Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 279 of 333
Found at i:92445143 original size:40 final size:40
Alignment explanation
Indices: 92445046--92445268 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
92445036 TCGAATGATG
* * * * *
92445046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAA
* * *
92445086 TCTGGACTAAGAT-CCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAA
* * *
92445126 TCCGTG-TAAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCT-AAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
*
92445166 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* *
92445205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AA
*
92445246 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
92445269 TGAACGAGTG
Statistics
Matches: 154, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
39 37 0.24
40 107 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:92445195 original size:79 final size:80
Alignment explanation
Indices: 92445046--92445268 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 80
92445036 TCGAATGATG
* * * * * *
92445046 TCCGGGCT-AAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGAT-CCGAAGGCA
1 TCCGGG-TAAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA
92445108 TTGGTGCGAGTCACTAAA
63 TTGGTGCGAGTCACTAAA
* **
92445126 TCCGTGTAAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTTCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTAAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
92445189 GGTGCGAGTTACTAAA
65 GGTGCGAGTCACTAAA
* *
92445205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTAAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
92445269 TGAACGAGTG
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 72 0.58
80 45 0.36
81 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTAAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTCACTAAA
Found at i:92445293 original size:79 final size:79
Alignment explanation
Indices: 92445099--92445303 Score: 225
Period size: 79 Copynumber: 2.6 Consensus size: 79
92445089 GGACTAAGAT
** * * *
92445099 CCGAAGGCATTGGTGCGAGTCACTAAATCCGTGTAAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTGGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
**
92445164 ATTTCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
92445178 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTGGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
92445242 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * * *
92445258 CCGAAGGCATTTGAACGAGTGGCTATATCC-AGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGG
92445304 TACGTGATTC
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 2 0.02
79 82 0.75
80 25 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
ATACCGGGCTAAGC
Found at i:92450313 original size:69 final size:70
Alignment explanation
Indices: 92450181--92450313 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
92450171 TAGTTTATTA
* * * *
92450181 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
92450246 CTTAG
66 CTTAG
92450251 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
92450314 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:92451757 original size:47 final size:47
Alignment explanation
Indices: 92451699--92452389 Score: 1159
Period size: 47 Copynumber: 14.6 Consensus size: 47
92451689 TATTTGAATA
*
92451699 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGAGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92451746 AATATGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATTGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATG
*
92451793 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
92451842 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92451889 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92451936 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92451985 AATGTGAAAGTTTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92452032 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92452079 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92452126 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92452175 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92452222 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92452269 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
92452316 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92452363 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
92452390 TCCCGAAGGG
Statistics
Matches: 609, Mismatches: 27, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 475 0.78
49 132 0.22
50 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92451858 original size:143 final size:142
Alignment explanation
Indices: 92451699--92452389 Score: 1160
Period size: 143 Copynumber: 4.9 Consensus size: 142
92451689 TATTTGAATA
* *
92451699 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGAGATGAATATGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
92451764 TGTGATAAGGCCGAATGGCCATTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCA-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
92451829 AGCCGATGTGATG
130 GGCCGATGTGATG
92451842 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
92451907 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
92451972 GGCCGATGTGATG
130 GGCCGATGTGATG
*
92451985 AATGTGAAAGTTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
92452050 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAAT
66 TGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
92452113 GGCCAATGTGATG
130 GGCCGATGTGATG
92452126 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
92452191 TATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGG-CCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
92452254 ATGGCCGATGTGATG
128 ATGGCCGATGTGATG
92452269 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
92452334 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
92452390 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 18, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
140 1 0.00
141 140 0.27
142 1 0.00
143 379 0.72
144 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (142 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATG
Found at i:92452026 original size:190 final size:188
Alignment explanation
Indices: 92451699--92452389 Score: 1159
Period size: 190 Copynumber: 3.6 Consensus size: 188
92451689 TATTTGAATA
* * * *
92451699 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGAGATGAATATGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
92451764 TGTGATAAGGCCGAATGGCC-ATTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 TGTGATAAGGCCGAATGGCCGA-TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
*
92451828 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
128 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92451889 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
92451954 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
92452019 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92452079 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
*
92452144 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
92452209 GGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92452269 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * * * *
92452334 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
92452390 TCCCGAAGGG
Statistics
Matches: 480, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
188 55 0.11
190 381 0.79
192 43 0.09
193 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (188 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92459954 original size:33 final size:33
Alignment explanation
Indices: 92459917--92459981 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
92459907 CCCACAATGC
*
92459917 TACTGTATAGGGCTAAGGCCCAGACTATACTGT
1 TACTGAATAGGGCTAAGGCCCAGACTATACTGT
** * *
92459950 TACTGAATAGGGCTTTGGCCTAGACTGTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTATACTG
92459982 ATAGTGTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGAATAGGGCTAAGGCCCAGACTATACTGT
Found at i:92463980 original size:47 final size:47
Alignment explanation
Indices: 92463917--92464592 Score: 1073
Period size: 47 Copynumber: 14.4 Consensus size: 47
92463907 CCCTTCGGGA
* * * *
92463917 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92463964 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92464011 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92464058 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
92464105 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92464152 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92464199 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
92464246 CTTATCACATATACACACTTTCACATTCATCGCATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92464293 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92464340 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
92464387 CTTATCACATATACACACTTTCACATTCATCACATTGGACATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92464434 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92464481 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92464528 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92464575 CTTATCACATATACACAC
1 CTTATCACATATATACAC
92464593 CTTGTACACC
Statistics
Matches: 592, Mismatches: 37, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 592 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92464114 original size:22 final size:22
Alignment explanation
Indices: 92464086--92464161 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
92464076 TTTCACATTC
92464086 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
92464108 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
92464132 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92464155 ATCACAT
1 ATCACAT
