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 239 of 333
Found at i:78945668 original size:37 final size:37
Alignment explanation
Indices: 78945618--78945696 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
78945608 TTATTACGAA
* * * *
78945618 GTCTTACCCGGACATAATCTCTACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
78945655 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
78945692 GTCTT
1 GTCTT
78945697 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:78945893 original size:47 final size:47
Alignment explanation
Indices: 78945815--78946180 Score: 590
Period size: 47 Copynumber: 7.7 Consensus size: 47
78945805 CCCTTCGGGA
* * * * * *
78945815 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78945862 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78945909 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78945956 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78946003 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78946050 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78946099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78946146 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
78946181 AGAATCCTAA
Statistics
Matches: 301, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 253 0.84
49 47 0.16
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78946128 original size:143 final size:141
Alignment explanation
Indices: 78945815--78946180 Score: 590
Period size: 143 Copynumber: 2.6 Consensus size: 141
78945805 CCCTTCGGGA
* * * * * * * *
78945815 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
78945880 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
78945945 GGCCATTAGGC
131 GGCCATTAGGC
*
78945956 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
78946021 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
78946086 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
78946099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
78946163 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
78946181 AGAATCCTAA
Statistics
Matches: 209, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 93 0.44
142 1 0.00
143 115 0.55
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:78950041 original size:40 final size:40
Alignment explanation
Indices: 78950008--78950359 Score: 497
Period size: 40 Copynumber: 8.8 Consensus size: 40
78949998 CCAGCATGAT
* * *
78950008 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
78950048 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
78950088 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
78950128 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
78950168 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
78950208 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
78950248 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
78950288 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
78950328 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
78950360 CTCAATTCTC
Statistics
Matches: 273, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 273 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:78950221 original size:120 final size:120
Alignment explanation
Indices: 78950008--78950359 Score: 571
Period size: 120 Copynumber: 2.9 Consensus size: 120
78949998 CCAGCATGAT
** * * * * *** *
78950008 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAG-CACAGAT
1 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
78950072 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
78950128 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
78950193 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
78950248 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
* * *
78950313 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACT
78950360 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
120 217 1.00
121 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:78951623 original size:37 final size:37
Alignment explanation
Indices: 78951573--78951651 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
78951563 TTATTACGAA
* * *
78951573 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
78951610 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
78951647 GTCTT
1 GTCTT
78951652 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:78951848 original size:47 final size:47
Alignment explanation
Indices: 78951770--78952325 Score: 943
Period size: 47 Copynumber: 11.7 Consensus size: 47
78951760 CCCTTCGGGA
* * * * * *
78951770 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78951817 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78951864 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
78951911 CTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78951958 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952052 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952101 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952150 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78952291 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
78952326 AGAATCCTAA
Statistics
Matches: 489, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 392 0.80
49 96 0.20
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78952185 original size:239 final size:237
Alignment explanation
Indices: 78951770--78952304 Score: 939
Period size: 239 Copynumber: 2.3 Consensus size: 237
78951760 CCCTTCGGGA
* * * * * * * *
78951770 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
78951833 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
78951898 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTAT
78951963 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78952005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
78952070 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
**
78952135 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTT
78952200 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
194 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78952244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
78952305 GCATGTTCAC
Statistics
Matches: 285, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
235 47 0.16
237 47 0.16
239 191 0.67
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78952365 original size:286 final size:284
Alignment explanation
Indices: 78951781--78952325 Score: 907
Period size: 286 Copynumber: 1.9 Consensus size: 284
78951771 TTATCACATT
* * * * * * *
78951781 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
78951844 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
78951909 GCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTATCACATATATAC
131 GCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTATCACATATATAC
*
78951974 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
196 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACA
* * *
78952039 TCGGCCATTAGGCCTTATCACATATA
261 TCAG-CA-TAGGCCTAATCAAATATA
78952065 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
78952130 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
**
78952195 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
131 GCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTATCACATATATAC
* *
78952260 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
196 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCAC
78952324 AT
260 AT
78952326 AGAATCCTAA
Statistics
Matches: 246, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
284 37 0.15
285 1 0.00
286 208 0.85
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (284 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATACACTTTCACATTCATCACATCGAACATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACA
TCAGCATAGGCCTAATCAAATATA
Found at i:78956672 original size:47 final size:48
Alignment explanation
Indices: 78956520--78956686 Score: 210
Period size: 48 Copynumber: 3.5 Consensus size: 48
78956510 TTTCATATCG
* * * * * *
78956520 ATGCCATGTACCAGACTTGGTTTTACATGAAATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
* * * *
78956568 ATGCCATATCCCTGATATGGTCCTACATGAGATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
* * *
78956616 AGGCTATGTCCCAAACATGGTCTTACATG-GATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
78956663 ATGCCATGTCCCAGACATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
78956687 GCATAGGATC
Statistics
Matches: 99, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
47 39 0.39
48 60 0.61
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATATCGATGCCA
Found at i:78960362 original size:60 final size:59
Alignment explanation
Indices: 78960242--78960378 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
78960232 CAGTGTTAAC
* * *
78960242 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATA-
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAG-ATCAGAGTATAT
* *
78960302 TGGAGCCTAGCCCATATCAGTATCAATCTGGGCCGCAGCCCTATTACA-AGTC-GAGATATAT
1 TGG-GCCTAGCCCATATCAATATCAATCTGGGCCACAGCCC-ATTACAGA-TCAGAG-TATAT
*
