 CCCTTCGGGA
* *
28026903 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
28026966 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA-A-ATATGCA-TGTTCACATTCATC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATC
* * * * * * *
28027028 ACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
130 ACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCTATTAGGCC
* * * * *
28027092 TTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATAT
194 TTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* * *
28027152 GCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATC
258 ACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATC
28027216 ACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCT
322 ACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCT
28027281 TATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGT
387 TATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGT
28027346 TCACATTCATCACATTGGCCATTCGGC
452 TCACATTCATCACATTGGCCATTCGGC
*
28027373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
28027438 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
28027503 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
28027568 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
196 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
* * *
28027633 CTTTCACATTCATCACATTGGCAATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACAT
261 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
*
28027698 TGGCCATTCGGCCTTATCACACGTACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
326 TGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
28027763 TCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
391 TCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
28027828 ATTCATCACATTGGCCATTCGGC
456 ATTCATCACATTGGCCATTCGGC
28027851 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
28027916 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
28027981 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
* *
28028046 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATATATA
196 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
*
28028111 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT-TTCACATT
261 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATT
28028168 TATTCAAATA
Statistics
Matches: 749, Mismatches: 33, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
470 10 0.01
471 1 0.00
472 86 0.11
473 1 0.00
474 80 0.11
475 2 0.00
476 40 0.05
477 1 0.00
478 526 0.70
479 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (478 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
TGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
TCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
ATTCATCACATTGGCCATTCGGC
Found at i:28029576 original size:85 final size:85
Alignment explanation
Indices: 28029433--28029611 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
28029423 TATTTTATTG
* *
28029433 CCCATGCCCTTTTTTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
28029498 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
28029518 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
28029583 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
28029603 CCCACGCTC
1 CCCATGCTC
28029612 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:28030739 original size:21 final size:21
Alignment explanation
Indices: 28030715--28030787 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
28030705 CCGTGAGGGT
*
28030715 TGAACGGAAGCTCATAAGAGC
1 TGAACGAAAGCTCATAAGAGC
* * * *
28030736 TGAACGAAAACACATAAGGGT
1 TGAACGAAAGCTCATAAGAGC
* *
28030757 TGAACTAAAGCTCAAAAGAGC
1 TGAACGAAAGCTCATAAGAGC
*
28030778 TAAACTGAAA
1 TGAAC-GAAA
28030788 TCCATTAGGG
Statistics
Matches: 38, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (21 bp):
TGAACGAAAGCTCATAAGAGC
Found at i:28030742 original size:42 final size:42
Alignment explanation
Indices: 28030679--28030814 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
