Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 255 of 284
Found at i:85794871 original size:20 final size:21
Alignment explanation
Indices: 85794836--85794875 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
85794826 AAACACACAA
85794836 TTTAATCTATTTTTAAATAAC
1 TTTAATCTATTTTTAAATAAC
*
85794857 TTTAATTTA-TTTTAAATAA
1 TTTAATCTATTTTTAAATAA
85794876 ATAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATCTATTTTTAAATAAC
Found at i:85799263 original size:21 final size:21
Alignment explanation
Indices: 85799237--85799280 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
85799227 TTTTGAAGTC
85799237 TTTGAAGCACGATCTACCCAT
1 TTTGAAGCACGATCTACCCAT
*
85799258 TTTGAAGCATGATCTACCCAT
1 TTTGAAGCACGATCTACCCAT
85799279 TT
1 TT
85799281 CTAGCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (21 bp):
TTTGAAGCACGATCTACCCAT
Found at i:85801887 original size:12 final size:12
Alignment explanation
Indices: 85801854--85801891 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
85801844 GCCATTCATT
*
85801854 ATTTTTATTTCA
1 ATTTTTATTTTA
*
85801866 ATTTAT-TTTTA
1 ATTTTTATTTTA
85801877 ATTTTTATTTTA
1 ATTTTTATTTTA
85801889 ATT
1 ATT
85801892 ACTAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:85807286 original size:20 final size:19
Alignment explanation
Indices: 85807239--85807286 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
85807229 CTTTGAGTCC
85807239 ATTTATTTTATTATTATTT
1 ATTTATTTTATTATTATTT
*
85807258 TTTTAATTTTAATT-TTAATTT
1 ATTT-ATTTT-ATTATT-ATTT
85807279 ATTTATTT
1 ATTTATTT
85807287 ATTTTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTATTTTATTATTATTT
Found at i:85810431 original size:62 final size:62
Alignment explanation
Indices: 85810334--85810450 Score: 198
Period size: 62 Copynumber: 1.9 Consensus size: 62
85810324 GGAATACGAT
* * *
85810334 TGCTTGGTGAATGTATGAAGATGTATGGATTAAATACTAAGAGATAGTGAATGGTATTCCAC
1 TGCTTGGTGAACGTATGAAGATGTATGGAGTAAATACTAAGAGATAATGAATGGTATTCCAC
*
85810396 TGCTTGGTGAACGTATGAAGATGTATGGAGTAAATACTAGGAGATAATGAATGGT
1 TGCTTGGTGAACGTATGAAGATGTATGGAGTAAATACTAAGAGATAATGAATGGT
85810451 TTAATAACCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (62 bp):
TGCTTGGTGAACGTATGAAGATGTATGGAGTAAATACTAAGAGATAATGAATGGTATTCCAC
Found at i:85812117 original size:50 final size:50
Alignment explanation
Indices: 85811998--85812128 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 50
85811988 GTTATGATGC
* *
85811998 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATTGAAATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGACTACTCAAATCGAGGT
* * * *
85812047 CGACGCCATGTCCCAAACATGGTCTTACACTAG-CT-CTCACATATCTATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGACTACTCA-A-ATCGAGGT
*
85812097 CGATGCCATGTCTCAGACATGGTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
85812129 ACACCTCTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.03
49 32 0.46
50 36 0.51
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGACTACTCAAATCGAGGT
Found at i:85817351 original size:40 final size:40
Alignment explanation
Indices: 85817305--85817528 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
85817295 GCCACTAGCT
* * *
85817305 CAAATGCCTTCGGGACTTTGCCCGGTTATAATAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
85817345 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
85817384 CAAATGCCTTCGGGACTTAGCCCGGACATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
85817424 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *** * *
85817464 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCGCA
85817504 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
85817529 TTATCATCCG
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.24
40 124 0.76
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:85817407 original size:79 final size:80
Alignment explanation
Indices: 85817305--85817489 Score: 273
Period size: 79 Copynumber: 2.3 Consensus size: 80
85817295 GCCACTAGCT
* ** * *
85817305 CAAATGCCTTCGGGACTTTGCCCGGTTATAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGACATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
85817370 -TATAATAACTCACA
66 ATATAATAACTCACA
*
85817384 CAAATGCCTTCGGGACTTAGCCCGGACATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGACATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* * *
85817449 ATATAGTAGCTCGCA
66 ATATAATAACTCACA
*