92464162 ATATACACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92464490 original size:22 final size:22
Alignment explanation
Indices: 92464462--92464584 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
92464452 TTTCACATTC
92464462 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
92464484 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
92464508 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
*** *** *
92464531 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
92464555 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
92464578 ATCACAT
1 ATCACAT
92464585 ATACACACCT
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 23 0.34
23 14 0.21
24 14 0.21
25 16 0.24
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:92471723 original size:79 final size:81
Alignment explanation
Indices: 92471614--92471796 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
92471604 TACTCGTTCA
* *
92471614 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
92471677 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
92471694 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
92471757 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
92471773 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
92471797 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:92471796 original size:40 final size:40
Alignment explanation
Indices: 92471593--92471796 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
92471583 CAGAATTTAA
** *
92471593 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
92471633 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
92471673 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
92471712 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
92471752 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
92471792 CCGGA
1 CCGGA
92471797 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:92477371 original size:56 final size:56
Alignment explanation
Indices: 92477236--92477371 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
92477226 TCCCAGACAG
*
92477236 GGTCTTACTCACACACATATATCAGAGTCACATATCGATACCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
* * *
92477292 GGTCTTACTCGCACACATATATCGGAGTCACATATCGCTGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
* *
92477348 GGTCTTACTCTCATACATATATCG
1 GGTCTTACTCACACACATATATCG
92477372 ATGCCATGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGGAGTCACATATCGATACCAACGTATAAAACAT
Found at i:92478244 original size:58 final size:58
Alignment explanation
Indices: 92478174--92478289 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
92478164 AAACACATAC
*
92478174 CTTAATCAAGCTTGACTATGGCCAACCCTAAATTCTTTTTCTTTTTCTTTCTTATTTT
1 CTTAATCAAGCTTGACTATGGCCAACCCTAAATTCTTTTTATTTTTCTTTCTTATTTT
92478232 CTTAATCAAGCTTGACTATGGCCAACCCTAAATTCTTTTTATTTTTCTTTCTTATTTT
1 CTTAATCAAGCTTGACTATGGCCAACCCTAAATTCTTTTTATTTTTCTTTCTTATTTT
92478290 ATGTTTCAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.50
Consensus pattern (58 bp):
CTTAATCAAGCTTGACTATGGCCAACCCTAAATTCTTTTTATTTTTCTTTCTTATTTT
Found at i:92480180 original size:40 final size:40
Alignment explanation
Indices: 92480132--92480519 Score: 641
Period size: 40 Copynumber: 9.7 Consensus size: 40
92480122 GCAAACACCT
* * *
92480132 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
92480172 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCTCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
92480212 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
92480252 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
92480292 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
92480332 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
92480372 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
92480412 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
92480452 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
92480492 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
92480520 TCCAATGCTC
Statistics
Matches: 321, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 321 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:92491727 original size:20 final size:18
Alignment explanation
Indices: 92491704--92491756 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
92491694 CTGGGCCGTT
92491704 ATGGGCATCGTTGGGCCAA
1 ATGGGC-TCGTTGGGCCAA
*
92491723 GATGGGC-CGTGTGGGCCCA
1 -ATGGGCTCGT-TGGGCCAA
92491742 ATGGGCTCG-TGGGCC
1 ATGGGCTCGTTGGGCC
92491757 CCTGATGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 9 0.30
20 6 0.20
ACGTcount: A:0.13, C:0.25, G:0.43, T:0.19
Consensus pattern (18 bp):
ATGGGCTCGTTGGGCCAA
Found at i:92491739 original size:19 final size:19
Alignment explanation
Indices: 92491704--92491752 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
92491694 CTGGGCCGTT
92491704 ATGGGCATCGT-TGGGCCAA
1 ATGGGC-TCGTGTGGGCCAA
*
92491723 GATGGGC-CGTGTGGGCCCA
1 -ATGGGCTCGTGTGGGCCAA
92491742 ATGGGCTCGTG
1 ATGGGCTCGTG
92491753 GGCCCCTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.14, C:0.22, G:0.43, T:0.20
Consensus pattern (19 bp):
ATGGGCTCGTGTGGGCCAA
Found at i:92493591 original size:28 final size:29
Alignment explanation
Indices: 92493557--92493670 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
92493547 TACCTGTATC
* *
92493557 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
92493585 TAGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
92493614 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
92493643 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
92493671 ATCATGCTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.34
29 48 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:92493610 original size:57 final size:58
Alignment explanation
Indices: 92493548--92493658 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
92493538 AATTTCACAT
* *
92493548 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATAGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
* * * *
92493605 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCA
92493659 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:92493752 original size:17 final size:18
Alignment explanation
Indices: 92493730--92493763 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92493720 TGCCTATTAT
92493730 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
92493747 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
92493764 GCCAGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:92498130 original size:28 final size:28
Alignment explanation
Indices: 92498086--92498199 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
92498076 TACCTGTATC
* *
92498086 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
92498114 TGGTCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
92498143 TGGCCCATTAGGACCAAATCACATTTATA
1 TGGCCCATTAGG-CCCAATCACATTCATA
* *
92498172 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
92498200 ATCATGCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 27 0.38
29 41 0.58
30 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:92498147 original size:57 final size:58
Alignment explanation
Indices: 92498077--92498187 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
92498067 AATTTCACTT
* * * *
92498077 ACCTGTATCTGGCCCATTAAG-CCCAATCATATTCATATGGTCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGACCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
92498134 ACCTGTATATGGCCCATTAGGACCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGACCAAATCACATTCATATGGCCCATTAGGCCCA
92498188 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGACCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:92498436 original size:16 final size:16
Alignment explanation
Indices: 92498411--92498453 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
92498401 GTAGCCAAAC
*
92498411 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
92498427 TTTCGTCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
92498443 TTTTGGCTTTT
1 TTTCGGCTTTT
92498454 GCCGATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.19, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:92499749 original size:16 final size:16
Alignment explanation
Indices: 92499728--92499759 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
92499718 AAGTTCAGGA
92499728 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
92499744 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
92499760 GCGTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:92500518 original size:40 final size:40
Alignment explanation
Indices: 92500458--92500539 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
92500448 TTATCAAATA
*
92500458 TCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAAAATTC
1 TCCCCACACTTAAGCATTTGCTTGTCCTCAAGAAAAATTC
*
92500498 TCCCCACACTTAAGCTTTTGCTTGTCCTCAAGAAAAATTC
1 TCCCCACACTTAAGCATTTGCTTGTCCTCAAGAAAAATTC
92500538 TC
1 TC
92500540 AACTCACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (40 bp):
TCCCCACACTTAAGCATTTGCTTGTCCTCAAGAAAAATTC
Found at i:92505948 original size:39 final size:40
Alignment explanation
Indices: 92505894--92506044 Score: 245
Period size: 39 Copynumber: 3.8 Consensus size: 40
92505884 TATATATATG
92505894 TCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCAT
1 TCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCAT
92505933 TCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCAT
1 TCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCAT
*
92505972 TCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-T
1 TCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCAT
* *
92506011 TTGTGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TCGTGCTGGTGTTATATCCGGGC-TAAAGTCCCG
92506045 CATGCTTTGT
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
39 85 0.79
40 22 0.21
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (40 bp):
TCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGCAT
Found at i:92513837 original size:12 final size:12
Alignment explanation
Indices: 92513820--92513844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92513810 CTTTTGTCTT
92513820 ACCTATCGTAGA
1 ACCTATCGTAGA
92513832 ACCTATCGTAGA
1 ACCTATCGTAGA
92513844 A
1 A
92513845 TCATCGTCAG
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ACCTATCGTAGA
Found at i:92516368 original size:20 final size:19
Alignment explanation
Indices: 92516315--92516369 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
92516305 ATCATATGAG
* *
92516315 ACTGTTTTGTTATGGGCCA
1 ACTGTATTGATATGGGCCA
* *
92516334 ACTATATTGAAATGGGCCCA
1 ACTGTATTGATATGGG-CCA
*
92516354 ACTGTGTTGATATGGG
1 ACTGTATTGATATGGG
92516370 TAAGGCCCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (19 bp):
ACTGTATTGATATGGGCCA
Found at i:92532744 original size:33 final size:33
Alignment explanation
Indices: 92532701--92532822 Score: 124
Period size: 33 Copynumber: 3.8 Consensus size: 33
92532691 TTTCCGATGG
* * *
92532701 ACATTTCCTTTTCTAGTTGTACAC-CTGAGGTGC
1 ACATTCCCTTTTCAAGTTGTACACAC-GAAGTGC
* *
92532734 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
* * *
92532767 ACATACCCTTTTCAATTTGTAC-CACAAAGTGC
1 ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
**
92532799 ACATAGCCTTTTCAAG-TGTACACA
1 ACATTCCCTTTTCAAGTTGTACACA
92532823 TACAGTGTAC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.07
32 24 0.32
33 45 0.60
34 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (33 bp):
ACATTCCCTTTTCAAGTTGTACACACGAAGTGC
Found at i:92532803 original size:32 final size:33
Alignment explanation
Indices: 92532730--92532861 Score: 124
Period size: 32 Copynumber: 4.1 Consensus size: 33
92532720 TACACCTGAG
* *
92532730 GTGCACATTCCCTTTTCAAGTGGTACACACGAA
1 GTGCACATACCCTTTTCAAGTGGTACACACAAA
* * *
92532763 GTGTACATACCCTTTTCAATTTGTAC-CACAAA
1 GTGCACATACCCTTTTCAAGTGGTACACACAAA
* * *
92532795 GTGCACATAGCCTTTTCAAGT-GTACACATACA
1 GTGCACATACCCTTTTCAAGTGGTACACACAAA
* * ** * *
92532827 GTGTACCTTTCCTTTTCAAGTGATATACACAAA
1 GTGCACATACCCTTTTCAAGTGGTACACACAAA
92532860 GT
1 GT
92532862 TTACCTTTCC
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
31 4 0.05
32 44 0.56
33 31 0.39
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (33 bp):
GTGCACATACCCTTTTCAAGTGGTACACACAAA
Found at i:92532872 original size:33 final size:32
Alignment explanation
Indices: 92532805--92532900 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 32
92532795 GTGCACATAG
* * * *
92532805 CCTTTTCAAGTGTACACATACAGTGTACCTTT
1 CCTTTTCAAGTGTATACACAAAGTATACCTTT
*
92532837 CCTTTTCAAGTGATATACACAAAGTTTACCTTT
1 CCTTTTCAAGTG-TATACACAAAGTATACCTTT
92532870 CCTTTTCATA-TGGTATACACAAAGTATACCT
1 CCTTTTCA-AGT-GTATACACAAAGTATACCT
92532901 AAACTTTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 42 0.75
34 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (32 bp):
CCTTTTCAAGTGTATACACAAAGTATACCTTT
Found at i:92533620 original size:20 final size:21
Alignment explanation
Indices: 92533582--92533623 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
92533572 AAGTGGTTTA
*
92533582 TCTATCAATAATCTTTCATTT
1 TCTATCAAAAATCTTTCATTT
92533603 TCTATCAAAAAT-TTTCATTT
1 TCTATCAAAAATCTTTCATTT
92533623 T
1 T
92533624 ACAGTAGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTATCAAAAATCTTTCATTT
Found at i:92536833 original size:28 final size:29
Alignment explanation
Indices: 92536768--92536866 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
92536758 CATGAGATTG
* *
92536768 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
92536797 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
92536825 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
92536853 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92536867 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:92544804 original size:28 final size:29
Alignment explanation
Indices: 92544739--92544837 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
92544729 CATGAGATTG
* *
92544739 GCACTAAGTGTGC-AGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
92544768 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
92544796 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
92544824 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92544838 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 13 0.20
30 5 0.08
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:92551542 original size:26 final size:26
Alignment explanation
Indices: 92551511--92551618 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
92551501 TGAAATGCCC
*
92551511 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
92551537 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
92551563 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
92551589 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92551615 ATCA
1 ATCA
92551619 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92557979 original size:33 final size:33
Alignment explanation
Indices: 92557933--92558033 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
92557923 GCATTATTGC
* *
92557933 ATTACACTATTACTGTATAGGGCTAAGGCCTAG
1 ATTATACTGTTACTGTATAGGGCTAAGGCCTAG
* *
92557966 ATTATACTGTTACTGTATAGGGCCAAGGCCCAG
1 ATTATACTGTTACTGTATAGGGCTAAGGCCTAG
* * * * *
92557999 ATTGTATTGATTACTGAATAAGGCTCAGGCCTAG
1 ATTATACTG-TTACTGTATAGGGCTAAGGCCTAG
92558033 A
1 A
92558034 CCGTTACTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 36 0.64
34 20 0.36
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (33 bp):
ATTATACTGTTACTGTATAGGGCTAAGGCCTAG
Found at i:92561291 original size:8 final size:9
Alignment explanation
Indices: 92561273--92561299 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
92561263 TTGTGTGTTC
92561273 TTTATTTTT
1 TTTATTTTT
92561282 TTTATTTTT
1 TTTATTTTT
92561291 TTTATTTTT
1 TTTATTTTT
92561300 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:92566076 original size:104 final size:104
Alignment explanation
Indices: 92565896--92566109 Score: 419
Period size: 104 Copynumber: 2.1 Consensus size: 104
92565886 TTAGTTATAT
92565896 TCATTTACTTAATTGTAACCCAAGGTAAGAGTTTTGTTTAAATACCTATAAACTTACTAAGCTTT
1 TCATTTACTTAATTGTAACCCAAGGTAAGAGTTTTGTTTAAATACCTATAAACTTACTAAGCTTT
92565961 ATAAGCTTACTCTATCACTTTTCCTCTTTTCTGTAGCTA
66 ATAAGCTTACTCTATCACTTTTCCTCTTTTCTGTAGCTA
*
92566000 TCATTTACTTAATTGTAACCCAAGGTAAGAGTTTTGTTTAAATACCTATTAACTTACTAAGCTTT
1 TCATTTACTTAATTGTAACCCAAGGTAAGAGTTTTGTTTAAATACCTATAAACTTACTAAGCTTT
92566065 ATAAGCTTACTCTATCACTTTTCCTCTTTTCTGTAGCTA
66 ATAAGCTTACTCTATCACTTTTCCTCTTTTCTGTAGCTA
92566104 TCATTT
1 TCATTT
92566110 GCAAAACTGG
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (104 bp):
TCATTTACTTAATTGTAACCCAAGGTAAGAGTTTTGTTTAAATACCTATAAACTTACTAAGCTTT
ATAAGCTTACTCTATCACTTTTCCTCTTTTCTGTAGCTA
Found at i:92568084 original size:49 final size:48
Alignment explanation
Indices: 92568012--92568187 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 48
92568002 CTGATACGCA
*
92568012 TAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCAACAAT-TGGTACATG
* *
92568061 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGT--ATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGATC-AA--CAATTG-GTACATG
* * *
92568110 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAATATGATACACG
1 --TAGTAGCCTGCACTTAGTACTACACATGCGA-TCAACAAT-TGGTACATG
*
92568162 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
92568188 CTTGTATTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
49 35 0.33
50 31 0.29
51 37 0.35
52 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATTGGTACATG
Found at i:92573895 original size:51 final size:51
Alignment explanation
Indices: 92573835--92573937 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
92573825 AAAGGAAAAT
92573835 AAAGGGGGTAAGCATTAAGCTTAGTAAGTTTGCATGAAAACAAATAACAAC
1 AAAGGGGGTAAGCATTAAGCTTAGTAAGTTTGCATGAAAACAAATAACAAC
*
92573886 AAAGGGGGTAAGCATTAAGCTTAGTAAGTTTGCATGAAAATAAATAACAAC
1 AAAGGGGGTAAGCATTAAGCTTAGTAAGTTTGCATGAAAACAAATAACAAC
92573937 A
1 A
92573938 TTCATAAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (51 bp):
AAAGGGGGTAAGCATTAAGCTTAGTAAGTTTGCATGAAAACAAATAACAAC
Found at i:92574154 original size:25 final size:24
Alignment explanation
Indices: 92574126--92574172 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
92574116 ACCTTTGCTC
*
92574126 TTTTAGCATGAACTTGTCTTACCCT
1 TTTTAGCAT-AACTCGTCTTACCCT
*
92574151 TTTTAGTATAACTCGTCTTACC
1 TTTTAGCATAACTCGTCTTACC
92574173 TTACCTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (24 bp):
TTTTAGCATAACTCGTCTTACCCT
Found at i:92574370 original size:53 final size:53
Alignment explanation
Indices: 92574290--92574497 Score: 229
Period size: 55 Copynumber: 3.8 Consensus size: 53
92574280 ATCCTTTTGA
* * * * *
92574290 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATTCTTGCCATATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* *
92574343 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G
* * * * **
92574397 AAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* *
92574451 AACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
92574498 AAATCCTAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 45 0.35
54 8 0.06
55 73 0.57
56 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:92574426 original size:108 final size:110
Alignment explanation
Indices: 92574288--92574490 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 110
92574278 GTATCCTTTT
* * * * **
92574288 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATTCTTGCCATATGAA-CTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCATAAAAACCTTACCA
92574352 A-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
66 ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * *
92574396 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAAAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCATAAAAACCTTACCA
*
92574461 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