28030669 AGGCTGCACA
* * * * *
28030679 GAAGCACATAAGTGCTAAACGAAAACCCGTGAGGGTTGAACG
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* *
28030721 GAAGCTCATAAGAGCTGAACGAAAACACATAAGGGTTGAACT
1 GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
* * * *
28030763 AAAGCTCAAAAGAGCTAAACTGAAATC-CATTAGGGTT-AATCG
1 GAAGCTCATAAGAGCTAAAC-GAAAACACATAAGGGTTGAA-CG
*
28030805 GAAACTCATA
1 GAAGCTCATA
28030815 TGAGTTAACT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.03
42 69 0.91
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGAAAACACATAAGGGTTGAACG
Found at i:28033563 original size:28 final size:28
Alignment explanation
Indices: 28033522--28033577 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
28033512 TTATATGTAC
*
28033522 ACTGCTTATTTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
28033550 ACTGCTTATGTTATGAGAACTGTTGTGT
1 ACTGCTTATGTTATGAGAACTGTTGTGT
28033578 TGTGTGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (28 bp):
ACTGCTTATGTTATGAGAACTGTTGTGT
Found at i:28037016 original size:35 final size:35
Alignment explanation
Indices: 28036950--28037067 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
28036940 AAATCCTACC
* * * *
28036950 AAAACAAACCAGATGCTCATAAGAGCCAATCCATCT
1 AAAACACACCA-ATGCTCGTAAGAGCTAATCCATCA
* *
28036986 AAAACACACCAACGCTCGTAAGAGCTAATCCCTCA
1 AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
* * * *
28037021 AAAACACACCAATGCTCGTAAAAGCTAGTCCAACC
1 AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
*
28037056 GAAACACACCAA
1 AAAACACACCAA
28037068 AATAGAGATT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 59 0.86
36 10 0.14
ACGTcount: A:0.44, C:0.31, G:0.11, T:0.14
Consensus pattern (35 bp):
AAAACACACCAATGCTCGTAAGAGCTAATCCATCA
Found at i:28044408 original size:27 final size:26
Alignment explanation
Indices: 28044352--28044408 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
28044342 CAACCTTAAC
* *
28044352 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
* *
28044378 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
28044405 CCTA
1 CCTA
28044409 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:28056485 original size:9 final size:9
Alignment explanation
Indices: 28056471--28056564 Score: 93
Period size: 9 Copynumber: 10.6 Consensus size: 9
28056461 TTTATACAAA
28056471 TAATTCGGT
1 TAATTCGGT
*
28056480 TAATTCAGT
1 TAATTCGGT
* **
28056489 TAATTTGAC
1 TAATTCGGT
*
28056498 TAATTCGGG
1 TAATTCGGT
28056507 TAATTCGAG-
1 TAATTCG-GT
*
28056516 TAATTCGGG
1 TAATTCGGT
28056525 TAATTCGGT
1 TAATTCGGT
*
28056534 TAATTCGAT
1 TAATTCGGT
*
28056543 TAATTCAGT
1 TAATTCGGT
28056552 TAA-TCGGT
1 TAATTCGGT
28056560 TAATT
1 TAATT
28056565 TTATACTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
8 8 0.12
9 60 0.87
10 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:28058938 original size:18 final size:18
Alignment explanation
Indices: 28058915--28058951 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28058905 TTTAATGAGA
*
28058915 TATTTTACTATTTATTAT
1 TATTTTACTATTAATTAT
*
28058933 TATTTTATTATTAATTAT
1 TATTTTACTATTAATTAT
28058951 T
1 T
28058952 TAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTACTATTAATTAT
Found at i:28060670 original size:40 final size:40
Alignment explanation
Indices: 28060585--28060722 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
28060575 CTTGAGAATA
* ** *
28060585 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
28060625 CAAAGTGGATAGGATTTGCTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * * *
28060665 TAAAGTGAATAGGATTTATTCCTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* **
28060705 TAAGGCAGATAGGATTTG
1 TAAAGTGGATAGGATTTG
28060723 ACCTGAAAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:28060781 original size:79 final size:78
Alignment explanation
Indices: 28060687--28060918 Score: 320
Period size: 79 Copynumber: 2.9 Consensus size: 78
28060677 GATTTATTCC
* * **