85817464 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85817490 ATTAGCCACT
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 59 0.62
80 36 0.38
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGACATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCACA
Found at i:85817517 original size:80 final size:78
Alignment explanation
Indices: 85817305--85817529 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
85817295 GCCACTAGCT
* ** * *
85817305 CAAATGCCTTCGGGACTTTGCCCGGTTATAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGACAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
85817370 TATAATAACTCACA
65 TATAATAACTCACA
* *
85817384 CAAATGCCTTCGGGACTTAGCCCGGACATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGACAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
85817449 ATATAGTAGCTCGCA
65 -TATAATAACTCACA
* *
85817464 CGAATGCCTTCGGGACTTAGCCCGGA-AT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGACATATAG---CTAGCACAAATGCCT-TCGGGACTTAGCC
85817526 CGGT
62 CGGT
85817530 TATCATCCGA
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
77 3 0.02
79 64 0.50
80 61 0.48
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGACATATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCACA
Found at i:85823141 original size:50 final size:46
Alignment explanation
Indices: 85823079--85823252 Score: 163
Period size: 48 Copynumber: 3.6 Consensus size: 46
85823069 AATTGAGGCT
* * *
85823079 GATGCTATGTCCCAGACATGGTCTTACAC-CAGCTCTCACATATTCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACACAG-T-T---ATATACGTGCC
85823129 GATGCCATGTCCCAGACATGGTCTTACACTGACAGTTATATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC--ACAGTTATATACGTGCC
* * *
85823177 GATGCCATGTCCTAGACATGGTCTTACACTGAAACCTT-TATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC--ACA-GTTATATACGTGCC
* **
85823225 AATGCTGTGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
85823253 TTGACACGTC
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
48 75 0.68
49 2 0.02
50 28 0.25
51 1 0.01
52 1 0.01
53 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACACAGTTATATACGTGCC
Found at i:85823199 original size:48 final size:48
Alignment explanation
Indices: 85823123--85823299 Score: 213
Period size: 48 Copynumber: 3.8 Consensus size: 48
85823113 CTCACATATT
*
85823123 CGTGTCGATGCCATGTCCCAGACATGGTCTTACACTGACA-GTTATATA
1 CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTT-TATA
* * *
85823171 CGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGAAACCTTTATA
1 CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTTTATA
* ** * *
85823219 CGTGCCAATGCTGTGTCCCAGACATGGTCTTACATTGACACG--TCT-
1 CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTTTATA
85823264 CGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
85823300 GCTCTCATAA
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
44 10 0.09
45 15 0.14
46 8 0.07
48 76 0.68
49 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTTTATA
Found at i:85825400 original size:30 final size:30
Alignment explanation
Indices: 85825318--85825405 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
85825308 TATGGCCATG
* * *
85825318 ACACACGGGCGTGTGGCTTGCCCATGCGTC
1 ACACACGGGCGTGTGGCTTACCCGTGTGTC
*
85825348 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCGTGTGGCTTACCCGTGTGTC
*
85825378 ACACACGGGCGTGTGGTTTACCCGTGTG
1 ACACACGGGCGTGTGGCTTACCCGTGTG
85825406 AAAATACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCTTACCCGTGTGTC
Found at i:85826813 original size:52 final size:51
Alignment explanation
Indices: 85826684--85826815 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
85826674 ATGTGTTCTG
* * * *
85826684 CATTTAATAAAGTCACGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* *
85826735 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
85826786 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
85826816 ATTTGTGCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.46
51 14 0.20
52 24 0.34
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:85828398 original size:52 final size:52
Alignment explanation
Indices: 85828334--85828465 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 52
85828324 ATCAAAAAAT
*
85828334 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATG-G
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGAG
* * *
