Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 169 of 349
Found at i:54695818 original size:96 final size:96
Alignment explanation
Indices: 54695614--54696092 Score: 797
Period size: 96 Copynumber: 5.0 Consensus size: 96
54695604 CCCTTCGGGA
* * * * * * *
54695614 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54695679 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
54695710 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCCT-TCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54695774 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54695804 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54695868 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54695899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54695964 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54695995 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54696058 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54696089 CTTA
1 CTTA
54696093 CTATCATTTC
Statistics
Matches: 372, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
93 3 0.01
94 128 0.34
95 90 0.24
96 151 0.41
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54699594 original size:40 final size:40
Alignment explanation
Indices: 54699564--54699823 Score: 296
Period size: 40 Copynumber: 6.5 Consensus size: 40
54699554 AGCATGATTA
* * *
54699564 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
54699604 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
54699644 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
54699684 CTC-TCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
54699723 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATG
* * *
54699764 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATG
54699804 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
54699824 CATCATTCGA
Statistics
Matches: 186, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
39 39 0.21
40 127 0.68
41 20 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:54699728 original size:79 final size:80
Alignment explanation
Indices: 54699549--54699744 Score: 268
Period size: 79 Copynumber: 2.5 Consensus size: 80
54699539 CGAATACACG
* * * * * * *
54699549 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGA
*
54699614 TTTAGCACGGATATA
66 CTTAGCACGGATATA
* * * *
54699629 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTC-TCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGA
*
54699693 CTTAGCCCGGATATA
66 CTTAGCACGGATATA
54699708 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
54699745 TTAGTAACTC
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 52 0.51
80 49 0.49
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATATA
Found at i:54699783 original size:119 final size:120
Alignment explanation
Indices: 54699566--54699823 Score: 308
Period size: 119 Copynumber: 2.2 Consensus size: 120
54699556 CATGATTACT
* * ** *
54699566 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATATA
* *
54699631 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATG-
66 ACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCATCACTTAGCAC-AAAGC
* * * * *
54699684 CTCTCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAG
1 CT-TCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATA-
* * * **
54699749 TAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
64 TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCATCACTTAGCACAAAGC
54699805 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
54699824 CATCATTCGA
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
118 2 0.02
119 71 0.60
120 37 0.31
121 8 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATATA
ACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCATCACTTAGCACAAAGC
Found at i:54700167 original size:29 final size:29
Alignment explanation
Indices: 54700128--54700206 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
54700118 CTTAATAATC
*
54700128 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
54700158 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
54700187 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54700207 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:54700249 original size:43 final size:43
Alignment explanation
Indices: 54700188--54700290 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
54700178 TGCATTTCAA
54700188 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54700231 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54700274 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
54700291 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:54702615 original size:49 final size:47
Alignment explanation
Indices: 54702257--54702730 Score: 812
Period size: 47 Copynumber: 10.1 Consensus size: 47
54702247 CCCTTCGGGA
* * * * * *
54702257 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54702304 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702351 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702397 C-T-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702489 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702582 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702678 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54702727 CTTA
1 CTTA
54702731 CTATCATTTC
Statistics
Matches: 409, Mismatches: 10, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
44 31 0.08
45 13 0.03
46 59 0.14
47 216 0.53
49 90 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54702660 original size:96 final size:93
Alignment explanation
Indices: 54702257--54702730 Score: 808
Period size: 96 Copynumber: 5.0 Consensus size: 93
54702247 CCCTTCGGGA
* * * * * * *
54702257 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
54702322 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
54702351 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCT-TCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
54702414 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
54702442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
54702507 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
54702535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC--ATATATAC
54702600 ACTTTCACATTCATCACATCGGCCATTAGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
54702631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC--ATATATAC
54702696 ACTTTCACATTCATCACATCGGCCATTAGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
54702727 CTTA
1 CTTA
54702731 CTATCATTTC
Statistics
Matches: 370, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
91 78 0.21
92 16 0.04
93 99 0.27
94 38 0.10
96 139 0.38
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:54705841 original size:47 final size:47
Alignment explanation
Indices: 54705788--54706463 Score: 1057
Period size: 47 Copynumber: 14.2 Consensus size: 47
54705778 AATTCTAAAT
54705788 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
54705835 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
54705882 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
54705930 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
54705979 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
54706026 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
54706075 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
54706122 TGTGA-ATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATA-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
54706169 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
54706218 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
54706265 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
54706314 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
54706361 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
54706408 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
54706455 TGTGATAAG
1 TGTGATAAG
54706464 TCCCGAAGGG
Statistics
Matches: 582, Mismatches: 36, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 356 0.61
48 46 0.08
49 179 0.31
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:54706035 original size:96 final size:94
Alignment explanation
Indices: 54705788--54706463 Score: 1057
Period size: 96 Copynumber: 7.1 Consensus size: 94
54705778 AATTCTAAAT
*
54705788 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
54705853 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
*
54705882 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
54705947 GCCGATGTGATGAATGTGAAAGTGTATATATA
65 GCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
54705979 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
54706044 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTG--TATATA
*
54706075 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-ATAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA-AGGCCTAATG
54706139 GCCGATGTGATGAATGTGAAAGTGTATATA
65 GCCGATGTGATGAATGTGAAAGTGTATATA
*
54706169 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
54706234 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
54706265 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
54706330 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
54706361 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
54706426 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
54706455 TGTGATAAG
1 TGTGATAAG
54706464 TCCCGAAGGG
Statistics
Matches: 547, Mismatches: 28, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
94 101 0.18
95 83 0.15
96 352 0.64
97 11 0.02
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:54706209 original size:239 final size:239
Alignment explanation
Indices: 54705791--54706463 Score: 1185
Period size: 239 Copynumber: 2.8 Consensus size: 239
54705781 TCTAAATTGT
*
54705791 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
54705854 CGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGA
66 CGATGTGATGAATGTGAAAGTGTATATATGTGAATA-GGCCTAATGGCCGATGTGATGAATGTGA
54705919 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
130 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54705984 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGC
195 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGC
54706029 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
54706094 CGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCCGATGTGATGAATGTGAA
66 CGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCCGATGTGATGAATGTGAA
54706159 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
131 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