92574491 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 48 0.58
109 8 0.10
110 27 0.33
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTACCATAAAAACCTTACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:92574498 original size:55 final size:53
Alignment explanation
Indices: 92574264--92574498 Score: 228
Period size: 55 Copynumber: 4.4 Consensus size: 53
92574254 CATGACTTTT
* * * * *
92574264 CATGGTCTTACGTGGTATCCTT---TT-GAAACTTACCATTGCCATGTCTCGA
1 CATGGTCTTACATGGTATCCTTACCTTAAAAACTTACCAATGCCATGCCTTGA
* * * ** *
92574313 CATGGTCTTACATGGTATTCTTGCCATATGAACTTACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTAAAAACTTACCAATGCCATGCCTTGA
* * * *
92574366 CATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTACCTTA-A-AAACTTACCAATGCCATGCCTTGA
* * *
92574421 CATGGTCTTACATGATATCCTTACCTTAAAAACCTTACCAATTTCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTAAAAA-CTTACCAA-TGCCATGCCTTGA
92574476 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
92574499 AATCCTAATG
Statistics
Matches: 151, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
49 20 0.13
52 2 0.01
53 45 0.30
54 8 0.05
55 74 0.49
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTACCTTAAAAACTTACCAATGCCATGCCTTGA
Found at i:92580520 original size:64 final size:64
Alignment explanation
Indices: 92580440--92580622 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
92580430 AGACATTATG
* *
92580440 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
92580504 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
92580569 AA
63 AA
* * * *
92580571 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
92580623 TCGAACTATA
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:92585581 original size:53 final size:54
Alignment explanation
Indices: 92585457--92585711 Score: 249
Period size: 55 Copynumber: 4.8 Consensus size: 54
92585447 ACACAGGTAC
* * * * *
92585457 CTTACCAGTGCCATGACTTGTCATGGTCTTACGTGGTATCC--G--TT-TGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATAGTATCCTTGCCTTATGAAA
* * * *
92585506 CTTACCATTTCCATGTCTTGGCATGGTTTTACATAGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATAGTATCCTTGCCTTATGAAA
* * *
92585559 CTCACCAATGCCATGCCTTGGCATGGTTTTACATAGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATAGTATCC-TTGCCTTAT-GAAA
* * *
92585614 CTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATAG-TATCCTTGCCTTATGAAA
* *
92585667 CCTTACCAATTCCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATAGTATCCTT
92585712 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 34 0.20
51 1 0.01
52 2 0.01
53 50 0.29
54 11 0.06
55 70 0.41
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATAGTATCCTTGCCTTATGAAA
Found at i:92585654 original size:108 final size:110
Alignment explanation
Indices: 92585502--92585702 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
92585492 GTATCCGTTT
* * * *
92585502 GAAACTTACCATTTCCATGTCTTGGCATGGTTTTACATAGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTA-GAAACCTCACC
* *
92585565 AA-TGCCATGCCTTGGCATGGTTTTACATAGGACCTTTGCCTTATA
65 AATTCCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATA
* *
92585610 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTTGCCTTAGAAACCTTACC
1 GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAG-TATCCTTGCCTTAGAAACCTCACC
92585674 AATTCCCATGCCTTGGCATGGTCTTACAT
65 AATTCCCATGCCTTGGCATGGTCTTACAT
92585703 GGTATCCTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 2 0.02
108 48 0.59
109 7 0.09
110 24 0.30
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCA
ATTCCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATA
Found at i:92588168 original size:88 final size:88
Alignment explanation
Indices: 92588051--92588227 Score: 336
Period size: 88 Copynumber: 2.0 Consensus size: 88
92588041 GTACTTTTAT
* *
92588051 AAATATTTACGGAGTGTCACTGAGGTAGTATTAAATTTTCGATGAAAAATTTTAACGTTTCGATT
1 AAATATTTACGGAGTGTCACTGAGGTAGTATTAAAGTTTCGATGAAAAATTTTAACATTTCGATT
92588116 GTTAATTAATTAAAAACTACTAA
66 GTTAATTAATTAAAAACTACTAA
92588139 AAATATTTACGGAGTGTCACTGAGGTAGTATTAAAGTTTCGATGAAAAATTTTAACATTTCGATT
1 AAATATTTACGGAGTGTCACTGAGGTAGTATTAAAGTTTCGATGAAAAATTTTAACATTTCGATT
92588204 GTTAATTAATTAAAAACTACTAA
66 GTTAATTAATTAAAAACTACTAA
92588227 A
1 A
92588228 TTAAAAAAGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (88 bp):
AAATATTTACGGAGTGTCACTGAGGTAGTATTAAAGTTTCGATGAAAAATTTTAACATTTCGATT
GTTAATTAATTAAAAACTACTAA
Found at i:92589352 original size:21 final size:21
Alignment explanation
Indices: 92589333--92589453 Score: 129
Period size: 21 Copynumber: 5.9 Consensus size: 21
92589323 TTCTATTTAT
* *
92589333 CTCTTACGAGCTTTTGTTTAG
1 CTCTTACGAGCTTCTGTTCAG
*
92589354 CTCTTTCGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
* * *
92589375 CTTTTACGAGCTTCTATTCAA
1 CTCTTACGAGCTTCTGTTCAG
* *
92589396 CTCTTATGAGTTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
* *
92589417 CTCTTACGAGCTTCTATTTAG
1 CTCTTACGAGCTTCTGTTCAG
*
92589438 CT-TT-CGAGCTTATGTT
1 CTCTTACGAGCTTCTGTT
92589454 GGCTCATTTG
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 10 0.12
20 2 0.02
21 70 0.85
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:92589383 original size:42 final size:42
Alignment explanation
Indices: 92589333--92589453 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
92589323 TTCTATTTAT
* *
92589333 CTCTTACGAGCTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTATTTAGCTCTTTCGAGCTTCTGTTCAG
* * * *
92589375 CTTTTACGAGCTTCTATTCAACTCTTAT-GAGTTTCTGTTCAG
1 CTCTTACGAGCTTCTATTTAGCTCTT-TCGAGCTTCTGTTCAG
*
92589417 CTCTTACGAGCTTCTATTTAG--CTTTCGAGCTTATGTT
1 CTCTTACGAGCTTCTATTTAGCTCTTTCGAGCTTCTGTT
92589454 GGCTCATTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.02
40 12 0.18
42 52 0.79
43 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
CTCTTACGAGCTTCTATTTAGCTCTTTCGAGCTTCTGTTCAG
Found at i:92589419 original size:63 final size:61
Alignment explanation
Indices: 92589323--92589448 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 61
92589313 GTGTTTTACT
* * * * *
92589323 TTCTATTTATCTCTTACGAGCTTTTGTTTAGCTCTTTCGAGCTTCTGTTCAGCTTTTACGAGC
1 TTCTATTCAACTCTTACGAGCTTTTGTTCAGCTCTTACGAGCTTCTATTCAGC-TTT-CGAGC
* *
92589386 TTCTATTCAACTCTTATGAG-TTTCTGTTCAGCTCTTACGAGCTTCTATTTAGCTTTCGAGC
1 TTCTATTCAACTCTTACGAGCTTT-TGTTCAGCTCTTACGAGCTTCTATTCAGCTTTCGAGC
92589447 TT
1 TT
92589449 ATGTTGGCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 7 0.13
62 6 0.11
63 42 0.76
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (61 bp):
TTCTATTCAACTCTTACGAGCTTTTGTTCAGCTCTTACGAGCTTCTATTCAGCTTTCGAGC
Found at i:92590332 original size:30 final size:30
Alignment explanation
Indices: 92590262--92590321 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
92590252 GCATGTGCCT
92590262 CAGCCGTGTGTGACACACGGCCAAGTGGCA
1 CAGCCGTGTGTGACACACGGCCAAGTGGCA
*
92590292 CAGCCGTGTGTGACACATGGCCAAGTGGCA
1 CAGCCGTGTGTGACACACGGCCAAGTGGCA
92590322 TGACCGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.15
Consensus pattern (30 bp):
CAGCCGTGTGTGACACACGGCCAAGTGGCA
Found at i:92598235 original size:47 final size:47
Alignment explanation
Indices: 92598161--92598673 Score: 828
Period size: 47 Copynumber: 10.9 Consensus size: 47
92598151 TGCCCTTCGG
* *
92598161 ACATCCATCACATTGGCCATTCGGCCTTATCTCATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * *
92598208 ACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
*
92598255 ACATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
92598302 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * * *
92598349 ACATTCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * *
92598396 ACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
92598443 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
*
92598490 ACATTCATTACATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * * *
92598537 ACATTCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
* * *
92598584 ACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
*
92598631 ACATTCATCACATTGGCCATTCGGCCTTATCACATATACACAC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
92598674 CTTGTACACC
Statistics
Matches: 437, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 437 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
Found at i:92598289 original size:22 final size:22
Alignment explanation
Indices: 92598261--92598336 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
92598251 TTTCACATTC
92598261 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
92598283 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
92598307 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92598330 ATCACAT
1 ATCACAT
92598337 ATATACACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92600184 original size:40 final size:40
Alignment explanation
Indices: 92600123--92600290 Score: 252
Period size: 40 Copynumber: 4.2 Consensus size: 40
92600113 TGTCACAAAT
92600123 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
92600162 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
92600202 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
92600242 ACCGGGCTAAGTCCCAAAGGCATTTGAGCTAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
92600282 TCC-GGCTAA
1 TCCGGGCTAA
92600291 ACTCCGAAGG
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 19 0.16
40 101 0.84
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:92600566 original size:22 final size:21
Alignment explanation
Indices: 92600525--92600568 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
92600515 AAATGTGCAT
92600525 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
92600547 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
92600569 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:92605853 original size:16 final size:16
Alignment explanation
Indices: 92605832--92605869 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
92605822 GGGAATAATA
92605832 AAATATATAAAATATC
