Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 142 of 255
Found at i:45921311 original size:52 final size:55
Alignment explanation
Indices: 45921227--45921346 Score: 192
Period size: 52 Copynumber: 2.2 Consensus size: 55
45921217 TGATGAAAAA
*
45921227 AAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
1 AAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGACCGAATAGAAGAAAG
45921282 AAAAAGAAA-AAA-AAAA-AAGCTCTCATGTTGTTCTTGACCGAATAGAAGAAAG
1 AAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGACCGAATAGAAGAAAG
* *
45921334 AAAATGAAGGAAA
1 AAAAAGAAAGAAA
45921347 AAGAGCTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
52 42 0.69
53 7 0.11
54 3 0.05
55 9 0.15
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (55 bp):
AAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGACCGAATAGAAGAAAG
Found at i:45922558 original size:39 final size:39
Alignment explanation
Indices: 45922464--45922672 Score: 266
Period size: 39 Copynumber: 5.4 Consensus size: 39
45922454 GATGATAACC
* * *
45922464 GGCTAAGTCCCG-AGGCATTAGTGCTAGTGACTA-ATTCCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA-TCCG
* *
45922503 GGGTAAG-CCAAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
45922541 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
45922580 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
45922619 GGCTAAGTCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
*
45922657 GGCTAAACTCCGAAGG
1 GGCT-AAGTCCGAAGG
45922673 TACTTGGTTT
Statistics
Matches: 153, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
37 2 0.01
38 34 0.22
39 117 0.76
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:45922935 original size:22 final size:21
Alignment explanation
Indices: 45922894--45922937 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
45922884 GAATGTGCAT
45922894 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
45922916 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
45922938 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:45929329 original size:52 final size:53
Alignment explanation
Indices: 45929241--45929362 Score: 201
Period size: 52 Copynumber: 2.3 Consensus size: 53
45929231 TGATGATGAA
45929241 AAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
1 AAAAAGAAAG-AA-AAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
*
45929296 AAAAAGAAAGAAAAAA-AAGCTCTCATGTTGTTCTTGGCCGAATAGAAGATAG
1 AAAAAGAAAGAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
*
45929348 AAAAAGAAGGAAAAA
1 AAAAAGAAAGAAAAA
45929363 GAGCTTTGAG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
52 49 0.75
53 4 0.06
54 2 0.03
55 10 0.15
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (53 bp):
AAAAAGAAAGAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
Found at i:45931850 original size:40 final size:40
Alignment explanation
Indices: 45931653--45931836 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
45931643 CGAATGATGT
* * * * *
45931653 CCGGGCTAAGTCCCGAATGC-TTTGTGCTAAGTGACCATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
45931693 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
45931733 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45931771 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45931812 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45931837 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:45931858 original size:79 final size:79
Alignment explanation
Indices: 45931705--45931869 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
45931695 GGACTAAGAT
* **
45931705 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
45931770 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45931784 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
45931847 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45931863 CCGAAGG
1 CCGAAGG
45931870 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45939927 original size:40 final size:39
Alignment explanation
Indices: 45939843--45940027 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
45939833 TCGAATGATG
* * * * *
45939843 TCCGGGCTAAGTCCTGAATGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
* *
45939883 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45939923 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
45939962 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
45940003 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
45940028 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45940049 original size:79 final size:79
Alignment explanation
Indices: 45939896--45940060 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
45939886 GGACTAAGAT
* **
45939896 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
45939961 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45939975 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
45940038 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45940054 CCGAAGG
1 CCGAAGG
45940061 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45942180 original size:40 final size:40
Alignment explanation
Indices: 45942075--45942241 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
45942065 GGATTGATAA
* * *
45942075 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
45942115 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45942154 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45942194 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
45942234 CC-GGCTAA
1 CCGGGCTAA
45942242 ACTCCGAAGG
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 42 0.37
40 73 0.63
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45942240 original size:79 final size:79
Alignment explanation
Indices: 45942075--45942241 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 79
45942065 GGATTGATAA
* * * *
45942075 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
45942140 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* *
45942154 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
*
45942218 GAGCTAG-TAGCTATAT
64 GAGCGAGTTA-CTATAT
45942234 CC-GGCTAA
1 CCGGGCTAA
45942242 ACTCCGAAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.64
80 26 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCGAGTTACTATAT
Found at i:45942517 original size:22 final size:21
Alignment explanation
Indices: 45942476--45942519 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
45942466 GAATGTGCAT
45942476 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
45942498 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
45942520 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:45947471 original size:42 final size:43
Alignment explanation
Indices: 45947364--45947483 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
45947354 TACCAATGCC
* * ** *
45947364 ATATCCTAGATATGGTCTTACATGGGATCTCAAATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGAAATCTCAAATCGATGACA
* * *
45947407 ATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGAT-ACT
1 ATATCCCAGA-TATGGTCTTACACGAAATCTCAAATCGATGACA
45947449 ATATCCCAGATATGGTCTTACACGTAAA-CTCAAAT
1 ATATCCCAGATATGGTCTTACACG-AAATCTCAAAT
45947484 AACCCTAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAATCTCAAATCGATGACA
Found at i:45951339 original size:12 final size:12
Alignment explanation
Indices: 45951314--45951347 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45951304 CCTAGACACA
* *
45951314 TACCCATGTACC
1 TACCCGTGTGCC
45951326 TACCCGTGTGCC
1 TACCCGTGTGCC
45951338 TACCCGTGTG
1 TACCCGTGTG
45951348 GACCTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.38, G:0.21, T:0.26
Consensus pattern (12 bp):
TACCCGTGTGCC
Found at i:45965430 original size:47 final size:47
Alignment explanation
Indices: 45965378--45965783 Score: 643
Period size: 47 Copynumber: 8.6 Consensus size: 47
45965368 GATAATTGTG
* *
45965378 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
45965425 ATGTGAAAGTATATATATGTGATAAGGCTTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45965472 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45965521 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45965570 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45965617 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45965664 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
45965711 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
45965758 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45965784 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
46 2 0.01
47 242 0.71
48 2 0.01
49 94 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45969234 original size:40 final size:40
Alignment explanation
Indices: 45969174--45969269 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
45969164 TTATTTGTGT
*
45969174 CACTTAGTGTGCGATACGACAGAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATTCGACAGAGCTTCGGCTATATATGG
* *
45969214 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATGTGG
1 CACTTAGTGTGCGATTCGACAGAGCTTCGGCTATATATGG
*
45969254 CACTTAGTGTGTGATT
1 CACTTAGTGTGCGATT
45969270 TGAGGTATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGACAGAGCTTCGGCTATATATGG
Found at i:45969287 original size:40 final size:40
Alignment explanation
Indices: 45969174--45969307 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 40
45969164 TTATTTGTGT
* * *
45969174 CACTTAGTGTGCGATACGACAGAGCTTCGGCTATATATGG
1 CACTTAGTGTGTGATTCGACATAGCTTCGGCTATATATGG
* *
45969214 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATGTGG
1 CACTTAGTGTGTGATTCGACATAGCTTCGGCTATATATGG
* ** * * * * *
45969254 CACTTAGTGTGTGATTTGAGGTATCTTCAGCTATGTACGA
1 CACTTAGTGTGTGATTCGACATAGCTTCGGCTATATATGG
45969294 CACTTAGTGTGTGA
1 CACTTAGTGTGTGA
45969308 CATATCGAGT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
CACTTAGTGTGTGATTCGACATAGCTTCGGCTATATATGG
Found at i:45973371 original size:18 final size:18
Alignment explanation
Indices: 45973348--45973384 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45973338 ATGAAGCTGG
* *
45973348 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
45973366 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
45973384 T
1 T
45973385 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:45974187 original size:25 final size:24
Alignment explanation
Indices: 45974159--45974272 Score: 117
Period size: 25 Copynumber: 4.7 Consensus size: 24
45974149 AAAAATAGAA
*
45974159 ATAAATATATATATAATAATAATAT
1 ATAAATATATAAATAATAA-AATAT
* *
45974184 ATAAATATAAAAATAATATTAATAT
1 ATAAATATATAAATAATA-AAATAT
45974209 ATAAATATA-AAATATATAAAATAT
1 ATAAATATATAAATA-ATAAAATAT
* *
45974233 TTAGAATATAT--ATAATAAAATAG
1 ATA-AATATATAAATAATAAAATAT
45974256 ATATAATATATAAATAA
1 ATA-AATATATAAATAA
45974273 ATTGAATATA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
23 17 0.23
24 15 0.20
25 43 0.57
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAATATATAAATAATAAAATAT
Found at i:45974264 original size:73 final size:70
Alignment explanation
Indices: 45974165--45974298 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 70
45974155 AGAAATAAAT
* *
45974165 ATATATATAATAATAATATATAAATATAAAAATAATATTAATATATAAATATAAAATATATAAAA
1 ATATATATAATAATAATAGATAAATATAAAAATAA-ATTAA-ATAT-AATATAAAATAGATAAAA