85828386 GAGTTACATAATGTATGTCATAATTT-ATGATGCAAACTTAACTAACATGAG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAG
* *
85828437 G-GTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
85828466 CAGAACAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 31 0.45
51 16 0.23
52 22 0.32
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGAG
Found at i:85832908 original size:20 final size:20
Alignment explanation
Indices: 85832885--85832935 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
85832875 AATTTGAAAA
85832885 AAAAAAGAAATTTGAAGTTG
1 AAAAAAGAAATTTGAAGTTG
*
85832905 AAAAAAGAATTTTGAAGTTG
1 AAAAAAGAAATTTGAAGTTG
85832925 AAAAAA-AAATT
1 AAAAAAGAAATT
85832936 GAAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (20 bp):
AAAAAAGAAATTTGAAGTTG
Found at i:85835757 original size:50 final size:52
Alignment explanation
Indices: 85835701--85835819 Score: 172
Period size: 50 Copynumber: 2.3 Consensus size: 52
85835691 TTAATAAATT
* *
85835701 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATA-A
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCACCATTAAATTA-AGA
*
85835751 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCACCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCACCATTAAATTAAGA
*
85835803 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
85835820 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
50 27 0.44
51 12 0.19
52 23 0.37
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCACCATTAAATTAAGA
Found at i:85853963 original size:21 final size:21
Alignment explanation
Indices: 85853914--85853956 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
85853904 AGTTACTTTG
85853914 TGAAATTGTTGTATCTTAAAT
1 TGAAATTGTTGTATCTTAAAT
85853935 TGAAATTGTTGTATCTTAAAT
1 TGAAATTGTTGTATCTTAAAT
85853956 T
1 T
85853957 ATCATTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TGAAATTGTTGTATCTTAAAT
Found at i:85857941 original size:16 final size:17
Alignment explanation
Indices: 85857920--85857987 Score: 59
Period size: 16 Copynumber: 4.0 Consensus size: 17
85857910 ACAATTAAAC
85857920 AACATT-TAACATACAT
1 AACATTCTAACATACAT
* * *
85857936 AACATTCTTACAATTAAAC
1 AACATTCTAAC-A-TACAT
*
85857955 AGCATT-TAACATACAT
1 AACATTCTAACATACAT
*
85857971 AACATTCTTACATACAT
1 AACATTCTAACATACAT
85857988 TCATCATTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
16 14 0.36
17 13 0.33
18 4 0.10
19 8 0.21
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (17 bp):
AACATTCTAACATACAT
Found at i:85857961 original size:35 final size:35
Alignment explanation
Indices: 85857910--85857982 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
85857900 GACTTACAAA
85857910 ACAATTAAACAACATTTAACATACATAACATTCTT
1 ACAATTAAACAACATTTAACATACATAACATTCTT
*
85857945 ACAATTAAACAGCATTTAACATACATAACATTCTT
1 ACAATTAAACAACATTTAACATACATAACATTCTT
85857980 ACA
1 ACA
85857983 TACATTCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (35 bp):
ACAATTAAACAACATTTAACATACATAACATTCTT
Found at i:85857985 original size:17 final size:17
Alignment explanation
Indices: 85857928--85857987 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
85857918 ACAACATTTA
85857928 ACATACATAACATTCTT
1 ACATACATAACATTCTT
* * * *
85857945 ACAATTAAACAGCATT-TA
1 AC-A-TACATAACATTCTT
85857963 ACATACATAACATTCTT
1 ACATACATAACATTCTT
85857980 ACATACAT
1 ACATACAT
85857988 TCATCATTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 8 0.25
17 12 0.38
18 4 0.12
19 8 0.25
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.32
Consensus pattern (17 bp):
ACATACATAACATTCTT
Found at i:85859415 original size:41 final size:42
Alignment explanation
Indices: 85859341--85859419 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
85859331 AATACTCGAT
*
85859341 ATCTCGCACACTAACTGCCAATACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAACTGCCAATACATAGACGAAGCTATTATA
* * *
85859383 ATCTTGCACACTAAGTGCC-TTACATAGACGAAGCTAT
1 ATCTCGCACACTAACTGCCAATACATAGACGAAGCTAT
85859420 CTCGGTCTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 16 0.48
42 17 0.52
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (42 bp):
ATCTCGCACACTAACTGCCAATACATAGACGAAGCTATTATA
Found at i:85859433 original size:41 final size:40
Alignment explanation
Indices: 85859341--85859525 Score: 169
Period size: 41 Copynumber: 4.5 Consensus size: 40
85859331 AATACTCGAT
* **
85859341 ATCTCGCACACTAACTGCCAATACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTATT-CG