1 AAATATATAAAATATC
92605848 AAATAT-TAAAATATC
1 AAATATATAAAATATC
92605863 AAA-ATAT
1 AAATATAT
92605870 TAGAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 13 0.62
16 6 0.29
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATATAAAATATC
Found at i:92605861 original size:8 final size:8
Alignment explanation
Indices: 92605825--92605876 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
92605815 CAATGATGGG
*
92605825 AATAATAA
1 AATATTAA
92605833 AATATATAA
1 AATAT-TAA
*
92605842 AATA-TCA
1 AATATTAA
92605849 AATATTAA
1 AATATTAA
*
92605857 AATATCAA
1 AATATTAA
*
92605865 AATATTAG
1 AATATTAA
92605873 AATA
1 AATA
92605877 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 6 0.17
8 23 0.64
9 7 0.19
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:92605870 original size:16 final size:16
Alignment explanation
Indices: 92605831--92605876 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
92605821 TGGGAATAAT
92605831 AAAATATATAAAATATC
1 AAAATAT-TAAAATATC
92605848 -AAATATTAAAATATC
1 AAAATATTAAAATATC
*
92605863 AAAATATTAGAATA
1 AAAATATTAAAATA
92605877 ATAATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATATTAAAATATC
Found at i:92605876 original size:24 final size:25
Alignment explanation
Indices: 92605824--92605880 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
92605814 ACAATGATGG
*
92605824 GAATAATAAAATATATAAAATATCA
1 GAATAATAAAATATACAAAATATCA
* *
92605849 -AATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATATCA
92605872 GAATAATAA
1 GAATAATAA
92605881 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
GAATAATAAAATATACAAAATATCA
Found at i:92606090 original size:22 final size:24
Alignment explanation
Indices: 92606027--92606091 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
92606017 CATGATAATA
*
92606027 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
92606052 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
92606075 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
92606092 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:92606142 original size:25 final size:25
Alignment explanation
Indices: 92606114--92606245 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
92606104 AAAAAAATAT
92606114 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * *
92606139 ATATATAAATAAAATAGTA-TAATAT
1 ATATATAAATAATATAATATTAA-AG
** * *
92606164 ATATATACGTAATATAAAATTTAA-
1 ATATATAAATAATATAATATTAAAG
** *
92606188 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
92606210 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
92606233 AAATAT-AATAATA
1 ATATATAAATAATA
92606246 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 24 0.29
24 9 0.11
25 33 0.39
26 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:92606144 original size:16 final size:15
Alignment explanation
Indices: 92606107--92606163 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
92606097 CATGTAGAAA
92606107 AAAATATAT-ATA-T
1 AAAATATATAATATT
92606120 -AAATAATATAATATT
1 AAAAT-ATATAATATT
92606135 AAAGATATATAA-A-T
1 AAA-ATATATAATATT
92606149 AAAATAGTATAATAT
1 AAAATA-TATAATAT
92606164 ATATATACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 4 0.11
13 7 0.19
14 12 0.33
15 3 0.08
16 8 0.22
17 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
AAAATATATAATATT
Found at i:92607887 original size:72 final size:72
Alignment explanation
Indices: 92607651--92607903 Score: 409
Period size: 73 Copynumber: 3.5 Consensus size: 72
92607641 ACATGTGAAC
* *
92607651 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
92607715 CAGCGTGTCC
63 CAACGTGTCT
*
92607725 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
92607790 ACGTGTCT
65 ACGTGTCT
92607798 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
92607863 TGTGTCT
66 CGTGTCT
92607870 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
92607904 TTCTTTCAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
72 68 0.40
73 72 0.42
74 30 0.18
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:92607985 original size:88 final size:86
Alignment explanation
Indices: 92607836--92608081 Score: 269
Period size: 88 Copynumber: 2.8 Consensus size: 86
92607826 AGTTGAATTT
* ** * **
92607836 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
92607901 TGATTCTTTCAAAAACATAATAA
66 TGATTCTTTCAAAAACA-AA-AA
* *
92607924 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * *
92607989 TGGTTTTTTTGAGAAACAGAAA
66 T-GATTCTTTCAAAAACAAAAA
* ** *
92608011 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
92608075 GAGTTGA
62 GAGTTGA
92608082 AATTAAAATA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
87 7 0.05
88 73 0.55
89 15 0.11
90 38 0.29
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (86 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTCTTTCAAAAACAAAAA
Found at i:92608495 original size:75 final size:74
Alignment explanation
Indices: 92608106--92608521 Score: 509
Period size: 72 Copynumber: 5.5 Consensus size: 74
92608096 AGTGTGTAAT
* * *
92608106 CTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGA-TTTTTTTT-AAAACAGAAATTGAAATTAC
*
92608171 CTCAGCATGTGAAC
64 CTCAGC--GTG-TC
*
92608185 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTTTGAAAACAGAAATTGAAA
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGA-----TTTTTTTT-AAAACAGAAATTGAAA
* *
92608249 ATACCTCAACGTGTC
60 TTACCTCAGCGTGTC
* * * *
92608264 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
*
92608327 TAGCGTGTC
66 CAGCGTGTC
* * *
92608336 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
92608399 CAGCGTGTC
66 CAGCGTGTC
* *
92608408 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTTTTAA-AACAGAAATTGAAATTACC
92608473 TCAGCGTGTC
65 TCAGCGTGTC
* * *
92608483 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTT
92608522 GAAAAACAAA
Statistics
Matches: 307, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
72 132 0.43
73 4 0.01
74 6 0.02
75 65 0.21
78 30 0.10
79 2 0.01
80 34 0.11
82 34 0.11
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (74 bp):
CTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
CAGCGTGTC
Found at i:92608643 original size:127 final size:128
Alignment explanation
Indices: 92608411--92608662 Score: 355
Period size: 127 Copynumber: 2.0 Consensus size: 128
92608401 GCGTGTCCTG
** ** * *
92608411 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAACAACAGAAATTGAAAATACCTCA
* *
92608476 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 ACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTG-AAAACAAAAATTAAA
*
92608539 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAA-AACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAACAACAGAAATTGAAAATACCTCA
* ** * *
92608603 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATT
66 ACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAATT
92608663 GAAATTACCT
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
127 67 0.61
128 42 0.39
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (128 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAACAACAGAAATTGAAAATACCTCA
ACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:92608761 original size:76 final size:75
Alignment explanation
Indices: 92608539--92608796 Score: 353
Period size: 72 Copynumber: 3.5 Consensus size: 75
92608529 AAAAATTAAA
* * * *
92608539 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCA
* *
92608603 ACGTGTCTTG
66 GCGTGTCCTG
** * *
92608613 AGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCA
92608675 GCGTGTCCTG
66 GCGTGTCCTG
** *
92608685 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA-AACAGAAATTGAAATTACCTC
92608750 AGCGTGTCCTG
65 AGCGTGTCCTG
*
92608761 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
92608797 GAAAAACAAA
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
72 67 0.41
74 24 0.15
75 8 0.05
76 65 0.40
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCTG
Found at i:92608810 original size:148 final size:146
Alignment explanation
Indices: 92608539--92608810 Score: 384
Period size: 148 Copynumber: 1.8 Consensus size: 146
92608529 AAAAATTAAA
*
92608539 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAACAGAAATTGAAAATACCTCAA
* ** * *
92608604 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATT
66 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAATTGAAATT
92608669 ACCTCAGCGTGTCCTG
131 ACCTCAGCGTGTCCTG
** * * * *
92608685 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTTTTTGAA-AACAGAAATTGAAAATACCTC
* *
92608750 AGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
64 AACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTG-AAAACAAAAATT
92608811 AAAAGGCTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
146 25 0.23
147 17 0.16
148 67 0.61
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (146 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAACAGAAATTGAAAATACCTCAA
CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAATTGAAATT
ACCTCAGCGTGTCCTG
Found at i:92618427 original size:27 final size:27
Alignment explanation
Indices: 92618366--92618751 Score: 125
Period size: 27 Copynumber: 14.3 Consensus size: 27
92618356 CAAAACAGTC
* * *
92618366 ATTTTAC-CTTACAAGGGTATGTCGGTC
1 ATTTTACAC-TACAAGGGTATTTCGATA
92618393 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * * *
92618420 ATTGTACACTAGAAAGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
92618447 ATTTTACA-AATCGATGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * * *
92618474 ATTTTACA-AATCGAGGGTATCTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * * *
92618501 GTTCTACA-AATCGAGGGTATTTC-AGTA
1 ATTTTACACTA-CAAGGGTATTTCGA-TA
* * * *
92618528 ATTTTACA-AATCGAGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** *
92618555 ATTTTACA-AATTGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * *
92618582 ATTTTACA-AATCGAGGGTGTTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ** * *