54706224 AAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGC
196 AAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGC
54706268 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
** *
54706333 CGATGTGATGAATGTGAAAGTGTATATGCGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 CGATGTGATGAATGTGAAAGTGTATATATGTGAAT-AGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
54706397 AAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGA
130 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
54706460 TAAG
195 TAAG
54706464 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 12, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
237 10 0.02
238 40 0.10
239 309 0.74
240 61 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (239 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGC
Found at i:54706637 original size:37 final size:37
Alignment explanation
Indices: 54706581--54706659 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
54706571 TCGAGCTCTA
* * *
54706581 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
54706618 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54706655 AAGAC
1 AAGAC
54706660 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54710698 original size:29 final size:29
Alignment explanation
Indices: 54710663--54710736 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
54710653 GTTGTGAGAT
* *
54710663 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
54710692 TGGCACTAATTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54710721 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54710737 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54714538 original size:5 final size:5
Alignment explanation
Indices: 54714528--54714559 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
54714518 TTCAAAAATT
54714528 AATAA AATAA AAT-A AA-AA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
54714560 GGATAGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:54714549 original size:13 final size:13
Alignment explanation
Indices: 54714531--54714557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54714521 AAAAATTAAT
54714531 AAAATAAAATAAA
1 AAAATAAAATAAA
54714544 AAAATAAAATAAA
1 AAAATAAAATAAA
54714557 A
1 A
54714558 TAGGATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:54719288 original size:45 final size:45
Alignment explanation
Indices: 54719220--54719404 Score: 214
Period size: 45 Copynumber: 4.1 Consensus size: 45
54719210 ATAGGATTCT
* *
54719220 GATATATGTGTTTTCGTGTAAGACAACGTCTAGGATGTTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATC
* * *
54719265 GATATATGTGTCTTT-GAGAAAGACCACGTCTAGGACGTTGACATC
1 GATATATGTGT-TTTCGTGTAAGACCACGTCTAGGACGTTGGCATC
* *
54719310 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGTATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATC
** * * *
54719355 GATATATGTGAATTCGAGTAAGACC-CTGTCTGGGACAG-TAGCATC
1 GATATATGTGTTTTCGTGTAAGACCAC-GTCTAGGAC-GTTGGCATC
54719400 GATAT
1 GATAT
54719405 GAGATAGCAT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
44 4 0.03
45 113 0.93
46 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (45 bp):
GATATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATC
Found at i:54719378 original size:90 final size:90
Alignment explanation
Indices: 54719220--54719404 Score: 248
Period size: 90 Copynumber: 2.1 Consensus size: 90
54719210 ATAGGATTCT
* ** *
54719220 GATATATGTGTTTTCGTGTAAGACAACGTCTAGGATGTTGGCATCGATATATGTGTCTTTGAGAA
1 GATATATGTGTTTTCGTGTAAGACAACGTCTAGGACGTTGGCATCGATATATGTGAATTCGAGAA
*
54719285 AGACCAC-GTCTAGGAC-GTTGACATC
66 AGACC-CTGTCTAGGACAGTAG-CATC
* * * *
54719310 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGTATCGATATATGTGAATTCGAGTA
1 GATATATGTGTTTTCGTGTAAGACAACGTCTAGGACGTTGGCATCGATATATGTGAATTCGAGAA
*
54719375 AGACCCTGTCTGGGACAGTAGCATC
66 AGACCCTGTCTAGGACAGTAGCATC
54719400 GATAT
1 GATAT
54719405 GAGATAGCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 1 0.01
90 79 0.95
91 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (90 bp):
GATATATGTGTTTTCGTGTAAGACAACGTCTAGGACGTTGGCATCGATATATGTGAATTCGAGAA
AGACCCTGTCTAGGACAGTAGCATC
Found at i:54726712 original size:27 final size:28
Alignment explanation
Indices: 54726671--54726723 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
54726661 GATTTTGTAT
* *
54726671 TGGGCTTAGGCCCACCTGATTCTGTTAA
1 TGGGCTAAGGCCCACCTGATACTGTTAA
54726699 TGGGCTAAGG-CCACCTGATACTGTT
1 TGGGCTAAGGCCCACCTGATACTGTT
54726724 TCTATGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (28 bp):
TGGGCTAAGGCCCACCTGATACTGTTAA
Found at i:54728581 original size:42 final size:42
Alignment explanation
Indices: 54728481--54728638 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
54728471 AGCTCGTACA
** ** * *
54728481 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
*
54728524 ATG-CAACTGTCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAA-TGTCCCAGACATGGTCTTACACGAAATCAAATACG
* *
54728566 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AA-TACG
* *
54728610 ATGCCAACGTCCCAGACTTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
54728639 AATAACACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 30 0.31
43 37 0.38
44 29 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:54733866 original size:30 final size:30
Alignment explanation
Indices: 54733832--54733892 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54733822 TTTTCGAGCC
54733832 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
54733862 TAGGGGTAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
54733892 T
1 T
54733893 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:54734506 original size:64 final size:66
Alignment explanation
Indices: 54734401--54734554 Score: 168
Period size: 67 Copynumber: 2.3 Consensus size: 66
54734391 CATCATGTGT
* * * *
54734401 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TGTA-TACACCA
1 ACAAAAGAGCTACGAG--A-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
54734464 TGTAG
62 TGTAG
* * * *
54734469 ACAAAAGAGCTACGGGATATATGTAGCTAGGTTGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAAAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCATGT
54734534 AG
65 AG
*
54734536 ACAAGAGAGCTACGAGATA
1 ACAAAAGAGCTACGAGATA
54734555 AACTGGCTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 4 0.05
67 28 0.38
68 14 0.19
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (66 bp):
ACAAAAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATGTA
G
Found at i:54741090 original size:40 final size:40
Alignment explanation
Indices: 54741045--54741312 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
54741035 GCAAACACAT
* *
54741045 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
54741085 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
54741125 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
54741165 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
54741205 TTGCCTTCGGGTCATAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
54741245 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
*
54741285 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
54741313 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:54745318 original size:40 final size:40
Alignment explanation
Indices: 54745194--54745378 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
54745184 TATTCGAAAG
* * *
54745194 ATATCCGGGCTAAGTCCCGATGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
54745235 ATAACCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGACT
* *
54745275 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
54745315 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
54745355 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54745379 CTTGTGCAAG
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 91 0.76
41 28 0.23
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54748784 original size:23 final size:25
Alignment explanation
Indices: 54748758--54748830 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
54748748 CAGTGCAGTA
*
54748758 TAATCAACTC-CCAC-AGTGCTACG
1 TAATCAAATCGCCACTAGTGCTACG
*
54748781 TAATCAAATCGCCACTTAGTGCTACA
1 TAATCAAATCGCCAC-TAGTGCTACG
*
54748807 TAGTCAAACTCGCACACTTAGTGC
1 TAATCAAA-TCGC-CAC-TAGTGC
54748831 CGCCATGGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.21
24 4 0.10
26 15 0.36
27 4 0.10
28 10 0.24
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (25 bp):
TAATCAAATCGCCACTAGTGCTACG
Found at i:54748804 original size:26 final size:28
Alignment explanation
Indices: 54748772--54748830 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
54748762 CAACTCCCAC
*
54748772 AGTGCTACGTAATCAAA-TCGC-CACTT
1 AGTGCTACATAATCAAACTCGCACACTT
*
54748798 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAATCAAACTCGCACACTT
54748826 AGTGC
1 AGTGC
54748831 CGCCATGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.52
27 4 0.14
28 10 0.34
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
AGTGCTACATAATCAAACTCGCACACTT
Found at i:54756726 original size:27 final size:27
Alignment explanation
Indices: 54756692--54756842 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
54756682 TAAATTGTAC
* *
54756692 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
54756718 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
54756746 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
54756774 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
54756801 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
54756828 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54756843 GACTCGATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:54756789 original size:55 final size:54
Alignment explanation
Indices: 54756691--54756842 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
54756681 TTAAATTGTA
** *
54756691 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
54756745 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
54756800 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
54756843 GACTCGATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:54756833 original size:82 final size:82
Alignment explanation
Indices: 54756692--54756842 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
54756682 TAAATTGTAC
* * *
54756692 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
54756757 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
54756774 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
54756838 GTGCG
65 GTGCG
54756843 GACTCGATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:54761905 original size:21 final size:21
Alignment explanation