78960363 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
78960379 TAACATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCACAGCCCATTACAGATCAGAGTATAT
Found at i:78965568 original size:60 final size:60
Alignment explanation
Indices: 78965490--78965626 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
78965480 CAGTGTTAAC
* * *
78965490 TGGGCCTTAGCCCATATCAATATTAATATGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATATGGGCCACAGCCCTATTACAAG--TCGAGA-TATAT
* * *
78965551 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGCAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATATGGGCCACAGCCCTATTACAAGTCGAGATATAT
*
78965611 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
78965627 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 51 0.77
61 13 0.20
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATATGGGCCACAGCCCTATTACAAGTCGAGATATAT
Found at i:78967838 original size:15 final size:15
Alignment explanation
Indices: 78967801--78967829 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78967791 TTTCCCTATC
78967801 TAATAATAATAATTA
1 TAATAATAATAATTA
78967816 TAATAATAATAATT
1 TAATAATAATAATT
78967830 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:78971270 original size:40 final size:40
Alignment explanation
Indices: 78971203--78971379 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
78971193 ACCCAAGTAT
*
78971203 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
78971242 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
78971282 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
78971322 CTTCGGGACATAGCCCGGATATAGCAACTTGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
78971362 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
78971380 TTATCATCCG
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 105 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:78992214 original size:44 final size:44
Alignment explanation
Indices: 78992162--78992339 Score: 139
Period size: 44 Copynumber: 4.0 Consensus size: 44
78992152 CAAGATTTGG
*
78992162 CATCCCTGTCTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
1 CATCCCTGTCTTTACAGGGAACAGATCGAAGATAGCAGATCTGA
* * * *** *
78992206 CATTCCTGTGC-TTACAGCGAAACAGATCAAAGATTTTA-A-CATGG
1 CATCCCTGT-CTTTACAG-GGAACAGATCGAAGATAGCAGATC-TGA
* * * * *
78992250 CATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGG
1 CATCCCTGTCTTTACAGGGAACAGA-TCGAAGATAGCAGATCTGA
* *
78992294 CATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGA
1 CATCCCTGTCTTTACAGGGAACAGATCGAAG--ATAGCAGATCTGA
78992340 TTTTCGGATG
Statistics
Matches: 102, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 1 0.01
43 13 0.13
44 60 0.59
45 17 0.17
46 11 0.11
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
CATCCCTGTCTTTACAGGGAACAGATCGAAGATAGCAGATCTGA
Found at i:78992578 original size:175 final size:175
Alignment explanation
Indices: 78992287--78992869 Score: 920
Period size: 175 Copynumber: 3.3 Consensus size: 175
78992277 GAAGATAGCA
* * * * *
78992287 GATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGATTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
*
78992352 CTCACACCAAAGCAA-ATCCAAGGTAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACA
66 CTCACACCAAAG-AAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACA
* * *
78992416 TAGTAGGTCTAACCTTTAGATGTTTATACTGAAACAGATCCAAGAT
130 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
78992462 GATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
78992527 CTCACACCAAAGAAGATCTAAGATAACAGATATGGCATCTCCATTTCGACGGAGAGCAGGTACAT
66 CTCACACCAAAGAAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
78992592 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
131 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
78992637 GATTTGGAATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* * *
78992702 CTTACACCAAAGCAGATCCAAGATAACTA-ATCTGGCATCTCCATTTCGATGGAGAGCAGGTACA
66 CTCACACCAAAGAAGATCCAAGATAAC-AGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACA
78992766 TAGCAGGTCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGAT
130 TAGCAGGTCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGAT
* * * *
78992812 GATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
78992870 ACGTGTTTAT
Statistics
Matches: 378, Mismatches: 27, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
174 2 0.01
175 372 0.98
176 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (175 bp):
GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
CTCACACCAAAGAAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
Found at i:78992698 original size:87 final size:86
Alignment explanation
Indices: 78992429--78992916 Score: 281
Period size: 87 Copynumber: 5.6 Consensus size: 86
78992419 TAGGTCTAAC
* *
78992429 CTTT-AGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAA
1 CTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG-ACAA
*
78992493 ATCGAAAACATAGCAGATTTGA
65 ATCGAAGACATAGCAGATTTGA
* * ** * * * *** *
78992515 CTTTCGGATGTTCTCACACCAAAGAAGATCTAAGATAACAGATATGGCA-TC-TCCATTT-CGAC
1 CTTTCAGATGTT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AA
* * * * * *
78992577 GG--AGAGC-AGGTACATAGCAGGTCTAA
59 GGACAAATCGAAG-ACATAGCAGATTTGA
* *
78992603 CCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGAATTCTTGTGTTTACAAGGAACAA
1 CTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG-ACAA
78992668 ATCGAAGACATAGCAGATTTGA
65 ATCGAAGACATAGCAGATTTGA
* ** * *** *
78992690 CTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACTAATCTGGCA-TC-TCCATTT-CGAT
1 CTTTCAGATG-T-TTATACTGAAGCAGATCCAAGATGA-T--T-TGGCATTCTTGTGTTTAC-AA
* * * * * *
78992752 GG--AGAGC-AGGTACATAGCAGGTCTAA
59 GGACAAATCGAAG-ACATAGCAGATTTGA
* * *
78992778 CCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCA
1 CTTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGA-CA
*
78992842 AATCGAAGACATAGCAGATTTGG
64 AATCGAAGACATAGCAGATTTGA
* **
78992865 CTTTCACG-TGTTTATGCTGAAGCAGATTTAAGATGATTTGGCA-TCTT-TGTTT
1 CTTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT
78992917 TGTCAAAAAA
Statistics
Matches: 289, Mismatches: 80, Indels: 67
0.66 0.18 0.15
Matches are distributed among these distances:
82 12 0.04
83 4 0.01
84 13 0.04
85 7 0.02
86 44 0.15
87 83 0.29
88 57 0.20
89 36 0.12
90 3 0.01
91 14 0.05
92 4 0.01
93 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (86 bp):
CTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGACAAA
TCGAAGACATAGCAGATTTGA
Found at i:78993352 original size:19 final size:19
Alignment explanation
Indices: 78993347--78993430 Score: 136
Period size: 19 Copynumber: 4.4 Consensus size: 19
78993337 TCTTAGATAT
78993347 GATATGATATGCAATCTTA
1 GATATGATATGCAATCTTA
78993366 GATATGATA--CAATCTTA
1 GATATGATATGCAATCTTA
78993383 GATATGATATGCAATCTTA
1 GATATGATATGCAATCTTA
78993402 GATATGATATGCAATCTTGAA
1 GATATGATATGCAATCTT--A
78993423 GATATGAT
1 GATATGAT
78993431 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.28
19 35 0.57
21 9 0.15
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGATATGCAATCTTA
Found at i:78993360 original size:24 final size:24
Alignment explanation
Indices: 78993328--78993374 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
78993318 AATCTTTAAG
78993328 GATATGCAATCTTAGATATGATAT
1 GATATGCAATCTTAGATATGATAT
78993352 GATATGCAATCTTAGATATGATA
1 GATATGCAATCTTAGATATGATA
78993375 CAATCTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (24 bp):
GATATGCAATCTTAGATATGATAT
Found at i:78993388 original size:36 final size:38
Alignment explanation
Indices: 78993347--78993430 Score: 136
Period size: 36 Copynumber: 2.2 Consensus size: 38
78993337 TCTTAGATAT
78993347 GATATGATATGCAATCTTAGATATGATA-CAATCTT-A
1 GATATGATATGCAATCTTAGATATGATAGCAATCTTAA
78993383 GATATGATATGCAATCTTAGATATGATATGCAATCTTGAA
1 GATATGATATGCAATCTTAGATATGATA-GCAATCTT-AA
78993423 GATATGAT
1 GATATGAT
78993431 CTTGTAATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 28 0.64
38 7 0.16
40 9 0.20
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGATATGCAATCTTAGATATGATAGCAATCTTAA
Found at i:78993447 original size:22 final size:21
Alignment explanation
Indices: 78993328--78993430 Score: 123
Period size: 19 Copynumber: 5.1 Consensus size: 21
78993318 AATCTTTAAG
78993328 GATATGCAATCTTAGATATGATAT
1 GATATGCAATCTT-GA-A-GATAT
78993352 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
78993371 GATA--CAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
78993388 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
78993407 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
78993428 GAT
1 GAT
78993431 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.23
19 35 0.47
20 1 0.01
21 9 0.12
24 13 0.17
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:78998368 original size:48 final size:49
Alignment explanation
Indices: 78998314--78998429 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 49
78998304 ATGTCGTGTT
* * * *
78998314 CCAGATAGGTCTTATACTGACTTTCATATATTGA-ACCGATGCCATGTC
1 CCAGATAGGTCTTACACTGACTCTCATATATCGATACCAATGCCATGTC
* * **
78998362 CCAGATAGGTCTTACACTGGCTCTCATCTATCGATGTCAATGCCATGTC