92618609 ATTTCACA-TATCGGGGGTATTGCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* *
92618636 ATTTTACA-AATCGAGGGTATTTC-AGTA
1 ATTTTACACTA-CAAGGGTATTTCGA-TA
* ** *
92618663 ATTTTACA-AATCGGGGGTACTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* ***
92618690 ATTTTACA-AATTGGGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * *
92618717 ATTTTACA-AATCGAGGGTACTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
92618744 ATTTTACA
1 ATTTTACA
92618752 AACTGGGGGT
Statistics
Matches: 308, Mismatches: 45, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 305 0.99
28 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:92618752 original size:27 final size:27
Alignment explanation
Indices: 92618406--92618774 Score: 431
Period size: 27 Copynumber: 13.7 Consensus size: 27
92618396 TTACACTACA
* * *
92618406 AGGGTATTTCGATAATTGTAC-ACTAG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
92618432 AAAGGTATTTCAATAATTTTACAAATCG
1 -AGGGTATTTCGATAATTTTACAAATCG
*
92618460 ATGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
92618487 AGGGTATCTCGGTAGTTCTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
92618514 AGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
92618541 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
92618568 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
92618595 AGGGTGTTTCGATAATTTCACATATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
92618622 GGGGTATTGCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
92618649 AGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
92618676 GGGGTACTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
92618703 GGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
92618730 AGGGTACTTCGATAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
92618757 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
92618775 CTCTTGATTA
Statistics
Matches: 294, Mismatches: 42, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 289 0.98
28 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:92619123 original size:27 final size:28
Alignment explanation
Indices: 92619091--92619150 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
92619081 TGGCCCCTTT
* *
92619091 AGGCCCAATCTCGTTCA-ATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
92619118 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
92619146 AGGCC
1 AGGCC
92619151 GAACTACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:92633176 original size:20 final size:20
Alignment explanation
Indices: 92633124--92633216 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
92633114 ATCAGTATAT
92633124 GGCACAAAGCCATGAGTAGC
1 GGCACAAAGCCATGAGTAGC
* * * *
92633144 GACTCGAAGCCATTAGTAGC
1 GGCACAAAGCCATGAGTAGC
* * * *
92633164 GGCACAAATCCATCAATAGT
1 GGCACAAAGCCATGAGTAGC
* *
92633184 GGCACAAAGCCATGACTAGT
1 GGCACAAAGCCATGAGTAGC
92633204 GGCACAAAGCCAT
1 GGCACAAAGCCAT
92633217 AAATATCGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (20 bp):
GGCACAAAGCCATGAGTAGC
Found at i:92641457 original size:13 final size:13
Alignment explanation
Indices: 92641439--92641466 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92641429 ACAAAATTGG
92641439 AAAGATGATAAAT
1 AAAGATGATAAAT
92641452 AAAGATGATAAAT
1 AAAGATGATAAAT
92641465 AA
1 AA
92641467 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:92641596 original size:37 final size:37
Alignment explanation
Indices: 92641546--92641622 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
92641536 GAATGGAAGA
92641546 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
1 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
92641583 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
1 AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
92641620 AAG
1 AAG
92641623 TCCCATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.23
Consensus pattern (37 bp):
AAGAGAAAACTTAATTGGCCAAAATAGGTAAGTATTC
Found at i:92642638 original size:24 final size:24
Alignment explanation
Indices: 92642611--92642667 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
92642601 CTATCCGAAG
* *
92642611 CTTCCTGATATGGTTCTTTGTGAA
1 CTTCCTGATATGATTCTTTATGAA
*
92642635 CTTCTTGATATGATTCTTTATGAA
1 CTTCCTGATATGATTCTTTATGAA
92642659 CTTCCTGAT
1 CTTCCTGAT
92642668 TACAACTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (24 bp):
CTTCCTGATATGATTCTTTATGAA
Found at i:92643574 original size:23 final size:23
Alignment explanation
Indices: 92643548--92643592 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
92643538 TTATATCCAT
* *
92643548 ACCAAAATCATGCCAAATCATAA
1 ACCAAAATCATACCAAAACATAA
92643571 ACCAAAATCATACCAAAACATA
1 ACCAAAATCATACCAAAACATA
92643593 TGTTTCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.16
Consensus pattern (23 bp):
ACCAAAATCATACCAAAACATAA
Found at i:92643587 original size:11 final size:11
Alignment explanation
Indices: 92643545--92643592 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
92643535 TGCTTATATC
92643545 CATACCAAAAT
1 CATACCAAAAT
*
92643556 CATGCC-AAAT
1 CATACCAAAAT
92643566 CATAAACCAAAAT
1 CAT--ACCAAAAT
92643579 CATACCAAAA-
1 CATACCAAAAT
92643589 CATA
1 CATA
92643593 TGTTTCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 11 0.34
11 12 0.38
12 2 0.06
13 7 0.22
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (11 bp):
CATACCAAAAT
Found at i:92645904 original size:27 final size:27
Alignment explanation
Indices: 92645873--92646205 Score: 452
Period size: 27 Copynumber: 12.4 Consensus size: 27
92645863 CCTAAAAGTA
*
92645873 GTAAAATGACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * * *
92645900 ATAAAATGACCATAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
92645927 GTAAAATGACCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
92645954 GTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
92645981 GTAAAATGACCGTAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
92646008 GTAAAATGACTGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
92646035 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
92646062 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
92646089 GTAAAATGACCGTAATGCCCCTATGGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
92646116 GTAAAATGATCGTAATA-CCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
92646142 GTAAAATGACTGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
92646169 GTAAAATGACCGTAATACCCCTATATG
1 GTAAAATGACCGTAATACCCCTGTAGG
92646196 GTAAAATGAC
1 GTAAAATGAC
92646206 AATTATGCCC
Statistics
Matches: 270, Mismatches: 35, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 21 0.08
27 249 0.92
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:92646376 original size:27 final size:26
Alignment explanation
Indices: 92646346--92646432 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
92646336 GGAAGTACTA
* *
92646346 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
* *
92646373 TACTGGTGGCTATGCCATAATTACTGA
1 TACTGGTGGCTATGCCA-CATTACTGT
*
92646400 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
*
92646427 TTCTGG
1 TACTGG
92646433 CAACTATGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.92
28 3 0.06
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:92655592 original size:50 final size:50
Alignment explanation
Indices: 92655422--92655806 Score: 414
Period size: 50 Copynumber: 7.6 Consensus size: 50
92655412 TGAGAACACA
* * * *** *
92655422 TGTGTAATACTATGTGCAGGCTACTATGTGTTTAAGATTGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACG
* * *
92655474 TGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-AGGTCACG
* *
92655525 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * * *
92655575 TTTTTAGTACTAAGTGCATGCTACTACGTGTACCAGATAGTTAGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * * *
92655625 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACG
* * * *
92655676 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * *
92655726 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
*
92655775 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
92655807 TCAAATAGCT
Statistics
Matches: 278, Mismatches: 51, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
49 37 0.13
50 125 0.45
51 83 0.30
52 33 0.12
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
Found at i:92655601 original size:101 final size:101
Alignment explanation
Indices: 92655420--92655806 Score: 431
Period size: 101 Copynumber: 3.8 Consensus size: 101
92655410 TGTGAGAACA
* * * *** * *
92655420 CATGTGTAATACTATGTGCAGGCTACTATGTGTTTAAGATTGTTTTAGGTCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG-GTTAGGTCACGTGTGTAGTACT
*
92655485 AAGTGCAGGCCACTACGTGTACCAGATAGTTAAGGTCG
65 AAGTGCAGGCTACTACGTGTACCAGATAGTT-AGGTCG
* * *
92655523 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAGGTCACGTTTTTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTTAGGTCACGTGTGTAGTACTA
* *
92655587 AGTGCATGCTACTACGTGTACCAGATAGTTAGGCCG
66 AGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
* * * *** *
92655623 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTT-AGGTCACGTGTGTAGTACT
* * * * *
92655687 AAGTGCAGGCTATTATGTGTATCAGATGGTTAGGTCA
65 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
* * * * *
92655724 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA-TTGTT-GGTCGCATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTTAGGTCACGTGTGTAGTACTA
*
92655787 AGTGCAGGCTACTATGTGTA
66 AGTGCAGGCTACTACGTGTA
92655807 TCAAATAGCT
Statistics
Matches: 242, Mismatches: 39, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
99 34 0.14
100 42 0.17
101 129 0.53
102 3 0.01
103 34 0.14
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
Found at i:92655738 original size:151 final size:150
Alignment explanation
Indices: 92655525--92655802 Score: 475
Period size: 151 Copynumber: 1.8 Consensus size: 150
92655515 TAAGGTCGCA
* *
92655525 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTTTTTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