Indices: 54761881--54761922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54761871 TCATCAGATC
*
54761881 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
54761902 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
54761923 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:54768170 original size:27 final size:27
Alignment explanation
Indices: 54768126--54768198 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
54768116 CGATTCAGTC
*
54768126 ATTT-TACCCTCCAGGGGTAAATCAAT
1 ATTTCTACCCTACAGGGGTAAATCAAT
* ** *
54768152 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAGGGGTAAATCAAT
* *
54768179 AATTCTATCCTACAGGGGTA
1 ATTTCTACCCTACAGGGGTA
54768199 TTTTAGTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTTCTACCCTACAGGGGTAAATCAAT
Found at i:54768199 original size:27 final size:27
Alignment explanation
Indices: 54768154--54768213 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
54768144 AAATCAATAT
54768154 TTCTACCCTACAAGGGTATTTCAGTAA
1 TTCTACCCTACAAGGGTATTTCAGTAA
* * *
54768181 TTCTATCCTACAGGGGTATTTTAGTAA
1 TTCTACCCTACAAGGGTATTTCAGTAA
54768208 TTCTAC
1 TTCTAC
54768214 AACTTATCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (27 bp):
TTCTACCCTACAAGGGTATTTCAGTAA
Found at i:54769645 original size:33 final size:33
Alignment explanation
Indices: 54769603--54769683 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
54769593 TGCATTATGC
*
54769603 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTCAGCCCAG
54769636 ACTGTACTGATACTGAATAGGGCTTCAGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTCAGCCCAG
54769669 ACTGTACTGATACTG
1 ACTGTACTGATACTG
54769684 TGTTGATCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTCAGCCCAG
Found at i:54772037 original size:31 final size:31
Alignment explanation
Indices: 54771997--54772055 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
54771987 CAACCCTTTT
* *
54771997 GCATTAAATCCTACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
54772028 GCATGAAATCCAAGCAAAAACAGCAAAT
1 GCATGAAATCCAACCAAAAACAGCAAAT
54772056 GTAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:54772780 original size:13 final size:14
Alignment explanation
Indices: 54772754--54772782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
54772744 ACTAACGACA
54772754 AATTAAACCATTAT
1 AATTAAACCATTAT
54772768 AATTAAA-CATTAT
1 AATTAAACCATTAT
54772781 AA
1 AA
54772783 ATATTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:54779620 original size:43 final size:43
Alignment explanation
Indices: 54779573--54779703 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 43
54779563 CCGGTAATAA
54779573 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* *** * * * *
54779616 GCCTGCTAG-GCTCGGAGCCCGATA--ATATTCACCAG-TTTAAA
1 GCCTGCTAGACCTTTAAGTCCGATATCAT-TTCACCGGCATT-AC
*
54779657 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
54779700 GCCT
1 GCCT
54779704 TCTAAGCTCG
Statistics
Matches: 64, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
40 4 0.06
41 16 0.25
42 20 0.31
43 20 0.31
44 4 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (43 bp):
GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
Found at i:54779671 original size:84 final size:84
Alignment explanation
Indices: 54779571--54779805 Score: 362
Period size: 84 Copynumber: 2.8 Consensus size: 84
54779561 CACCGGTAAT
* *
54779571 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTACTAGGCTCGGAGCCC
*
54779636 GATAATATTCACCAGTTTA
66 GATAATATTCACCAGCTTA
* * *
54779655 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTTCTAAGCTCGGAGCTC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTACTAGGCTCGGAGCCC
54779720 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* ** * **
54779739 AAACTTGCTAGACCTTTAAGTTTGATATCATTTCACCGGCATTACACCTACTAGGCTCAAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTACTAGGCTCGGAGCCC
54779804 GA
66 GA
54779806 AATTCATCAC
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 137 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTACTAGGCTCGGAGCCC
GATAATATTCACCAGCTTA
Found at i:54781907 original size:9 final size:9
Alignment explanation
Indices: 54781893--54781995 Score: 104
Period size: 9 Copynumber: 11.7 Consensus size: 9
54781883 TAACTCTAAT
54781893 TAAGTTATG
1 TAAGTTATG
54781902 TAAGTTATG
1 TAAGTTATG
* * *
54781911 ATATGATATA
1 -TAAGTTATG
*
54781921 T-ATTTATG
1 TAAGTTATG
54781929 T-A-TTATG
1 TAAGTTATG
54781936 TAAGTTATG
1 TAAGTTATG
54781945 TAAGTTATG
1 TAAGTTATG
*
54781954 TGAGTTATG
1 TAAGTTATG
54781963 TAAGTTATG
1 TAAGTTATG
* *
54781972 TGAGTTATA
1 TAAGTTATG
*
54781981 TGAGTTATG
1 TAAGTTATG
54781990 TAAGTT
1 TAAGTT
54781996 CAAATATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
7 6 0.08
8 6 0.08
9 60 0.77
10 6 0.08
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:54782299 original size:20 final size:20
Alignment explanation
Indices: 54782271--54782390 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
54782261 GGAAAAAAAA
*
54782271 TTATTTTAATTAAATAATAT
1 TTATATTAATTAAATAATAT
*
54782291 TTATATTAATTTAATAATAT
1 TTATATTAATTAAATAATAT
* *
54782311 TTAAATAAATTAATCCAAATTATATT
1 TT--AT--ATTAAT-TAAATAATA-T
54782337 ATTATATTAATTAAATAATAT
1 -TTATATTAATTAAATAATAT
* * *
54782358 TTAAATAAATTAATCTAA-A-
1 TTATATTAATTAA-ATAATAT
54782377 TTATATTAATTAAA
1 TTATATTAATTAAA
54782391 ATAAGATTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.14
20 32 0.41
21 4 0.05
22 9 0.11
23 6 0.08
24 6 0.08
25 8 0.10
26 1 0.01
27 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATATTAATTAAATAATAT
Found at i:54782343 original size:47 final size:47
Alignment explanation
Indices: 54782291--54782384 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
54782281 TAAATAATAT
*
54782291 TTATATTAATTTAATAATATTTAAATAAATTAATCCAAATTATATTA
1 TTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTA
*
54782338 TTATATTAATTAAATAATATTTAAATAAATTAATCTAAATTATATTA
1 TTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTA
54782385 ATTAAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (47 bp):
TTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTA
Found at i:54782382 original size:25 final size:25
Alignment explanation
Indices: 54782307--54782383 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
54782297 TAATTTAATA
*
54782307 ATATTTAAATAAATTAATCCAAATT
1 ATATTTAAATAAATTAATCTAAATT
* * *
54782332 ATA-TT-ATTATATTAAT-TAAATA
1 ATATTTAAATAAATTAATCTAAATT
54782354 ATATTTAAATAAATTAATCTAAATT
1 ATATTTAAATAAATTAATCTAAATT
54782379 ATATT
1 ATATT
54782384 AATTAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 7 0.17
23 11 0.26
24 11 0.26
25 13 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTAAATAAATTAATCTAAATT
Found at i:54784914 original size:39 final size:38
Alignment explanation
Indices: 54784870--54784947 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
54784860 TAAATATATT
* *
54784870 TATATGGATGTAATTGAGATATATTATGTATATATAACA
1 TATATGGATGTAATTGAGATAAATCATGTAT-TATAACA
54784909 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
1 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
54784947 T
1 T
54784948 TTAAGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.22
39 29 0.78
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (38 bp):
TATATGGATGTAATTGAGATAAATCATGTATTATAACA
Found at i:54785461 original size:21 final size:21
Alignment explanation
Indices: 54785435--54785479 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
54785425 ATAACATGAA
*
54785435 CAAACTGGAAAACCCTTTTCT
1 CAAACTCGAAAACCCTTTTCT
54785456 CAAACTCGAAAACCCTTTTCT
1 CAAACTCGAAAACCCTTTTCT
54785477 CAA
1 CAA
54785480 GATCTCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.31, G:0.07, T:0.27
Consensus pattern (21 bp):
CAAACTCGAAAACCCTTTTCT
Found at i:54786326 original size:74 final size:74
Alignment explanation
Indices: 54786198--54786358 Score: 170
Period size: 75 Copynumber: 2.2 Consensus size: 74
54786188 ATTTCACACC
* * *
54786198 TTTTGTGGAG-TTTATAAAAGCGCCACTAATTAAAGGCTATAAAACGACGATGTTTTAAAATATC
1 TTTTGTGGCGTTTTATAAAAGCACCACTAATTAAAGGCTATAAAACGACGATGTTTTAAAATATA
54786262 TT-TAGATG
66 TTATAGATG
* * * **
54786270 TTTTGTGGCGTTTTGATAAAAAGCACCACTAA-TAATAGGGTA-ATAACGACGCTGTTTTGCAAT
1 TTTTGTGGCGTTTT-AT-AAAAGCACCACTAATTAA-AGGCTATAAAACGACGATGTTTTAAAAT
*
54786333 CTATTAATAGATG
63 ATATT-ATAGATG
54786346 -TTTGTGGCGTTTT
1 TTTTGTGGCGTTTT
54786359 CTAGTGAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
72 9 0.12
73 3 0.04
74 25 0.34
75 31 0.42
76 6 0.08
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (74 bp):
TTTTGTGGCGTTTTATAAAAGCACCACTAATTAAAGGCTATAAAACGACGATGTTTTAAAATATA
TTATAGATG
Found at i:54786607 original size:3 final size:3
Alignment explanation
Indices: 54786601--54786629 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
54786591 TTTTTCTCTT
54786601 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
54786630 TACTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54787171 original size:21 final size:21
Alignment explanation
Indices: 54787104--54787172 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
54787094 AGTGTCTATA
*
54787104 GTTTAGGGTTTTATAGTTTAGG
1 GTTTAAGG-TTTATAGTTTAGG
* * *
54787126 ATTCAAGGTTTAATA-TTTAGA
1 GTTTAAGGTTT-ATAGTTTAGG
54787147 GTTTAAGGTTTATAGTTTAGG
1 GTTTAAGGTTTATAGTTTAGG
54787168 GTTTA
1 GTTTA
54787173 TGACTAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.08
21 27 0.71
22 8 0.21
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (21 bp):
GTTTAAGGTTTATAGTTTAGG
Found at i:54787173 original size:14 final size:14
Alignment explanation
Indices: 54787100--54787173 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
54787090 GTTCAGTGTC
54787100 TATAGTTTAGGGTTT
1 TATAGTTTAGGG-TT
*
54787115 TATAGTTTAGGATT
1 TATAGTTTAGGGTT
* ***
54787129 CA-AGGTTTAATATT
1 TATA-GTTTAGGGTT
* *
54787143 TAGAGTTTAAGGTT
1 TATAGTTTAGGGTT
54787157 TATAGTTTAGGGTT
1 TATAGTTTAGGGTT
54787171 TAT
1 TAT
54787174 GACTAGAGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
13 1 0.02
14 35 0.73
15 12 0.25
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (14 bp):
TATAGTTTAGGGTT
Found at i:54790706 original size:28 final size:28
Alignment explanation
Indices: 54790674--54790768 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 28
54790664 ACATACATGC
*
54790674 ATATGGCCCACTTAGCCCAATCTCATTT
1 ATATGGCCCACTAAGCCCAATCTCATTT
** * * *
54790702 ATATGGCTTACCAAGCCCAATTCACATTC
1 ATATGGCCCACTAAGCCCAA-TCTCATTT
* * *
54790731 ATATGGCCTA-TCAGGCCCAAATCTCCTTT
1 ATATGGCCCACT-AAGCCC-AATCTCATTT
54790760 ATATGGCCC
1 ATATGGCCC
54790769 GTTAGGCCCA