1 CCAGATAGGTCTTACACTGACTCTCATATATCGATACCAATGCCATGTC
*
78998411 CCAGACAGGTCTTACACTG
1 CCAGATAGGTCTTACACTG
78998430 TCACATAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
48 29 0.50
49 29 0.50
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
CCAGATAGGTCTTACACTGACTCTCATATATCGATACCAATGCCATGTC
Found at i:78998515 original size:48 final size:46
Alignment explanation
Indices: 78998449--78998571 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
78998439 AAGCTAACTC
* * * * * *
78998449 CATGTCCGAGACAGGTCTTACACTAGGTTGTATATCCCGAGGACGATG
1 CATGTCCCAGACATGTCTTACACTA-GCTCT-CATCCCAAGGACGATG
* *
78998497 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGACGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGACGATG
* *
78998543 CATGTCTCAGACATGTCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
78998572 ACATACCACC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 39 0.60
47 3 0.05
48 23 0.35
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGACGATG
Found at i:79001348 original size:24 final size:24
Alignment explanation
Indices: 79001316--79001362 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
79001306 TCTCTTTATT
79001316 AAAAAATAAATATATTAATCATTA
1 AAAAAATAAATATATTAATCATTA
79001340 AAAAAATAAATATATTAATCATT
1 AAAAAATAAATATATTAATCATT
79001363 TTACATTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAAATAAATATATTAATCATTA
Found at i:79001726 original size:3 final size:3
Alignment explanation
Indices: 79001718--79001747 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
79001708 CAAGTTTTTC
79001718 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79001748 TGCTTCAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:79007113 original size:45 final size:44
Alignment explanation
Indices: 79007050--79007136 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
79007040 CTATGCGATC
79007050 TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
1 TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
*
79007094 TGAACTCATTGAGTTGTGGTTTGAGTTCATGATATATGTGACA
1 TGAACTCA-TGAGTTGTGGTCTGAGTTCATGATATATGTGACA
79007137 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 8 0.20
45 33 0.80
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (44 bp):
TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
Found at i:79009200 original size:45 final size:44
Alignment explanation
Indices: 79009137--79009223 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
79009127 CTATGCAATC
79009137 TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
1 TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
*
79009181 TGAACTCATTGAGTTGTGGTTTGAGTTCATGATATATGTGACA
1 TGAACTCA-TGAGTTGTGGTCTGAGTTCATGATATATGTGACA
79009224 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 8 0.20
45 33 0.80
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (44 bp):
TGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGACATA
Found at i:79015599 original size:26 final size:27
Alignment explanation
Indices: 79015570--79015623 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
79015560 TCACACAAGT
*
79015570 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
79015596 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
79015623 T
1 T
79015624 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:79015654 original size:27 final size:27
Alignment explanation
Indices: 79015624--79015742 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
79015614 GGGGCAAAAT
* * *
79015624 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79015651 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79015678 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
79015705 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
79015732 AGTAATTCTAC
1 GGTAATTCTAC
79015743 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:79016542 original size:26 final size:26
Alignment explanation
Indices: 79016491--79016543 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
79016481 CTACTAAAAT
*
79016491 ATATATTTTAACCAACCAGAACACAC
1 ATATATTTTAACAAACCAGAACACAC
79016517 ATATATTTTAA-AAATCACAGAA-ACAC
1 ATATATTTTAACAAA-C-CAGAACACAC
79016543 A
1 A
79016544 GAAAACTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 17 0.71
27 5 0.21
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.25
Consensus pattern (26 bp):
ATATATTTTAACAAACCAGAACACAC
Found at i:79022530 original size:27 final size:26
Alignment explanation
Indices: 79022482--79022533 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79022472 GCGAGGCTGC
*
79022482 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79022508 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79022534 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79022818 original size:24 final size:24
Alignment explanation
Indices: 79022786--79022841 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
79022776 TTTTACCAAA
*
79022786 GTTGGCCCATTGGCCCGTTGGTCC-
1 GTTGGCCCATTGGCCCGTTAG-CCT
*
79022810 GTTGGCCCATTGGCCTGTTAGCCT
1 GTTGGCCCATTGGCCCGTTAGCCT
79022834 GTTGGCCC
1 GTTGGCCC
79022842 GTTTTCGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.05, C:0.32, G:0.32, T:0.30
Consensus pattern (24 bp):
GTTGGCCCATTGGCCCGTTAGCCT
Found at i:79023238 original size:27 final size:27
Alignment explanation
Indices: 79023208--79023326 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
79023198 GACGCAAAAT
* *
79023208 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79023235 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
79023262 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79023289 GGCAATTCTACCTTAC-AGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
79023316 AGTAATTCTAC
1 GGTAATTCTAC
79023327 AACTTATCCA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 74 0.97
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:79023274 original size:54 final size:54
Alignment explanation
Indices: 79023207--79023326 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
79023197 AGACGCAAAA
* * *
79023207 TGGTAATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAGGGTATCTCGGCAATTCTACCCTACAGAGGTATTT
* *
79023261 TGGTATTTCTACCCTACAAGGGTATTTCGGCAATTCTACCTTACAGAGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATCTCGGCAATTCTACCCTACAGAGGTATTT
* *
79023315 TAGTAATTCTAC
1 TGGTATTTCTAC
79023327 AACTTATCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.07
54 54 0.93
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAGGGTATCTCGGCAATTCTACCCTACAGAGGTATTT
Found at i:79030323 original size:29 final size:28
Alignment explanation
Indices: 79030287--79030364 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
79030277 TCATGAGATT
79030287 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
79030317 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
79030344 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
79030365 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:79030582 original size:174 final size:174
Alignment explanation
Indices: 79030317--79030644 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
79030307 AAATTGTACA
*
79030317 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
79030382 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
79030447 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 CTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
79030491 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
79030556 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
79030621 CTTTGGATAGCGGAAAAGGTAAGT
131 CTTTGGACAGCGGAAAAGGTAAGT
79030645 ACCTTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
CTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:79050322 original size:22 final size:22
Alignment explanation
Indices: 79050297--79050348 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
79050287 CACACGGCCG
79050297 TGTGCCTCCCTTCACACAGGCA
1 TGTGCCTCCCTTCACACAGGCA
79050319 TGTGCCTCCCTTCACACAGGCA
1 TGTGCCTCCCTTCACACAGGCA
79050341 TGTGCCTC
1 TGTGCCTC
79050349 TATCACATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.40, G:0.19, T:0.25
Consensus pattern (22 bp):
TGTGCCTCCCTTCACACAGGCA
Found at i:79057546 original size:19 final size:18
Alignment explanation
Indices: 79057517--79057554 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
79057507 AGATATATTT
*
79057517 TAAATTTATTTAGATAAA
1 TAAATTTATTTAAATAAA
79057535 TAAATCTTATTTAAATAAA
1 TAAAT-TTATTTAAATAAA
79057554 T
1 T
79057555 CTTAGAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
TAAATTTATTTAAATAAA
Found at i:79071363 original size:22 final size:21
Alignment explanation
Indices: 79071338--79071390 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
79071328 AATAAAATAT
79071338 AAATTAAAAATGCTATAA-CTTG
1 AAATTAAAAA-GCT-TAATCTTG
79071360 AAATTTTAAAAAGCTTAATCTTG
1 AAA--TTAAAAAGCTTAATCTTG
*
79071383 GAATTAAA
1 AAATTAAA
79071391 CCAAAGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 9 0.33
24 7 0.26
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATTAAAAAGCTTAATCTTG
Found at i:79071370 original size:23 final size:23
Alignment explanation
Indices: 79071341--79071387 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
79071331 AAAATATAAA
79071341 TTAAAAATGCTATAA-CTTGAAATT
1 TTAAAAA-GCT-TAATCTTGAAATT
*
79071365 TTAAAAAGCTTAATCTTGGAATT
1 TTAAAAAGCTTAATCTTGAAATT
79071388 AAACCAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 11 0.52
24 7 0.33
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
TTAAAAAGCTTAATCTTGAAATT
Found at i:79079060 original size:22 final size:22
Alignment explanation
Indices: 79079034--79079097 Score: 112
Period size: 22 Copynumber: 2.9 Consensus size: 22
79079024 ATGAAAACTA
79079034 GAAAATTAAC-AATTAAGAAAAT
1 GAAAATTAACTAA-TAAGAAAAT
79079056 GAAAATTAACTAATAAGAAAAT
1 GAAAATTAACTAATAAGAAAAT
79079078 GAAAATTAACTAATAAGAAA
1 GAAAATTAACTAATAAGAAA
79079098 CAATTTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.22
Consensus pattern (22 bp):
GAAAATTAACTAATAAGAAAAT
Found at i:79079064 original size:15 final size:15
Alignment explanation
Indices: 79079021--79079064 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
79079011 AAATTTCATA
*
79079021 AAAATGAAAACT-AG
1 AAAATGAAAATTAAG
*
79079035 AAAATTAACAATTAAG
1 AAAATGAA-AATTAAG
79079051 AAAATGAAAATTAA
1 AAAATGAAAATTAA
79079065 CTAATAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 7 0.28
15 9 0.36
16 9 0.36
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (15 bp):
AAAATGAAAATTAAG
Found at i:79085206 original size:136 final size:136
Alignment explanation
Indices: 79084962--79085207 Score: 359
Period size: 136 Copynumber: 1.8 Consensus size: 136
79084952 ATAGGCCTAT
* **
79084962 TCACACAAGTTGTCGGTCGGAACGTAGCTACACGGTGCTGCTTCGTAAGCTGTCGAGTATCTATA
1 TCACACAAGCTGTCGGTCGGAACGTAGCTACACGGTGCTGCTTCACAAGCTGTCGAGTATCTATA
* * *
79085027 ACAAATGCCAAAACTTAGCCACCGGTAGGATATTCAAAACCAGCACCCGAAATATGGTAACCTGG
66 ACAAATGCCAAAACTCAGCCACCAGTAGGACATTCAAAACCAGCACCCGAAATATGGTAACCTGG
79085092 GTTTGC
131 GTTTGC
* * * *
79085098 TCACACATGCTGTTGGTCGGAATGTAGCTACACGGTGCTGCTTCACAAGCTGTCGAGTAT-TCGT
1 TCACACAAGCTGTCGGTCGGAACGTAGCTACACGGTGCTGCTTCACAAGCTGTCGAGTATCT-AT
* * *
79085162 AACAAATGTCAGAACTCAGCCACCAGTAGGACATTCAAGACCAGCA
65 AACAAATGCCAAAACTCAGCCACCAGTAGGACATTCAAAACCAGCA
79085208 TCCAAAACAT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
135 1 0.01
136 95 0.99
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (136 bp):
TCACACAAGCTGTCGGTCGGAACGTAGCTACACGGTGCTGCTTCACAAGCTGTCGAGTATCTATA
ACAAATGCCAAAACTCAGCCACCAGTAGGACATTCAAAACCAGCACCCGAAATATGGTAACCTGG
GTTTGC
Found at i:79093016 original size:9 final size:10
Alignment explanation
Indices: 79092999--79093024 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
79092989 ATCTTTCTCA
79092999 ACAAAAAAAT
1 ACAAAAAAAT
79093009 ACAAAAAAAT
1 ACAAAAAAAT
79093019 ACAAAA
1 ACAAAA
79093025 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
ACAAAAAAAT
Found at i:79093037 original size:21 final size:21
Alignment explanation
Indices: 79093011--79093056 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
79093001 AAAAAAATAC
*
79093011 AAAAAAATACAAAAT-TATTTT
1 AAAAAAATA-AAAATAAATTTT
*
79093032 AAAAAATTAAAAATAAATTTT
1 AAAAAAATAAAAATAAATTTT
79093053 AAAA
1 AAAA
79093057 TTCGAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAAATAAAAATAAATTTT
Found at i:79093109 original size:10 final size:10
Alignment explanation
Indices: 79093094--79093140 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
79093084 TTTATATTTT
79093094 TAAAAAATTA
1 TAAAAAATTA
79093104 T-AAAAATTA
1 TAAAAAATTA
*
79093113 TAAAAAATTC
1 TAAAAAATTA
*
79093123 TAAAGAATATA
1 TAAAAAAT-TA
79093134 TAAAAAA
1 TAAAAAA
79093141 GCTAATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 9 0.29
10 15 0.48
11 7 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:79093118 original size:19 final size:21
Alignment explanation
Indices: 79093094--79093140 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
79093084 TTTATATTTT
79093094 TAAAAAATTATAAA-AAT-TA
1 TAAAAAATTATAAAGAATATA
*
79093113 TAAAAAATTCTAAAGAATATA
1 TAAAAAATTATAAAGAATATA
79093134 TAAAAAA
1 TAAAAAA
79093141 GCTAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.52
20 3 0.12
21 9 0.36
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAAATTATAAAGAATATA
Found at i:79093940 original size:20 final size:20
Alignment explanation
Indices: 79093900--79093940 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
79093890 CAATTCGATT
*
79093900 ATTAATCGAATTGAATTAAC
1 ATTAATCGAATTGAATAAAC
79093920 ATTAATCGAATT-AATCAAAC
1 ATTAATCGAATTGAAT-AAAC
79093940 A
1 A
79093941 ATAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
ATTAATCGAATTGAATAAAC
Found at i:79102187 original size:28 final size:29
Alignment explanation
Indices: 79102156--79102212 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
79102146 ATCCGAAATT
*
79102156 CTGATAT-CATGGCCCGAAGCCAAATCAG
1 CTGATATGCATGGCCCAAAGCCAAATCAG
*
79102184 CTGATATGCATGGCTCAAAGCCAAATCAG
1 CTGATATGCATGGCCCAAAGCCAAATCAG
79102213 TATCTCTCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (29 bp):
CTGATATGCATGGCCCAAAGCCAAATCAG
Found at i:79106007 original size:32 final size:33
Alignment explanation
Indices: 79105937--79106076 Score: 149
Period size: 33 Copynumber: 4.3 Consensus size: 33
79105927 CTTGACGAAA
* * * *
79105937 TATCTTTATTCTGTGTTTACTATCCCAGTGGAC
1 TATCTCTATTATGTGTTTACTGTCCCAGCGGAC
*
79105970 TATCTCTATTATGTGTTTACTGT-CTAGCGGAC
1 TATCTCTATTATGTGTTTACTGTCCCAGCGGAC
*
79106002 TATCTCTATTATGTGTTTA-TGGTCCCAGCAGAC
1 TATCTCTATTATGTGTTTACT-GTCCCAGCGGAC
* * * * * *
79106035 TATCTCTGTTCTATGTTTACTATCCCAGCGAAG
1 TATCTCTATTATGTGTTTACTGTCCCAGCGGAC
79106068 TATCTCTAT
1 TATCTCTAT
79106077 GGATGCCATG
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
31 1 0.01
32 28 0.31
33 59 0.66
34 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (33 bp):
TATCTCTATTATGTGTTTACTGTCCCAGCGGAC
Found at i:79107442 original size:40 final size:40
Alignment explanation
Indices: 79107404--79107676 Score: 273
Period size: 41 Copynumber: 6.8 Consensus size: 40
79107394 GACGACATAA
* *
79107404 CTTCGGTTATATATGGCACTTAGTGTGCGATTCGACATAG
1 CTTCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAG
* * * *
79107444 -TGTTGGCTATATATGACACTTAGTGTACAAGA-TCAAGATAG
1 CT-TCGGCTATATATGGCACTTAGTGTGC--GATTCGAGATAG
* ** *
79107485 CTTCGGCTATATATGGTACTTAGTGTGCGATTTTACATAG
1 CTTCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAG
* *
79107525 CTTCGGCTATATATGACACTTAGTGTGCGAGATCGAGATAG
1 CTTCGGCTATATATGGCACTTAGTGTGCGA-TTCGAGATAG
* ** * * *
79107566 CTTCGACTATATATTACACTTAATGTGTGAGGTCGAGATAG
1 CTTCGGCTATATATGGCACTTAGTGTGCGA-TTCGAGATAG
* *
79107607 CTTCGGCTATATATGGCACTTAGTGTGCGTTTTGAGATAG
1 CTTCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAG
**
79107647 CTTCCACTA-AGTATGGCACTTAGTGTGCGA
1 CTTCGGCTATA-TATGGCACTTAGTGTGCGA
79107677 GATACCTAGT
Statistics
Matches: 191, Mismatches: 35, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
39 4 0.02
40 89 0.47
41 95 0.50
42 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
CTTCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAG
Found at i:79107539 original size:81 final size:81
Alignment explanation
Indices: 79107404--79107632 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 81
79107394 GACGACATAA
* *
79107404 CTTCGGTTATATATGGCACTTAGTGTGCGATTCGACATAG-TGTTGGCTATATATGACACTTAGT
1 CTTCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT-TCGGCTATATATGACACTTAGT
79107468 GTACAAGATCAAGATAG
65 GTACAAGATCAAGATAG
* **
79107485 CTTCGGCTATATATGGTACTTAGTGTGCGATTTTACATAGCTTCGGCTATATATGACACTTAGTG
1 CTTCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGACACTTAGTG
* * *
79107550 TGCGAGATCGAGATAG
66 TACAAGATCAAGATAG
* ** * * * * *
79107566 CTTCGACTATATATTACACTTAATGTGTGAGGTCGAGATAGCTTCGGCTATATATGGCACTTAGT
1 CTTCGGCTATATATGGCACTTAGTGTGCGA-TTCGACATAGCTTCGGCTATATATGACACTTAGT
79107631 GT
65 GT
79107633 GCGTTTTGAG
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 95 0.75
82 32 0.25
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (81 bp):
CTTCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGACACTTAGTG
TACAAGATCAAGATAG
Found at i:79107618 original size:122 final size:122
Alignment explanation
Indices: 79107397--79107679 Score: 349
Period size: 122 Copynumber: 2.3 Consensus size: 122
79107387 CATGTTCGAC
* * * * *
79107397 GACATAACTTCGGTTATATATGGCACTTAGTGTGCGA-TTCGACATAGTGTTGGCTATATATGAC
1 GACATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATCGACATAGTGTCGACTATATATGAC
* *
79107461 ACTTAGTGTACAAGATCAAGATAGCTTCGGCTATATATGGTACTTAGTGTGCGATTTT
66 ACTTAATGTACAAGATCAAGATAGCTTCGGCTATATATGGCACTTAGTGTGCG-TTTT
* * *
79107519 -ACATAGCTTCGGCTATATATGACACTTAGTGTGCGAGATCGAGATAGCT-TCGACTATATATTA
1 GACATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATCGACATAG-TGTCGACTATATATGA
*** * *
79107582 CACTTAATGTGTGAGGTCGAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGTTTT
65 CACTTAATGTACAAGATCAAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGTTTT
* **
79107640 GAGATAGCTTCCACTA-AGTATGGCACTTAGTGTGCGAGAT
1 GACATAGCTTCGGCTATA-TATGGCACTTAGTGTGCGAGAT