45974230 TATTTAGA
63 TATTTAGA
* * *
45974238 ATATATATAATAA-AATAGATATAATATATAAATAAATTGAATATAATATTAAATAGATAAA
1 ATATATATAATAATAATAGATA-AATATAAAAATAAATTAAATATAATATAAAATAGATAAA
45974299 TAAATTAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
70 15 0.27
71 4 0.07
72 11 0.20
73 25 0.45
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (70 bp):
ATATATATAATAATAATAGATAAATATAAAAATAAATTAAATATAATATAAAATAGATAAAATAT
TTAGA
Found at i:45974286 original size:54 final size:53
Alignment explanation
Indices: 45974159--45974302 Score: 127
Period size: 56 Copynumber: 2.6 Consensus size: 53
45974149 AAAAATAGAA
* *
45974159 ATAAATATATATATAATAAT-AATATATAAATATAAAAATAATATTAATATATAAAT
1 ATAAA-ATATATAAAATATTAAATATAT-AA-AT-AAAATAATATTAATATATAAAT
45974215 ATAAAATATATAAAATATTTAGAATATATATAATAAAATAGATA-TAATATAT-AA-
1 ATAAAATATATAAAATA-TTA-AATATATA-AATAAAATA-ATATTAATATATAAAT
* * *
45974269 ATAAATTGA-ATATAATATTAAATAGATAAATAAA
1 ATAAAAT-ATATAAAATATTAAATATATAAATAAA
45974303 TTAAACCAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
51 6 0.08
52 7 0.09
53 3 0.04
54 13 0.17
55 14 0.18
56 20 0.26
57 6 0.08
58 8 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (53 bp):
ATAAAATATATAAAATATTAAATATATAAATAAAATAATATTAATATATAAAT
Found at i:45982732 original size:55 final size:53
Alignment explanation
Indices: 45982589--45982783 Score: 185
Period size: 54 Copynumber: 3.6 Consensus size: 53
45982579 TTTACCATTT
* *
45982589 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
45982642 CCATGCCTTGGA-ATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTT-GACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * * *
45982697 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCGATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * *
45982751 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
45982784 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 33 0.29
54 41 0.37
55 38 0.34
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:45995298 original size:29 final size:27
Alignment explanation
Indices: 45995280--45995349 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
45995270 ATATTAAGTC
*
45995280 CGCAGACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
45995307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
45995335 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45995350 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:45995343 original size:28 final size:28
Alignment explanation
Indices: 45995280--45995377 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
45995270 ATATTAAGTC
* *
45995280 CGCAGACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45995307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45995335 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45995364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45995378 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45998192 original size:58 final size:59
Alignment explanation
Indices: 45998102--45998222 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
45998092 GAGAGAGACA
* * *
45998102 GGGACGATTCATTCATTGTTGGGTACTGAACATGCAACGGTATATGAATTCTAGC-TTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATATGAATTCTACCTTTT
* * *
45998160 GGGACGGTTCATTCATTATTGGGTACCGAACATGTAACGGTATTTGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATATGAATTCTACCTTTT
45998219 GGGA
1 GGGA
45998223 TTGGGGAGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 49 0.88
59 7 0.12
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGTACCGAACATGCAACGGTATATGAATTCTACCTTTT
Found at i:45998306 original size:24 final size:24
Alignment explanation
Indices: 45998260--45998306 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45998250 GTATATGCCA
* *
45998260 GGATGGATCGCCGGATCATCGCTT
1 GGATGGATCGCCGGAGCACCGCTT
*
45998284 GGATGGATCGTCGGAGCACCGCT
1 GGATGGATCGCCGGAGCACCGCT
45998307 GGGAACCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (24 bp):
GGATGGATCGCCGGAGCACCGCTT
Found at i:46006055 original size:43 final size:42
Alignment explanation
Indices: 46006005--46006129 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 42
46005995 CACATTCGAG
** *
46006005 GCACTAGGGTGCCCCTGCTGCTCGAGGCACTCGCACATCCAA
1 GCACTAGGGTGCCAATGCTGCTCGAGGCTCTCGCACATCCAA
* * *
46006047 CGTC-CTAGGTTGCCTATGGTG-TCCGAGGCTC-CTGCACATCCAA
1 -G-CACTAGGGTGCCAATGCTGCT-CGAGGCTCTC-GCACATCCAA
* *
46006090 GCACCAAGGTGCCAATGCTGCTCGAGGCTCTCGCACATCC
1 GCACTAGGGTGCCAATGCTGCTCGAGGCTCTCGCACATCC
46006130 GAGGCACCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
41 1 0.02
42 31 0.47
43 33 0.50
44 1 0.02
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (42 bp):
GCACTAGGGTGCCAATGCTGCTCGAGGCTCTCGCACATCCAA
Found at i:46006160 original size:43 final size:41
Alignment explanation
Indices: 46006057--46007234 Score: 308
Period size: 43 Copynumber: 27.6 Consensus size: 41
46006047 CGTCCTAGGT
* *
46006057 TGCCTATGGTG-TCCGAGGCTCCTGCACATCCAAGCACCAAGG
1 TGCCGATGGTGCT-CGAGGCTCC-GCACATCCAGGCACCAAGG
* *
46006099 TGCCAATGCTGCTCGAGGCTCTCGCACATCCGAGGCACCAAGG
1 TGCCGATGGTGCTCGAGGCTC-CGCACATCC-AGGCACCAAGG
* * * *
46006142 TGCCGATGGTTCTTGAGGCTCCCGCACCA-CCAAGG-GCCTAGG
1 TGCCGATGGTGCTCGAGGCT-CCGCA-CATCC-AGGCACCAAGG
* * * *
46006184 TTACCGATGGTGCCCGAGGCTCCGGCACGA-CCAAGG-GCCTAGG
1 -TGCCGATGGTGCTCGAGGCTCC-GCAC-ATCC-AGGCACCAAGG
* *
46006227 TTGCCGATGGTG-TCTGAGGCTCCCGCACATCCAAGCACCAAGA
1 -TGCCGATGGTGCTC-GAGGCT-CCGCACATCCAGGCACCAAGG
* * ** *
46006270 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CTAGGGGCCTAGG
1 TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCCAGGCACCAAGG
* * *
46006312 TTACCGATGGTG-TCCGAGGCTCCCGCACATCCAAGCTCCAAGG
1 -TGCCGATGGTGCT-CGAGGCT-CCGCACATCCAGGCACCAAGG
* * * *
46006355 TGCCGATGGTGCCCAAGGCTCCCGCACGA-CCAAGG-GCCTAGG
1 TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCC-AGGCACCAAGG
* * * * *
46006397 TGCGGATGGT-CCCGATGCTCTCGCACGA-CCAAGGGC-CTAGGG
1 TGCCGATGGTGCTCGAGGCTC-CGCAC-ATCC-A-GGCACCAAGG
* * *
46006439 TGCCGATGGTGCCCGAGGCTCTCGCACGA-CCAGGGGCA-TAGGG
1 TGCCGATGGTGCTCGAGGCTC-CGCAC-ATCCA--GGCACCAAGG
* ** *
46006482 TGCCGATGGTGCCCGAGGCTCCTGCACGA-CCAGGGGCCTAGG
1 TGCCGATGGTGCTCGAGGCTCC-GCAC-ATCCAGGCACCAAGG
* ** *
46006524 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAGGGGCCTAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCCAGGCACCAAGG
* * * **
46006567 TTGTCGATGGTGCCCGAGGCTCCCGCACGA-CCGGGGGCCAAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCCAGGCACCAAGG
* * * *
46006610 TTGCCGATGGT-CCCGAGGCTCCCGCACGA-CTAGAG-GCCTAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCCAG-GCACCAAGG
* * * **
46006652 TTGCCGATGGTGCCCGAGGCCCCACACGA-CCAGGGGCCAAGG
1 -TGCCGATGGTGCTCGAGGCTCCGCAC-ATCCAGGCACCAAGG
* ** *
46006694 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAGGGGCCTAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCCAGGCACCAAGG
* * * *
46006737 TTGCCAATGGT-CCCGAGGCTCC-CGCATGACCAGG-AGCCTAGG
1 -TGCCGATGGTGCTCGAGGCTCCGCACAT--CCAGGCA-CCAAGG
* ** *
46006779 TTGCCGATGGTG-TCCGAGGCTCCCGTACGA-CCAGGGGCCTAGGG
1 -TGCCGATGGTGCT-CGAGGCT-CCGCAC-ATCCAGGCACC-AAGG
** *
46006823 TGCCGATGGTG-TCCGAGGCTCCCGCACGA-CCAGGGGCCTAGG
1 TGCCGATGGTGCT-CGAGGCT-CCGCAC-ATCCAGGCACCAAGG
* ** *
46006865 ATGCCGATGGTG-TCTGAGGCTCCCGCA-AGACCAGGGGCCTAGG
1 -TGCCGATGGTGCTC-GAGGCT-CCGCACA-TCCAGGCACCAAGG
* * *
46006908 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGG-GCCTAGG
1 TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCC-AGGCACCAAGG
* * *
46006950 TTGCCGATGGTG-TCCGAGGCTCC-CACACGACCAAGGGCA-TAAGT
1 -TGCCGATGGTGCT-CGAGGCTCCGCACA--TCC-A-GGCACCAAGG
* *
46006994 TGCCGATGGTGC-CGAGGCTCGCGCACGA-CCAAGG-GCCTAGG
1 TGCCGATGGTGCTCGAGGCTC-CGCAC-ATCC-AGGCACCAAGG
* * * * * *
46007035 TTACCGATGGTGCCCGAGGTTCCCGAACGA-CCAAGG-GCCTAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCC-AGGCACCAAGG
* * *
46007078 TTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGG-GCCTAGG
1 -TGCCGATGGTGCTCGAGGCT-CCGCAC-ATCC-AGGCACCAAGG
* * * *
46007121 TTACCGATGGTGGC-CGAGGCTCCCGCACAACCAAGG-GCCTAGG
1 -TGCCGATGGT-GCTCGAGGCT-CCGCACATCC-AGGCACCAAGG
* *
46007164 TTGCTGATGGTG-TCCGAGGCTCCTGCATATCCAAGGCACCAAGG
1 -TGCCGATGGTGCT-CGAGGCTCC-GCACATCC-AGGCACCAAGG
*
46007208 TGCCGATGCTGCTCGAGGCTCTCGCAC
1 TGCCGATGGTGCTCGAGGCTC-CGCAC
46007235 CACTGACGTC
Statistics
Matches: 954, Mismatches: 106, Indels: 151
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.00
40 4 0.00
41 31 0.03
42 293 0.31
43 593 0.62
44 29 0.03
45 2 0.00
46 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.16
Consensus pattern (41 bp):
TGCCGATGGTGCTCGAGGCTCCGCACATCCAGGCACCAAGG
Found at i:46006160 original size:85 final size:85
Alignment explanation
Indices: 46006050--46007234 Score: 1100
Period size: 85 Copynumber: 13.9 Consensus size: 85
46006040 CATCCAACGT
* * * * *
46006050 CCTAGGTTGCCTATGGTGTCCGAGGCTCCTGCACATCCAAGCACCAAGGTGCCAATGCTGCTCGA
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGA
* * *
46006115 GGCTCTCGCAC-ATCCGAGGCA
66 GGCTCCCGCACGA-CCAAGG-G
* * ** * *
46006136 CCAAGG-TGCCGATGGT-TCTTGAGGCTCCCGCACCA-CCAAGGGCCTAGGTTACCGATGGTGCC
1 CCTAGGTTGCCGATGGTGTC-CGAGGCTCCCGCA-CATCCAAGCACCAAGG-TGCCGATGGTGCC
*
46006198 CGAGGCTCCGGCACGACCAAGGG
63 CGAGGCTCCCGCACGACCAAGGG
* *
46006221 CCTAGGTTGCCGATGGTGTCTGAGGCTCCCGCACATCCAAGCACCAAGATGCCGATGGTGCCCGA
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGA
* *
46006286 GGCTCCCGCACGACTAGGGG
66 GGCTCCCGCACGACCAAGGG
* * *
46006306 CCTAGGTTACCGATGGTGTCCGAGGCTCCCGCACATCCAAGCTCCAAGGTGCCGATGGTGCCCAA
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGA
46006371 GGCTCCCGCACGACCAAGGG
66 GGCTCCCGCACGACCAAGGG
* * * * ** *
46006391 CCTAGG-TGCGGATGGT-CCCGATGCTCTCGCACGA-CCAAGGGCCTAGGGTGCCGATGGTGCCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGGTGCCGATGGTGCCC
* *
46006453 GAGGCTCTCGCACGACCAGGGG
64 GAGGCTCCCGCACGACCAAGGG
* * * * * ** *
46006475 CATAGGGTGCCGATGGTGCCCGAGGCTCCTGCACGA-CCAGGGGCCTAGGTTGCCGATGGTGCCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
*
46006539 GAGGCTCCCGCACGACCAGGGG
64 GAGGCTCCCGCACGACCAAGGG
* * ** **
46006561 CCTAGGTTGTCGATGGTGCCCGAGGCTCCCGCACGA-CCGGGGGCCAAGGTTGCCGATGGT-CCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
*
46006624 GAGGCTCCCGCACGA-CTAGAGG
64 GAGGCTCCCGCACGACCAAG-GG
* * * **
46006646 CCTAGGTTGCCGATGGTGCCCGAGGC-CCCACACGA-CCAGGGGCCAAGGTTGCCGATGGTGCCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
*
46006709 GAGGCTCCCGCACGACCAGGGG
64 GAGGCTCCCGCACGACCAAGGG
* * * * * *
46006731 CCTAGGTTGCCAATGGT-CCCGAGGCTCCCGCATGA-CC-AGGAGCCTAGGTTGCCGATGGTGTC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCA-CATCCAAGCA-CCAAGG-TGCCGATGGTGCC
* *
46006793 CGAGGCTCCCGTACGACCAGGGG
63 CGAGGCTCCCGCACGACCAAGGG
* * ** * * *
46006816 CCTAGGGTGCCGATGGTGTCCGAGGCTCCCGCACGA-CCAGGGGCCTAGGATGCCGATGGTGTCT
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
* *
46006880 GAGGCTCCCGCAAGACCAGGGG
64 GAGGCTCCCGCACGACCAAGGG
* ** * *
46006902 CCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGTCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
*
46006965 GAGGCTCCCACACGACCAAGGG
64 GAGGCTCCCGCACGACCAAGGG
* * * ** * *