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
28 16 0.31
29 33 0.65
30 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (28 bp):
ATATGGCCCACTAAGCCCAATCTCATTT
Found at i:54790748 original size:29 final size:28
Alignment explanation
Indices: 54790668--54790750 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
54790658 ACCCCTACAT
* * **
54790668 ACATGCATATGGCCCACTTAGCCCAATC
1 ACATTCATATGGCCTACCAAGCCCAATC
* * *
54790696 TCATTTATATGGCTTACCAAGCCCAATTC
1 ACATTCATATGGCCTACCAAGCCCAA-TC
* *
54790725 ACATTCATATGGCCTATCAGGCCCAA
1 ACATTCATATGGCCTACCAAGCCCAA
54790751 ATCTCCTTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCTACCAAGCCCAATC
Found at i:54790763 original size:29 final size:29
Alignment explanation
Indices: 54790688--54790784 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 29
54790678 GGCCCACTTA
* * * *
54790688 GCCC-AATCTCATTTATATGGCTTACCAA
1 GCCCAAATCACATTTATATGGCCTATCAG
* *
54790716 GCCCAATTCACATTCATATGGCCTATCAG
1 GCCCAAATCACATTTATATGGCCTATCAG
* * ** *
54790745 GCCCAAATCTCCTTTATATGGCCCGTTAG
1 GCCCAAATCACATTTATATGGCCTATCAG
54790774 GCCCAAATCAC
1 GCCCAAATCAC
54790785 CTTATGTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
28 4 0.07
29 50 0.93
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
GCCCAAATCACATTTATATGGCCTATCAG
Found at i:54797183 original size:29 final size:29
Alignment explanation
Indices: 54797093--54797200 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
54797083 TACATGCGTG
*
54797093 TGGCCCACTT-GGCCC-AATCTCATTTATA
1 TGGCCCA-TTAGGCCCAAATCACATTTATA
* * * *
54797121 TGGCCCATCAAGCCCAATTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
54797150 TGGCCCATTAGGCCCAAATCTCCTTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
54797179 GGGCCCGTTAGGCCCAAATCAC
1 TGGCCCATTAGGCCCAAATCAC
54797201 CTTATATTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
27 1 0.02
28 11 0.17
29 52 0.81
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:54804031 original size:22 final size:22
Alignment explanation
Indices: 54803974--54804033 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
54803964 CCTAAGCTAA
54803974 TGAACAGTAAGCTCTAATGAGC
1 TGAACAGTAAGCTCTAATGAGC
* * *
54803996 TAAAACGGTAAGCTCTATTGAGC
1 T-GAACAGTAAGCTCTAATGAGC
54804019 TGAACAGTAAGCTCT
1 TGAACAGTAAGCTCT
54804034 TACAAGCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTAATGAGC
Found at i:54804856 original size:34 final size:34
Alignment explanation
Indices: 54804790--54804856 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
54804780 GTTTCAGTTA
* * *
54804790 GGGCCTTAGCCTAATACAGTAACAGTATCAGTAT
1 GGGCCTTAGCCCAATACACTAACAGTAACAGTAT
* * *
54804824 GGGCCTTAGCCCATTTCACTAATAGTAACAGTA
1 GGGCCTTAGCCCAATACACTAACAGTAACAGTA
54804857 CATATATGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (34 bp):
GGGCCTTAGCCCAATACACTAACAGTAACAGTAT
Found at i:54814129 original size:18 final size:18
Alignment explanation
Indices: 54814106--54814141 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54814096 AACAGAAAAG
*
54814106 AATGACAAAACCCACAGT
1 AATGACAAAACACACAGT
54814124 AATGACAAAACACACAGT
1 AATGACAAAACACACAGT
54814142 GATTTGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.25, G:0.11, T:0.11
Consensus pattern (18 bp):
AATGACAAAACACACAGT
Found at i:54816291 original size:27 final size:26
Alignment explanation
Indices: 54816261--54816813 Score: 333
Period size: 27 Copynumber: 20.6 Consensus size: 26
54816251 TTAGTTTACC
*
54816261 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
* * *
54816288 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTGA-TTTGTA
54816315 AAATTACCAAAATACCCCT-ATTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
*
54816342 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
*
54816369 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGA-TTTGTA
*
54816396 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATA-CCCTGATTTGTA
** * **
54816423 AAATTACTGAAATACCCTCA-ACGTA
1 AAATTACCAAAATACCCTGATTTGTA
*** *
54816448 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
* * * *
54816475 AAGTTACCAAAGTATCCTCGATTTATA
1 AAATTACCAAAATACCCT-GATTTGTA
* *
54816502 AAATTACCTAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
* * * *
54816529 AAATTATCGAAATACCCTCAATTTGCA
1 AAATTACCAAAATACCCT-GATTTGTA
**
54816556 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCT-GATTTGTA
* * **
54816583 AAATTA-CTAAATACTCTTG-TAAGATA
1 AAATTACCAAAATAC-CCTGATTTG-TA
* *** **
54816609 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCT-GATTTGTA
* * **** * *
54816636 GAATTATCGTTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCT-GATTTGTA
*** **
54816663 AAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCT-GATTTGTA
** * **
54816690 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-TGATTTGTA
**
54816717 AAATTACCAAAATACCCTCGATTAATA
1 AAATTACCAAAATACCCT-GATTTGTA
*
54816744 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTA
*
54816771 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATA-CCCTGATTTGTA
54816798 AAATTACCAAAATACC
1 AAATTACCAAAATACC
54816814 TTTGTAGGGT
Statistics
Matches: 428, Mismatches: 83, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
25 21 0.05
26 29 0.07
27 367 0.86
28 11 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGATTTGTA
Found at i:54816826 original size:54 final size:54
Alignment explanation
Indices: 54816716--54817223 Score: 413
Period size: 54 Copynumber: 9.4 Consensus size: 54
54816706 CTTGGTTTAC
* * * **
54816716 AAAATTACCAAAATA-CCCTCGATTA-ATAAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-G-TTAGGTAGAATTACCAAAATA-CCCTTGTAGGGT
* *
54816770 AAAATTACCAAAATACCCCTGATT-TGT-GAAATTACCAAAATACCTTTGTAGGGT
1 AAAATTACCAAAATACCCCTG-TTAGGTAG-AATTACCAAAATACCCTTGTAGGGT
** *
54816824 AAAATTACTGAAATACCCTTG-TAGGGTAGAATTACCAAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTA-GGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * * * *
54816878 AGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTGTTAGGTAGAATTACCAAAATACCCTTGTAGGGT
* * * ** *
54816932 AGAATTACTAAAATACCCCTG-TATGGTAGAATTATCGGAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTA-GGTAGAATTACCAAAATACCCTTGTAGGGT
* * * ** *
54816986 AGAATTACCGAAATACCCCTG-TAGGGTAGAATTATCGCAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTA-GGTAGAATTACCAAAATACCCTTGTAGGGT
* ** * ** *
54817040 AGAATTACCGGAATACCCCTG-TAGGGTAGAATTATCGCAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTA-GGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * *
54817094 AGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTAGGTAGAATTACCAAAATACCCTTGTAGGGT
* * ** * * *
54817148 AGAATTACCGAAATACCCCTGTGGGGTAGAATTACCGAAATACCCCTGTAGGAT
1 AAAATTACCAAAATACCCCTGTTAGGTAGAATTACCAAAATACCCTTGTAGGGT
* * *
54817202 AGAATTATCGAAATACCCCTGT
1 AAAATTACCAAAATACCCCTGT
54817224 AGGGTGGAAT
Statistics
Matches: 407, Mismatches: 37, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.00
53 6 0.01
54 393 0.97
55 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGTTAGGTAGAATTACCAAAATACCCTTGTAGGGT
Found at i:54816828 original size:27 final size:27
Alignment explanation
Indices: 54816799--54817234 Score: 638
Period size: 27 Copynumber: 16.1 Consensus size: 27
54816789 TGATTTGTGA
* ** *
54816799 AATTACCAAAATACCTTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54816826 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54816853 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54816880 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54816907 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
54816934 AATTACTAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54816961 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54816988 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54817015 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54817042 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54817069 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54817096 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54817123 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54817150 AATTACCGAAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54817177 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54817204 AATTATCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
54817231 AATT
1 AATT
54817235 TCGAGACACC
Statistics
Matches: 374, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 374 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:54817234 original size:81 final size:80
Alignment explanation
Indices: 54816745--54817234 Score: 624
Period size: 81 Copynumber: 6.0 Consensus size: 80
54816735 CGATTAATAA
* ** * * ** *
54816745 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGATTTGT-GAAATTACCAA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTG-TAGGTAG-AATTACCGA
** *
54816808 AATACCTTTGTAGGGTAA
63 AATACCCCTGTAGGGTAG
* * * *
54816826 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTACCGAAA
* *
54816891 TACCCTTGTAAGGTAG
65 TACCCCTGTAGGGTAG
* ** * *
54816907 AATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTATGGTAGAATTATCGGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTACCGAAA
54816972 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * *
54816988 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTACCGAAA
54817053 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* *
54817069 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT-AGGTAGAATTACCGAAA
54817134 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* *
54817150 AATTACCGAAATACCCCTGTGGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG-TAGAATTACCGAAA
*
54817215 TACCCCTGTAGGGTGG
65 TACCCCTGTAGGGTAG
54817231 AATT
1 AATT
54817235 TCGAGACACC
Statistics
Matches: 364, Mismatches: 40, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
80 6 0.02
81 356 0.98
82 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGTAGAATTACCGAAAT
ACCCCTGTAGGGTAG
Found at i:54817739 original size:22 final size:22
Alignment explanation
Indices: 54817687--54817751 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54817677 TTAAAGCCTT
* *
54817687 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
54817709 CT-ACATATGGCTCTGTACCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
54817731 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
54817752 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:54817913 original size:27 final size:27
Alignment explanation
Indices: 54817883--54817984 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
54817873 ATTCTGTTAA
* *