* * *
85859383 ATCTTGCACACTAAGTGCCTTACATAGACGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCG
* * * *
85859424 GTCTCGCACACTAAGTACCATATATAGCCGAAGTTATTCCG
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATT-CG
* * * *
85859465 A-ATCGCACACTAAATGCCATATATAGCCAAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCG
85859505 AAT-T-GCACACTAAGTGCCATA
1 -ATCTCGCACACTAAGTGCCATA
85859526 TATATATATC
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 49 0.42
41 51 0.43
42 18 0.15
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATTCG
Found at i:85859485 original size:40 final size:40
Alignment explanation
Indices: 85859344--85859529 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
85859334 ACTCGATATC
* * **
85859344 TCGCACACTAACTGCCAATACATAGCCGAAGCTATT-ATAA
1 TCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTCCGAA
* * * * **
85859384 TCTTGCACACTAAGTGCCTTACATAGACGAAGCTATCTCGGTC
1 TC--GCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAA
* *
85859427 TCGCACACTAAGTACCATATATAGCCGAAGTTATTCCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAA
* *
85859467 TCGCACACTAAATGCCATATATAGCCAAAGCTA-TCTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTC-CGAA
*
85859507 TTGCACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
85859530 TATATCCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 59 0.49
41 43 0.36
42 14 0.12
43 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAA
Found at i:85859498 original size:81 final size:82
Alignment explanation
Indices: 85859335--85859529 Score: 218
Period size: 81 Copynumber: 2.4 Consensus size: 82
85859325 CTGTCGAATA
* * * *
85859335 CTCGATATCTCGCACACTAACTGCCAATACATAGCCGAAGCTATTATAATCTTGCACACTAAGTG
1 CTCGA-ATCTCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTAGAATC-TGCACACTAAATG
* *
85859400 CCTTACATAGACGAAGCTAT
63 CCATACATAGACAAAGCTAT
* * * *
85859420 CTCG-GTCTCGCACACTAAGTACCATATATAGCCGAAGTTATTCCGAATC-GCACACTAAATGCC
1 CTCGAATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATT-AGAATCTGCACACTAAATGCC
* *
85859483 ATATATAGCCAAAGCTAT
65 ATACATAGACAAAGCTAT
85859501 CTCGAAT-T-GCACACTAAGTGCCATATATA
1 CTCGAATCTCGCACACTAAGTGCCATATATA
85859530 TATATCCGAA
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
80 20 0.21
81 32 0.34
82 18 0.19
83 20 0.21
85 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (82 bp):
CTCGAATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTAGAATCTGCACACTAAATGCCA
TACATAGACAAAGCTAT
Found at i:85859767 original size:29 final size:30
Alignment explanation
Indices: 85859725--85859781 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
85859715 TATCTTGATT
85859725 TAAATATAAT-AAAAAATAACTTATTTATC
1 TAAATATAATAAAAAAATAACTTATTTATC
85859754 TAAATATAATAAAAAAATAACTTATTTA
1 TAAATATAATAAAAAAATAACTTATTTA
85859782 ATCATCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
TAAATATAATAAAAAAATAACTTATTTATC
Found at i:85863489 original size:87 final size:87
Alignment explanation
Indices: 85863343--85863517 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
85863333 TGAGTAGTAG
85863343 AAGCAGGAAATGGTAATTTATGAGATTTTCCTTTTTGACAGACAGTACATATAGACCCAAGAACA
1 AAGCAGGAAATGGTAATTTATGAGATTTTCCTTTTTGACAGACAGTACATATAGACCCAAGAACA
85863408 TCCTTATTAGAAACAACATGAT
66 TCCTTATTAGAAACAACATGAT
85863430 AAGCAGGAAATGGTAATTTATGAGATTTTCCTTTTTGACAGACAGTACATATAGACCCAAGAACA
1 AAGCAGGAAATGGTAATTTATGAGATTTTCCTTTTTGACAGACAGTACATATAGACCCAAGAACA
85863495 TCCTTATTAGAAACAACATGAT
66 TCCTTATTAGAAACAACATGAT
85863517 A
1 A
85863518 TTTATGTAAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (87 bp):
AAGCAGGAAATGGTAATTTATGAGATTTTCCTTTTTGACAGACAGTACATATAGACCCAAGAACA
TCCTTATTAGAAACAACATGAT
Found at i:85863627 original size:27 final size:27
Alignment explanation
Indices: 85863589--85863644 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
85863579 TCAAAAACTT
85863589 TATTGTCCATAGAATCCGAATTAACAC
1 TATTGTCCATAGAATCCGAATTAACAC
85863616 TATTGTCCATAGAATCCGAATTAACAC
1 TATTGTCCATAGAATCCGAATTAACAC
85863643 TA
1 TA
85863645 GTGTGATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
TATTGTCCATAGAATCCGAATTAACAC
Found at i:85864596 original size:57 final size:57
Alignment explanation
Indices: 85864494--85864607 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
85864484 TTTTTGTTTT
** * * * * *
85864494 TGCCAAAATCTGATGACGGCACTTGAGGTGCCAATTGCGGCTAGTAACCACCGCCAC