46006987 CATAAGTTGCCGATGGTG-CCGAGGCTCGCGCACGA-CCAAGGGCCTAGGTTACCGATGGTGCCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
* *
46007050 GAGGTTCCCGAACGACCAAGGG
64 GAGGCTCCCGCACGACCAAGGG
* ** * * *
46007072 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTACCGATGGTGGCC
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCCC
*
46007136 GAGGCTCCCGCACAACCAAGGG
64 GAGGCTCCCGCACGACCAAGGG
* * * * *
46007158 CCTAGGTTGCTGATGGTGTCCGAGGCTCCTGCATATCCAAGGCACCAAGGTGCCGATGCTGCTCG
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAA-GCACCAAGGTGCCGATGGTGCCCG
*
46007223 AGGCTCTCGCAC
65 AGGCTCCCGCAC
46007235 CACTGACGTC
Statistics
Matches: 958, Mismatches: 116, Indels: 50
0.85 0.10 0.04
Matches are distributed among these distances:
83 20 0.02
84 95 0.10
85 462 0.48
86 370 0.39
87 11 0.01
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.16
Consensus pattern (85 bp):
CCTAGGTTGCCGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGA
GGCTCCCGCACGACCAAGGG
Found at i:46006265 original size:128 final size:128
Alignment explanation
Indices: 46006050--46007234 Score: 1342
Period size: 128 Copynumber: 9.3 Consensus size: 128
46006040 CATCCAACGT
* * * ** * * * *
46006050 CCTAGGTTGCCTATGGTGTCCGAGGCTCCTGCAC-ATCCAAGCACCAAGG-TGCCAATGCTGCTC
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCC
* * * * * ** *
46006113 GAGGCTCTCGCACATCCGAGGCACCAAGG-TGCCGATGGTTCTTGAGGCTCCCGCACCACCAAGG
65 GAGGCTCCCGCACA-CCAAGG-GCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGG
46006177 G
128 G
* * * *
46006178 CCTAGGTTACCGATGGTGCCCGAGGCTCCGGCACGACCAAGGGCCTAGGTTGCCGATGGTGTCTG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
** * * * *
46006243 AGGCTCCCGCACATCCAAGCACC-AAGATGCCGATGGTGCCCGAGGCTCCCGCACGACTAGGGG
66 AGGCTCCCGCACA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * ** *
46006306 CCTAGGTTACCGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCTCCAAGG-TGCCGATGGTGCCC
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCC
* * * *
46006369 AAGGCTCCCGCACGACCAAGGGCCTAGG-TGCGGATGGT-CCCGATGCTCTCGCACGACCAAGGG
65 GAGGCTCCCGCAC-ACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * * *
46006432 CCTAGGGTGCCGATGGTGCCCGAGGCTCTCGCACGACCAGGGGCATAGGGTGCCGATGGTGCCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * *
46006497 AGGCTCCTGCACGACCAGGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGG
66 AGGCTCCCGCAC-ACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* ** *
46006561 CCTAGGTTGTCGATGGTGCCCGAGGCTCCCGCACGACCGGGGGCCAAGGTTGCCGATGGT-CCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * *
46006625 AGGCTCCCGCACGA-CTAGAGGCCTAGGTTGCCGATGGTGCCCGAGGC-CCCACACGACCAGGGG
66 AGGCTCCCGCAC-ACCAAG-GGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
46006688 CCAAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCAATGGT-CCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * *
46006752 AGGCTCCCGCATGACC-AGGAGCCTAGGTTGCCGATGGTGTCCGAGGCTCCCGTACGACCAGGGG
66 AGGCTCCCGCA-CACCAAGG-GCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * * * *
46006816 CCTAGGGTGCCGATGGTGTCCGAGGCTCCCGCACGACCAGGGGCCTAGGATGCCGATGGTGTCTG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* *
46006881 AGGCTCCCGCAAGACCAGGGGCCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
66 AGGCTCCCGC-ACACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * * *
46006944 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCACACGACCAAGGGCATAAGTTGCCGATGGTG-CCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * *
46007008 AGGCTCGCGCACGACCAAGGGCCTAGGTTACCGATGGTGCCCGAGGTTCCCGAACGACCAAGGG
66 AGGCTCCCGCAC-ACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
46007072 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGGCCG
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * *
46007137 AGGCTCCCGCACAACCAAGGGCCTAGGTTGCTGATGGTGTCCGAGGCTCCTGCA-TATCCAAGGC
66 AGGCTCCCGCAC-ACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGG-
*
46007201 A
128 G
* * * *
46007202 CCAAGG-TGCCGATGCTGCTCGAGGCTCTCGCAC
1 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC
46007235 CACTGACGTC
Statistics
Matches: 917, Mismatches: 117, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
126 61 0.07
127 223 0.24
128 420 0.46
129 205 0.22
130 8 0.01
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.16
Consensus pattern (128 bp):
CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
AGGCTCCCGCACACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:46007476 original size:24 final size:25
Alignment explanation
Indices: 46007444--46007514 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
46007434 TTCCAGGATG
46007444 GCTCACCGGAGCACCGCCGGGAA-A
1 GCTCACCGGAGCACCGCCGGGAATA
* * *
46007468 GCTCACCGGACCACCG-CTGGAATG
1 GCTCACCGGAGCACCGCCGGGAATA
* *
46007492 GATCATCGGAGCACCGCCGGGAA
1 GCTCACCGGAGCACCGCCGGGAA
46007515 CCTAACCGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.13
24 28 0.74
25 5 0.13
ACGTcount: A:0.24, C:0.35, G:0.32, T:0.08
Consensus pattern (25 bp):
GCTCACCGGAGCACCGCCGGGAATA
Found at i:46014159 original size:58 final size:59
Alignment explanation
Indices: 46014090--46014210 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
46014080 GGGAGGGACA
* * *
46014090 GGGACGATTCATTCATTGTTGGGTACCGAACATGCAACGGTATCTGAATTCTAGC-TTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACAGTATCTGAATTCTACCTTTT
* *
46014148 GGGACGGTTCATTCATTATTGGGTACCGAACATGTAACAGTATCTGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGTACCGAACATGCAACAGTATCTGAATTCTACCTTTT
46014207 GGGA
1 GGGA
46014211 TTGGGGAGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 50 0.88
59 7 0.12
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGTACCGAACATGCAACAGTATCTGAATTCTACCTTTT
Found at i:46014298 original size:24 final size:24
Alignment explanation
Indices: 46014247--46014298 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
46014237 TGTATATCCT
* * *
46014247 GGGATGGATCGCCGGATCATCGCT
1 GGGATGGATCGCCGGAGCACCGCC
*
46014271 GGGATGGATCGTCGGAGCACCGCC
1 GGGATGGATCGCCGGAGCACCGCC
46014295 GGGA
1 GGGA
46014299 ACCTAACCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.15
Consensus pattern (24 bp):
GGGATGGATCGCCGGAGCACCGCC
Found at i:46017143 original size:40 final size:40
Alignment explanation
Indices: 46016905--46017129 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
46016895 TTGAATGATG
* * * *
46016905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
46016945 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
46016985 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46017024 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46017064 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46017105 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46017130 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46017151 original size:119 final size:119
Alignment explanation
Indices: 46016905--46017162 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
46016895 TTGAATGATG
* *
46016905 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
46016970 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
46017024 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
46017087 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
46017144 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46017163 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:46028479 original size:41 final size:39
Alignment explanation
Indices: 46028422--46028546 Score: 144
Period size: 41 Copynumber: 3.4 Consensus size: 39
46028412 NNNNNNNNNT
46028422 CCTACTGCTTAGGGGTTAAGATCTGTAAATTAGCCTGTTAC
1 CCTACTGCTTAGGGGTTAAGATCTGTAAATT-G-CTGTTAC
*
46028463 CCTACTGCTTAGGGGTTAAGCTC-G---ATTG-T-TT--
1 CCTACTGCTTAGGGGTTAAGATCTGTAAATTGCTGTTAC
46028494 CCTACTGCTTA-GGGTT-AGATCTGTAAATTTGCTGTTAC
1 CCTACTGCTTAGGGGTTAAGATCTGTAAA-TTGCTGTTAC
46028532 CCTACTGCTTAGGGG
1 CCTACTGCTTAGGGG
46028547 GTTTAAGCTT
Statistics
Matches: 72, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
29 4 0.06
30 6 0.08
31 11 0.15
33 3 0.04
34 4 0.06
35 1 0.01
36 3 0.04
37 3 0.04
38 11 0.15
39 3 0.04
40 1 0.01
41 22 0.31
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (39 bp):
CCTACTGCTTAGGGGTTAAGATCTGTAAATTGCTGTTAC
Found at i:46028539 original size:69 final size:74
Alignment explanation
Indices: 46028421--46028555 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 74
46028411 NNNNNNNNNN
46028421 TCCTACTGCTTAGGGGTTAAGATCTGTAAATTAGCCTGTTACCCTACTGCTTA-GGGG-TTAAGC
1 TCCTACTGCTTAGGGGTTAAGATCTGTAAATTAGCCTGTTACCCTACTGCTTAGGGGGTTTAAGC
46028484 TCGATTGTT
66 TCGATTGTT
*
46028493 TCCTACTGCTTA-GGGTT-AGATCTGTAAATTTG-CTGTTACCCTACTGCTTAGGGGGTTTAAGC
1 TCCTACTGCTTAGGGGTTAAGATCTGTAAATTAGCCTGTTACCCTACTGCTTAGGGGGTTTAAGC
46028555 T
66 T
46028556 TCATCTTCAT
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
69 18 0.30
70 18 0.30
71 12 0.20
72 12 0.20
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (74 bp):
TCCTACTGCTTAGGGGTTAAGATCTGTAAATTAGCCTGTTACCCTACTGCTTAGGGGGTTTAAGC
TCGATTGTT
Found at i:46040694 original size:3 final size:3
Alignment explanation
Indices: 46040688--46040813 Score: 53
Period size: 3 Copynumber: 42.7 Consensus size: 3
46040678 AATATTGATG
* * * * * * *
46040688 ATA ATA ATA AAA ATA ATA ATA AGA GTA TTA ATA TTT ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * * *
46040736 GTG ATA ATA ATA ATA GAAA ATA ATA A-A GGA ATG ATA TTA GTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
46040781 GTA ATA A-A A-A ATGA A-A ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT
46040814 GGTAAATACA
Statistics
Matches: 87, Mismatches: 31, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
2 7 0.08
3 76 0.87
4 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46041044 original size:23 final size:23
Alignment explanation
Indices: 46041018--46041066 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
46041008 ATAAAAGAGG
*
46041018 AAAATATAATAACAATAATAGTA
1 AAAATACAATAACAATAATAGTA
**
46041041 AAAATACAATAGTAATAATAGTA
1 AAAATACAATAACAATAATAGTA
46041064 AAA
1 AAA
46041067 GGTGTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (23 bp):
AAAATACAATAACAATAATAGTA
Found at i:46041151 original size:25 final size:25
Alignment explanation
Indices: 46041105--46041152 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
46041095 ATAAAAATAC
*
46041105 AATAATAATAATATATTAAATAACA
1 AATAATAATAATATATGAAATAACA
46041130 AATAATAATAATA-ATGATAATAA
1 AATAATAATAATATATGA-AATAA
46041153 TATAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAATAATAATATATGAAATAACA
Found at i:46041154 original size:28 final size:28
Alignment explanation
Indices: 46041071--46041154 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
46041061 GTAAAAGGTG
**
46041071 TAAC-AAT-ATAATAAT-ATGATGGTAA
1 TAACAAATAATAATAATAATGATAATAA
*
46041096 TAA-AAATACAATAATAATAAT-ATATTAAA
1 TAACAAAT--AATAATAATAATGATAAT-AA
46041125 TAACAAATAATAATAATAATGATAATAA
1 TAACAAATAATAATAATAATGATAATAA
46041153 TA
1 TA
46041155 TAGAAATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
25 6 0.12
28 27 0.56
29 11 0.23
30 4 0.08
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (28 bp):
TAACAAATAATAATAATAATGATAATAA
Found at i:46041154 original size:57 final size:55
Alignment explanation