28060687 TAATTCACTACGGTAACTTAAGGCAGATAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAG-GTAATCCTGATTCGCTAC
28060752 GGTTACATGATATA
65 GGTTACATGATATA
* * *
28060766 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTAAAAAGGGTAATCCTGATTCGCTAC
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
* *
28060831 GATTACACGATATA
65 GGTTACATGATATA
* * * * *
28060845 TAATTCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCCCTACA
1 TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
28060910 GTTACATGA
66 GTTACATGA
28060919 GATGTGACTC
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
78 25 0.19
79 107 0.80
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (78 bp):
TAATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACG
GTTACATGATATA
Found at i:28066320 original size:26 final size:25
Alignment explanation
Indices: 28066239--28066326 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
28066229 TATATATTAT
* *
28066239 TTTATTAAATTATATTTAATAACAA
1 TTTATTAAAATATATTTAATAATAA
* * * **
28066264 -TTATGTTAAATATGATTAAATTATTT
1 TTTAT-TAAAATAT-ATTTAATAATAA
28066290 TTTATTAAAATATATTTAATAATAA
1 TTTATTAAAATATATTTAATAATAA
28066315 TCTTATTAAAAT
1 T-TTATTAAAAT
28066327 TTAATAACAA
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
24 4 0.09
25 15 0.32
26 24 0.51
27 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTATTAAAATATATTTAATAATAA
Found at i:28080322 original size:70 final size:70
Alignment explanation
Indices: 28080202--28080339 Score: 249
Period size: 70 Copynumber: 2.0 Consensus size: 70
28080192 TTAAAATAAA
28080202 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
28080267 TGAGG
66 TGAGG
* * *
28080272 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCTGATACTAAATGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
28080337 TGA
66 TGA
28080340 TGGCATTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (70 bp):
CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACGAAAGGCCAAAATATCATTAGATG
TGAGG
Found at i:28082336 original size:2 final size:2
Alignment explanation
Indices: 28082329--28082355 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28082319 GCAAACACCC
28082329 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
28082356 ACAGCACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28085315 original size:2 final size:2
Alignment explanation
Indices: 28085264--28085300 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
28085254 ACTAAAAAAC
28085264 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
28085301 AATTAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28085748 original size:18 final size:17
Alignment explanation
Indices: 28085710--28085751 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
28085700 AAATAAAATT
28085710 TTTAATATAAATAATTAA
1 TTTAATATAAAT-ATTAA
28085728 TTTAATGATAAAT-TTACA
1 TTTAAT-ATAAATATTA-A
28085746 TTTAAT
1 TTTAAT
28085752 CTAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTAATATAAATATTAA
Found at i:28086475 original size:4 final size:4
Alignment explanation
Indices: 28086466--28086490 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
28086456 TTAATGAAGG
28086466 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
28086491 AAGAGTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:28090600 original size:41 final size:41
Alignment explanation
Indices: 28090452--28090603 Score: 124
Period size: 43 Copynumber: 3.6 Consensus size: 41
28090442 CATACCAATG
* * * * *
28090452 CCATATCCTAGATATGGTCTTACATGTAATCTCTTATCGATA
1 CCATATCCCAGATATGATCTTACACGAAATCTCATA-CGATA
* * * * * * * * *
28090494 CTAATAGCCTAGCTATGGTCTTATAAGAAATCTCATGTCGACA
1 C-CATATCCCAGATATGATCTTACACGAAATCTCAT-ACGATA
* * *
28090537 CCACATCACAGATATGATCTTACACGAAATCTCATACGATG
1 CCATATCCCAGATATGATCTTACACGAAATCTCATACGATA
28090578 CCATATCCCAGATATGATCTTACACG
1 CCATATCCCAGATATGATCTTACACG
28090604 TAGTCTTAGT
Statistics
Matches: 85, Mismatches: 23, Indels: 5
0.75 0.20 0.04
Matches are distributed among these distances:
41 27 0.32