1 TGCCAAAATCTGATGACGGCACTTGAGGCACAAACTACGACTAGTAACCACCACCAC
* *
85864551 TGCCAAAATTTGATGACGGCACTTGAGGCACAAACTACGATTAGTAACCACCACCAC
1 TGCCAAAATCTGATGACGGCACTTGAGGCACAAACTACGACTAGTAACCACCACCAC
85864608 GCACTACACC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (57 bp):
TGCCAAAATCTGATGACGGCACTTGAGGCACAAACTACGACTAGTAACCACCACCAC
Found at i:85872205 original size:21 final size:22
Alignment explanation
Indices: 85872159--85872206 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
85872149 TAAATACACT
**
85872159 TTTAATTTTTTTCAGAATTATT
1 TTTAATTTTTTTCAGAATTACA
*
85872181 TTTAATTTTTTT-ATAATTACA
1 TTTAATTTTTTTCAGAATTACA
85872202 TTTAA
1 TTTAA
85872207 AATTAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTAATTTTTTTCAGAATTACA
Found at i:85874385 original size:2 final size:2
Alignment explanation
Indices: 85874374--85874411 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
85874364 TCATTTCATT
* *
85874374 TA TA -A TA TA TA TA TA CA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85874412 GTGCATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:85874447 original size:181 final size:179
Alignment explanation
Indices: 85874237--85874594 Score: 626
Period size: 181 Copynumber: 2.0 Consensus size: 179
85874227 CTTGGGCAAA
* *
85874237 ATTTTAAGCCTTTTTTAGGCCCGGCCCGGCCCGAGCCCAATAAATGGGCCTAAATTTTTAGTTGA
1 ATTTTAAGCCTTTTTTAGGCCCGGCCCGGCCCGAGCCCAATAAATGAGCCTAAATTTTTAATTGA
* *
85874302 GCTCGACCCGAACCCGGCCCGACCCGGCCTATGATCACCTCTATTAACAAGAAGATGTAAAATCA
66 GCTCGACCCGAACCCGACCCGACCCGACCTATGATCACCTCTATTAACAAGAAGATGTAAAATCA
85874367 TTTCATTTATAATATATATATACATATATATATGTATATATATATGTGC
131 TTTCATTTATAATATATATATACATATATATATGTATATATATATGTGC
*
85874416 ATTTTAAGCCTATTTTTTAGGCCCGGCCCGGCCCGAGCTCAATAAATGAGCCTAAATTTTTAATT
1 ATTTTAAGCC--TTTTTTAGGCCCGGCCCGGCCCGAGCCCAATAAATGAGCCTAAATTTTTAATT
*
85874481 GAGCTCGACCCGAACCCGACCCGACCCGACTTATGATCACCTCTATTAACAAGAAGATGTAAAAT
64 GAGCTCGACCCGAACCCGACCCGACCCGACCTATGATCACCTCTATTAACAAGAAGATGTAAAAT
* *
85874546 CATTTCATTTATAATATATATATACATATATATATGTGTATATTTATGT
129 CATTTCATTTATAATATATATATACATATATATATGTATATATATATGT
85874595 ATATATACAT
Statistics
Matches: 169, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
179 10 0.06
181 159 0.94
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (179 bp):
ATTTTAAGCCTTTTTTAGGCCCGGCCCGGCCCGAGCCCAATAAATGAGCCTAAATTTTTAATTGA
GCTCGACCCGAACCCGACCCGACCCGACCTATGATCACCTCTATTAACAAGAAGATGTAAAATCA
TTTCATTTATAATATATATATACATATATATATGTATATATATATGTGC
Found at i:85874566 original size:2 final size:2
Alignment explanation
Indices: 85874555--85874632 Score: 86
Period size: 2 Copynumber: 39.5 Consensus size: 2
85874545 TCATTTCATT
* * * * *
85874555 TA TA -A TA TA TA TA TA CA TA TA TA TA TG TG TA TA TT TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
85874596 TA TA TA CA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85874633 GTGCAGCCTC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85882981 original size:19 final size:19
Alignment explanation
Indices: 85882957--85882998 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85882947 TGACTTTGTC
* *
85882957 CCAAGCTATGATTTTCGCT
1 CCAAGCTATGATTGTCACT
*
85882976 CCAAGCTGTGATTGTCACT
1 CCAAGCTATGATTGTCACT
85882995 CCAA
1 CCAA
85882999 CAGTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (19 bp):
CCAAGCTATGATTGTCACT
Found at i:85890831 original size:13 final size:13
Alignment explanation
Indices: 85890813--85890838 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85890803 TTTGGAAGAA
85890813 ACTTCACAAAGCT
1 ACTTCACAAAGCT
85890826 ACTTCACAAAGCT
1 ACTTCACAAAGCT
85890839 CTGGGTTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
ACTTCACAAAGCT
Found at i:85904111 original size:597 final size:583
Alignment explanation
Indices: 85902971--85904156 Score: 1470
Period size: 597 Copynumber: 2.0 Consensus size: 583
85902961 CTGACCGCCT
* * * * *
85902971 ATAAATGTGTTATCGTTTATAGTATAAGTAGCTCACCAAAAATATATAAAATTAAATCGACGGTT
1 ATAAATGTGTTATCGTTTACAGTATAAATAGCACACAAAAAATATATAAAATTAAATCGACGGTG
** **
85903036 TCCGCAAGCGTACAGGTCAAATTGTAATATAATATGTGTTACAACGGAACACCGGTAAGTATTCA
66 TCCGCAAGCGTACAGGAAAAATTGTAATATAATATGTGTTACAACGGAACACCAATAAGTATTCA
* * *
85903101 GAGGATCGTACTCAAGAGAATGTAGATTAAAGAAATTAATGTTATATTAATTACAGACAATAATT
131 GAGGATCGTACTCAAGAGAATGTAGATTAAAGAAATTAATATTAAATTAATTACAGAAAATAATT
*