54817883 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54817910 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
54817937 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54817964 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
54817985 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:54818159 original size:6 final size:6
Alignment explanation
Indices: 54818121--54818197 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
54818111 TTGCATTCAC
* *
54818121 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
54818171 -TCACCTG ATTCTG ATTCTG ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT
54818198 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.05
6 42 0.72
7 11 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:54818170 original size:31 final size:31
Alignment explanation
Indices: 54818121--54818197 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
54818111 TTGCATTCAC
* *
54818121 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
54818153 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
54818184 ATTCTGATTCTGAT
1 ATTCTGATTCTGAT
54818198 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 35 0.83
32 7 0.17
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:54818206 original size:18 final size:17
Alignment explanation
Indices: 54818185--54818218 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54818175 CTGATTCTGA
54818185 TTCTGATTCTGATAATGT
1 TTCTGATTCTG-TAATGT
*
54818203 TTCTTATTCTGTAATG
1 TTCTGATTCTGTAATG
54818219 GGTTAAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TTCTGATTCTGTAATGT
Found at i:54820188 original size:23 final size:23
Alignment explanation
Indices: 54820146--54820215 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
54820136 TGAGTTGGTG
54820146 AACAGTAAGCTCTAAT-GAGCTGA
1 AACAGTAAGCTCT-ATCGAGCTGA
*
54820169 AACGGTAAGCTCTATCGAGCT-A
1 AACAGTAAGCTCTATCGAGCTGA
* *
54820191 AACAATAAGCTC-ATACGTGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
54820214 AA
1 AA
54820216 TGATCAGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 18 0.45
23 20 0.50
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:54821134 original size:27 final size:26
Alignment explanation
Indices: 54821087--54821430 Score: 156
Period size: 27 Copynumber: 12.8 Consensus size: 26
54821077 ATGTTTAAAC
* * *
54821087 TTGTAAAGTTACCAAAGTATCCTCGAT
1 TTGTAAAATTACTAAA-TACCCTCGAT
* *
54821114 TTATAAAATTACCTAAATATCCTCGAT
1 TTGTAAAATTA-CTAAATACCCTCGAT
* *
54821141 TTGTAAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTA-CTAAATACCCTCGAT
*
54821168 TTGCAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACT-AAATACCCTCGAT
* *
54821195 TTGTAAAATTACTAAATACTCTTG-T
1 TTGTAAAATTACTAAATACCCTCGAT
** * * **
54821220 AAGATAGAATTACCATTTTACCCTCGAT
1 TTG-TAAAATTACTA-AATACCCTCGAT
** * ** *
54821248 TTACAGAATTATCGT-TTTACCCTCAAT
1 TTGTAAAATTA-C-TAAATACCCTCGAT
* * **
54821275 TTATAAAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACTA-AATACCCTCGAT
** * *
54821302 TTACAAAATTACTGAAATACCCTTGGT
1 TTGTAAAATTACT-AAATACCCTCGAT
** *
54821329 TTACAAAATTACCAAAATACCCTCGAT
1 TTGTAAAATTA-CTAAATACCCTCGAT
** * *
54821356 TAATAAAATTACCAAAATACCC-CTGGT
1 TTGTAAAATTA-CTAAATACCCTC-GAT
*
54821383 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTA-CTAAATACCCTC-GAT
* *
54821410 TTGTGAAATTACCAAAATACC
1 TTGTAAAATTA-CTAAATACC
54821431 TTTGTAGGGT
Statistics
Matches: 257, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 21 0.08
27 226 0.88
28 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACTAAATACCCTCGAT
Found at i:54821323 original size:54 final size:54
Alignment explanation
Indices: 54821107--54821430 Score: 180
Period size: 54 Copynumber: 6.0 Consensus size: 54
54821097 ACCAAAGTAT
* * *
54821107 CCTCGATTTATAAAATTACC-TAAATATCCTCGATTTGTAAAATTA-TCGAAATAC
1 CCTCAATTTATAAAATTACCAT-AATACCCTCGATTTATAAAATTACT-GAAATAC
** * *
54821161 CCTCAATTTGCAAAATTACTGA-AATACCCTCGATTTGTAAAATTACT-AAATAC
1 CCTCAATTTATAAAATTAC-CATAATACCCTCGATTTATAAAATTACTGAAATAC
* * * * ** * * ***
54821214 TCTTGTAA--GATAGAATTACCATTTTACCCTCGATTTACAGAATTA-TCGTTTTAC
1 -CCT-CAATTTATAAAATTACCATAATACCCTCGATTTATAAAATTACT-GAAATAC
** *
54821268 CCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATAC
1 CCTCAATTTATAAAATTACCATAATACCCTCGATTTATAAAATTACTGAAATAC
*** * * * **
54821322 CCTTGGTTTACAAAATTACCAAAATACCCTCGATTAATAAAATTACCAAAATAC
1 CCTCAATTTATAAAATTACCATAATACCCTCGATTTATAAAATTACTGAAATAC
** * * * * **
54821376 CC-CTGGTTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACCAAAATAC
1 CCTC-AATTTATAAAATTACCATAATACCCTC-GATTTATAAAATTACTGAAATAC
54821430 C
1 C
54821431 TTTGTAGGGT
Statistics
Matches: 212, Mismatches: 45, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
52 4 0.02
53 34 0.16
54 170 0.80
55 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (54 bp):
CCTCAATTTATAAAATTACCATAATACCCTCGATTTATAAAATTACTGAAATAC
Found at i:54821377 original size:81 final size:81
Alignment explanation
Indices: 54821265--54821430 Score: 181
Period size: 81 Copynumber: 2.0 Consensus size: 81
54821255 ATTATCGTTT
* *** ** * *
54821265 TACCCTCAATTTATAAAATTACCATTTTA-CCCTCGATTTACAAAATTACTGAAATACCCTTGGT
1 TACCCTCAATTAATAAAATTACCAAAATACCCCT-GATTTACAAAATTACCAAAATACCCCTGAT
54821329 TTACAAAATTACCAAAA
65 TTACAAAATTACCAAAA
* * **
54821346 TACCCTCGATTAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTCAATTAATAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTGATT
***
54821411 TGTGAAATTACCAAAA
66 TACAAAATTACCAAAA
54821427 TACC
1 TACC
54821431 TTTGTAGGGT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
81 65 0.94
82 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTAATAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTGATT
TACAAAATTACCAAAA
Found at i:54821443 original size:54 final size:55
Alignment explanation
Indices: 54821333--54821880 Score: 374
Period size: 54 Copynumber: 10.2 Consensus size: 55
54821323 CTTGGTTTAC
* * * **
54821333 AAAATTACCAAAATA-CCCTCGATTA--ATAAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-G-TTAGTGTAGAATTACCAAAATA-CCCTTGTAGGGT
* *
54821387 AAAATTACCAAAATACCCCTGATTTGTG-A-AATTACCAAAATACCTTTGTAGGGT
1 AAAATTACCAAAATACCCCTG-TTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
** * *
54821441 AAAATTACTGAAATACCCTTG-TAGGGTAGAATTACCAAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * * * * *
54821495 AGAATTATCGAAATACCCTTGTAAG-GTAGAATTACCGAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* * * ** * *
54821549 AGAATTACTAAAATACCCCTG-TA-TGGTAGAATTATCGGAATACCCCTGTATGGT
1 AAAATTACCAAAATACCCCTGTTAGT-GTAGAATTACCAAAATACCCTTGTAGGGT
* * * * ** *
54821603 AGAATTACCGAAATACCCCTG-TAGGGTAGAATTATCGCAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* ** * * ** *
54821657 AGAATTACCGGAATACCCCTG-TAGGGTAGAATTATCGCAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * * *
54821711 AGAATTACCGAAATACCCCTATAAG-GTAGAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * * * *
54821765 AGAATTACCGAAATACCCCTG-TGGGGTAGAATTACCGAAATACCCCTGTAGGAT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
* * * * * * * *
54821819 AGAATTATCGAAATACCCCTG-TAGGGTGGAATT-CCGAGATA-CCTTGTGGGGT
1 AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
54821871 AAAATTACCA
1 AAAATTACCA
54821881 TTTTGCCCAT
Statistics
Matches: 430, Mismatches: 52, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
52 18 0.04
53 15 0.03
54 388 0.90
55 9 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (55 bp):
AAAATTACCAAAATACCCCTGTTAGTGTAGAATTACCAAAATACCCTTGTAGGGT
Found at i:54821445 original size:27 final size:27
Alignment explanation
Indices: 54821416--54821879 Score: 617
Period size: 27 Copynumber: 17.3 Consensus size: 27
54821406 TGATTTGTGA
* ** *
54821416 AATTACCAAAATACCTTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821443 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821470 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54821497 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54821524 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
54821551 AATTACTAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54821578 AATTATCGGAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54821605 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821632 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54821659 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821686 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821713 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54821740 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54821767 AATTACCGAAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54821794 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54821821 AATTATCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
54821848 AATT-CCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
54821873 AATTACC
1 AATTACC
54821880 ATTTTGCCCA
Statistics
Matches: 391, Mismatches: 45, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
25 13 0.03
26 8 0.02
27 370 0.95
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:54821842 original size:81 final size:80
Alignment explanation
Indices: 54821362--54821879 Score: 603
Period size: 81 Copynumber: 6.4 Consensus size: 80
54821352 CGATTAATAA
* ** * * ** * *
54821362 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGATTTGT-GAAATTACCAA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTG-TAGGTAG-AATTATCGA
** *
54821425 AATACCTTTGTAGGGTAA
63 AATACCCCTGTAGGGTAG
* * * *
54821443 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTATCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTATCGAAA
* *
54821508 TACCCTTGTAAGGTAG
65 TACCCCTGTAGGGTAG
* ** *
54821524 AATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTATGGTAGAATTATCGGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTATCGAAA
*
54821589 TACCCCTGTATGGTAG
65 TACCCCTGTAGGGTAG
* * * *
54821605 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAGAATTATCGAAA
54821670 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * *
54821686 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT-AGGTAGAATTATCGAAA
54821751 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
*
54821767 AATTACCGAAATACCCCTGTGGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG-TAGAATTATCGAAA
*
54821832 TACCCCTGTAGGGTGG
65 TACCCCTGTAGGGTAG
* * * *
54821848 AATT-CCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACC
54821880 ATTTTGCCCA
Statistics
Matches: 386, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
79 18 0.05
80 13 0.03
81 353 0.91
82 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGTAGAATTATCGAAAT
ACCCCTGTAGGGTAG
Found at i:54822356 original size:22 final size:22
Alignment explanation
Indices: 54822304--54822368 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54822294 TTAAAGCCTT
* *
54822304 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
54822326 CT-ACATATGGCTCTGTACCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
54822348 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
54822369 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:54822530 original size:27 final size:27
Alignment explanation
Indices: 54822500--54822601 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
54822490 ATTCTGTTAA
* *
54822500 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54822527 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
54822554 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54822581 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
54822602 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:54822776 original size:6 final size:6
Alignment explanation
Indices: 54822738--54822814 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
54822728 TTGCATTCAC
* *
54822738 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
54822788 -TCACCTG ATTCTG ATTCTG ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT
54822815 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.05
6 42 0.72
7 11 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:54822787 original size:31 final size:31
Alignment explanation
Indices: 54822738--54822814 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
54822728 TTGCATTCAC
* *
54822738 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
54822770 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
54822801 ATTCTGATTCTGAT
1 ATTCTGATTCTGAT
54822815 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 35 0.83
32 7 0.17
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:54822823 original size:18 final size:17
Alignment explanation
Indices: 54822802--54822835 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54822792 CTGATTCTGA
54822802 TTCTGATTCTGATAATGT
1 TTCTGATTCTG-TAATGT
*
54822820 TTCTTATTCTGTAATG
1 TTCTGATTCTGTAATG
54822836 GGTTAAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TTCTGATTCTGTAATGT
Found at i:54824806 original size:23 final size:23
Alignment explanation
Indices: 54824764--54824833 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
54824754 TGAGTTGGTG
54824764 AACAGTAAGCTCTAAT-GAGCTGA
1 AACAGTAAGCTCT-ATCGAGCTGA
*
54824787 AACGGTAAGCTCTATCGAGCT-A
1 AACAGTAAGCTCTATCGAGCTGA
* *
54824809 AACAATAAGCTC-ATACGTGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
54824832 AA
1 AA
54824834 TGATCAGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 18 0.45
23 20 0.50
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:54831191 original size:80 final size:79
Alignment explanation
Indices: 54831107--54831278 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
54831097 GGACTAAGAT
*
54831107 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
54831171 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
54831187 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
54831252 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
54831266 CCGAAGGCATTTG
1 CCGAAGGCATTTG
54831279 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:54831258 original size:39 final size:39
Alignment explanation
Indices: 54831054--54831276 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
54831044 TTGAATGCTG
* * * * *
54831054 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
54831094 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
54831133 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
54831174 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
54831214 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
54831253 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54831277 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:54831296 original size:79 final size:80
Alignment explanation
Indices: 54831134--54831311 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
54831124 AGATACAAAT
* * * *
54831134 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
54831199 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
54831214 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
54831278 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
54831293 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
54831312 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:54840734 original size:40 final size:40
Alignment explanation
Indices: 54840640--54840824 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
54840630 TATTCGAATG
* *
54840640 ATATCCGGGCTAAGTTCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTA-GTGACT
* * * *
54840681 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
54840721 ATATCCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* * *
54840761 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
54840801 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
54840825 CTTGTGCAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.03
40 83 0.70
41 32 0.27
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:54850113 original size:42 final size:42
Alignment explanation
Indices: 54850053--54850207 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
54850043 CTATAGTTTA
* * *
54850053 CGTGTAAAACCATATCTGGGATATGGCATCGTTATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
* * * * *
54850095 CGTGTAAGACCATGTCTGGGACATAGTATCGATATGTGA-AT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
* * **
54850136 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATAT
* *
54850179 CATGTAAGACCATATTTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
54850208 TGGTATGATT
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 20 0.22
42 51 0.57
43 19 0.21
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
Found at i:54850750 original size:14 final size:15
Alignment explanation
Indices: 54850722--54850750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54850712 GTATTTGATT
54850722 CATTTTGTAAATGGC
1 CATTTTGTAAATGGC
54850737 CATTTTGT-AATGGC
1 CATTTTGTAAATGGC
54850751 TAATATTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (15 bp):
CATTTTGTAAATGGC
Found at i:54859990 original size:30 final size:28
Alignment explanation
Indices: 54859932--54859999 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
54859922 ATTTTTTATG
*
54859932 TTTTTACTTTTATCTTTTTAAGACTATTT
1 TTTTTA-TTTTATCTCTTTAAGACTATTT
54859961 TTTTTATTTTATTCCTCTTTAA-ACGTATTT
1 TTTTTATTTTA-T-CTCTTTAAGAC-TATTT
* *
54859991 CTCTTATTT
1 TTTTTATTT
54860000 AGGTTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 5 0.15
29 9 0.27
30 19 0.58
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTATTTTATCTCTTTAAGACTATTT
Found at i:54867618 original size:27 final size:27
Alignment explanation
Indices: 54867587--54867845 Score: 190
Period size: 27 Copynumber: 9.6 Consensus size: 27
54867577 TTAGTTTACC
* *
54867587 AAATTACTAAAATACCCTCGACTTCTA
1 AAATTACCAAAATACCCTCGATTTCTA
*
54867614 AAATTACCAAAGTACCCTCGATTTAC-A
1 AAATTACCAAAATACCCTCGATTT-CTA
* *****
54867641 GAATTACTGTTTTACCCTCGATTTAC-A
1 AAATTACCAAAATACCCTCGATTT-CTA
** * * **
54867668 AAATTACTGAAATACCCTTGGTTTAAA
1 AAATTACCAAAATACCCTCGATTTCTA
**
54867695 AAATTACCAAAATACCCTCGATCAGC-A
1 AAATTACCAAAATACCCTCGAT-TTCTA
* *
54867722 AAATTACCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTCTA
* *
54867749 AAATTACCAAAATACCC-CTATCTTATA
1 AAATTACCAAAATACCCTCGAT-TTCTA
* *
54867776 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTCTA
* *
54867803 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTCTA
54867830 AAA-TACCAAAATACCC
1 AAATTACCAAAATACCC
54867846 CTGTAGGGTA
Statistics
Matches: 189, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
26 18 0.10
27 165 0.87
28 6 0.03
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTCTA
Found at i:54867807 original size:81 final size:80
Alignment explanation
Indices: 54867694--54867847 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 80
54867684 CTTGGTTTAA
54867694 AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCTCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACC-CTAGATTTGTAAAA-TACCA
54867758 AAATACCCCTATCTTAT
64 AAATACCCCTATCTTAT
** ** * *
54867775 AAAATTACCAAAATACCC-CTGATTTGTGAAATTATCAAAATACCCTCGATTTGTAAAATACCAA
1 AAAATTACCAAAATACCCTC-GATCAGCAAAATTACCAAAATACCCTAGATTTGTAAAATACCAA
54867839 AATACCCCT
65 AATACCCCT
54867848 GTAGGGTAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
80 19 0.29
81 46 0.71
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATCAGCAAAATTACCAAAATACCCTAGATTTGTAAAATACCAAA
ATACCCCTATCTTAT
Found at i:54867863 original size:27 final size:27
Alignment explanation
Indices: 54867721--54867891 Score: 91
Period size: 27 Copynumber: 6.4 Consensus size: 27
54867711 CTCGATCAGC
* **
54867721 AAAATTACCAAAATACCTCTAGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* ****
54867748 AAAATTACCAAAATACCCCTATCTTAT
1 AAAATTACCAAAATACCCCTGTAGGGT
**
54867775 AAAATTACCAAAATACCCCTG-ATTTGT
1 AAAATTACCAAAATACCCCTGTA-GGGT
* * **
54867802 GAAATTATCAAAATA-CCCTCG-ATTTGT
1 AAAATTACCAAAATACCCCT-GTA-GGGT
54867829 AAAA-TACCAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* * * * * *
54867855 AGAATTACCGAGATATCCTTGTGGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
54867882 AAAATTACCA
1 AAAATTACCA
54867892 TTTTTCCCTT
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.17
27 98 0.83
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGGGT
Found at i:54868445 original size:27 final size:27
Alignment explanation
Indices: 54868415--54868522 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
54868405 ATTCTGTTAA
* *
54868415 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
54868442 GTGGCTATGCCACAAATATCTGTTT-TG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
54868469 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
54868496 GTGACTCTGTCACAATATTTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
54868522 G
1 G
54868523 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 46 0.65
28 10 0.14
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:54868510 original size:54 final size:53
Alignment explanation
Indices: 54868415--54868518 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
54868405 ATTCTGTTAA
* * * *
54868415 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTTTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTTTG
* * *