42 26 0.31
43 32 0.38
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (41 bp):
CCATATCCCAGATATGATCTTACACGAAATCTCATACGATA
Found at i:28098124 original size:41 final size:41
Alignment explanation
Indices: 28097972--28098125 Score: 175
Period size: 41 Copynumber: 3.7 Consensus size: 41
28097962 TACCATACCA
* * * * *
28097972 ATGCCACATCCTAGATATGGTCTTACATGTAATCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT-G
* * * *
28098014 ATGCCAATAGCCCAGTTATGGTCTTAC-TGAAATCTCATGTTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAT-ATG
* *
28098056 ACGCCATATCACAGATATGGTCTTACACGAAATCTCATATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
28098097 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
28098126 TAGTCTTAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 47 0.50
42 29 0.31
43 18 0.19
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATG
Found at i:28111106 original size:24 final size:25
Alignment explanation
Indices: 28111079--28111126 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
28111069 CAAGCGAGCC
*
28111079 ATATTAGGAAGCTCAT-AAGAGCTT
1 ATATCAGGAAGCTCATGAAGAGCTT
*
28111103 ATATCAGGACGCTCATGAAGAGCT
1 ATATCAGGAAGCTCATGAAGAGCT
28111127 GTGTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
ATATCAGGAAGCTCATGAAGAGCTT
Found at i:28113948 original size:53 final size:53
Alignment explanation
Indices: 28113887--28114001 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
28113877 TGCGCTCGTT
*
28113887 TAAGACCATAGATGGGCTATGGCATCGGTGCAATGTGATAATGTGACT-CCGTA
1 TAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGA-TGCCGTA
* * * *
28113940 TAAGACCATAGCTGGGCTATGGCATTGGTATATTGTGATAATGTGATGCCGTA
1 TAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGATGCCGTA
28113993 TAAGACCAT
1 TAAGACCAT
28114002 GTCTGAGATA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 1 0.02
53 55 0.98
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGATGGGCTATGGCATCGGTACAATGTGATAATGTGATGCCGTA
Found at i:28114014 original size:53 final size:55
Alignment explanation
Indices: 28113865--28114032 Score: 149
Period size: 53 Copynumber: 3.1 Consensus size: 55
28113855 TTGACGAAAA
* * * * * *
28113865 ATATGTGATAA-GTG-CGCTCGTTTAAGACCATAGATGGGCTATGGCATCGG--TG
1 ATATGTGATAATGTGACTC-CGTATAAGACCATAGCTGAGATATGGCTTCGGTATG
* *
28113917 CA-ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATT-GGTAT-
1 -ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGAGATATGGC-TTCGGTATG
28113971 AT-TGTGATAATGTGA-TGCCGTATAAGACCAT-GTCTGAGATATGGCTTCGGTATG
1 ATATGTGATAATGTGACT-CCGTATAAGACCATAG-CTGAGATATGGCTTCGGTATG
28114025 ATATGTGA
1 ATATGTGA
28114033 ACCGTGTAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
52 13 0.13
53 74 0.76
54 5 0.05
55 6 0.06
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGAGATATGGCTTCGGTATG
Found at i:28120064 original size:17 final size:17
Alignment explanation
Indices: 28120039--28120072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28120029 TTACTAGAGT
28120039 TTACCATTTAATTTCAG
1 TTACCATTTAATTTCAG
* *
28120056 TTACTATTTATTTTCAG
1 TTACCATTTAATTTCAG
28120073 AAATCAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (17 bp):
TTACCATTTAATTTCAG
Found at i:28130511 original size:21 final size:21
Alignment explanation
Indices: 28130487--28130527 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
28130477 TATATTTGTA
28130487 TCTAGCAACTTGTCTACATTT
1 TCTAGCAACTTGTCTACATTT
***
28130508 TCTAGTGGCTTGTCTACATT
1 TCTAGCAACTTGTCTACATT
28130528 GTTAGTGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (21 bp):
TCTAGCAACTTGTCTACATTT
Found at i:28132742 original size:22 final size:22
Alignment explanation
Indices: 28132715--28132762 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
28132705 ATAAATAATG
*
28132715 AAAATAAAGAAA-GAAAGAAAGA
1 AAAATAAACAAATGAAAGAAA-A
*
28132737 AAAATAAACAAATGAAATAAAA
1 AAAATAAACAAATGAAAGAAAA
28132759 AAAA
1 AAAA
28132763 CTAATTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAATAAACAAATGAAAGAAAA
Found at i:28133954 original size:25 final size:25
Alignment explanation
Indices: 28133926--28133974 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
28133916 TATTATATAT
*
28133926 CATTCTTTAATATATACATTATTTG
1 CATTCATTAATATATACATTATTTG
* * *
28133951 CATTCATTGATATATTCTTTATTT
1 CATTCATTAATATATACATTATTT
28133975 TCTTCGATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (25 bp):
CATTCATTAATATATACATTATTTG
Found at i:28137829 original size:33 final size:32
Alignment explanation
Indices: 28137791--28137859 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
28137781 ATCATAGGTT
28137791 TCATGAAATAGACAATTTAAAGATAGATTTTTA
1 TCATGAAATAGACAATTTAAAGATAGA-TTTTA
28137824 TCATGAAATAGACAATTTAAAGATAGATTTTA
1 TCATGAAATAGACAATTTAAAGATAGATTTTA
28137856 TCAT
1 TCAT
28137860 TTCTGAGCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (32 bp):
TCATGAAATAGACAATTTAAAGATAGATTTTA
Found at i:28141402 original size:18 final size:17
Alignment explanation
Indices: 28141365--28141426 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
28141355 TCTTTCTAGT
* *
28141365 TTATTTTTATTTACTAAA
1 TTATTTTT-TTTAATTAA
28141383 TTATTTTTCTTTAATTAA
1 TTATTTTT-TTTAATTAA
*
28141401 TT-TTTATTTTTAAATTTA
1 TTATTT-TTTTT-AATTAA
28141419 TTATTTTT
1 TTATTTTT
28141427 ATTATCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 6 0.16
18 28 0.76
19 3 0.08
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTTTTTAATTAA
Found at i:28148096 original size:16 final size:16
Alignment explanation
Indices: 28148071--28148101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28148061 ACTACTTTTT
28148071 ATTTTATTTTTATTTA
1 ATTTTATTTTTATTTA
*
28148087 ATTTTCTTTTTATTT
1 ATTTTATTTTTATTT
28148102 CATCCTTAGG
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:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTATTTTTATTTA
Found at i:28165323 original size:13 final size:13
Alignment explanation
Indices: 28165305--28165367 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
28165295 AGTTTGGCAA
28165305 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
28165318 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
28165331 TGCTATGGAAAAG
1 TGCTTTTGAAAAG
*
28165344 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
28165357 TGCTTTT-AAAA
1 TGCTTTTGAAAA
28165368 AATTTGGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
12 3 0.07
13 41 0.93
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:28169208 original size:20 final size:20
Alignment explanation
Indices: 28169183--28169228 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
28169173 AAACCTCGGT
* * *
28169183 AGGTATCGATTTTTTTCTTA
1 AGGTATCGATATATTTCCTA
28169203 AGGTATCGATATATTTCCTA
1 AGGTATCGATATATTTCCTA
28169223 AGGTAT
1 AGGTAT
28169229 TGACATTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
AGGTATCGATATATTTCCTA
Found at i:28175714 original size:23 final size:23
Alignment explanation
Indices: 28175688--28175753 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
28175678 ACTTGTTCGT
* *
28175688 TAAAGTCTGTGTGGCATATTCTG
1 TAAAGTCTTTGTGGCATATTCTA
* *
28175711 TAAAG-CTTTTATGGCATGTTCTA
1 TAAAGTC-TTTGTGGCATATTCTA
*
28175734 TAAATTCTTTGTGGCATATT
1 TAAAGTCTTTGTGGCATATT
28175754 ATATGATGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (23 bp):
TAAAGTCTTTGTGGCATATTCTA
Found at i:28175731 original size:46 final size:46
Alignment explanation
Indices: 28175660--28175753 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
28175650 ACACGTAATG
* *
28175660 TTCTGTAAAGCCTTTGTGACTTGTTCGT-TAAAGTCTGTGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTC-TATAAAGTCTGTGTGGCATA
* * * *
28175706 TTCTGTAAAGCTTTTATGGCATGTTCTATAAATTCTTTGTGGCATA
1 TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTGTGTGGCATA
28175752 TT
1 TT
28175754 ATATGATGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (46 bp):
TTCTGTAAAGCCTTTATGACATGTTCTATAAAGTCTGTGTGGCATA
Found at i:28180082 original size:16 final size:18