Indices: 46041023--46041154 Score: 126
Period size: 57 Copynumber: 2.3 Consensus size: 55
46041013 AGAGGAAAAT
** * *
46041023 ATAATAACAATAATAGTAAAAATACAATAGTAATAATAGTAAAAGGTGTAACAATATA
1 ATAATAATGATAATAATAAAAATACAATAATAATAATAGTAAAA---GTAACAATATA
**
46041081 ATAAT-ATGATGGTAATAAAAATACAATAATAATAATA-TATTAAA-TAACAAATAATA
1 ATAATAATGATAATAATAAAAATACAATAATAATAATAGTA--AAAGTAAC-AAT-ATA
46041137 ATAATAATGATAATAATA
1 ATAATAATGATAATAATA
46041155 TAGAAATATG
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
54 4 0.07
55 3 0.05
56 10 0.16
57 36 0.59
58 8 0.13
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (55 bp):
ATAATAATGATAATAATAAAAATACAATAATAATAATAGTAAAAGTAACAATATA
Found at i:46048982 original size:19 final size:18
Alignment explanation
Indices: 46048947--46048982 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46048937 GAAGCAAGCA
*
46048947 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
46048965 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
46048983 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:46055538 original size:47 final size:49
Alignment explanation
Indices: 46055416--46055594 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 49
46055406 TGTAACCCGC
* *
46055416 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCAAAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
46055462 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * * *
46055512 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
46055555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
46055595 TCAACCATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.05
44 3 0.03
45 3 0.03
46 59 0.54
47 26 0.24
48 4 0.04
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:46055582 original size:93 final size:93
Alignment explanation
Indices: 46055423--46055594 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
46055413 CGCCCATAAG
* * * *
46055423 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCAAATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAGTGAACTCGGACTCAACTCA
46055488 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* ***
46055516 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAGTGAACTCGGACTCAACTCA
46055581 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46055595 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46058583 original size:20 final size:20
Alignment explanation
Indices: 46058556--46058598 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46058546 TTTTTTTCAT
* *
46058556 AATAAAAAAATAAAATAAATA
1 AATAAAAAGA-AAAACAAATA
46058577 AATAAAAAGAAAAACAAATA
1 AATAAAAAGAAAAACAAATA
46058597 AA
1 AA
46058599 AATAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (20 bp):
AATAAAAAGAAAAACAAATA
Found at i:46068390 original size:40 final size:40
Alignment explanation
Indices: 46068346--46068517 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
46068336 GGACTAAGAT
*
46068346 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
46068386 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
46068426 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
46068466 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
46068505 CCGAAGGCATTTG
1 CCGAAGGCATTTG
46068518 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:46068431 original size:80 final size:79
Alignment explanation
Indices: 46068346--46068517 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
46068336 GGACTAAGAT
*
46068346 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
46068410 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
46068426 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
46068491 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
46068505 CCGAAGGCATTTG
1 CCGAAGGCATTTG
46068518 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:46068535 original size:79 final size:80
Alignment explanation
Indices: 46068373--46068550 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
46068363 AGATACAAAT
* * * *
46068373 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
46068438 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
46068453 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
46068517 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
46068532 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46068551 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:46070203 original size:27 final size:27
Alignment explanation
Indices: 46070165--46070219 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46070155 CCAGCTGAGG
*
46070165 TGTTGCTCAGTTTCAGATTCTGTACAT
1 TGTTGCTCAGTTTCAGACTCTGTACAT
46070192 TGTTGCTCAGTTTCAGACTCTGTACAT
1 TGTTGCTCAGTTTCAGACTCTGTACAT
46070219 T
1 T
46070220 CTCTTGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (27 bp):
TGTTGCTCAGTTTCAGACTCTGTACAT
Found at i:46070662 original size:13 final size:13
Alignment explanation
Indices: 46070644--46070668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46070634 AAGCATGACT
46070644 CACACGGGCGTGG
1 CACACGGGCGTGG
46070657 CACACGGGCGTG
1 CACACGGGCGTG
46070669 TCCCTGTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGG
Found at i:46074871 original size:55 final size:55
Alignment explanation
Indices: 46074811--46074917 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
46074801 AGCACGGGCA
* * * * *
46074811 TGCGACACGCCTGTGCCTTGAACTTGTGGTTGAACCTGTCAAATTAACACGGACG
1 TGCGACACGCCCGTGCCTAGAACCTGTGGTCGAACCTATCAAATTAACACGGACG
* *
46074866 TGCGACACGCCCGTGTCTAGAACCTGTGGTCGAACCTATTAAATTAACACGG
1 TGCGACACGCCCGTGCCTAGAACCTGTGGTCGAACCTATCAAATTAACACGG
46074918 GCATGGGCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (55 bp):
TGCGACACGCCCGTGCCTAGAACCTGTGGTCGAACCTATCAAATTAACACGGACG
Found at i:46078969 original size:40 final size:40
Alignment explanation
Indices: 46078921--46079147 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
46078911 GCAAACACAT
* *
46078921 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46078961 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46079001 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46079041 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46079081 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46079121 TTGCCTTCAGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
46079148 ATCCAATGTT
Statistics
Matches: 178, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46087744 original size:40 final size:40
Alignment explanation
Indices: 46087696--46087922 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
46087686 GCAAACACAT
* *
46087696 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46087736 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46087776 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46087816 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46087856 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46087896 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
46087923 ATCCAATGTT
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46095732 original size:968 final size:968
Alignment explanation
Indices: 46093857--46095770 Score: 3290
Period size: 968 Copynumber: 2.0 Consensus size: 968
46093847 ATACCAATAA
** * *
46093857 AATGTAACACCCCTAACCCGTAACCGACATCAGATTAGGGTTATGAGACATTACTAGACAGATAA
1 AATGTAACACCCCTAACCCGTAACCGACATCAGATTAGGGTTAACAGACATTACCAGACAGACAA
* * *
46093922 AACATTTTGAACCAATTCAGAATCACAGATACTATTTAACATCATTTCATAAACAATCATCTCTA
66 AACATTTCGAACCAATTCAGAATCACAAATACTATTTAACATCACTTCATAAACAATCATCTCTA
* ** *
46093987 ATTATGGTCTGCAAGACCTAAAATATACATTTAAAGAAAAGTCGGAACTAAACCGAACTTATTTA
131 ATTATGGTCTACAAGACCTAAAATATACATTTAAAGAAAAGTCAAAACTAAACCGAACTTATTCA
**
46094052 AAATTTTCAAAACTTAACCAATTCTTTCAAACTGTTAAAGTCACACGCCCGTGTGACTAGGCCGT
196 AAATTTTCAAAACTTAACCAATTCTTTCAAACTGTTAAAGTCACACGCCCGTGAAACTAGGCCGT
* *
46094117 GTGATACACACGGGCACTAGACATGCCCATGTGAACCAGTCGTGCCAAAAATAGGTCTTATACTG
261 GTGATACACACGGGCACTAGACACGCCCATGTGAACCAGTCGTGCCAAAAATAGGTCCTATACTG
* * *
46094182 ACTTTTTCACACGGCCAATAGGCACGCTCGTGTACTATGGCCGTGTGATACTTAGCTAGCTATTG
326 ACTTTTTCACACGGCCAATAGGCACGCCCGTGTACTATGGCCATGTGATACTTAGCTAGCTACTG
* * *
46094247 ACTTTAGCCCACAGCCATATGGCACGCCCGTGTGTTAAGACCGTGTGGTTCTTAGGAGAATACTG
391 ACTTTAGCCCAAAGCCATATGACACGCCCGTGTGTCAAGACCGTGTGGTTCTTAGGAGAATACTG
** * * * *
46094312 CTTTTCTTACATGGCCACAAGGCACGCCTGAGACCCCTGATCGTGTGGCACCAAGCAGGCTTGGT
456 CTTTTCTTACACAGCCACAAGGCACGCCCGACACCCCTGACCGTGTAGCACCAAGCAGGCTTGGT
*
46094377 TTAAGCCAAATTTGCCACCCCATTTTGGGTCCAATCCTACAAGCAATAATATACCACATTCATAC
521 TTAAGCCAAATTTGCCACACCATTTTGGGTCCAATCCTACAAGCAATAATATACCACATTCATAC
46094442 GAAATTTCCAACCAATTCCATGCTCAAAACATGCTTCATTATAACACAAACATATTAGCTAATAA
586 GAAATTTCCAACCAATTCCATGCTCAAAACATGCTTCATTATAACACAAACATATTAGCTAATAA
46094507 AACACTACAACCATACATCATTTGGCACCATCAACCAAATACAAAAACTATATACAACATTTCAT
651 AACACTACAACCATACATCATTTGGCACCATCAACCAAATACAAAAACTATATACAACATTTCAT
* * *
46094572 TTGCTATCCAACTCATATGGCATAGTATATACACATCAAAACTTATATACATAGACCTTCTAGCC
716 TTGCTAGCCAACTCATATGGCATAATATATACACATCAAAACTTATACACATAGACCTTCTAGCC
*
46094637 TATACATGCCATACTTTAAAATATGTACACTTTCAAAAGTACCAAAATGAAATCGATAGTGTGGT
781 TATACATGCCATACTTTAAAATATGTACACTTTCAAAAGTACAAAAATGAAATCGATAGTGTGGT
* *
46094702 GACGATCCTCAACTATCCCCGAGCCTTTAGTAGCTACGATAACTGTAAAATAGATAGTAAACACA
846 GACGATCCTCAACTATCCCCGAGCCTTTAGTAGCTACGATAACTGTAAAACAGACAGTAAACACA
46094767 CAAAATAAGCTACAAAGAGCTTAGTAAGCCAAATACTGTACATATTTACATAACCTAT
911 CAAAATAAGCTACAAAGAGCTTAGTAAGCCAAATACTGTACATATTTACATAACCTAT
* * * * *
46094825 AATGTAACACCCCTAACCCGTAACTGACATCGGATTAGGGTTAACAGGCATTACCAGATAGACAG
1 AATGTAACACCCCTAACCCGTAACCGACATCAGATTAGGGTTAACAGACATTACCAGACAGACAA
46094890 AACATTTCGAACCAATTCAGAATCACAAATACTATTTAACATCACTTCATAAACAATCATCTCTA
66 AACATTTCGAACCAATTCAGAATCACAAATACTATTTAACATCACTTCATAAACAATCATCTCTA
*
46094955 ATTATGGTCTACAAGACCTAAAATATACATTTAAAGAAAAGTCAAAACTAAACTGAACTTATTCA
131 ATTATGGTCTACAAGACCTAAAATATACATTTAAAGAAAAGTCAAAACTAAACCGAACTTATTCA
* *
46095020 AAATTTTCAGAACTTAACCAATTCTTTCAAATTGTTAAAGTCACACGCCCGTGAAACTAGGCCGT
196 AAATTTTCAAAACTTAACCAATTCTTTCAAACTGTTAAAGTCACACGCCCGTGAAACTAGGCCGT
*
46095085 GTGATACACACGGGCACTAGACACGCCCATGTGAACCAGTTGTGCCAAAAATAGGTCCTATACTG
261 GTGATACACACGGGCACTAGACACGCCCATGTGAACCAGTCGTGCCAAAAATAGGTCCTATACTG
*
46095150 ACTTTTTCACACGGCCAATAGGCACGCCCGTGTACTATGGCCATGTGATATTTAGCTAGCTACTG
326 ACTTTTTCACACGGCCAATAGGCACGCCCGTGTACTATGGCCATGTGATACTTAGCTAGCTACTG
*
46095215 ACTTTAGCCCAAAGCCATATGACATGCCCGTGTGTCAAGACCGTGTGGTTCTTAGGAGAATACTG
391 ACTTTAGCCCAAAGCCATATGACACGCCCGTGTGTCAAGACCGTGTGGTTCTTAGGAGAATACTG
* * *
46095280 CTTTTCTTACACATCCACAAGGCACGCCCGTCTCCCCTGACCGTGTAGCACCAAGCAGGCTTGGT
456 CTTTTCTTACACAGCCACAAGGCACGCCCGACACCCCTGACCGTGTAGCACCAAGCAGGCTTGGT
46095345 TTAAGCCAAATTTGCCACACCATTTTGGGTCCAATCCTACAAGCAATAATATACCACATTCATAC
521 TTAAGCCAAATTTGCCACACCATTTTGGGTCCAATCCTACAAGCAATAATATACCACATTCATAC
*
46095410 GAAATTTCCAACCAATTCCATGCTCAAAACATGCTTCATTATAAC-CAAAACATATTAGCTCATA
586 GAAATTTCCAACCAATTCCATGCTCAAAACATGCTTCATTATAACAC-AAACATATTAGCTAATA
* *
46095474 AAACACTACAGCCATACATCATTTGGCACCATCAACCAAATACCAAAACTATATACAACATTTCA
650 AAACACTACAACCATACATCATTTGGCACCATCAACCAAATACAAAAACTATATACAACATTTCA
*