85903166 AATATACTAGTCGAGTCACAATTTAGTAGTGTGAATCCAAATTAATAATTTAATTAAACGAATTA
196 AATATACTAGTCGAGTCACAAATTAGTAGTGTGAATCCAAATTAAT-ATTTAATTAAACGAATTA
* * * *
85903231 AATTAACTATCTTAAATTAATCTAATGGACTTTCCTATTTCTAGTGCTGACAACATGACTCTTTA
260 AATTAACTATCCTAAATTAACCTAATGGACTTTCCTATTCCTAGTGCTAACAACATGACTCTTTA
* *
85903296 ATTGATTAAATCCCTAATTATCTAATTAAATAATTAATTATCCTAAATTAAGTTCTTTATCACCC
325 ATCGATTAAATCCCTAATTATCTAATTAAATAATTAATTATCCTAAATTAAGTTATTTATCACCC
* * * *
85903361 TTAGACTACCCTCCCGATTCATCTTCACTAAAGATTACCACCTAAGTCACCCTTTCGGTCTTTTC
390 TTAGACTACCCTCCCGATTCATCTTCACTAAAGATTACCACCAAAGGCACCCTTTCGATCTCTTC
* * *
85903426 CTAGGCATACGGATACCCTTCTGGTCTCACCACATGGCACAAGTTATACACCATAGGATACCTTT
455 CTAGGCATACGGATACCCTTCTGGTCTCACCACATAGCACAAGTTATACACCACAGGATACCCTT
* * * * * *
85903491 TCAGTCTCACTTGTCTTGATATTCTATCAGGGGCGTCACTATCTAATATACTAAGTACTCTTGA
520 CCAGTCTCACCTATCTCGATATTCTATCAGGGGCATCACTATCTAATATACTAAGTACTATTGA
* **
85903555 ATAAATGTGTTATCGTTTACAGTATAAATAGCACACAAAAAATATATAAAATTAAATTGGTGGTG
1 ATAAATGTGTTATCGTTTACAGTATAAATAGCACACAAAAAATATATAAAATTAAATCGACGGTG
* * * * *
85903620 TCTGCAAGCGTACAGGAAAAATTGTAATATAGTATTTTGTTACAATGGATA-ACTAATAAGTATT
66 TCCGCAAGCGTACAGGAAAAATTGTAATATAATA-TGTGTTACAACGGA-ACACCAATAAGTATT
* * * * *
85903684 CTGAGGATCGTA-TCCGAAGGGATTGCTA-ATTAGAGAAATTAATATTAAATTAATTAGAGAAAA
129 CAGAGGATCGTACT-C-AAGAGAATG-TAGATTAAAGAAATTAATATTAAATTAATTACAGAAAA
* * *
85903747 TAATTACTA-ATCTAGTTGAGTCACAAATTAGTGGTGTGAATCCAAATTAAT-TTTCAATTAAAC
191 TAATTAATATA-CTAGTCGAGTCACAAATTAGTAGTGTGAATCCAAATTAATATTT-AATTAAAC
* **
85903810 TAATTAAATTAACTATCCTAAATTAACCTAATGGACTTTCCTATTCCTAGTG-TCAACAATGTGA
254 GAATTAAATTAACTATCCTAAATTAACCTAATGGACTTTCCTATTCCTAGTGCT-AACAACATGA
* * *
85903874 GCCTCTAGCCTATGATCGATTGAATCCCTAATTATCTAATTAAATAATTAATTATCCTAAATTGA
318 --CTCT----T-TAATCGATTAAATCCCTAATTATCTAATTAAATAATTAATTATCCTAAATTAA
* * *** * * *
85903939 GTTATTTATCATCCTTAGTTAAGACTGCCCTTTTGGTTCATCTTCGCTAAGGATTACCACCAAAG
376 GTTATTTATCA-CC---CTT-AGACTACCCTCCCGATTCATCTTCACTAAAGATTACCACCAAAG
* * ** *
85904004 GCACCCTTTTGATCTCTTCCTAGGCATACGGATACCCTT-TCGGTCTCACTATTTAGCACATGTT
436 GCACCCTTTCGATCTCTTCCTAGGCATACGGATACCCTTCT-GGTCTCACCACATAGCACAAGTT
** *
85904068 ATACATGACAGGATACCCTTCC-GATCTCACCTATCTCGATATTCTATTAGGGGCATCACTATCT
500 ATACACCACAGGATACCCTTCCAG-TCTCACCTATCTCGATATTCTATCAGGGGCATCACTATCT
*
85904132 AATATACTAAGTATTATTGA
564 AATATACTAAGTACTATTGA
85904152 ATAAA
1 ATAAA
85904157 CGACCAGTTT
Statistics
Matches: 509, Mismatches: 71, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
584 92 0.18
585 98 0.19
586 83 0.16
587 6 0.01
591 1 0.00
592 59 0.12
593 2 0.00
596 4 0.01
597 164 0.32
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (583 bp):
ATAAATGTGTTATCGTTTACAGTATAAATAGCACACAAAAAATATATAAAATTAAATCGACGGTG
TCCGCAAGCGTACAGGAAAAATTGTAATATAATATGTGTTACAACGGAACACCAATAAGTATTCA
GAGGATCGTACTCAAGAGAATGTAGATTAAAGAAATTAATATTAAATTAATTACAGAAAATAATT
AATATACTAGTCGAGTCACAAATTAGTAGTGTGAATCCAAATTAATATTTAATTAAACGAATTAA
ATTAACTATCCTAAATTAACCTAATGGACTTTCCTATTCCTAGTGCTAACAACATGACTCTTTAA
TCGATTAAATCCCTAATTATCTAATTAAATAATTAATTATCCTAAATTAAGTTATTTATCACCCT
TAGACTACCCTCCCGATTCATCTTCACTAAAGATTACCACCAAAGGCACCCTTTCGATCTCTTCC
TAGGCATACGGATACCCTTCTGGTCTCACCACATAGCACAAGTTATACACCACAGGATACCCTTC
CAGTCTCACCTATCTCGATATTCTATCAGGGGCATCACTATCTAATATACTAAGTACTATTGA
Found at i:85905571 original size:40 final size:40
Alignment explanation
Indices: 85905526--85905605 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
85905516 TATACTAGTC
85905526 ATACTGCACCATTTCAATAACCATGAATTTTACTAAGTAT
1 ATACTGCACCATTTCAATAACCATGAATTTTACTAAGTAT
85905566 ATACTGCACCATTTCAATAACCATGAATTTTACTAAGTAT
1 ATACTGCACCATTTCAATAACCATGAATTTTACTAAGTAT
85905606 TTTCTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (40 bp):
ATACTGCACCATTTCAATAACCATGAATTTTACTAAGTAT
Found at i:85911460 original size:16 final size:16
Alignment explanation
Indices: 85911434--85911472 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
85911424 AACATTAATT
*
85911434 AATCTAATTAACCTAAA
1 AATC-AATTAAACTAAA
85911451 AATCAATTAAACTAAA
1 AATCAATTAAACTAAA
85911467 AATCAA
1 AATCAA
85911473 CCAATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AATCAATTAAACTAAA
Found at i:85914855 original size:38 final size:38
Alignment explanation
Indices: 85914807--85914883 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
85914797 TGAGTTCGAA
**
85914807 TCCCTACGTTAGCAAGTGAATGTTATTTTTGGTTCGGT