79107680 ACCTAGTATT
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
121 38 0.28
122 99 0.72
123 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (122 bp):
GACATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATCGACATAGTGTCGACTATATATGAC
ACTTAATGTACAAGATCAAGATAGCTTCGGCTATATATGGCACTTAGTGTGCGTTTT
Found at i:79112145 original size:21 final size:21
Alignment explanation
Indices: 79112119--79112164 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
79112109 TAGTTAAAGG
79112119 ATTAAATTGATATAATATTAA
1 ATTAAATTGATATAATATTAA
79112140 ATTAAATTGATATAATATTAA
1 ATTAAATTGATATAATATTAA
79112161 ATTA
1 ATTA
79112165 GGCATGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATTAAATTGATATAATATTAA
Found at i:79115780 original size:18 final size:17
Alignment explanation
Indices: 79115750--79115783 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
79115740 ATGAAAAGTG
*
79115750 TAAATAAAAATAAAAAT
1 TAAAAAAAAATAAAAAT
79115767 TAAAAAAAATATAAAAA
1 TAAAAAAAA-ATAAAAA
79115784 CAAAAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAAAAAATAAAAAT
Found at i:79117403 original size:18 final size:18
Alignment explanation
Indices: 79117382--79117418 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
79117372 AAATAAGAGT
*
79117382 AATATTAGTAATAATAAA
1 AATAATAGTAATAATAAA
79117400 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
79117418 A
1 A
79117419 TGATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:79119137 original size:24 final size:24
Alignment explanation
Indices: 79119110--79119159 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
79119100 AGTTTAGGAA
*
79119110 TTTTATAGCCCAAAATGCTTTATG
1 TTTTATAGCCCAAAATACTTTATG
*
79119134 TTTTATAGCTCAAAATACTTTATG
1 TTTTATAGCCCAAAATACTTTATG
79119158 TT
1 TT
79119160 CTAGTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (24 bp):
TTTTATAGCCCAAAATACTTTATG
Found at i:79127230 original size:6 final size:6
Alignment explanation
Indices: 79127219--79127248 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
79127209 TGTGAGCATA
79127219 TACAGT TACAGT TACAGT TACAGT TACAGT
1 TACAGT TACAGT TACAGT TACAGT TACAGT
79127249 CACACTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
TACAGT
Found at i:79127461 original size:13 final size:13
Alignment explanation
Indices: 79127426--79127526 Score: 96
Period size: 13 Copynumber: 7.8 Consensus size: 13
79127416 GTTAAATTTG
79127426 TATATGAAATGAT
1 TATATGAAATGAT
* * * *
79127439 AAAATAAAATGTT
1 TATATGAAATGAT
*
79127452 TAGATGAAATG-T
1 TATATGAAATGAT
*
79127464 TATACGAAATGAT
1 TATATGAAATGAT
*
79127477 TATATGGAATGAT
1 TATATGAAATGAT
* *
79127490 TACATGAAATGCT
1 TATATGAAATGAT
*
79127503 TATATGAAATGGT
1 TATATGAAATGAT
79127516 TATATGGAAAT
1 TATAT-GAAAT
79127527 AGATGTATAA
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
12 10 0.14
13 55 0.79
14 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.35
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:79127519 original size:39 final size:38
Alignment explanation
Indices: 79127446--79127524 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
79127436 GATAAAATAA
* *
79127446 AATGTTTAGATGAAATGTTATACGAAATGATTATATGG
1 AATGATTACATGAAATGTTATACGAAATGATTATATGG
* *
79127484 AATGATTACATGAAATGCTTATATGAAATGGTTATATGG
1 AATGATTACATGAAATG-TTATACGAAATGATTATATGG
79127523 AA
1 AA
79127525 ATAGATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 15 0.42
39 21 0.58
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (38 bp):
AATGATTACATGAAATGTTATACGAAATGATTATATGG
Found at i:79128544 original size:38 final size:38
Alignment explanation
Indices: 79128457--79128651 Score: 230
Period size: 38 Copynumber: 5.0 Consensus size: 38
79128447 AAACCCAAAC
* * ** *
79128457 ATAACACCAGCACGAAGCCTACGGGACTTTAAATTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
79128497 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
79128535 ATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
79128573 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
79128611 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
79128651 A
1 A
79128652 CACATCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 97 0.71
39 8 0.06
40 30 0.22
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:79142453 original size:27 final size:26
Alignment explanation
Indices: 79142423--79142485 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
79142413 AGATAATTAA
79142423 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
79142450 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
79142477 AATATAAAT
1 AATA-AAAT
79142486 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:79142472 original size:15 final size:15
Alignment explanation
Indices: 79142452--79142481 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79142442 ATAATCCTAA
*
79142452 TAATTATCTTAATAT
1 TAATTATCCTAATAT
79142467 TAATTATCCTAATAT
1 TAATTATCCTAATAT
79142482 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:79155796 original size:108 final size:110
Alignment explanation
Indices: 79155595--79155849 Score: 261
Period size: 108 Copynumber: 2.3 Consensus size: 110
79155585 AAATCACGAT
* * * *
79155595 ATGAAGATATGCGTAAGTCTATGTGGTAGAGACCCATGACATTATATGACAATGAAAACACTTAT
1 ATGAAGAGATGTGTAAGTCTATGTGGTAGAGACCCATGACATAATATGACAATGAAAACACTCAT
* * *
79155660 GTTATTGCCTCCAGTGAGATGAAGACTGGACT-AGCAGATCACAAC
66 GTGATTGCCTCCAGTAAGATGAAGACTGGACTGA-AAGATCACAAC
* * * **
79155705 AT-AAG-GATGTGTAAGTCTATGTGGTTGAGACCCATGGCATAATATGATAAT-AAGATTACTCA
1 ATGAAGAGATGTGTAAGTCTATGTGGTAGAGACCCATGACATAATATGACAATGAA-AACACTCA
* * *
79155767 TGGTGA-TGCCTTCAGTAATATGTAA-ACTGGACTGAAAGATCACGAC
65 T-GTGATTGCCTCCAGTAAGATG-AAGACTGGACTGAAAGATCACAAC
* * * *
79155813 ATGAAGATATGTGTAAGTCTATGAGGGAGAAACCCAT
1 ATGAAGAGATGTGTAAGTCTATGTGGTAGAGACCCAT
79155850 AGCACCTACT
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
107 2 0.02
108 78 0.66
109 12 0.10
110 27 0.23
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (110 bp):
ATGAAGAGATGTGTAAGTCTATGTGGTAGAGACCCATGACATAATATGACAATGAAAACACTCAT
GTGATTGCCTCCAGTAAGATGAAGACTGGACTGAAAGATCACAAC
Found at i:79156002 original size:59 final size:58
Alignment explanation
Indices: 79155858--79156022 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 58
79155848 ATAGCACCTA
* * * *
79155858 CTATGAAAGTCCGTTGGGACTGTAAACACATCATTCTGTGTGTTTCCCCATAACAACTT
1 CTATGAAAGTCCG-TGGGACAGTAAACACATGATTTTGTGTGTTGCCCCATAACAACTT
* * *
79155917 CTATGAAAGTCTGTCGGGACAGTAAACACATGATTTTGTGTGTTGCCCCATGACACCTT
1 CTATGAAAGTCCGT-GGGACAGTAAACACATGATTTTGTGTGTTGCCCCATAACAACTT
* * * * * *
79155976 TTGTGAAAGTCCGCTGAGACAATAAACTCGTGATTTTGTGTGTTGCC
1 CTATGAAAGTCCG-TGGGACAGTAAACACATGATTTTGTGTGTTGCC
79156023 TATATGACGT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.01
59 88 0.98
60 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (58 bp):
CTATGAAAGTCCGTGGGACAGTAAACACATGATTTTGTGTGTTGCCCCATAACAACTT
Found at i:79157873 original size:26 final size:26
Alignment explanation
Indices: 79157850--79157903 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
79157840 TATATATATA
79157850 TATTGAAATTACATATTTAATATAAC
1 TATTGAAATTACATATTTAATATAAC
79157876 TATTGAAATTACATATTTAATATAAC
1 TATTGAAATTACATATTTAATATAAC
79157902 TA
1 TA
79157904 CATAGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
TATTGAAATTACATATTTAATATAAC
Found at i:79159694 original size:19 final size:19
Alignment explanation
Indices: 79159670--79159709 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
79159660 AAAATTAAAC
79159670 AATGACACACTTATGATAT
1 AATGACACACTTATGATAT
79159689 AATGACACACTTATGATAT
1 AATGACACACTTATGATAT
79159708 AA
1 AA
79159710 GTGAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (19 bp):
AATGACACACTTATGATAT
Found at i:79159721 original size:19 final size:19
Alignment explanation
Indices: 79159670--79159722 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
79159660 AAAATTAAAC
* *
79159670 AATGACACACTTATGATAT
1 AATGACAAAATTATGATAT
* *
79159689 AATGACACACTTATGATAT
1 AATGACAAAATTATGATAT
79159708 AAGTGA-AAAATTATG
1 AA-TGACAAAATTATG
79159723 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 28 0.90
20 3 0.10
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (19 bp):
AATGACAAAATTATGATAT
Found at i:79160554 original size:14 final size:14
Alignment explanation
Indices: 79160535--79160578 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
79160525 ATTGTTTAAT
79160535 AAATTTATTTTTTA
1 AAATTTATTTTTTA
79160549 AAATTTAATTTTATTA
1 AAATTT-ATTTT-TTA
* *
79160565 ATATTTATATTTTA
1 AAATTTATTTTTTA
79160579 TTTTATCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 8 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATTTATTTTTTA
Found at i:79160591 original size:17 final size:17
Alignment explanation
Indices: 79160540--79160580 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
79160530 TTAATAAATT
*
79160540 TATTTT-TTAAAATTTA
1 TATTTTATTAATATTTA
79160556 -ATTTTATTAATATTTA
1 TATTTTATTAATATTTA
79160572 TATTTTATT
1 TATTTTATT
79160581 TTATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATTAATATTTA
Found at i:79161154 original size:9 final size:9
Alignment explanation
Indices: 79161128--79161249 Score: 52
Period size: 10 Copynumber: 12.7 Consensus size: 9
79161118 CTCTCTCAAC
*
79161128 AAAAATTATA
1 AAAAATT-TT
79161138 AAATAATTTT
1 AAA-AATTTT
79161148 AAAAATTTTTT
1 AAAAA--TTTT
*
79161159 AAAAA-TTC
1 AAAAATTTT
79161167 AAATAATTTT
1 AAA-AATTTT
*
79161177 AAAAA-ATT
1 AAAAATTTT
79161185 AAAATATTTAT
1 AAAA-ATTT-T
*
79161196 AACAATTTT
1 AAAAATTTT
*
79161205 AAAATTATATAT
1 AAAA--AT-TTT
*
79161217 AAAAAATTT
1 AAAAATTTT
*
79161226 -AAGATTTT
1 AAAAATTTT
*
79161234 TAAAATTTT
1 AAAAATTTT
79161243 CAAAAAT
1 -AAAAAT
79161250 AATAATTTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
8 17 0.20
9 20 0.24
10 23 0.27
11 19 0.22
12 6 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (9 bp):
AAAAATTTT
Found at i:79161193 original size:18 final size:18
Alignment explanation
Indices: 79161149--79161238 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 18
79161139 AATAATTTTA
*
79161149 AAAAT-TTTTTAAAAATT
1 AAAATATTTTAAAAAATT
*
79161166 CAAATAATTTTAAAAAATT
1 AAAAT-ATTTTAAAAAATT
**
79161185 AAAATATTTATAACAATTTT
1 AAAATATTT-TAA-AAAATT
*
79161205 AAAATTATATATAAAAAATTT
1 AAAA-TAT-TTTAAAAAA-TT
*
79161226 AAGAT-TTTTAAAA
1 AAAATATTTTAAAA
79161239 TTTTCAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
17 4 0.07
18 10 0.18
19 19 0.34
20 11 0.20
21 11 0.20
22 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
AAAATATTTTAAAAAATT
Found at i:79161226 original size:21 final size:20
Alignment explanation
Indices: 79161176--79161227 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
79161166 CAAATAATTT
*
79161176 TAAAAAA-TTAAAATATTTA
1 TAAAAAATTTAAAATATATA
* *
79161195 TAACAATTTTAAAATTATATA
1 TAAAAAATTTAAAA-TATATA
79161216 TAAAAAATTTAA
1 TAAAAAATTTAA
79161228 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 5 0.19
20 6 0.23
21 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAAATTTAAAATATATA
Found at i:79161599 original size:13 final size:13
Alignment explanation
Indices: 79161581--79161605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79161571 AGATGGTGCA
79161581 TATATGAAATATG
1 TATATGAAATATG
79161594 TATATGAAATAT
1 TATATGAAATAT
79161606 AAATGAGGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TATATGAAATATG
Found at i:79164730 original size:13 final size:14
Alignment explanation
Indices: 79164712--79164741 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
79164702 TTATTCATCG
79164712 ATCTCTTCCTC-AA
1 ATCTCTTCCTCGAA
79164725 ATCTCTTCCTCGAA
1 ATCTCTTCCTCGAA
79164739 ATC
1 ATC
79164742 AGCCTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.37
Consensus pattern (14 bp):
ATCTCTTCCTCGAA
Found at i:79167246 original size:40 final size:41
Alignment explanation
Indices: 79167198--79167287 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
79167188 TTGGTATCAT
**
79167198 ACACTTAGTACCT-TATATAGCCGAAGCTA-TTCTATTTCGC
1 ACACTTAGTACCTATATATAGCCGAAGCTATTTC-AAATCGC
* *
79167238 ACACTTAGT-GCTATTTATAGCCGAAGCTATTTCAAATCGC
1 ACACTTAGTACCTATATATAGCCGAAGCTATTTCAAATCGC
79167278 ACACTTAGTA
1 ACACTTAGTA
79167288 TCGAACATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 2 0.05
40 38 0.88
41 3 0.07
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (41 bp):
ACACTTAGTACCTATATATAGCCGAAGCTATTTCAAATCGC
Found at i:79168514 original size:50 final size:50
Alignment explanation
Indices: 79168431--79168668 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
79168421 GGGCGGTTAC
** *
79168431 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGTTATCGGCCTTGAGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT
* ** * * *
79168481 ATGGGAGCTAGTGTAAGACCATGTCTGACACATGGTATCGGTCTTGAGAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT
* *
79168531 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGAT
* *
79168581 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT
*
79168631 ACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCAT
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
79168669 TGACTTTGAT
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.01
50 166 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (50 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT
Found at i:79168710 original size:48 final size:49
Alignment explanation
Indices: 79168433--79168714 Score: 253
Period size: 50 Copynumber: 5.7 Consensus size: 49
79168423 GCGGTTACAT
* ** * * *
79168433 GAGAGCTAGTGTAAGACCATGTCTGGGACATGTTATCGGCCTTGAGATA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATA
* * ** * ** * *
79168482 TGGGAGCTAGTGTAAGACCATGTCTGACACATGGTATCGGTCTTGAGATA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATA
* * *
79168532 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGATATA
*
79168582 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATA
* * * * *
79168632 CGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGT-
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATA
* * **
79168681 GTGAGCCAGTGTAAGAGCATGTCCAGGACATGGC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
79168715 GTCGGCATCT
Statistics
Matches: 203, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 29 0.14
49 1 0.00
50 172 0.85
51 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATA
Found at i:79171066 original size:12 final size:12
Alignment explanation
Indices: 79171051--79171075 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79171041 CATATCAAGT
79171051 TACATGTTCATA
1 TACATGTTCATA
79171063 TACATGTTCATA
1 TACATGTTCATA
79171075 T
1 T
79171076 TGCCATTTCC
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TACATGTTCATA
Found at i:79180226 original size:39 final size:40
Alignment explanation
Indices: 79180172--79180264 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 40
79180162 CGTTTGAATG
*
79180172 AAAAACGCCACTAAAGAAT-GAGCATTAGCGGC-GCTTTTT-
1 AAAAACGCCGCTAAAG-ATCGAGCATTAGCGGCAG-TTTTTA
* *
79180211 AAAAACGCTGCTAAAGATCGAGTATTAGCGGCAGTTTTTA
1 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCAGTTTTTA
79180251 AAAAACGCCGCTAA
1 AAAAACGCCGCTAA
79180265 CGCCGCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 31 0.66
40 14 0.30
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATCGAGCATTAGCGGCAGTTTTTA
Found at i:79180555 original size:40 final size:39
Alignment explanation
Indices: 79180460--79180570 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 39
79180450 TTTTAGTGGC
* * *
79180460 TTTAGCGGCGCTTTTTAAAAACGTCGCTAAAGATCGAGT
1 TTTAGCGGTGCTTTTTAAAAACGCCGCTAAAGATCGACT
* * *
79180499 ATTAGCGATGGTTTTTTAAGAAACGCCGCTATAAG-TAC-ACT
1 TTTAGCGGT-GCTTTTTAA-AAACGCCGCTA-AAGAT-CGACT
*
79180540 TTTAGCGGTGCTTTTTAAAAAACGCTGCTAA
1 TTTAGCGGTGCTTTTT-AAAAACGCCGCTAA
79180571 TGCTTGATCT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
39 7 0.12
40 24 0.42
41 22 0.39
42 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (39 bp):
TTTAGCGGTGCTTTTTAAAAACGCCGCTAAAGATCGACT
Found at i:79180840 original size:22 final size:22
Alignment explanation
Indices: 79180815--79180859 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
79180805 GAGTTACTAT
* *
79180815 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
79180837 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
79180859 T
1 T
79180860 GGTTTAATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:79180858 original size:15 final size:15
Alignment explanation
Indices: 79180820--79180854 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
79180810 ACTATTTTAA
*
79180820 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
79180835 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
79180849 GGTTTA
1 GGTTTA
79180855 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:79180927 original size:7 final size:7
Alignment explanation
Indices: 79180895--79180979 Score: 53
Period size: 7 Copynumber: 12.1 Consensus size: 7
79180885 TAGGTGTTAG
*
79180895 GGGTTAA
1 GGGTTTA
*
79180902 GGGTTAA
1 GGGTTTA
*
79180909 GGGTTCA
1 GGGTTTA
*
79180916 TGGTTTA
1 GGGTTTA
79180923 GGGTTTA
1 GGGTTTA
* *
79180930 TGTTTTA
1 GGGTTTA
* *
79180937 AGATTTA
1 GGGTTTA
*
79180944 TGGTTTA
1 GGGTTTA
79180951 GGGTTTA
1 GGGTTTA
* *
79180958 GAGATTA
1 GGGTTTA
**
79180965 AAGTTTA
1 GGGTTTA
79180972 GGGTTTA
1 GGGTTTA
79180979 G
1 G
79180980 CTTAATTAGT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:79180936 original size:14 final size:14
Alignment explanation
Indices: 79180903--79180957 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
79180893 AGGGGTTAAG
* *
79180903 GGTTAAGGGTTCAT
1 GGTTTAGGGTTTAT
79180917 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAT
* * *
79180931 GTTTTAAGATTTAT
1 GGTTTAGGGTTTAT
79180945 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
79180958 GAGATTAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:79180957 original size:21 final size:22
Alignment explanation
Indices: 79180919--79180979 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
79180909 GGGTTCATGG
* * *
79180919 TTTAGGGTTTATGTTTTA-AGA
1 TTTAAGGTTTAGGGTTTAGAGA
*