46095539 TTTGCTAGCCAACTCCTATGGCATAATATATACACATCAAAACTTATACACATAGACCTTCTAGC
715 TTTGCTAGCCAACTCATATGGCATAATATATACACATCAAAACTTATACACATAGACCTTCTAGC
*
46095604 CTATACATGCCATACTTTAAAATATGTACACTTTCAAAAGTACAAAAATGAGATCGATAGTGTGG
780 CTATACATGCCATACTTTAAAATATGTACACTTTCAAAAGTACAAAAATGAAATCGATAGTGTGG
* * *
46095669 TGATGATCCTCGACTATCCCCGAGCCTTTAGTAGCTACGATAACTGTAAAACAGACAGTAAACAT
845 TGACGATCCTCAACTATCCCCGAGCCTTTAGTAGCTACGATAACTGTAAAACAGACAGTAAACAC
* *
46095734 ACAGAGTAAGCTACAAAGAGCTTAGTAAGCCAAATAC
910 ACAAAATAAGCTACAAAGAGCTTAGTAAGCCAAATAC
46095771 AATTGGTATA
Statistics
Matches: 887, Mismatches: 58, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
967 1 0.00
968 886 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (968 bp):
AATGTAACACCCCTAACCCGTAACCGACATCAGATTAGGGTTAACAGACATTACCAGACAGACAA
AACATTTCGAACCAATTCAGAATCACAAATACTATTTAACATCACTTCATAAACAATCATCTCTA
ATTATGGTCTACAAGACCTAAAATATACATTTAAAGAAAAGTCAAAACTAAACCGAACTTATTCA
AAATTTTCAAAACTTAACCAATTCTTTCAAACTGTTAAAGTCACACGCCCGTGAAACTAGGCCGT
GTGATACACACGGGCACTAGACACGCCCATGTGAACCAGTCGTGCCAAAAATAGGTCCTATACTG
ACTTTTTCACACGGCCAATAGGCACGCCCGTGTACTATGGCCATGTGATACTTAGCTAGCTACTG
ACTTTAGCCCAAAGCCATATGACACGCCCGTGTGTCAAGACCGTGTGGTTCTTAGGAGAATACTG
CTTTTCTTACACAGCCACAAGGCACGCCCGACACCCCTGACCGTGTAGCACCAAGCAGGCTTGGT
TTAAGCCAAATTTGCCACACCATTTTGGGTCCAATCCTACAAGCAATAATATACCACATTCATAC
GAAATTTCCAACCAATTCCATGCTCAAAACATGCTTCATTATAACACAAACATATTAGCTAATAA
AACACTACAACCATACATCATTTGGCACCATCAACCAAATACAAAAACTATATACAACATTTCAT
TTGCTAGCCAACTCATATGGCATAATATATACACATCAAAACTTATACACATAGACCTTCTAGCC
TATACATGCCATACTTTAAAATATGTACACTTTCAAAAGTACAAAAATGAAATCGATAGTGTGGT
GACGATCCTCAACTATCCCCGAGCCTTTAGTAGCTACGATAACTGTAAAACAGACAGTAAACACA
CAAAATAAGCTACAAAGAGCTTAGTAAGCCAAATACTGTACATATTTACATAACCTAT
Found at i:46099580 original size:43 final size:42
Alignment explanation
Indices: 46099514--46099649 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 42
46099504 AACTCGTACA
** * **
46099514 ATGCCAACATCCCAGAC-GTGGTCTTACATGTTACCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAACCAAATA-CG
* * *
46099557 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAACCAAATACG
* *
46099599 ATGCCAATGTCCCACACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAA-C-CAAATACG
46099643 ATGCCAA
1 ATGCCAA
46099650 CACTTCAGAC
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.38
43 33 0.43
44 10 0.13
45 4 0.05
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAACCAAATACG
Found at i:46099622 original size:42 final size:42
Alignment explanation
Indices: 46099551--46099649 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
46099541 ATGTTACCAA
* *
46099551 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AAATC
1 ATATCGATGCCAATGTCCCACACAGGGTCTTACACGTAAATC
*
46099592 ATATACGATGCCAATGTCCCACACATGGTCTTACACGTAAATCTC
1 ATAT-CGATGCCAATGTCCCACACAGGGTCTTACACGTAAA--TC
*
46099637 AAATCGATGCCAA
1 ATATCGATGCCAA
46099650 CACTTCAGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 4 0.08
42 29 0.58
43 3 0.06
44 9 0.18
45 5 0.10
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCACACAGGGTCTTACACGTAAATC
Found at i:46107363 original size:22 final size:21
Alignment explanation
Indices: 46107323--46107363 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
46107313 ATCTTAACAC
* *
46107323 AGGGGAAAACGCCCGTGTGGA
1 AGGGAAAAACGCCCATGTGGA
46107344 AGGGAAAACACGCCCATGTG
1 AGGGAAAA-ACGCCCATGTG
46107364 ACATTGCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.22, G:0.37, T:0.10
Consensus pattern (21 bp):
AGGGAAAAACGCCCATGTGGA
Found at i:46113455 original size:40 final size:40
Alignment explanation
Indices: 46113388--46113594 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
46113378 CCTTCGGAGT
* * *
46113388 TTAG-CCGGATATAGCT-ACTAGCTCAAATTCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* *
46113427 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
46113467 TTAGCCCGGATATAGTAACTCGGACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
46113507 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
46113546 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
46113586 TTAGCCCGG
1 TTAGCCCGG
46113595 TTATCAATCC
Statistics
Matches: 153, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.26
40 112 0.73
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:46114804 original size:53 final size:54
Alignment explanation
Indices: 46114729--46114850 Score: 212
Period size: 53 Copynumber: 2.3 Consensus size: 54
46114719 CTCAAAGCTC
*
46114729 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTT-TT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
46114782 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
46114836 TTCTTTCTTT-TTTTT
1 TT-TTTCTTTCTTTTT
46114851 GTTCATCATC
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
53 50 0.76
54 9 0.14
55 7 0.11
ACGTcount: A:0.16, C:0.21, G:0.10, T:0.52
Consensus pattern (54 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
Found at i:46130723 original size:40 final size:40
Alignment explanation
Indices: 46130656--46130860 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
46130646 CCTTCGGAGT
* * *
46130656 TTAG-CCGGATATAGCT-ACTAGCTCAAATTCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* *
46130695 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
46130735 TTAGCCCGGATATAGTAACTCGGACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
46130775 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
46130813 TTAGCCCGAAT-TAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
46130852 TTAGCCCGG
1 TTAGCCCGG
46130861 TTATCAATCC
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
37 21 0.14
38 13 0.09
39 16 0.11
40 99 0.66
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:46132066 original size:53 final size:54
Alignment explanation
Indices: 46131992--46132111 Score: 208
Period size: 53 Copynumber: 2.2 Consensus size: 54
46131982 CTCAAAGCTC
*
46131992 TTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTT-TTT
1 TTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTTT
46132045 TTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTTT
1 TTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTTT
46132099 TCTTTCTTT-TTTT
1 T-TTTCTTTCTTTT
46132112 GTTCATCATC
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
53 49 0.77
54 8 0.12
55 7 0.11
ACGTcount: A:0.17, C:0.22, G:0.10, T:0.52
Consensus pattern (54 bp):
TTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTTT
Found at i:46138758 original size:40 final size:40
Alignment explanation
Indices: 46138691--46138897 Score: 323
Period size: 40 Copynumber: 5.2 Consensus size: 40
46138681 CATTCGGAGT
* *
46138691 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
46138730 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
46138770 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
46138810 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
46138849 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
46138889 TTAGCCCGG
1 TTAGCCCGG
46138898 TTATCAATAC
Statistics
Matches: 158, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.25
40 117 0.74
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:46140108 original size:53 final size:54
Alignment explanation
Indices: 46140032--46140159 Score: 206
Period size: 53 Copynumber: 2.4 Consensus size: 54
46140022 CTCAAAGCTC
* *
46140032 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTT-TT
1 TTTTTCTTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
46140085 TTTTTCTTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
1 TTTTTCTTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
46140139 TTCTTTCTTTCTTTTTT-TTTC
1 TT-TTTCTTT-TTTTTTCTTTC
46140160 ATCATAATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
53 49 0.70
54 4 0.06
55 11 0.16
56 6 0.09
ACGTcount: A:0.16, C:0.21, G:0.09, T:0.54
Consensus pattern (54 bp):
TTTTTCTTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
Found at i:46141977 original size:40 final size:40
Alignment explanation
Indices: 46141947--46142079 Score: 198
Period size: 40 Copynumber: 3.3 Consensus size: 40
46141937 GCTACTCGTT
*
46141947 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
46141987 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* *
46142027 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCC-GGTTATAGTAACTCGCA
46142067 CAAATGCCTTCGG
1 CAAATGCCTTCGG
46142080 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 85 0.97
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:46142059 original size:80 final size:81
Alignment explanation
Indices: 46141947--46142130 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
46141937 GCTACTCGTT
* * *
46141947 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
46142011 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
**
46142027 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46142091 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
*
46142108 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
46142131 GACATCATTC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
79 4 0.04
80 76 0.84
81 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:46143986 original size:44 final size:43
Alignment explanation
Indices: 46143909--46144029 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 43
46143899 CCGATATGTG
* **
46143909 TTATCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ACTTCT-ATT
1 TTAT-GTGTAAGACCATGTCTGGGA-CATGGCATCGTA--TCTGATT
46143954 TTATGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
1 TTATGTGTAAGACCATGTCTGGGACAT-GGCATCGTATCTGATT
* *
46143998 TCA--TGTAAGACCCTGTCTGGGACAGTGGCATC
1 TTATGTGTAAGACCATGTCTGGGACA-TGGCATC
46144030 AATGTTTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
42 26 0.39
43 5 0.07
44 31 0.46
45 5 0.07
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACATGGCATCGTATCTGATT
Found at i:46148505 original size:31 final size:31
Alignment explanation
Indices: 46148465--46148529 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
46148455 TCTTAGTTTA
46148465 AAAGAAACCTTAAAGTAATAATATTTGGCAT
1 AAAGAAACCTTAAAGTAATAATATTTGGCAT
* *
46148496 AAAGTAACCTTAAAGTAATAATATTTTGCAT
1 AAAGAAACCTTAAAGTAATAATATTTGGCAT
46148527 AAA
1 AAA
46148530 ATAATTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (31 bp):
AAAGAAACCTTAAAGTAATAATATTTGGCAT
Found at i:46150962 original size:12 final size:12
Alignment explanation
Indices: 46150945--46150972 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46150935 TCACATGCTC
46150945 GTGTGCCAGGCT
1 GTGTGCCAGGCT
46150957 GTGTGCCAGGCT
1 GTGTGCCAGGCT
46150969 GTGT
1 GTGT
46150973 AACTTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCCAGGCT
Found at i:46153999 original size:8 final size:8
Alignment explanation
Indices: 46153986--46154016 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
46153976 AATTAAATTT
46153986 TATTTTGA
1 TATTTTGA
46153994 TATTTTGA
1 TATTTTGA
46154002 TATTTTGA
1 TATTTTGA
46154010 TATTTTG
1 TATTTTG
46154017 GGTTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (8 bp):
TATTTTGA
Found at i:46156666 original size:46 final size:46
Alignment explanation
Indices: 46156505--46156670 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 46