1 TCCCTACGTTAGCAAAAGAATGTTATTTTTGGTTCGGT
*
85914845 TCCCTGCGTTAGCAAAAGAATGTTATTTTTGGTTCGGT
1 TCCCTACGTTAGCAAAAGAATGTTATTTTTGGTTCGGT
85914883 T
1 T
85914884 GTCAGATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (38 bp):
TCCCTACGTTAGCAAAAGAATGTTATTTTTGGTTCGGT
Found at i:85915698 original size:13 final size:13
Alignment explanation
Indices: 85915682--85915720 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
85915672 GTGTGTCAGC
85915682 CCACACGGGCATG
1 CCACACGGGCATG
**
85915695 CCACACGGGCAAC
1 CCACACGGGCATG
85915708 CCACACGGGCATG
1 CCACACGGGCATG
85915721 TGGGCCCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.41, G:0.28, T:0.05
Consensus pattern (13 bp):
CCACACGGGCATG
Found at i:85927632 original size:21 final size:21
Alignment explanation
Indices: 85927569--85927633 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
85927559 AAATAACATT
*
85927569 AATATGAGTATTATGAAATAC
1 AATATGAGTATTATAAAATAC
* * *
85927590 AGTAT-A-TA-AATAAAAT-T
1 AATATGAGTATTATAAAATAC
*
85927607 AATATGAGTATTATCAAATAC
1 AATATGAGTATTATAAAATAC
85927628 AATATG
1 AATATG
85927634 TATGATCTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 4 0.12
18 7 0.22
19 4 0.12
20 7 0.22
21 10 0.31
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.34
Consensus pattern (21 bp):
AATATGAGTATTATAAAATAC
Found at i:85928252 original size:18 final size:18
Alignment explanation
Indices: 85928231--85928270 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
85928221 TCTCCAGACT
85928231 TTTTGGAATTGT-TTTTGG
1 TTTTGG-ATTGTATTTTGG
*
85928249 TTTTGGATTTTATTTTGG
1 TTTTGGATTGTATTTTGG
85928267 TTTT
1 TTTT
85928271 CTAAGCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.68
Consensus pattern (18 bp):
TTTTGGATTGTATTTTGG
Found at i:85928320 original size:14 final size:15
Alignment explanation
Indices: 85928303--85928336 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
85928293 CGGTTTTCTG
85928303 AAAATAAC-TTTTCA
1 AAAATAACATTTTCA
85928317 AAAATAACGATTTTCA
1 AAAATAAC-ATTTTCA
85928333 AAAA
1 AAAA
85928337 ATAATTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATAACATTTTCA
Found at i:85928521 original size:29 final size:30
Alignment explanation
Indices: 85928479--85928539 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
85928469 ATACTAAGTA
85928479 AAAACGGTTACGATGATTTGCGAAT-AATG
1 AAAACGGTTACGATGATTTGCGAATAAATG
85928508 AAAACGGTTACGATGATTTGCGAATAAATG
1 AAAACGGTTACGATGATTTGCGAATAAATG
85928538 AA
1 AA
85928540 GAAGCTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (30 bp):
AAAACGGTTACGATGATTTGCGAATAAATG
Found at i:85928831 original size:47 final size:47
Alignment explanation
Indices: 85928762--85928855 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
85928752 ATGGAAAACC
*
85928762 AATATTACTAAGCAAAGAGCAAACTTTAAAAAAGCTCTTACTAAGCT
1 AATATTACTAAGCAAAGAGCAAACTTTAAAAAAGCTCATACTAAGCT
85928809 AATATTACTAAGCAAAGAGCAAACTTTAAAAAAGCTCATACTAAGCT
1 AATATTACTAAGCAAAGAGCAAACTTTAAAAAAGCTCATACTAAGCT
85928856 TTCACAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (47 bp):
AATATTACTAAGCAAAGAGCAAACTTTAAAAAAGCTCATACTAAGCT
Found at i:85929893 original size:43 final size:45
Alignment explanation
Indices: 85929808--85929895 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 45
85929798 AAAAAACGCT
*
85929808 ACCAAGAAACAAAAAATAAAAGAGGAAGCAATGTGGAAGCAACCATA
1 ACCAAGAAACAAAAAATAAAAGAAGAAG--ATGTGGAAGCAACCATA
*
85929855 ACCAAGAAACAACAAA-AAAAGAAGAAG-TGTGGAAGCAACCA
1 ACCAAGAAACAAAAAATAAAAGAAGAAGATGTGGAAGCAACCA
85929896 CAACTGGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 14 0.36
46 10 0.26
47 15 0.38
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.07
Consensus pattern (45 bp):
ACCAAGAAACAAAAAATAAAAGAAGAAGATGTGGAAGCAACCATA
Found at i:85930836 original size:26 final size:26
Alignment explanation
Indices: 85930802--85930854 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
85930792 AAGTTTACAT
85930802 AAAAAATATGTCTTTCAATCTTATAA
1 AAAAAATATGTCTTTCAATCTTATAA
85930828 AAAAAATATGTCTTTCAATCTTATAA
1 AAAAAATATGTCTTTCAATCTTATAA
85930854 A
1 A
85930855 TAACTTATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (26 bp):
AAAAAATATGTCTTTCAATCTTATAA
Found at i:85932271 original size:80 final size:78
Alignment explanation
Indices: 85932152--85932309 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 78
85932142 TGGGCGAAAG
*