79180940 TTTATGGTTTAGGGTTTAGAGA
1 TTTAAGGTTTAGGGTTTAGAGA
*
79180962 -TTAAAGTTTAGGGTTTAG
1 TTTAAGGTTTAGGGTTTAG
79180980 CTTAATTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTAGGGTTTAGAGA
Found at i:79180965 original size:28 final size:28
Alignment explanation
Indices: 79180915--79180979 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
79180905 TTAAGGGTTC
* *
79180915 ATGGTTTAGGGTTTAT-GTTTTAAGATTT
1 ATGGTTTAGGGTTTATGGATTAAAG-TTT
79180943 ATGGTTTAGGGTTTA-GAGATTAAAGTTT
1 ATGGTTTAGGGTTTATG-GATTAAAGTTT
*
79180971 AGGGTTTAG
1 ATGGTTTAG
79180980 CTTAATTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (28 bp):
ATGGTTTAGGGTTTATGGATTAAAGTTT
Found at i:79181200 original size:21 final size:21
Alignment explanation
Indices: 79181176--79181228 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
79181166 GGGTTGTGAT
* *
79181176 TTAAGGTTTAGTGGTTAGGGG
1 TTAAGGTTTAGGGGTTAAGGG
*
79181197 TTAAGGGTTAGGGGTTAAGGG
1 TTAAGGTTTAGGGGTTAAGGG
79181218 TTAATGGTTTA
1 TTAA-GGTTTA
79181229 TGTTTTAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (21 bp):
TTAAGGTTTAGGGGTTAAGGG
Found at i:79181207 original size:14 final size:14
Alignment explanation
Indices: 79181188--79181220 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
79181178 AAGGTTTAGT
79181188 GGTTAGGGGTTAAG
1 GGTTAGGGGTTAAG
79181202 GGTTAGGGGTTAAG
1 GGTTAGGGGTTAAG
79181216 GGTTA
1 GGTTA
79181221 ATGGTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (14 bp):
GGTTAGGGGTTAAG
Found at i:79181221 original size:7 final size:7
Alignment explanation
Indices: 79181188--79181226 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
79181178 AAGGTTTAGT
*
79181188 GGTTAGG
1 GGTTAAG
79181195 GGTTAAG
1 GGTTAAG
*
79181202 GGTTAGG
1 GGTTAAG
79181209 GGTTAAG
1 GGTTAAG
*
79181216 GGTTAAT
1 GGTTAAG
79181223 GGTT
1 GGTT
79181227 TATGTTTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (7 bp):
GGTTAAG
Found at i:79181572 original size:13 final size:12
Alignment explanation
Indices: 79181556--79181604 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
79181546 AAAAATATTG
79181556 ATAACAAATAAAA
1 ATAA-AAATAAAA
*
79181569 ATAAAATACAAAA
1 ATAAAA-ATAAAA
79181582 ATAAAAAT-AAA
1 ATAAAAATAAAA
79181593 ATATAAAATAAA
1 ATA-AAAATAAA
79181605 GATTAGTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 6 0.19
12 8 0.26
13 17 0.55
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:79181581 original size:7 final size:6
Alignment explanation
Indices: 79181556--79181604 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
79181546 AAAAATATTG
*
79181556 ATAACAA ATAAAA ATAAAA TACAAAA ATAAAA AT-AAA ATATAAA ATAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATA-AAA ATAAA
79181605 GATTAGTGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 5 0.14
6 17 0.46
7 15 0.41
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:79181583 original size:19 final size:18
Alignment explanation
Indices: 79181556--79181604 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
79181546 AAAAATATTG
*
79181556 ATAACAAATAAAAATAAA
1 ATAAAAAATAAAAATAAA
79181574 ATACAAAAATAAAAATAAA
1 ATA-AAAAATAAAAATAAA
*
79181593 ATATAAAATAAA
1 ATAAAAAATAAA
79181605 GATTAGTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (18 bp):
ATAAAAAATAAAAATAAA
Found at i:79182167 original size:23 final size:23
Alignment explanation
Indices: 79182141--79182187 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
79182131 TTGGTTGATA
*
79182141 TAATTTTCAGGTAGTTGTTTCTT
1 TAATTTTCAGGTAGTTGTTGCTT
79182164 TAATTTTCAGGTAGTTGTTGCTT
1 TAATTTTCAGGTAGTTGTTGCTT
79182187 T
1 T
79182188 TCTTTCTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (23 bp):
TAATTTTCAGGTAGTTGTTGCTT
Found at i:79195580 original size:23 final size:23
Alignment explanation
Indices: 79195554--79195603 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
79195544 TGATTTTTAA
79195554 ATTTTA-ATTTATTTAGTGATAAT
1 ATTTTAGA-TTATTTAGTGATAAT
79195577 A-TTTAGGATTATTTAGTGATAAT
1 ATTTTA-GATTATTTAGTGATAAT
79195600 ATTT
1 ATTT
79195604 AGGAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (23 bp):
ATTTTAGATTATTTAGTGATAAT
Found at i:79195581 original size:13 final size:13
Alignment explanation
Indices: 79195563--79195605 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
79195553 AATTTTAATT
79195563 TATTTAGTGATAA
1 TATTTAGTGATAA
79195576 TATTTAG-GAT--
1 TATTTAGTGATAA
79195586 TATTTAGTGATAA
1 TATTTAGTGATAA
79195599 TATTTAG
1 TATTTAG
79195606 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:79195604 original size:23 final size:23
Alignment explanation
Indices: 79195562--79195607 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
79195552 AAATTTTAAT
79195562 TTATTTAGTGATAATATTTAGGA
1 TTATTTAGTGATAATATTTAGGA
79195585 TTATTTAGTGATAATATTTAGGA
1 TTATTTAGTGATAATATTTAGGA
79195608 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (23 bp):
TTATTTAGTGATAATATTTAGGA
Found at i:79197647 original size:149 final size:149
Alignment explanation
Indices: 79197417--79197712 Score: 441
Period size: 149 Copynumber: 2.0 Consensus size: 149
79197407 GGGCTTGAAA
* * * *
79197417 ATGTTGGTAATTTTTCGGCACAAAATCATGGGCCTAATGTGCCATAGTACACTAAACTGAGGGCG
1 ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
* * * *
79197482 CATGTTCATGACATTGATGCCTCGCTATGCGTAGGGTTGCCTCGTCTCCTTGATTTTCATGCATC
66 CATGTCCATGAAATTGATGCCTCGCCATGCGTAGGGTTGCCTCGTCTCCCTGATTTTCATGCATC
*
79197547 CGATTATTTGACTACCTTT
131 CGATTATTTGACCACCTTT
* ** *
79197566 ATGTTGGTAATTTTTCAGAACAAAGTCATAGGCCTAATGTGCTGTGGCACACTAAACTGAGGGCG
1 ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
* *
79197631 -AGTGTCCATGAAATTGATGCCTCGCCATGTGTAGGGTTGCCTCGTCTCCCTGATTTTTATGCAT
66 CA-TGTCCATGAAATTGATGCCTCGCCATGCGTAGGGTTGCCTCGTCTCCCTGATTTTCATGCAT
79197695 CCGATTATTTGACCACCT
130 CCGATTATTTGACCACCT
79197713 CTGGGTCCAA
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
148 1 0.01
149 130 0.99
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (149 bp):
ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
CATGTCCATGAAATTGATGCCTCGCCATGCGTAGGGTTGCCTCGTCTCCCTGATTTTCATGCATC
CGATTATTTGACCACCTTT
Found at i:79200026 original size:13 final size:13
Alignment explanation
Indices: 79200008--79200033 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79199998 GCACATTCTG
79200008 GAGACTGGTCTTA
1 GAGACTGGTCTTA
79200021 GAGACTGGTCTTA
1 GAGACTGGTCTTA
79200034 CTCTCTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GAGACTGGTCTTA
Found at i:79201588 original size:18 final size:18
Alignment explanation
Indices: 79201555--79201602 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
79201545 ATTAAATTTG
*
79201555 TAATATTA--ATTCTATT
1 TAATATTATTATTTTATT
79201571 TAATATTATTATTTTATT
1 TAATATTATTATTTTATT
*
79201589 TACTATTATTATTT
1 TAATATTATTATTT
79201603 ATAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.29
18 20 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATATTATTATTTTATT
Found at i:79201645 original size:17 final size:16
Alignment explanation
Indices: 79201622--79201670 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
79201612 AGTGTACTTT
79201622 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
79201639 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
79201654 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
79201671 TGAAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:79201649 original size:15 final size:15
Alignment explanation
Indices: 79201629--79201668 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
79201619 TTTGTATGTA
*
79201629 TATATTATTATTATG
1 TATATTATTAGTATG
*
79201644 TATATTTTTAGTATG
1 TATATTATTAGTATG
79201659 TATATATATT
1 TATAT-TATT
79201669 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:79201762 original size:16 final size:17
Alignment explanation
Indices: 79201743--79201776 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
79201733 AATACTATAA
79201743 TATATATATACAT-CTT
1 TATATATATACATACTT
*
79201759 TATATGTATACATACTT
1 TATATATATACATACTT
79201776 T
1 T
79201777 TAATATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (17 bp):
TATATATATACATACTT
Found at i:79202719 original size:19 final size:19
Alignment explanation
Indices: 79202683--79202721 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
79202673 TATTTATTTT
*
79202683 ATATATATGTAAATATTAC
1 ATATATATGTAAACATTAC
* *
79202702 ATATATATTTTAACATTAC
1 ATATATATGTAAACATTAC
79202721 A
1 A
79202722 AGTTATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATATGTAAACATTAC
Found at i:79210940 original size:34 final size:34
Alignment explanation
Indices: 79210900--79210967 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
79210890 CTACAAGGAC
*
79210900 AATAAAGCAGTACCCTGGAAATACGACGTCAATA
1 AATAAAGCAGTACCCTAGAAATACGACGTCAATA
79210934 AATAAAGCAGTACCCTAGAAATACGACGTCAATA
1 AATAAAGCAGTACCCTAGAAATACGACGTCAATA
79210968 TCGTCACACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.18
Consensus pattern (34 bp):
AATAAAGCAGTACCCTAGAAATACGACGTCAATA
Found at i:79217309 original size:88 final size:86
Alignment explanation
Indices: 79217031--79217582 Score: 465