46156495 ATTGAGGGCG
* * ** *
46156505 AGTGTAATACATGCCTGGGACATGCATCAGCTAT-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ATCAAAACGAGAGCC
* * * *
46156551 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCAAAACGAGAGCC
* * * *
46156599 AGTGTAAGACATGCCCGGGACATGCATTAGCCTCAAAACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCAAAACG-AGAGCC
*
46156645 AGTGTAAGACATGTCTAGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
46156671 ACGGCTACGA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
46 46 0.47
47 28 0.29
48 23 0.24
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCAAAACGAGAGCC
Found at i:46156728 original size:47 final size:48
Alignment explanation
Indices: 46156542--46156767 Score: 157
Period size: 47 Copynumber: 4.8 Consensus size: 48
46156532 CAGCTATATT
* * * *
46156542 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCAAG
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTA-CGAG
* * * * * * * *
46156590 ACGAGGGCTAGTGTAAGA-CATGCCCGGGACAT-GCATTAGCCT-CAAA
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTACGAG
* * * * * *
46156636 ACGTA-AGCCAGTGTAAGA-CATGTCTAGGACAT-GCAACGGCTACGAG
1 ATG-AGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAG
46156682 ATGA-TAGTCTA-TGTAAGACCATGTCTGGGACATGGCATCGAC-ACGAG
1 ATGAGT-G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAG
* *
46156729 ATGAGTGCTAGTGTAAGACCTTGTCTGGGATATGGCATC
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC
46156768 AGCCCCTTAC
Statistics
Matches: 142, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
45 4 0.03
46 49 0.35
47 67 0.47
48 22 0.15
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (48 bp):
ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAG
Found at i:46171071 original size:17 final size:17
Alignment explanation
Indices: 46171049--46171082 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46171039 TTACATGAAA
46171049 ATAGACTCATTAAGGTT
1 ATAGACTCATTAAGGTT
46171066 ATAGACTCATTAAGGTT
1 ATAGACTCATTAAGGTT
46171083 TAAATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
ATAGACTCATTAAGGTT
Found at i:46174484 original size:46 final size:46
Alignment explanation
Indices: 46174340--46174510 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
46174330 TATTAGGGCT
* * * * *
46174340 AGTGTAAGACATGTTTGGGACATGCATCAGCCAT--ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGAATC-GGCATCGA-GACGAGAGCC
* * * *
46174386 AGTGTAAGACCATGTATGGGACATGGAATCAGCATCGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GAATCGGCATCGAGACGAGAGCC
* * *
46174434 AGTGTGAGGCATGTCTGGGACATGAATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGAATCGGCATCGAGACG-AGAGCC
*
46174480 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGAATCGGC
46174511 TACAAGATGA
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 54 0.53
47 30 0.29
48 17 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGAATCGGCATCGAGACGAGAGCC
Found at i:46192147 original size:58 final size:56
Alignment explanation
Indices: 46192020--46192147 Score: 127
Period size: 56 Copynumber: 2.2 Consensus size: 56
46192010 TAGTCTAGGC
* * * * *
46192020 TAAATCCTTTTTATGACATATGCTCTAAGAGCTTGATATGGATTACTCGTCCAGGC
1 TAAATCCTTTCTATAACATATGCTCGAAGAGCTTGATATGGATTACCCGTCCAGGA
* *
46192076 TAAAT-CTAATCTATAACATATGCTCG-AGAGTACTT-ATATGAAGATTACCCGTCCGGGA
1 TAAATCCT-TTCTATAACATATGCTCGAAGAG--CTTGATATG--GATTACCCGTCCAGGA
46192134 TAAATCCTTTCTAT
1 TAAATCCTTTCTAT
46192148 CATGAGATGA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
55 6 0.10
56 24 0.41
57 3 0.05
58 23 0.40
59 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (56 bp):
TAAATCCTTTCTATAACATATGCTCGAAGAGCTTGATATGGATTACCCGTCCAGGA
Found at i:46212412 original size:41 final size:41
Alignment explanation
Indices: 46212367--46212445 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
46212357 GTTTTGGAAT
*
46212367 ATTAATGAGGAGGTCTTAACTATCAATTTGACCAATTTATA
1 ATTAATGAGGAGGTCTTAAATATCAATTTGACCAATTTATA
46212408 ATTAATGAGGAGGTCTTAAATATCAATTTGACCAATTT
1 ATTAATGAGGAGGTCTTAAATATCAATTTGACCAATTT
46212446 CTAAGTCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (41 bp):
ATTAATGAGGAGGTCTTAAATATCAATTTGACCAATTTATA
Found at i:46213012 original size:30 final size:30
Alignment explanation
Indices: 46212976--46213032 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
46212966 TTCCCGAGCC
*
46212976 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
*
46213006 TAGGGGCAAAAATGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAATTATGCAAAA
46213033 TTTCGTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:46215306 original size:21 final size:21
Alignment explanation
Indices: 46215280--46215324 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
46215270 GAATTGGTGA
46215280 GAAGCTGACTTTAAATAGAGC
1 GAAGCTGACTTTAAATAGAGC
46215301 GAAGCTGACTTTAAATAGAGC
1 GAAGCTGACTTTAAATAGAGC
46215322 GAA
1 GAA
46215325 CCAGATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (21 bp):
GAAGCTGACTTTAAATAGAGC
Found at i:46215606 original size:28 final size:28
Alignment explanation
Indices: 46215549--46215613 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
46215539 TGGGAAGGAG
*
46215549 TTGGGCCTGATGGGCCATACGAATATGA
1 TTGGGCCTAATGGGCCATACGAATATGA
*
46215577 TTTGGGCC-AATGGGCCATATGAATGA-GA
1 -TTGGGCCTAATGGGCCATACGAAT-ATGA
46215605 TTGGGCCTA
1 TTGGGCCTA
46215614 TGTAGACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.22
28 17 0.53
29 8 0.25
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATACGAATATGA
Found at i:46215936 original size:27 final size:26
Alignment explanation
Indices: 46215903--46216188 Score: 252
Period size: 27 Copynumber: 10.7 Consensus size: 26
46215893 TAACAAAGAG
46215903 AAATTACCGAAATACCCATAGTTTGTA
1 AAATTACCGAAATACCC-TAGTTTGTA
** *
46215930 AAATTACTAAAATACCCCCAGTTTGTA
1 AAATTACCGAAATA-CCCTAGTTTGTA
*
46215957 AAATTACCGAAA-ACCCCCAGTTTGTA
1 AAATTACCGAAATA-CCCTAGTTTGTA
* **
46215983 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
* * *
46216010 AAATTACCGAAATACCATCAATTTTTA
1 AAATTACCGAAATACCCT-AGTTTGTA
*
46216037 AAATTACCAAAATACCCTCAGTTTGTA
1 AAATTACCGAAATACCCT-AGTTTGTA
* ** **
46216064 AAATTATCGATGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
* *
46216091 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCT-AGTTTGTA
* *
46216118 AAATTACCAAAATA-CCTCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
* * *
46216144 AAATTACCGAAACACTCGTAATTTGTA
1 AAATTACCGAAATAC-CCTAGTTTGTA
*
46216171 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
46216189 TATAGTGTAA
Statistics
Matches: 208, Mismatches: 42, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
26 54 0.26
27 149 0.72
28 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
AAATTACCGAAATACCCTAGTTTGTA
Found at i:46216062 original size:54 final size:54
Alignment explanation
Indices: 46215903--46216186 Score: 281
Period size: 54 Copynumber: 5.3 Consensus size: 54
46215893 TAACAAAGAG
* ** *
46215903 AAATTACCGAAATACCCAT-AGTTTGTAAAATTACTAAAATACCCCCAGTTTGTA
1 AAATTACCGAAATA-CCATCAATTTGTAAAATTACCGAAATACCCTCAGTTTGTA
** * * *
46215957 AAATTACCGAAA-ACCCCCAGTTTGTAAAATTATCGAAATACCC-CCGATTTGTA
1 AAATTACCGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCAG-TTTGTA
* *
46216010 AAATTACCGAAATACCATCAATTTTTAAAATTACCAAAATACCCTCAGTTTGTA
1 AAATTACCGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCAGTTTGTA
* ** ** * * *
46216064 AAATTATCGATGTACCCCCGATTTGTAAAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCAGTTTGTA
* * * * *
46216118 AAATTACCAAAATACC-TCGATTTGTAAAATTACCGAAACACTCGT-AATTTGTA
1 AAATTACCGAAATACCATCAATTTGTAAAATTACCGAAATAC-CCTCAGTTTGTA
*
46216171 AAATTATCGAAATACC
1 AAATTACCGAAATACC
46216187 CTTATAGTGT
Statistics
Matches: 192, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.02
53 85 0.44
54 101 0.53
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCATCAATTTGTAAAATTACCGAAATACCCTCAGTTTGTA
Found at i:46216086 original size:81 final size:81
Alignment explanation
Indices: 46215924--46216188 Score: 340
Period size: 80 Copynumber: 3.3 Consensus size: 81
46215914 ATACCCATAG
* * * * *
46215924 TTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTACCGAAA-ACCCCCAGTTTGTAAAATT
1 TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATT
46215988 ATCGAAATACCCCCGA
66 ATCGAAATACCCCCGA
* * *
46216004 TTTGTAAAATTACCGAAATACCATCAATTTTTAAAATTACCAAAATACCCTCAGTTTGTAAAATT
1 TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATT
**
46216069 ATCGATGTACCCCCGA
66 ATCGAAATACCCCCGA
46216085 TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCTC-GATTTGTAAAAT
1 TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAG-TTTGTAAAAT
* * * ***
46216148 TACCGAAACACTCGTAA
65 TATCGAAATACCCCCGA
46216165 TTTGTAAAATTA-TCGAAATACCCT
1 TTTGTAAAATTACT-GAAATACCCT
46216189 TATAGTGTAA
Statistics
Matches: 161, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
79 2 0.01
80 83 0.52
81 76 0.47
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATT
ATCGAAATACCCCCGA
Found at i:46216212 original size:27 final size:27
Alignment explanation
Indices: 46216182--46216233 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46216172 AATTATCGAA
* *
46216182 ATACCCTTATAGTGTAAAATGACTAAC
1 ATACCCCTATAGGGTAAAATGACTAAC
* *
46216209 ATACCCCTGTTGGGTAAAATGACTA
1 ATACCCCTATAGGGTAAAATGACTA
46216234 TTTTGCCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (27 bp):
ATACCCCTATAGGGTAAAATGACTAAC
Found at i:46216228 original size:134 final size:132
Alignment explanation
Indices: 46215903--46216215 Score: 339
Period size: 134 Copynumber: 2.3 Consensus size: 132
46215893 TAACAAAGAG
46215903 AAATTACCGAAATACCC-ATAGTTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTACCGA
1 AAATTACCGAAATACCCTATAG--TGTAAAATTACTAAAATA-CCCCAGTTTGTAAAATTACCGA
* * * *
46215967 AAACCCCCAGTTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCATCAAT
63 AAACCCCCAATTTGTAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAACACCATCAAT
*
46216032 TTTTA
128 TTGTA
* * * ** * *
46216037 AAATTACCAAAATACCCTCAGT-TTGTAAAATTA-TCGATGTACCCCCGATTTGTAAAATTACTG
1 AAATTACCGAAATACCCT-A-TAGTGTAAAATTACT-AAAATACCCCAG-TTTGTAAAATTACCG
* * *
46216100 AAATACCCTCAATTTGTAAAATTACCAAAATA-CCTCGATTTGTAAAATTACCGAAACACTCGT-
62 AAA-ACCCCCAATTTGTAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAACAC-CATC
46216163 AATTTGTA
125 AATTTGTA
* * *
46216171 AAATTATCGAAATACCCTTATAGTGTAAAATGACTAACATACCCC
1 AAATTACCGAAATACCC-TATAGTGTAAAATTACTAAAATACCCC
46216216 TGTTGGGTAA
Statistics
Matches: 147, Mismatches: 22, Indels: 20
0.78 0.12 0.11
Matches are distributed among these distances:
133 7 0.05
134 110 0.75
135 28 0.19
136 1 0.01
137 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (132 bp):
AAATTACCGAAATACCCTATAGTGTAAAATTACTAAAATACCCCAGTTTGTAAAATTACCGAAAA
CCCCCAATTTGTAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAACACCATCAATTTG
TA
Found at i:46226861 original size:9 final size:9
Alignment explanation
Indices: 46226849--46226875 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
46226839 TTTATCATTA
46226849 ATTTCATAC
1 ATTTCATAC
46226858 ATTTCATAC
1 ATTTCATAC
46226867 ATTTCATAC
1 ATTTCATAC
46226876 TTAGACGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTCATAC
Found at i:46227078 original size:20 final size:20
Alignment explanation
Indices: 46227037--46227078 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46227027 GGCACATGTA
* *
46227037 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
46227057 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
46227077 TT
1 TT
46227079 AATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:46228818 original size:20 final size:20
Alignment explanation
Indices: 46228795--46228833 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
46228785 TTATGCTTAA
46228795 ATGAAAATTAGACCATTATC
1 ATGAAAATTAGACCATTATC
46228815 ATGAAAATTAGACCATTAT
1 ATGAAAATTAGACCATTAT
46228834 ACCTTAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGAAAATTAGACCATTATC
Found at i:46237904 original size:58 final size:56
Alignment explanation
Indices: 46237773--46237904 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 56
46237763 TACCAGTTCA
* * * *
46237773 GGCTAAATCCTTCTTATGACATATGCTCTAAGGAGCTTGATCTAGATTACCCATTCG
1 GGCTAAATCCTTC-TATAACATATGCTCGAAGGAGCTTGATCTAGATTAACCATCCG
* * *
46237830 AGCTAAATCCAATCTATAACATATGCTCGAGAGGA-CTT-ATATCAGGATTAACCATCCG
1 GGCTAAATCC-TTCTATAACATATGCTCGA-AGGAGCTTGATCT-A-GATTAACCATCCG
46237888 GGCTAAATCCTTTCTAT
1 GGCTAAATCC-TTCTAT
46237905 CATAAGATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
56 3 0.05
57 27 0.44
58 31 0.51
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (56 bp):
GGCTAAATCCTTCTATAACATATGCTCGAAGGAGCTTGATCTAGATTAACCATCCG
Found at i:46239619 original size:19 final size:19
Alignment explanation
Indices: 46239595--46239632 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46239585 TAGAAAAGAG
46239595 TTTGTCATTCAAAATCCTT
1 TTTGTCATTCAAAATCCTT
46239614 TTTGTCATTCAAAATCCTT
1 TTTGTCATTCAAAATCCTT
46239633 ACTCCCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (19 bp):
TTTGTCATTCAAAATCCTT
Found at i:46243323 original size:20 final size:19
Alignment explanation
Indices: 46243290--46243328 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46243280 AAAAAGTAGG
* *
46243290 TAAAAATTTTAAAAATATTA
1 TAAAAA-TTCAAAAAAATTA
46243310 TAAAAATTCAAAAAAATTA
1 TAAAAATTCAAAAAAATTA
46243329 GCGCGTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATTCAAAAAAATTA
Found at i:46255454 original size:51 final size:51
Alignment explanation
Indices: 46255378--46255481 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
46255368 TTGTTTGTGA
*
46255378 ATTGGTAATTTGGGTATCAACTGGTTGAAATGGATAAGTTGCATGCATGAT
1 ATTGGTAATTTGGGTATCAACTGGTTGAAATGGATAAGTGGCATGCATGAT
*
46255429 ATTGGTAATTTGGGTATCAACTGGTTGAGATGGATAAGTGGCATGCATGAT
1 ATTGGTAATTTGGGTATCAACTGGTTGAAATGGATAAGTGGCATGCATGAT
46255480 AT
1 AT
46255482 GTTTAGGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (51 bp):
ATTGGTAATTTGGGTATCAACTGGTTGAAATGGATAAGTGGCATGCATGAT
Found at i:46258354 original size:20 final size:20
Alignment explanation
Indices: 46258325--46258374 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
46258315 ATTATCCCGA
*
46258325 GTATCGATACTCGTGATATG
1 GTATCGATACTCGTGATATC
*
46258345 GTATCAATACTCGTGATATC
1 GTATCGATACTCGTGATATC
46258365 GTATCGATAC
1 GTATCGATAC
46258375 CAATTTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATCGATACTCGTGATATC
Found at i:46258591 original size:39 final size:40
Alignment explanation
Indices: 46258533--46258625 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
46258523 CTTTTACCTC
46258533 ATCAAAAA-ATTGTCAAAACGACCATAATAATGGTTCAATA
1 ATCAAAAACA-TGTCAAAACGACCATAATAATGGTTCAATA
*
46258573 ATCAAAAACATGTC-AAACGACCATAATAATGGTTCAATC
1 ATCAAAAACATGTCAAAACGACCATAATAATGGTTCAATA
46258612 ATCAAAAACATGTC
1 ATCAAAAACATGTC
46258626 TGAACAAGGA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 38 0.75
40 12 0.24
41 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.10, T:0.24
Consensus pattern (40 bp):
ATCAAAAACATGTCAAAACGACCATAATAATGGTTCAATA
Found at i:46261710 original size:18 final size:18
Alignment explanation
Indices: 46261687--46261723 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46261677 GCTCAAAACC
46261687 TAAATCGTCTTTAATACT
1 TAAATCGTCTTTAATACT
46261705 TAAATCGTCTTTAATACT
1 TAAATCGTCTTTAATACT
46261723 T
1 T
46261724 TTTAACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (18 bp):
TAAATCGTCTTTAATACT
Found at i:46264723 original size:79 final size:81
Alignment explanation
Indices: 46264612--46264792 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
46264602 GCTACTCGTT
* *
46264612 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
46264676 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
46264692 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46264755 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
46264772 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
46264793 TGGACATCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.62
80 29 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:46264729 original size:39 final size:40
Alignment explanation
Indices: 46264612--46264792 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
46264602 GCTACTCGTT
*
46264612 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
46264652 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
46264692 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
46264731 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
46264772 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
46264793 TGGACATCAT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:46272706 original size:40 final size:40
Alignment explanation
Indices: 46272669--46272853 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
46272659 GCTACTCGTT
*
46272669 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
46272709 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
46272749 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
46272788 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
46272829 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46272854 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:46272780 original size:79 final size:82
Alignment explanation
Indices: 46272669--46272853 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
46272659 GCTACTCGTT
* *
46272669 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46272732 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
46272749 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTTGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46272812 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
46272829 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46272854 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46275331 original size:25 final size:25
Alignment explanation
Indices: 46275269--46275347 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
46275259 ATCAGCTTTT
* *
46275269 CGTTATACAGCTAGCATGAGCTTCC
1 CGTTATTCAGCTTGCATGAGCTTCC
* *
46275294 CATTATTTAGCTTGCATGAGCTTCC
1 CGTTATTCAGCTTGCATGAGCTTCC
* * *
46275319 CGTTATTCAGCTTGGAGGAGCTTTC
1 CGTTATTCAGCTTGCATGAGCTTCC
46275344 CGTT
1 CGTT
46275348 TATAGCTCGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
CGTTATTCAGCTTGCATGAGCTTCC
Found at i:46276645 original size:19 final size:20
Alignment explanation
Indices: 46276605--46276646 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
46276595 TTGATTCATG
46276605 TTTTCAATCTCATATCTCAA
1 TTTTCAATCTCATATCTCAA
46276625 TTTTCAATTCTCA-AT-TCAA
1 TTTTCAA-TCTCATATCTCAA
46276644 TTT
1 TTT
46276647 CTCGTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTCAATCTCATATCTCAA
Found at i:46276900 original size:41 final size:38
Alignment explanation
Indices: 46276799--46276903 Score: 95
Period size: 37 Copynumber: 2.7 Consensus size: 38
46276789 TAGTTTGAAG
*
46276799 CAAAGTTGACACCCAGTGTCTCATCG-ACCTAGCCGAA
1 CAAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAA
* ** ** * *
46276836 CAAAGTTGGTACCCAGTACCTCATCGAATCTATCCGAA
1 CAAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAA
*
46276874 GAAATATAATGACACCCAGTGTCTCATCGA
1 CAAA-AT--TGACACCCAGTGTCTCATCGA
46276904 CTCGAGGTCG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 22 0.42
38 12 0.23
39 1 0.02
41 17 0.33
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (38 bp):
CAAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAA
Found at i:46277138 original size:10 final size:10
Alignment explanation
Indices: 46277125--46277152 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
46277115 ATTAATTCAT
46277125 AATTCAATAC
1 AATTCAATAC
46277135 AATTCAATAC
1 AATTCAATAC
46277145 AATTCAAT
1 AATTCAAT
46277153 TCACTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTCAATAC
Found at i:46277313 original size:15 final size:15
Alignment explanation
Indices: 46277287--46277342 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
46277277 CATATATATT
46277287 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
*
46277301 ATATAATTTCAATTA
1 ATATAATTTCAATCA
*
46277316 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
46277331 ATATAAATTCAA
1 ATATAATTTCAA
46277343 GAAATTCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:46278298 original size:31 final size:32
Alignment explanation
Indices: 46278240--46278303 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
46278230 CATACATTTG
*
46278240 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
46278272 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
46278303 T
1 T
46278304 TTTACTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:46278820 original size:20 final size:19
Alignment explanation
Indices: 46278774--46278820 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
46278764 AGTCATTTTT
*
46278774 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
46278794 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
46278814 CCTAATT
1 CCTAATT
46278821 AATTACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:46279732 original size:13 final size:13
Alignment explanation
Indices: 46279714--46279746 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46279704 TTTCGAATGC
46279714 CCACACGGCCTGA
1 CCACACGGCCTGA
46279727 CCACACGGCCTGA
1 CCACACGGCCTGA
46279740 CCACACG
1 CCACACG
46279747 ACCGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.21, T:0.06
Consensus pattern (13 bp):
CCACACGGCCTGA
Found at i:46282180 original size:15 final size:15
Alignment explanation
Indices: 46282156--46282187 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46282146 TATGCATGCA
*
46282156 AAATATAAAAGACAT
1 AAATACAAAAGACAT
46282171 AAATACAAAAGACAT
1 AAATACAAAAGACAT
46282186 AA
1 AA
46282188 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:46282845 original size:25 final size:25
Alignment explanation
Indices: 46282809--46282861 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
46282799 CATGAGATTT
*
46282809 TGTATGTCGCCTTAGTGGCGTATTC
1 TGTATGTCGCCTTAGTGGCATATTC
*
46282834 TGTATGAT-GCCTTTGTGGCATATTC
1 TGTATG-TCGCCTTAGTGGCATATTC
46282859 TGT
1 TGT
46282862 TTGGCCCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.43
Consensus pattern (25 bp):
TGTATGTCGCCTTAGTGGCATATTC
Found at i:46283968 original size:206 final size:206