54868469 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATTTGTT
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTT
54868519 CTGGCAGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 9 0.21
54 34 0.79
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTTTG
Found at i:54868650 original size:6 final size:6
Alignment explanation
Indices: 54868641--54868771 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
54868631 TTGCATTTAC
* * * *
54868641 ATTCTG ATTCTA ATTTTG -TTACTTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
54868691 ATTCTG ATTCTG ATTCTG ATTCTA ATTTTG ATTCT- ATCACTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG
* * *
54868740 GTTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54868772 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 7 0.07
6 74 0.79
7 8 0.09
8 5 0.05
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:54868672 original size:25 final size:25
Alignment explanation
Indices: 54868644--54868708 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
54868634 CATTTACATT
* * *
54868644 CTGATTCTAATTTTGTTACTTGATA
1 CTGATTCTAATTCTGTTACCTAATA
* *
54868669 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTAATTCTGTTACCTAATA
*
54868694 CTGATTCTGATTCTG
1 CTGATTCTAATTCTG
54868709 ATTCTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (25 bp):
CTGATTCTAATTCTGTTACCTAATA
Found at i:54868819 original size:31 final size:32
Alignment explanation
Indices: 54868784--54868848 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
54868774 TGTTTCTTAT
54868784 TCTG-TAATGGGCTAAGGCAC-ATCTGGTACTG
1 TCTGTTAATGGGCTAAGGCACAAT-TGGTACTG
*
54868815 TCTGTTATAATGGGCTAAGGCCCAATTGGTACTG
1 TCTG-T-TAATGGGCTAAGGCACAATTGGTACTG
54868849 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCACAATTGGTACTG
Found at i:54875977 original size:6 final size:6
Alignment explanation
Indices: 54875962--54876099 Score: 124
Period size: 6 Copynumber: 22.8 Consensus size: 6
54875952 AACCAAAATG
* * *
54875962 AGAATT AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGA-ATC
* *
54876010 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
54876059 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
54876100 TAGGTGATAG
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
5 7 0.06
6 94 0.87
7 5 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:54875996 original size:30 final size:30
Alignment explanation
Indices: 54875962--54876124 Score: 220
Period size: 30 Copynumber: 5.4 Consensus size: 30
54875952 AACCAAAATG
* * *
54875962 AGAATTAGAATCAGAATCAATAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
54875992 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
54876022 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
54876053 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
54876083 AGAATCAGAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
54876114 AGCATCAGAAT
1 AGAATCAGAAT
54876125 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.59
31 48 0.40
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:54876112 original size:55 final size:58
Alignment explanation
Indices: 54875986--54876124 Score: 206
Period size: 61 Copynumber: 2.3 Consensus size: 58
54875976 AATCAATAAC
*
54875986 AGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
1 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
54876044 GACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAT
1 ---AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTA-G-G-T
*
54876108 AGAATCAGCATCAGAAT
1 AGAATCAGAATCAGAAT
54876125 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
61 70 0.96
62 1 0.01
63 1 0.01
64 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (58 bp):
AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGT
Found at i:54876278 original size:27 final size:26
Alignment explanation
Indices: 54876242--54876307 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
54876232 AGCATGGCTG
*
54876242 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
54876268 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
54876295 CCAGAATCAGATA
1 CCAGAA-CAGATA
54876308 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:54876312 original size:27 final size:27
Alignment explanation
Indices: 54876242--54876315 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
54876232 AGCATGGCTG
* *
54876242 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
54876268 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
54876295 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
54876316 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:54876322 original size:27 final size:27
Alignment explanation
Indices: 54876266--54876323 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
54876256 GTGACAGAGT
* * *
54876266 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
54876293 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
54876320 CACC
1 CACC
54876324 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:54876705 original size:27 final size:26
Alignment explanation
Indices: 54876629--54876708 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
54876619 ATCGGTCAAT
* * *
54876629 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
54876656 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
54876682 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
54876709 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:54876937 original size:27 final size:27
Alignment explanation
Indices: 54876907--54877102 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
54876897 GGGGCAAAAT
* * *
54876907 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54876934 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54876961 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54876988 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54877015 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
54877042 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54877069 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54877096 AGTAATT
1 GGTAATT
54877103 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54877100 original size:54 final size:54
Alignment explanation
Indices: 54876907--54877102 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
54876897 GGGGCAAAAT
* * * *
54876907 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
54876961 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * * *
54877015 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
54877069 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
54877103 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:54877144 original size:27 final size:27
Alignment explanation
Indices: 54877107--54877327 Score: 252
Period size: 27 Copynumber: 8.2 Consensus size: 27
54877097 GTAATTTCAC
* *
54877107 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** * *
54877134 AATTTAGGGTAAAA-TGATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
54877161 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **
54877188 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54877215 AATCGAGGGTAAAAC-GATAATTCTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
54877242 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
**
54877269 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
54877296 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54877323 AATCG
1 AATCG
54877328 GGAGTACTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.02
27 158 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:54877183 original size:54 final size:54
Alignment explanation
Indices: 54877112--54877324 Score: 279
Period size: 54 Copynumber: 3.9 Consensus size: 54
54877102 TTCACAATCA
** * *
54877112 AGGGTAAAACGGTAATTCTGTAAATTTAGGGTAAAA-TGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAACTG
* * * *
54877166 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACAGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA-AACT-G
*
54877220 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
* *
54877274 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA
54877325 TCGGGAGTAC
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.01
53 4 0.03
54 127 0.91
55 5 0.04
56 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
Found at i:54877344 original size:81 final size:81
Alignment explanation
Indices: 54877107--54877327 Score: 295
Period size: 81 Copynumber: 2.7 Consensus size: 81
54877097 GTAATTTCAC
** *
54877107 AATCAAGGGTAAAACGGTAATTCTGTAAATTTAGGGTAAAATGATAATTTTGTAAA-CTGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATC-GAGGGT
*
54877171 AAACCAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * ** *
54877188 AATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTA
54877253 AAACAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
54877269 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT-AGTAATTCTGTAAATCG
1 AATC-AAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGA-TAATTCTGTAAATCG
54877328 GGAGTACTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 118 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:54880895 original size:21 final size:21
Alignment explanation
Indices: 54880869--54880914 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
54880859 CCTAGGGACA
*
54880869 AAATTGAATATGAATTGAATT
1 AAATTGAATATGAAATGAATT
*
54880890 AAATTGAATATGAAATGGATT
1 AAATTGAATATGAAATGAATT
54880911 AAAT
1 AAAT
54880915 CGACATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
AAATTGAATATGAAATGAATT
Found at i:54890992 original size:39 final size:40
Alignment explanation
Indices: 54890947--54891118 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
54890937 GCTCCTCGTT
* * *
54890947 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
54890987 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
54891026 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
54891066 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
54891106 CAAATGCCTTCGG
1 CAAATGCCTTCGG
54891119 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:54891047 original size:40 final size:39
Alignment explanation
Indices: 54890949--54891171 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
54890939 TCCTCGTTCA
* * * *
54890949 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
54890988 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
54891027 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
54891067 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
54891107 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTGGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