Period size: 88 Copynumber: 6.6 Consensus size: 86
79217021 TTGATGTTTT
* * * * *
79217031 ATTTCT-TCTTTCAGAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT--TGG-CTCGTATTT
1 ATTTCTATTTTTCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACG---CT
* *
79217092 CGAGGTATTTTCAATTTCTGTTTTTA
62 -GAGGTATTTTCAAATTCTGTTTTCA
*
79217118 A-TTC-ATGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGGACACGCTGA
1 ATTTCTAT-TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGA
*
79217180 GGTATTTTCAAATTCTGTTTTTA
64 GGTATTTTCAAATTCTGTTTTCA
* * * * * *
79217203 ATCTGTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATGCCGA
1 ATTTCTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-GACACGCTGA
79217268 GGTATTTTCAAATTCTGTTTTCA
64 GGTATTTTCAAATTCTGTTTTCA
** *
79217291 ATTTCTATTTTTCCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGTTGAG
1 ATTTCTATTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAG
* *
79217355 GTAATTTCAATTTCTGGTTTTCA
65 GTATTTTCAAATTCT-GTTTTCA
* *
79217378 A-----A------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-C-CGGACACGCTGAGA
1 ATTTCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGG
* *** *
79217430 AAAAATC-TATT-T-TTTT--
66 TATTTTCAAATTCTGTTTTCA
** * *
79217446 ATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGGACATGCTGAGG
1 ATTTCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGG
**
79217510 TATTTTCAGTTTCTGTTTTTCAA
66 TATTTTCAAATTCTG-TTTTC-A
* * *
79217533 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 ATTTCTATTTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
79217583 TGGCTCATGC
Statistics
Matches: 383, Mismatches: 50, Indels: 63
0.77 0.10 0.13
Matches are distributed among these distances:
68 1 0.00
70 4 0.01
72 1 0.00
73 2 0.01
74 16 0.04
75 33 0.09
79 34 0.09
80 15 0.04
81 2 0.01
82 2 0.01
84 4 0.01
85 25 0.07
86 65 0.17
87 68 0.18
88 107 0.28
89 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (86 bp):
ATTTCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGACACGCTGAGG
TATTTTCAAATTCTGTTTTCA
Found at i:79217407 original size:75 final size:75
Alignment explanation
Indices: 79217305--79217533 Score: 241
Period size: 79 Copynumber: 3.0 Consensus size: 75
79217295 CTATTTTTCC
** * *
79217305 AAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
79217370 GGTTTTCAAA
66 GCTTTTCAAA
* *
79217380 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CCGGACACGCTGAGAAAAAATCTATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG-------GTA-TTTT
**
79217444 TTATTTCTGCTTTTC---
58 CAATTTCTGCTTTTCAAA
* * *
79217459 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACATGCTGAGGTATTTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
79217524 GTTTTTCAAA
66 GCTTTTCAAA
79217534 TTTCTGTTTG
Statistics
Matches: 125, Mismatches: 17, Indels: 24
0.75 0.10 0.14
Matches are distributed among these distances:
72 15 0.12
73 2 0.02
74 12 0.10
75 33 0.26
79 34 0.27
80 12 0.10
81 2 0.02
82 15 0.12
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GCTTTTCAAA
Found at i:79218817 original size:7 final size:7
Alignment explanation
Indices: 79218807--79218853 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
79218797 AACAAATACC
79218807 AAAAAAT
1 AAAAAAT
*
79218814 -AAAAAG
1 AAAAAAT
*
79218820 AAAAAAG
1 AAAAAAT
*
79218827 CAAAAAT
1 AAAAAAT
79218834 AAAAAAT
1 AAAAAAT
*
79218841 AAAAAAC
1 AAAAAAT
79218848 AAAAAA
1 AAAAAA
79218854 ATAGGATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.06
Consensus pattern (7 bp):
AAAAAAT
Found at i:79218833 original size:20 final size:20
Alignment explanation
Indices: 79218808--79218852 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
79218798 ACAAATACCA
*
79218808 AAAAATAAAAAGA-AAAAAGC
1 AAAAATAAAAA-ATAAAAAAC
79218828 AAAAATAAAAAATAAAAAAC
1 AAAAATAAAAAATAAAAAAC
79218848 AAAAA
1 AAAAA
79218853 AATAGGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.07
Consensus pattern (20 bp):
AAAAATAAAAAATAAAAAAC
Found at i:79219446 original size:15 final size:15
Alignment explanation
Indices: 79219414--79219456 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
79219404 ATTAAATTTG
*
79219414 TAATATTAATTCTATT
1 TAATATT-ATTATATT
79219430 TAATATTATTATATT
1 TAATATTATTATATT
*
79219445 TACTATTATTAT
1 TAATATTATTAT
79219457 TTATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTATTATATT
Found at i:79219501 original size:17 final size:16
Alignment explanation
Indices: 79219478--79219526 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
79219468 AGTGTACTTT
79219478 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
79219495 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
79219510 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
79219527 TGAAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:79219505 original size:15 final size:15
Alignment explanation
Indices: 79219485--79219524 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
79219475 TTTGTATGTA
*
79219485 TATATTATTATTATG
1 TATATTATTAGTATG
*
79219500 TATATTTTTAGTATG
1 TATATTATTAGTATG
79219515 TATATATATT
1 TATAT-TATT
79219525 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:79231088 original size:18 final size:17
Alignment explanation
Indices: 79231055--79231093 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
79231045 TTGTATAAAT
79231055 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
79231073 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
79231090 TGTG
1 TGTG
79231094 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:79231346 original size:23 final size:23
Alignment explanation
Indices: 79231319--79231416 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
79231309 AGTGTTATTG
79231319 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
79231342 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
79231365 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79231387 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79231410 ATCAGTG
1 ATCAGTG
79231417 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:79231385 original size:45 final size:45
Alignment explanation
Indices: 79231321--79231409 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
79231311 TGTTATTGAT
* *
79231321 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
79231366 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
79231410 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:79247524 original size:18 final size:17
Alignment explanation
Indices: 79247491--79247529 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
79247481 TTGTATAAAT
79247491 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
79247509 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
79247526 TGTG
1 TGTG
79247530 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:79247784 original size:23 final size:23
Alignment explanation
Indices: 79247750--79247840 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 23
79247740 AGTGTTATTG
79247750 ATCAGT-GTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
79247772 TTCAGTGGTAGCTTTGGCT--A-
1 ATCAGTGGTAGCTTCGGCTACAT
79247792 ATCAGT-GTA-C-TC-GCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79247811 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79247834 ATCAGTG
1 ATCAGTG
79247841 TGGCACTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.05
17 1 0.02
18 2 0.04
19 9 0.16
20 8 0.14
21 2 0.04
22 7 0.12
23 25 0.44
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:79247816 original size:39 final size:42
Alignment explanation
Indices: 79247750--79247830 Score: 123
Period size: 39 Copynumber: 2.0 Consensus size: 42
79247740 AGTGTTATTG
* *
79247750 ATCAGTGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTA
1 ATCAGTGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTA
79247792 ATCAGTGTA-C-TC-GCTACATATCAGTGGTAGCTTCGGCTA
1 ATCAGTGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTA
79247831 CATATCAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 25 0.68
40 2 0.05
41 1 0.03
42 9 0.24
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (42 bp):
ATCAGTGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTA
Found at i:79254849 original size:18 final size:17
Alignment explanation
Indices: 79254816--79254854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
79254806 TTGTATAAAT
79254816 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
79254834 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
79254851 TGTG
1 TGTG
79254855 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:79255106 original size:23 final size:23
Alignment explanation
Indices: 79255079--79255176 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
79255069 AGTGTTATTG
79255079 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
79255102 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
79255125 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79255147 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
79255170 ATCAGTG
1 ATCAGTG
79255177 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Done.