*
92655590 GCATGCTACTACGTGTACCAGATAGTTAGGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATAGTT-GGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
92655655 TACCCGACAACTTCAATCACG
130 TACCCGACAACTTCAATCACG
* *
92655676 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
92655741 GCAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 GCAGGCTACTACGTGTACCAGATAGTTGGCCGCATGTGTAGTACTAAGTGCAGGCTACTATG
92655803 TGTATCAAAT
Statistics
Matches: 119, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
150 34 0.29
151 85 0.71
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATAGTTGGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
ACCCGACAACTTCAATCACG
Found at i:92656032 original size:16 final size:15
Alignment explanation
Indices: 92656011--92656041 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
92656001 GGAATGGAGT
92656011 AAGTGAAATTATGTAA
1 AAGTGAAATT-TGTAA
92656027 AAGTGAAATTTGTAA
1 AAGTGAAATTTGTAA
92656042 TAAAACAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (15 bp):
AAGTGAAATTTGTAA
Found at i:92662784 original size:18 final size:18
Alignment explanation
Indices: 92662763--92662813 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
92662753 ACAATTCTTT
92662763 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* *
92662781 TCTCTTCATCTATTTCTTC
1 TCTCTTCTTCT-TTTCTCC
92662800 T-TCTTCTTCTTTTC
1 TCTCTTCTTCTTTTC
92662814 CTCTATAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.62
19 7 0.24
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:92663925 original size:26 final size:26
Alignment explanation
Indices: 92663896--92663964 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
92663886 TATGAAAATT
92663896 ACCATTATACCCCTAGGTGCACAATG
1 ACCATTATACCCCTAGGTGCACAATG
92663922 ACCATTATACCCCTAGGTGCACAATG
1 ACCATTATACCCCTAGGTGCACAATG
92663948 ACCATTATACCCCTAGG
1 ACCATTATACCCCTAGG
92663965 GTTGATTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.23
Consensus pattern (26 bp):
ACCATTATACCCCTAGGTGCACAATG
Found at i:92664107 original size:28 final size:28
Alignment explanation
Indices: 92664067--92664182 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
92664057 GGAGGAAGCG
*
92664067 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
92664095 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
92664123 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * **
92664151 ATCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
92664177 TTCTGG
1 TTCTGG
92664183 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 66 0.85
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:92666576 original size:27 final size:27
Alignment explanation
Indices: 92666509--92666576 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
92666499 TTTCGCAATT
* *
92666509 CATCTCACAGCTT-GCCACTTGTGGAGA
1 CATCTCACA-CTTCACCACTAGTGGAGA
* * *
92666536 CTTCTCGCAGTTCACCACTAGTGGAGA
1 CATCTCACACTTCACCACTAGTGGAGA
92666563 CATCTCACACTTCA
1 CATCTCACACTTCA
92666577 TGTGTTTGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (27 bp):
CATCTCACACTTCACCACTAGTGGAGA
Found at i:92670662 original size:17 final size:16
Alignment explanation
Indices: 92670621--92670662 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
92670611 TACAATATGT
92670621 AAAACACAAGATGAAC
1 AAAACACAAGATGAAC
*
92670637 ACAAACACAAGATGTAC
1 A-AAACACAAGATGAAC
92670654 AAAATCACA
1 AAAA-CACA
92670663 TTAGCAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.60, C:0.21, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAACACAAGATGAAC
Found at i:92671554 original size:21 final size:21
Alignment explanation
Indices: 92671525--92671569 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
92671515 TAAACATAAT
*
92671525 AAATATACTTTTATA-GAGAA
1 AAATATACTTTTACATGAGAA
92671545 AAATAATACTTTTACATGAGAA
1 AAAT-ATACTTTTACATGAGAA
92671567 AAA
1 AAA
92671570 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (21 bp):
AAATATACTTTTACATGAGAA
Found at i:92676109 original size:10 final size:10
Alignment explanation
Indices: 92676094--92676118 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
92676084 CTCATGCATA
92676094 ACTTGTTTTG
1 ACTTGTTTTG
92676104 ACTTGTTTTG
1 ACTTGTTTTG
92676114 ACTTG
1 ACTTG
92676119 GAGACTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (10 bp):
ACTTGTTTTG
Found at i:92676260 original size:27 final size:27
Alignment explanation
Indices: 92676229--92676282 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92676219 CATTTTCTTT
92676229 TCAACTGACTTTTGTAGTGGATTTTTA
1 TCAACTGACTTTTGTAGTGGATTTTTA
92676256 TCAACTGACTTTTGTAGTGGATTTTTA
1 TCAACTGACTTTTGTAGTGGATTTTTA
92676283 CTTCATCAAC
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:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (27 bp):
TCAACTGACTTTTGTAGTGGATTTTTA
Found at i:92676970 original size:12 final size:12
Alignment explanation
Indices: 92676953--92676987 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
92676943 AATAATTAAA
92676953 ATTTTAAAAATT
1 ATTTTAAAAATT
92676965 ATTTTAAAAA-T
1 ATTTTAAAAATT
92676976 -TTTTAAAAATT
1 ATTTTAAAAATT
92676987 A
1 A
92676988 ATTAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:92683558 original size:24 final size:25
Alignment explanation
Indices: 92683537--92683583 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
92683527 TGATCTTTCG
*
92683537 CCTTCCATCTT-CTTTAACCTTTAA
1 CCTTCCATCTTCCTTAAACCTTTAA
*
92683561 CCTTTCATCTTCCTTAAACCTTT
1 CCTTCCATCTTCCTTAAACCTTT
92683584 TATCTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (25 bp):
CCTTCCATCTTCCTTAAACCTTTAA
Found at i:92683580 original size:18 final size:18
Alignment explanation
Indices: 92683554--92683588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92683544 TCTTCTTTAA
*
92683554 CCTTTAACCTTTCATCTT
1 CCTTAAACCTTTCATCTT
*
92683572 CCTTAAACCTTTTATCT
1 CCTTAAACCTTTCATCT
92683589 CTTTGTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
CCTTAAACCTTTCATCTT
Found at i:92684119 original size:42 final size:42
Alignment explanation
Indices: 92684060--92684144 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
92684050 TACAATAAAG
*
92684060 CCATTGTCGACATTCCAAACAATCTCTTTACGCATCTTATCT
1 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
92684102 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
1 CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
92684144 C
1 C
92684145 ATACTCTTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.34
Consensus pattern (42 bp):
CCATTGCCGACATTCCAAACAATCTCTTTACGCATCTTATCT
Found at i:92691463 original size:28 final size:26
Alignment explanation
Indices: 92691388--92691464 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 26
92691378 TCCAAAAATA
*
92691388 GCCACAGAGGCTTTCCTTTCAGAGTCTT
1 GCCACA-AGGC-TTCCTTTAAGAGTCTT
*
92691416 GCCACAAAGGCGTCCTTTTAACGAAGT-TT
1 GCCAC-AAGGCTTCC-TTTAA-G-AGTCTT
92691445 GCCACAAGGCATTCCTTTAA
1 GCCACAAGGC-TTCCTTTAA
92691465 TAGAGATGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
27 3 0.07
28 23 0.56
29 12 0.29
30 3 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (26 bp):
GCCACAAGGCTTCCTTTAAGAGTCTT
Found at i:92691646 original size:29 final size:29
Alignment explanation
Indices: 92691501--92691647 Score: 104
Period size: 29 Copynumber: 5.1 Consensus size: 29
92691491 TGACAGAGAG
92691501 AGCCACAAAGACA-TCATTTTAA-TAAAGAT
1 AGCCACAAAGACATTCA-TTTAACT-AAGAT
* ** * * *
92691530 GGCC-CAAAGGGATTTATTTAACTAAAAA
1 AGCCACAAAGACATTCATTTAACTAAGAT
* ** *
92691558 ATCCACAAAGACATTTGTTTAACTGAGAT
1 AGCCACAAAGACATTCATTTAACTAAGAT
* * *
92691587 AACCACAAAGACATTCGTTTAAC-AGATAT
1 AGCCACAAAGACATTCATTTAACTA-AGAT
* *
92691616 AGCCATAAAGGCATTCATTTAACTAAGAT
1 AGCCACAAAGACATTCATTTAACTAAGAT
92691645 AGC
1 AGC
92691648 TGCAAATGCA
Statistics
Matches: 90, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
28 16 0.18
29 73 0.81
30 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (29 bp):
AGCCACAAAGACATTCATTTAACTAAGAT
Found at i:92691719 original size:29 final size:29
Alignment explanation
Indices: 92691686--92691745 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
92691676 CCATAAAGGT
92691686 TTTCTTATAACAGAGATCGACACAAAAGC
1 TTTCTTATAACAGAGATCGACACAAAAGC
*
92691715 TTTCTTATAACAGAGATCGACACAAAGGC
1 TTTCTTATAACAGAGATCGACACAAAAGC
92691744 TT
1 TT
92691746 CCGTTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTCTTATAACAGAGATCGACACAAAAGC
Found at i:92696442 original size:75 final size:75
Alignment explanation
Indices: 92696277--92696455 Score: 195
Period size: 75 Copynumber: 2.4 Consensus size: 75
92696267 GCAAAAGAGA
*
92696277 TTGCGCCCAGTGCTAGTCGGAT-TAACCT-ACAGTATTGAATGTGAGTCCAACTCTAGTTGGATA
1 TTGCGCCCAGTGCTAGTCGGATAT-A-CTGACAGTAATGAATGTGAGTCCAACTCTAGTTGGATA
92696340 AACCAACAATAT
64 AACCAACAATAT
* * * * *
92696352 TCGCAG-CCAATGCTAGTCGGATATACTGAC-GATAATGATTGTGAGTCCAGCTCTAGTTGGATG
1 TTGC-GCCCAGTGCTAGTCGGATATACTGACAG-TAATGAATGTGAGTCCAACTCTAGTTGGATA
** *
92696415 AACCAACGTTGT
64 AACCAACAATAT
* *
92696427 TTGCGCCCAGCGCTAGTCGGATAAACTGA
1 TTGCGCCCAGTGCTAGTCGGATATACTGA
92696456 GGATTGTGTG
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
74 4 0.05
75 80 0.93
76 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (75 bp):
TTGCGCCCAGTGCTAGTCGGATATACTGACAGTAATGAATGTGAGTCCAACTCTAGTTGGATAAA
CCAACAATAT
Found at i:92696976 original size:15 final size:15
Alignment explanation
Indices: 92696956--92696985 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92696946 ATCAACATAT
92696956 AGAATTTGAGCTAAA
1 AGAATTTGAGCTAAA
*
92696971 AGAATTTGTGCTAAA
1 AGAATTTGAGCTAAA
92696986 TTCCTACTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
AGAATTTGAGCTAAA
Found at i:92699731 original size:3 final size:3
Alignment explanation
Indices: 92699725--92699757 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
92699715 GAAAACTGTT
92699725 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