54891148 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54891172 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:54891131 original size:80 final size:79
Alignment explanation
Indices: 54890947--54891171 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
54890937 GCTCCTCGTT
* * * * *
54890947 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
54891011 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
54891026 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
54891091 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
54891106 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTGGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
54891170 GA
63 GA
54891172 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:54891180 original size:41 final size:41
Alignment explanation
Indices: 54891103--54891180 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54891093 TTTGTATCTC
* * *
54891103 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTG
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTG
54891144 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54891181 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTG
Found at i:54898167 original size:46 final size:46
Alignment explanation
Indices: 54898117--54898289 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
54898107 TGGTTGAGCA
54898117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54898163 TCCGAACTCGTTGAGTTGAGTCCGAG-TC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
54898207 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTT-CACTTATGGATGCGAATG
* * *
54898256 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54898290 GGGGCGGTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 2 0.02
46 57 0.55
47 25 0.24
48 1 0.01
49 3 0.03
51 4 0.04
52 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54905724 original size:45 final size:46
Alignment explanation
Indices: 54905577--54905747 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
54905567 GGTTGAGCAT
* *
54905577 CCGAACTCGTTGAGTTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAG-TTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
54905624 CCGTACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
54905669 TCCGAACTCG-TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
54905715 CCGAGCTCGTTGAGTTGAGTCAGTGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54905748 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 29 0.29
46 47 0.47
47 13 0.13
48 3 0.03
49 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:54913122 original size:46 final size:46
Alignment explanation
Indices: 54913072--54913243 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
54913062 TGGTTGAGCA
*
54913072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
54913118 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
54913165 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
54913211 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
54913244 GGGGGGGTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:54913228 original size:93 final size:93
Alignment explanation
Indices: 54913069--54913239 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54913059 GGATGGTTGA
* * *
54913069 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
54913134 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
54913162 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
54913227 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54913240 ACTTGGGGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:54924214 original size:39 final size:40
Alignment explanation
Indices: 54924114--54924377 Score: 306
Period size: 40 Copynumber: 6.7 Consensus size: 40
54924104 TTGAATGATG
* * * *
54924114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54924154 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54924194 TTCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54924233 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54924273 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54924312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54924353 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54924378 AACGAGGAGC
Statistics
Matches: 190, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
39 67 0.35
40 113 0.59
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54924248 original size:79 final size:78
Alignment explanation
Indices: 54924116--54924377 Score: 339
Period size: 79 Copynumber: 3.3 Consensus size: 78
54924106 GAATGATGTC
* * * *
54924116 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
54924180 TGCGAGATACTAATTT
64 TGCGAGATACTAA-TT
*
54924196 CGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
54924261 CGAGATACTAATT
66 CGAGATACTAATT
**
54924274 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 C-GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
* **
54924338 TGCGAGTTACTATAAC
64 TGCGAGATACTA-ATT
* *
54924354 CGGGCTATGTCCCGAAGGTATTTG
1 CGGGCTAAG-CCCGAAGGCATTTG
54924378 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
78 4 0.02
79 129 0.79
80 31 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTAATT
Found at i:54924399 original size:79 final size:79
Alignment explanation
Indices: 54924115--54924410 Score: 253
Period size: 79 Copynumber: 3.7 Consensus size: 79
54924105 TGAATGATGT
** * * * **
54924115 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
54924178 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* * ** * **
54924195 TCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTG
*
54924259 TGCGAGATACTAATT
65 TGCGAGATACTAATA
* ** * *
54924274 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
54924339 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
54924353 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
54924411 TACGTGATTT
Statistics
Matches: 188, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 145 0.77
80 40 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:54927239 original size:96 final size:92
Alignment explanation
Indices: 54927177--54927646 Score: 701
Period size: 96 Copynumber: 4.9 Consensus size: 92
54927167 ATTTAGGATT
54927177 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54927242 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
* *
54927273 CGATGTGATGAATTTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
54927338 AAAGTGTATATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATATGTGATAAGG-C--AT-GC
54927371 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54927436 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
*
54927467 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTTAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54927532 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
* * * *
54927563 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54927628 AGTGTATA-A-ATGTGATAAG
66 AGTGTATATATATGTGATAAG
54927647 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
94 10 0.03
95 1 0.00
96 257 0.71
98 94 0.26
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (92 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCATGC
Found at i:54927271 original size:49 final size:49
Alignment explanation
Indices: 54927177--54927646 Score: 807
Period size: 49 Copynumber: 9.8 Consensus size: 49
54927167 ATTTAGGATT
54927177 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
54927224 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* *
54927273 CGATGTGATGAATTTGAAAGTGTATATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
54927322 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
54927371 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
54927418 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
54927467 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
*
54927514 CGATGTGATGAATGTTAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
*
54927563 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
* * *
54927610 CAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
54927647 TCCCGAAGGG
Statistics
Matches: 405, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
47 168 0.41
48 1 0.00
49 236 0.58
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
Found at i:54928899 original size:38 final size:38
Alignment explanation
Indices: 54928848--54928931 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
54928838 ATTTATTCGA
* *
54928848 CGTATGGGGCATTGACTTCTTAGGCCTATTTCTTTCTT
1 CGTATGGGGCATTGACTTCTTAGGCCCATTTCCTTCTT
*
54928886 CGTATGGGGCATTGACTTCTTAGGCCCGTTTCCTTCTT
1 CGTATGGGGCATTGACTTCTTAGGCCCATTTCCTTCTT
54928924 CGTATGGG
1 CGTATGGG
54928932 AACAAATACA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (38 bp):
CGTATGGGGCATTGACTTCTTAGGCCCATTTCCTTCTT
Found at i:54933397 original size:27 final size:27
Alignment explanation
Indices: 54933374--54933508 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
54933364 CAAAATTATT
* * *
54933374 GAAATATCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
54933401 GAAATACCGCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
54933428 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
54933455 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
54933482 GAGATACCCTTGT-GGGATAAAATTACC
1 GAAATACCCCTGTAGGG-TAGAATTACC
54933509 ATTTTGCCCT
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
26 2 0.02
27 87 0.98
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:54933423 original size:54 final size:54
Alignment explanation
Indices: 54933375--54933494 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 54
54933365 AAAATTATTG
* * * * *
54933375 AAATATCCTTGTAGGGTAGAATTACTGAAATACCGCTGTAGGGTAAAATTACCA
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAAAATTACCA
* *
54933429 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAAAATTACCA
*
54933483 AGATACCCTTGT
1 AAATACCCTTGT
54933495 GGGATAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAAAATTACCA
Found at i:54933518 original size:27 final size:26
Alignment explanation
Indices: 54933488--54933551 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
54933478 TACCGAGATA
*
54933488 CCCTTGTGGGATAAAATTACCATTTTG
1 CCCTTGTGGG-TAAAATGACCATTTTG
* *
54933515 CCCTTAG-GGTGTTAAATGACTATTTTG
1 CCCTT-GTGG-GTAAAATGACCATTTTG
54933542 CCCTTGTGGG
1 CCCTTGTGGG
54933552 CAAGTGACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 27 0.87
28 2 0.06
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
CCCTTGTGGGTAAAATGACCATTTTG
Done.