Alignment explanation
Indices: 46283608--46284013 Score: 677
Period size: 206 Copynumber: 2.0 Consensus size: 206
46283598 GTATGATAGT
* * * **
46283608 TGGCATGTAAGTGTGTACCAAAATTGTAGTGGTATCTGCCCGAGGTAGAAGAAAGTGGTCTAAAA
1 TGGCATGTAACTGTATACCAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCTAAAA
* * *
46283673 AGGATAATTGGCGCACAGATGTTCATTAATCATAATCAATATTCACCAAGGTATATTTTGGATTA
66 AGAATAATTGGCGCACAAATGTTCATTAATCATAATCAATATCCACCAAGGTATATTTTGGATTA
*
46283738 AAGCTCATTAAGTTCTCCTGAACTTACAAAAATGTTATATTTATGTTTCAAGTAAAGTGGGATGT
131 AAGCTCATTAAGTTCTCCTGAACTTACAAAAATGTTATATTTATGTTTCAAGTAAAGTGAGATGT
46283803 ATTGCGCTAGG
196 ATTGCGCTAGG
46283814 TGGCATGTAACTGTATACCAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCTAAAA
1 TGGCATGTAACTGTATACCAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCTAAAA
* * * *
46283879 AGAATAATTGGTGCACAAATGTTCATTAGTCATAATTAATATCCGCCAAGGTATATTTTGGATTA
66 AGAATAATTGGCGCACAAATGTTCATTAATCATAATCAATATCCACCAAGGTATATTTTGGATTA
* *
46283944 AAGCTCATTAAGTTCTCTTGAACTTACAAAAATGTTATATTTATGTTTCAAGTAAGGTGAGATGT
131 AAGCTCATTAAGTTCTCCTGAACTTACAAAAATGTTATATTTATGTTTCAAGTAAAGTGAGATGT
46284009 ATTGC
196 ATTGC
46284014 ATCAGGAGGG
Statistics
Matches: 185, Mismatches: 15, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
206 185 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (206 bp):
TGGCATGTAACTGTATACCAAAACTGTAGTGGTATCCACCCGAGGTAGAAGAAAGTGGTCTAAAA
AGAATAATTGGCGCACAAATGTTCATTAATCATAATCAATATCCACCAAGGTATATTTTGGATTA
AAGCTCATTAAGTTCTCCTGAACTTACAAAAATGTTATATTTATGTTTCAAGTAAAGTGAGATGT
ATTGCGCTAGG
Found at i:46286831 original size:31 final size:31
Alignment explanation
Indices: 46286796--46286868 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
46286786 TTGCAAGAGG
* *
46286796 TTCTTCTTCTTTCTTAAATGTTTTTCTTTCA
1 TTCTTCTTCTTCCTTAAATGTTGTTCTTTCA
*
46286827 TTCTTCTTCTTCCTTAAATGTTGTTCTTTGA
1 TTCTTCTTCTTCCTTAAATGTTGTTCTTTCA
*
46286858 TTCTTGTTCTT
1 TTCTTCTTCTT
46286869 AAATCAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.11, C:0.19, G:0.07, T:0.63
Consensus pattern (31 bp):
TTCTTCTTCTTCCTTAAATGTTGTTCTTTCA
Found at i:46289659 original size:48 final size:48
Alignment explanation
Indices: 46289593--46289912 Score: 216
Period size: 48 Copynumber: 6.7 Consensus size: 48
46289583 TGATATGTGT
*
46289593 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATAAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATAAGA
* * ** * * *
46289641 TCCAGTGTAAGACTATGTTTGGAACATGGCATCGGTGATGTTATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATAAGA
* ** * * * *
46289689 GCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATAAGA
* * * * *
46289737 GCCAGTGTAAGACCATGTCTAGAACATGACATCGG-CATTGATAT--GT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-CGATATAAGA
* * * * * * * *
46289783 GCTCTAGTGTAAGACCAAGTCTGGAACGTAGCATCGG-TATTGAGATGAGA
1 GC-C-AGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-CGATATAAGA
* * ** * *** * **
46289833 GCTAGTGTAAGACCATGTCTGGGTCATGGTATCGGCTTGGACATGTGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATAAGA
*
46289881 GCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
46289913 AGCCAGTTCA
Statistics
Matches: 223, Mismatches: 43, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
46 3 0.01
47 2 0.01
48 214 0.96
49 1 0.00
50 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATAAGA
Found at i:46289762 original size:96 final size:94
Alignment explanation
Indices: 46289583--46289912 Score: 304
Period size: 96 Copynumber: 3.4 Consensus size: 94
46289573 GCCATTTGGG
* * * * * * * *
46289583 TGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATAAGATCCAGTG
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-TATGTTGTGAGAGCCAGTG
* *
46289648 TAAGACTATGTTTGGAACATGGCATCGGTGA
65 TAAGACCATGTCTGGAACATGGCATCGGT-A
* * *
46289679 TGTTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTGATGTTGTGAGAGCCAGTG
1 TGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGT-ATGTTGTGAGAGCCAGTG
* * *
46289744 TAAGACCATGTCTAGAACATGACATCGGCA
65 TAAGACCATGTCTGGAACATGGCATCGGTA
** * * * * * * *
46289774 TTGATATGTGCTCTAGTGTAAGACCAAGTCTGGAACGTAGCATCGGTAT-TGAGATGAGAGCTAG
1 -TGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATGT-TG-TGAGAGCCAG
** *
46289838 TGTAAGACCATGTCTGGGTCATGGTATCGGCT-
63 TGTAAGACCATGTCTGGAACATGGCATCGG-TA
* *
46289870 TGGACATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 T-GATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
46289913 AGCCAGTTCA
Statistics
Matches: 187, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
94 1 0.01
95 5 0.03
96 181 0.97
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (94 bp):
TGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATGTTGTGAGAGCCAGTGT
AAGACCATGTCTGGAACATGGCATCGGTA
Found at i:46289861 original size:144 final size:144
Alignment explanation
Indices: 46289593--46289854 Score: 330
Period size: 144 Copynumber: 1.8 Consensus size: 144
46289583 TGATATGTGT
* * * * * *
46289593 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATAAGATCCAGTGTAAGACTATG
1 GCCAGTGTAAGACCATGTCTAGAACATGACATCGGCCACGATATAAGATCCAGTGTAAGACCAAG
* * ** *
46289658 TTTGGAACATGGCATCGGTGATGTTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTG
66 TCTGGAACATAGCATCGGTGATGAGATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATTG
46289723 GTGATGTTGTGAGA
131 GTGATGTTGTGAGA
* ** * *
46289737 GCCAGTGTAAGACCATGTCTAGAACATGACATCGG-CATTGATATGTGCTCTAGTGTAAGACCAA
1 GCCAGTGTAAGACCATGTCTAGAACATGACATCGGCCA-CGATATAAGATCCAGTGTAAGACCAA
* *
46289801 GTCTGGAACGTAGCATCGGT-ATTGAGATGAGAGCTAGTGTAAGACCATGTCTGG
65 GTCTGGAACATAGCATCGGTGA-TGAGATGAGAGCCAGTGTAAGACCATGTCTGG
46289855 GTCATGGTAT
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 3 0.03
144 95 0.97
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (144 bp):
GCCAGTGTAAGACCATGTCTAGAACATGACATCGGCCACGATATAAGATCCAGTGTAAGACCAAG
TCTGGAACATAGCATCGGTGATGAGATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATTG
GTGATGTTGTGAGA
Found at i:46297430 original size:48 final size:47
Alignment explanation
Indices: 46297359--46297785 Score: 326
Period size: 48 Copynumber: 8.9 Consensus size: 47
46297349 GCCATTTGGG
* *
46297359 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCTGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCA
* * *
46297407 TGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CCA
* * * * *
46297455 TGTTATGAGAGCCATTGTAAGACCATGTTTGGAACATGGCATCGGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCA
* * ** * * * * *
46297503 TGTTGTGA-AGCTGGTGAAAGACCAAGTCTGGAACATGGTATCGACA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA
* * *
46297549 TTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCA
* * * **
46297598 -CATTATGTGTA-CTAGTGTAAGACCATGTCTAGGG-CATGATATCGGCCA
1 TGA-TATGAG-AGCCAGTGTAAGACCATGTCT-GGGACATGGCATC-GCCA
* * * *
46297646 -CATTATGAGAGCCAATGTAAGACCATGTCTGGGATATGGCATCGACA
1 TGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA
* * * * *
46297693 TTAAGATGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCC-
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCA
* * * * *
46297741 TCGACATGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCG
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46297786 GTAATTCACC
Statistics
Matches: 311, Mismatches: 54, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.01
47 43 0.14
48 256 0.82
49 10 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA
Found at i:46305907 original size:40 final size:40
Alignment explanation
Indices: 46305852--46306062 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
46305842 ATTTGAATGA
*
46305852 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
46305892 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
46305932 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
46305972 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
46306012 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
46306052 TATCC-GGCTAA
1 TATCCGGGCTAA
46306063 ATTCGAAGAA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:46313708 original size:38 final size:38
Alignment explanation
Indices: 46313657--46313735 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
46313647 GTCATATTCT
46313657 ATGTTTATTTTATGTGAATATGAATGTGTGAAAGTTTC
1 ATGTTTATTTTATGTGAATATGAATGTGTGAAAGTTTC
46313695 ATGTTTATTTTATGTGAATATGAATGTGTGAAAGTTTC
1 ATGTTTATTTTATGTGAATATGAATGTGTGAAAGTTTC
46313733 ATG
1 ATG
46313736 CATTAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.47
Consensus pattern (38 bp):
ATGTTTATTTTATGTGAATATGAATGTGTGAAAGTTTC
Found at i:46314382 original size:10 final size:9
Alignment explanation
Indices: 46314357--46314381 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46314347 CGAATTTTTT
46314357 AAAAAAATA
1 AAAAAAATA
46314366 AAAAAAATA
1 AAAAAAATA
46314375 AAAAAAA
1 AAAAAAA
46314382 AATGTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:46316266 original size:47 final size:47
Alignment explanation
Indices: 46316205--46316505 Score: 494
Period size: 47 Copynumber: 6.4 Consensus size: 47
46316195 CAGCCAAGAC
46316205 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46316252 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46316299 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46316346 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46316393 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
46316440 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
46316487 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46316506 TTTCGAAGGG
Statistics
Matches: 237, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 237 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46316670 original size:37 final size:37
Alignment explanation
Indices: 46316628--46316702 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
46316618 GCTCTAAAGG
* *
46316628 CCCGATGACTACGTGTGG-GAATTTTGTCCGAGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGAGTAAGA
* *
46316665 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGAGTAAGA
46316702 C
1 C
46316703 TTCGTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGAGTAAGA
Found at i:46318527 original size:40 final size:41
Alignment explanation
Indices: 46318468--46318619 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
46318458 CATTTGAATG
* * *
46318468 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
46318508 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
46318548 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
46318588 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
46318620 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:46318631 original size:80 final size:80
Alignment explanation
Indices: 46318468--46318639 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
46318458 CATTTGAATG
* * * * *
46318468 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
46318533 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
46318548 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
46318612 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
46318628 ATATCC-GGCTAA
1 ATATCCGGGCTAA
46318640 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Done.