92699758 TTAAGTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:92699882 original size:24 final size:25
Alignment explanation
Indices: 92699855--92699902 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
92699845 TATTTATAGA
92699855 AAATTGCTTTATAATAT-TCATTTC
1 AAATTGCTTTATAATATATCATTTC
* *
92699879 AAATTGTTTTATTATATATCATTT
1 AAATTGCTTTATAATATATCATTT
92699903 TAAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
AAATTGCTTTATAATATATCATTTC
Found at i:92699913 original size:25 final size:24
Alignment explanation
Indices: 92699862--92699916 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
92699852 AGAAAATTGC
*
92699862 TTTATAATATTCATTTCAAATTGT
1 TTTATAATATTCATTTCAAATTAT
* * *
92699886 TTTATTATATATCATTTTAAGTTAT
1 TTTATAATAT-TCATTTCAAATTAT
92699911 TTTATA
1 TTTATA
92699917 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTATAATATTCATTTCAAATTAT
Found at i:92699960 original size:24 final size:24
Alignment explanation
Indices: 92699920--92699979 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
92699910 TTTTATATTT
* *
92699920 TTATTTTAAGTCTTTTTGC-ATTAG
1 TTATTTTAA-ACTTTTTACAATTAG
*
92699944 TTATTTTAAACTGTTTTACATATTAT
1 TTATTTTAAACT-TTTTACA-ATTAG
92699970 TTATTTTAAA
1 TTATTTTAAA
92699980 TATTTTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 14 0.47
26 14 0.47
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (24 bp):
TTATTTTAAACTTTTTACAATTAG
Found at i:92699975 original size:26 final size:25
Alignment explanation
Indices: 92699899--92700006 Score: 84
Period size: 26 Copynumber: 4.4 Consensus size: 25
92699889 ATTATATATC
**
92699899 ATTTTAAGTTATTTT-ATATT-TTT
1 ATTTTAAACTATTTTCATATTATTT
* *
92699922 ATTTTAAGTCT-TTTTGC--ATTAGTT
1 ATTTTAA-ACTATTTT-CATATTATTT
*
92699946 ATTTTAAACTGTTTTACATATTATTT
1 ATTTTAAACTATTTT-CATATTATTT
92699972 ATTTTAAA-TATTTTCATACGTTATTT
1 ATTTTAAACTATTTTCATA--TTATTT
92699998 ATTTTAAAC
1 ATTTTAAAC
92700007 CAAACTATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
23 16 0.24
24 19 0.28
25 5 0.07
26 28 0.41
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (25 bp):
ATTTTAAACTATTTTCATATTATTT
Found at i:92700041 original size:21 final size:22
Alignment explanation
Indices: 92700012--92700053 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
92700002 TAAACCAAAC
* *
92700012 TATTTTAAA-TTTTTTTCATTT
1 TATTATAAACTTTTTATCATTT
92700033 TATTATAAACTTTTTATCATT
1 TATTATAAACTTTTTATCATT
92700054 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATAAACTTTTTATCATTT
Found at i:92700059 original size:21 final size:20
Alignment explanation
Indices: 92700012--92700059 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
92700002 TAAACCAAAC
*
92700012 TATTT-TAAATTTTTTTCAT
1 TATTTATAAATTTTTATCAT
*
92700031 TTTATTATAAACTTTTTATCAT
1 TAT-TTATAAA-TTTTTATCAT
92700053 TATTTAT
1 TATTTAT
92700060 TTTAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 2 0.09
21 8 0.35
22 11 0.48
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTATAAATTTTTATCAT
Found at i:92700070 original size:24 final size:23
Alignment explanation
Indices: 92700012--92700083 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
92700002 TAAACCAAAC
*
92700012 TATTTTAAATTTTTTTCA-T-TT
1 TATTTTAAATTTTTATCATTATT
*
92700033 TATTATAAACTTTTTATCATTATT
1 TATTTTAAA-TTTTTATCATTATT
*
92700057 TATTTTAAGATTTTATAT-ATTACT
1 TATTTTAA-ATTTT-TATCATTATT
92700081 TAT
1 TAT
92700084 ATTGAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 8 0.19
22 8 0.19
23 1 0.02
24 21 0.50
25 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTTTAAATTTTTATCATTATT
Found at i:92700224 original size:26 final size:24
Alignment explanation
Indices: 92700141--92700341 Score: 112
Period size: 26 Copynumber: 8.2 Consensus size: 24
92700131 TTTATAGGTC
* *
92700141 ATTTTAAATTGTTTATAAATTATTT
1 ATTTTAAATTGTTT-TATACTATTT
* * *
92700166 ATTTTAAGTTGCTCTATA-TA-TT
1 ATTTTAAATTGTTTTATACTATTT
*
92700188 ATTTT--ATTGTTTTGTA-TATTAAT
1 ATTTTAAATTGTTTTATACTATT--T
92700211 GATTTTAAATTGTTTTATACTATTT
1 -ATTTTAAATTGTTTTATACTATTT
* *
92700236 ATTTTAAATTGCTTCTTATAGTATCT
1 ATTTTAAATTG-TT-TTATACTATTT
92700262 ATTTTAAACTTGTTTTTCTATA-TATTATT
1 ATTTTAAA-TTG--TTT-TATACTA-T-TT
* *
92700291 CATTTGAAATTGTCTTAT--TATTT
1 -ATTTTAAATTGTTTTATACTATTT
* * *
92700314 ATCTTAAATTGTTTTGTAGTATTT
1 ATTTTAAATTGTTTTATACTATTT
92700338 ATTT
1 ATTT
92700342 CATTTTTTTC
Statistics
Matches: 139, Mismatches: 20, Indels: 35
0.72 0.10 0.18
Matches are distributed among these distances:
20 9 0.06
21 1 0.01
22 20 0.14
23 5 0.04
24 28 0.20
25 16 0.12
26 30 0.22
27 12 0.09
28 7 0.05
29 4 0.03
30 7 0.05
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.59
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATACTATTT
Found at i:92700311 original size:22 final size:22
Alignment explanation
Indices: 92700284--92700325 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
92700274 TTTTTCTATA
92700284 TATTATTCAT-TTGAAATTGTCT
1 TATTATTCATCTT-AAATTGTCT
*
92700306 TATTATTTATCTTAAATTGT
1 TATTATTCATCTTAAATTGT
92700326 TTTGTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTATTCATCTTAAATTGTCT
Found at i:92702732 original size:16 final size:17
Alignment explanation
Indices: 92702711--92702748 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
92702701 GTTTCTTATG
* *
92702711 ATATAAACTACATAAT-
1 ATATAAAATAAATAATA
92702727 ATATAAAATAAATAATA
1 ATATAAAATAAATAATA
92702744 ATATA
1 ATATA
92702749 TTAAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAAAATAAATAATA
Found at i:92702755 original size:21 final size:21
Alignment explanation
Indices: 92702713--92702754 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
92702703 TTCTTATGAT
92702713 ATAAACTACATAATATATAAA
1 ATAAACTACATAATATATAAA
92702734 ATAAA-TA-ATAATATATTAAA
1 ATAAACTACATAATATA-TAAA
92702754 A
1 A
92702755 ACTTGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAACTACATAATATATAAA
Found at i:92707433 original size:251 final size:251
Alignment explanation
Indices: 92706990--92707488 Score: 998
Period size: 251 Copynumber: 2.0 Consensus size: 251
92706980 TAGCATAGGC
92706990 ATATGATAAAACCTAAATATAACTGATTAAATACTTAGGCCTCGACGTTAATCAATAATAACAAA
1 ATATGATAAAACCTAAATATAACTGATTAAATACTTAGGCCTCGACGTTAATCAATAATAACAAA
92707055 TAAGGTAAATTAAATCAAAAGTCATTAATATTAAGTTTATGTTTTAGTTATTTAACTTTAAAAAA
66 TAAGGTAAATTAAATCAAAAGTCATTAATATTAAGTTTATGTTTTAGTTATTTAACTTTAAAAAA
92707120 TTAAAAAATGTTTATTTAATTATTCGAAAGTTTCTATTTAAGTCATTTAGCTTTTAAAATTGATG
131 TTAAAAAATGTTTATTTAATTATTCGAAAGTTTCTATTTAAGTCATTTAGCTTTTAAAATTGATG
92707185 TTGCATGGCTTTCTCCATTTGCACCATCTACACCAATCGAAAGCTTATTTTCCTAA
196 TTGCATGGCTTTCTCCATTTGCACCATCTACACCAATCGAAAGCTTATTTTCCTAA
92707241 ATATGATAAAACCTAAATATAACTGATTAAATACTTAGGCCTCGACGTTAATCAATAATAACAAA
1 ATATGATAAAACCTAAATATAACTGATTAAATACTTAGGCCTCGACGTTAATCAATAATAACAAA
92707306 TAAGGTAAATTAAATCAAAAGTCATTAATATTAAGTTTATGTTTTAGTTATTTAACTTTAAAAAA
66 TAAGGTAAATTAAATCAAAAGTCATTAATATTAAGTTTATGTTTTAGTTATTTAACTTTAAAAAA
92707371 TTAAAAAATGTTTATTTAATTATTCGAAAGTTTCTATTTAAGTCATTTAGCTTTTAAAATTGATG
131 TTAAAAAATGTTTATTTAATTATTCGAAAGTTTCTATTTAAGTCATTTAGCTTTTAAAATTGATG
92707436 TTGCATGGCTTTCTCCATTTGCACCATCTACACCAATCGAAAGCTTATTTTCC
196 TTGCATGGCTTTCTCCATTTGCACCATCTACACCAATCGAAAGCTTATTTTCC
92707489 CCTTCTCTCT
Statistics
Matches: 248, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
251 248 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (251 bp):
ATATGATAAAACCTAAATATAACTGATTAAATACTTAGGCCTCGACGTTAATCAATAATAACAAA
TAAGGTAAATTAAATCAAAAGTCATTAATATTAAGTTTATGTTTTAGTTATTTAACTTTAAAAAA
TTAAAAAATGTTTATTTAATTATTCGAAAGTTTCTATTTAAGTCATTTAGCTTTTAAAATTGATG
TTGCATGGCTTTCTCCATTTGCACCATCTACACCAATCGAAAGCTTATTTTCCTAA
Found at i:92709554 original size:17 final size:19
Alignment explanation
Indices: 92709522--92709558 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
92709512 CGAAATTAAA
92709522 TTATAAGTTATTATTATTT
1 TTATAAGTTATTATTATTT
92709541 TTATAA-TT-TTATTATTT
1 TTATAAGTTATTATTATTT
92709558 T
1 T
92709559 GGGAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATAAGTTATTATTATTT
Found at i:92709900 original size:17 final size:18
Alignment explanation
Indices: 92709873--92709911 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
92709863 CAATGTTTTA
92709873 AAAATTAAATAATTTCTT
1 AAAATTAAATAATTTCTT
* *
92709891 AAAA-TAAATATTTTTTT
1 AAAATTAAATAATTTCTT
92709908 AAAA
1 AAAA
92709912 ATCATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTAAATAATTTCTT
Found at i:92711318 original size:15 final size:15
Alignment explanation
Indices: 92711298--92711348 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
92711288 CCAAAGTATG
92711298 TTATGTATATTACTA
1 TTATGTATATTACTA
* *
92711313 TTATGTAT-GTA-TG
1 TTATGTATATTACTA
*
92711326 CTATGTATATTACTA
1 TTATGTATATTACTA
*
92711341 TGATGTAT
1 TTATGTAT
92711349 GTCTATTATG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (15 bp):
TTATGTATATTACTA
Found at i:92711331 original size:28 final size:28
Alignment explanation
Indices: 92711293--92711350 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
92711283 CTTTACCAAA
* *
92711293 GTATGTTATGTATATTACTATTATGTAT
1 GTATGCTATGTATATTACTATGATGTAT
92711321 GTATGCTATGTATATTACTATGATGTAT
1 GTATGCTATGTATATTACTATGATGTAT
92711349 GT
1 GT
92711351 CTATTATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (28 bp):
GTATGCTATGTATATTACTATGATGTAT
Found at i:92711358 original size:28 final size:28
Alignment explanation
Indices: 92711293--92711394 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 28
92711283 CTTTACCAAA
* *
92711293 GTATGTTATGTATATTACTATTATGTAT
1 GTATATTATGTATATTACTATGATGTAT
**
92711321 GTATGCTATGTATATTACTATGATGTAT
1 GTATATTATGTATATTACTATGATGTAT
* * *
92711349 GTCTATTATGTTAAATGTATGTAT-AT-TAT
1 GTATATTATG-TATAT-TA-CTATGATGTAT
*
92711378 GTATGTTATGTATATTA
1 GTATATTATGTATATTA
92711395 TTGTTATGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 15 0.25
30 4 0.07
31 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (28 bp):
GTATATTATGTATATTACTATGATGTAT
Done.