Alignment explanation
Indices: 28180051--28180083 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
28180041 AACTCGTCAC
28180051 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
28180069 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
28180084 AATTTGTATG
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:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:28180442 original size:19 final size:19
Alignment explanation
Indices: 28180418--28180462 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
28180408 AACCCAAATT
28180418 TTGAAGTTAATTAGGATCA
1 TTGAAGTTAATTAGGATCA
28180437 TTGAAGTTAATTAGGATCA
1 TTGAAGTTAATTAGGATCA
28180456 TTGAAGT
1 TTGAAGT
28180463 GAGTTGATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (19 bp):
TTGAAGTTAATTAGGATCA
Found at i:28183461 original size:21 final size:22
Alignment explanation
Indices: 28183437--28183477 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28183427 CCATTTAGGT
*
28183437 CTTTTGTC-TATTAAACATTAC
1 CTTTTCTCATATTAAACATTAC
28183458 CTTTTCTCATATTAAACATT
1 CTTTTCTCATATTAAACATT
28183478 TAATTCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
CTTTTCTCATATTAAACATTAC
Found at i:28185625 original size:23 final size:23
Alignment explanation
Indices: 28185605--28185688 Score: 150
Period size: 23 Copynumber: 3.7 Consensus size: 23
28185595 TAACTTAATC
*
28185605 GAACATGTTCACGAACATTAAAT
1 GAACATGTTCACGAACATTAGAT
*
28185628 GAATATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
28185651 GAACATGTTCACGAACATTAGAT
1 GAACATGTTCACGAACATTAGAT
28185674 GAACATGTTCACGAA
1 GAACATGTTCACGAA
28185689 AAATGTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAGAT
Found at i:28188675 original size:46 final size:44
Alignment explanation
Indices: 28188602--28188713 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 44
28188592 ATTGAGACGA
* * * ** *
28188602 GAGCTAGTGTAAGACATATCTGGGACATGCATCGGCCT-CGAGAT
1 GAGCCAGTGTAAAACATGTCTAAGACATGCACCGG-CTACGAGAT
28188646 GTAAGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
1 G--AGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
*
28188692 GAGCCAGTGTAAGACCATGTCT
1 GAGCCAGTGTAA-AACATGTCT
28188714 GGGACATGGC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.21
45 10 0.18
46 35 0.61
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (44 bp):
GAGCCAGTGTAAAACATGTCTAAGACATGCACCGGCTACGAGAT
Found at i:28192766 original size:6 final size:6
Alignment explanation
Indices: 28192755--28192921 Score: 172
Period size: 6 Copynumber: 27.8 Consensus size: 6
28192745 ACAGAAGCTT
* *
28192755 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCCC TCCCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * *
28192803 CCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * *
28192851 TCTCCC TCTCCC TCTCTC CCTCTC TCCCTC TCTCCC TCTCTC TCCCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
*
28192899 TCTCTC CCTCTC TCTCTC TCTCT
1 TCTCTC TCTCTC TCTCTC TCTCT
28192922 TTAAAGAATG
Statistics
Matches: 143, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 143 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
TCTCTC
Found at i:28192778 original size:18 final size:18
Alignment explanation
Indices: 28192755--28192921 Score: 194
Period size: 18 Copynumber: 9.4 Consensus size: 18
28192745 ACAGAAGCTT
*
28192755 TCTCTCTCTCTCTCTCTC
1 TCTCTCTCTCTCTCTCCC
*
28192773 TCTCTCTCTCTCTCTCTC
1 TCTCTCTCTCTCTCTCCC
* * *
28192791 TCTCCCTCCCTCCCTCCC
1 TCTCTCTCTCTCTCTCCC
* *
28192809 TCTCCCTCTCCCTCTCCC
1 TCTCTCTCTCTCTCTCCC
* *
28192827 TCTCCCTCTCCCTCTCCC
1 TCTCTCTCTCTCTCTCCC
* *
28192845 TCTCCCTCTCCCTCTCCC
1 TCTCTCTCTCTCTCTCCC
28192863 TCTCTC-C-CTCTCTCCC
1 TCTCTCTCTCTCTCTCCC
*
28192879 TCTCTCCCTCTCTCTCCC
1 TCTCTCTCTCTCTCTCCC
* *
28192897 TCTCTCTCCCTCTCTCTC
1 TCTCTCTCTCTCTCTCCC
28192915 TCTCTCT
1 TCTCTCT
28192922 TTAAAGAATG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
16 14 0.10
17 2 0.01
18 119 0.88
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (18 bp):
TCTCTCTCTCTCTCTCCC
Found at i:28197537 original size:22 final size:22
Alignment explanation
Indices: 28197511--28197558 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
28197501 TCAAAGAGAT
28197511 ATCAGAAACCTAAAATAGATAA
1 ATCAGAAACCTAAAATAGATAA
28197533 ATCAGAAACCTAAAATAGATAA
1 ATCAGAAACCTAAAATAGATAA
28197555 ATCA
1 ATCA
28197559 TTCACATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (22 bp):
ATCAGAAACCTAAAATAGATAA
Found at i:28204353 original size:24 final size:24
Alignment explanation
Indices: 28204321--28204441 Score: 68
Period size: 24 Copynumber: 5.0 Consensus size: 24
28204311 AGCCTTATCA
28204321 CGGGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
* * * *
28204345 CGGGAAGCTTATC--CGGGCTATAT
1 CGGGAAGCTCA-CAAAGAGCCATAT
* * * *
28204368 AACAGGAATCTTATAAA-AGCCATAAT
1 --CGGGAAGCTCACAAAGAGCCAT-AT
* * * *
28204394 CAGGAAGTTCATAAAGAACCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
*
28204418 CGCGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
28204442 AATGGAAGCT
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
23 7 0.10
24 43 0.61
25 19 0.27
26 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:28216693 original size:68 final size:66
Alignment explanation
Indices: 28216621--28216776 Score: 172
Period size: 67 Copynumber: 2.3 Consensus size: 66
28216611 CATCATGCGT
* * * * *
28216621 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGTGATAC-GG-GATGTATACCA
1 ACAAGAGAGCTACGAGATA--A-AT-ATAGCTAGGTCACATGTGTGATACAGGTGAAGGACACCA
28216684 TGTAG
62 TGTAG
* * * *
28216689 ACAAGAGAGCTACGGGATAAATATAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATATAGCTAGGTCACATGTGTGATAC-AGGTGAAGGACACCATGT
28216754 AG
65 AG
28216756 ACAAGAGAGCTACGAGATAAA
1 ACAAGAGAGCTACGAGATAAA
28216777 GTGGCTAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
64 20 0.27
65 1 0.01
66 3 0.04
67 33 0.44
68 18 0.24
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGATAAATATAGCTAGGTCACATGTGTGATACAGGTGAAGGACACCATGTA
G
Found at i:28234579 original size:24 final size:24
Alignment explanation
Indices: 28234547--28234666 Score: 68
Period size: 24 Copynumber: 5.0 Consensus size: 24
28234537 GCCTTATCAT
28234547 GGGAAGCTTACAAAGAGCCATATC
1 GGGAAGCTTACAAAGAGCCATATC
*** *
28234571 GGGAAGCTTA-TTCGAGCTATATAAC
1 GGGAAGCTTACAAAGAGCCATAT--C
* *
28234596 AGGAAGC-T-CATAAGAGCCATAATT
1 GGGAAGCTTACA-AAGAGCCAT-ATC
* * *
28234620 AGGAAG-TTCACAAAGAACCGTATC
1 GGGAAGCTT-ACAAAGAGCCATATC
* *
28234644 GTGAAGCTCACAAAGAGCCATAT
1 GGGAAGCTTACAAAGAGCCATAT
28234667 AACGGAAGCT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
23 8 0.12
24 36 0.52
25 21 0.30
26 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (24 bp):
GGGAAGCTTACAAAGAGCCATATC
Found at i:28234900 original size:24 final size:24
Alignment explanation
Indices: 28234837--28234916 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
28234827 AGATGCTCCG
*
28234837 AAGAGCT-ATAACGGGAAGCTC-A
1 AAGAGCTAATAACAGGAAGCTCGA
* *
28234859 CAAGAACCATATAACAGGAAGCTCGA
1 -AAGAGCTA-ATAACAGGAAGCTCGA
* * *
28234885 AAGGGCTAATAACAGGATGCTCGT
1 AAGAGCTAATAACAGGAAGCTCGA
28234909 AAGAGCTA
1 AAGAGCTA
28234917 TGGTGTGTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 5 0.11
24 21 0.47
25 18 0.40
26 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (24 bp):
AAGAGCTAATAACAGGAAGCTCGA
Found at i:28238718 original size:50 final size:50
Alignment explanation
Indices: 28238664--28238808 Score: 175
Period size: 49 Copynumber: 2.9 Consensus size: 50
28238654 AGACAAGGTT
* *
28238664 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* ** * * * **
28238714 ATCTGATACATGTAGTAGCCTGCACTTAGTACTACACATGCGACC-GATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
28238763 ATCCGGTACACATAATAGCCTGCACTTAGTACTACACACGTGACCT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
28238809 CACAATAGAT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 39 0.51
50 38 0.49
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Done.