85932152 TAAAATGCTTGGCCCTTATAAAATAGAGTAATGACACTTTTAACCCT-TCAATAATTAATAATTT
1 TAAAATGCTTGCCCCTTATAAAATAGAGTAATGACACTTTTAACCCTCT-AATAATTAATAATTT
85932216 AATTTAATTTGCAAT
65 AATTTAATTT-CAAT
** *
85932231 TAAAAGTGCTTGCCCCTTATAAAATAGAGTAATGGTACTTTTAATCCTCTAATAATTAATAATTT
1 TAAAA-TGCTTGCCCCTTATAAAATAGAGTAATGACACTTTTAACCCTCTAATAATTAATAATTT
*
85932296 AATTTGATTTCAAT
65 AATTTAATTTCAAT
85932310 CTAACTCTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 9 0.12
80 62 0.86
81 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (78 bp):
TAAAATGCTTGCCCCTTATAAAATAGAGTAATGACACTTTTAACCCTCTAATAATTAATAATTTA
ATTTAATTTCAAT
Found at i:85934643 original size:12 final size:12
Alignment explanation
Indices: 85934626--85934657 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
85934616 AAAGACTTCA
85934626 GAAGCCTTGGTT
1 GAAGCCTTGGTT
85934638 GAAGCCTTGGTT
1 GAAGCCTTGGTT
85934650 GAAGCCTT
1 GAAGCCTT
85934658 AAATTTGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (12 bp):
GAAGCCTTGGTT
Found at i:85935853 original size:22 final size:22
Alignment explanation
Indices: 85935825--85935868 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
85935815 TCAGCACACA
85935825 TACATTTCATATGTCATGGCTG
1 TACATTTCATATGTCATGGCTG
85935847 TACATTTCATATGTCATGGCTG
1 TACATTTCATATGTCATGGCTG
85935869 GATAGGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (22 bp):
TACATTTCATATGTCATGGCTG
Found at i:85940382 original size:18 final size:17
Alignment explanation
Indices: 85940345--85940379 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
85940335 ATTTACACAA
*
85940345 TAAAAATAATTTCAAAT
1 TAAAAAAAATTTCAAAT
*
85940362 TAAAAAAAATTTTAAAT
1 TAAAAAAAATTTCAAAT
85940379 T
1 T
85940380 TAACATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAAAAATTTCAAAT
Found at i:85945836 original size:34 final size:34
Alignment explanation
Indices: 85945798--85945865 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
85945788 GAAGAAAATG
*
85945798 AAAGAAAAAAGGGTGTAATATATTAAAAGTTTAA
1 AAAGAAAAAAGGGTATAATATATTAAAAGTTTAA
*
85945832 AAAGAAAAAAGGGTATAATATCTTAAAAGTTTAA
1 AAAGAAAAAAGGGTATAATATATTAAAAGTTTAA
85945866 CACTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.56, C:0.01, G:0.16, T:0.26
Consensus pattern (34 bp):
AAAGAAAAAAGGGTATAATATATTAAAAGTTTAA
Found at i:85953347 original size:28 final size:28
Alignment explanation
Indices: 85953307--85953362 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
85953297 CCACATTGGG
85953307 GTCACCGATATTTGCAAGCTAGGTTCCT
1 GTCACCGATATTTGCAAGCTAGGTTCCT
85953335 GTCACCGATATTTGCAAGCTAGGTTCCT
1 GTCACCGATATTTGCAAGCTAGGTTCCT
85953363 TCTTGGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
GTCACCGATATTTGCAAGCTAGGTTCCT
Found at i:85955325 original size:22 final size:23
Alignment explanation
Indices: 85955291--85955335 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
85955281 ATCTTCCGCC
85955291 TATTAAAGAAAAAAAT-ACAAAA
1 TATTAAAGAAAAAAATAACAAAA
** *
85955313 TATTAAATTAAAATATAACAAAA
1 TATTAAAGAAAAAAATAACAAAA
85955336 AAAACTATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
TATTAAAGAAAAAAATAACAAAA
Found at i:85956296 original size:26 final size:26
Alignment explanation
Indices: 85956247--85956297 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
85956237 GGCGCAACTC
* *
85956247 TTTTTTATATTAAAATATATTTTTTG
1 TTTTTTATAATAAAATATAATTTTTG
85956273 TTTTTTA-AATAAAATATTAATTTTT
1 TTTTTTATAATAAAATA-TAATTTTT
85956298 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTTATAATAAAATATAATTTTTG
Found at i:85956934 original size:21 final size:21
Alignment explanation
Indices: 85956897--85956936 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85956887 TGACAAATGC
*
85956897 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
85956918 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
85956937 TACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:85957197 original size:27 final size:27
Alignment explanation
Indices: 85957159--85957236 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
85957149 ATCCCACCAT
85957159 TTGCGCCTCTGAGATAGGCACAATTAG
1 TTGCGCCTCTGAGATAGGCACAATTAG
* * *
85957186 TTGCGCCTCTGAGAAAGGCTCAACTAG
1 TTGCGCCTCTGAGATAGGCACAATTAG
* * * *
85957213 TCGCACCTCTAAAATAGGCACAAT
1 TTGCGCCTCTGAGATAGGCACAAT
85957237 AAAAAAAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (27 bp):
TTGCGCCTCTGAGATAGGCACAATTAG
Found at i:85957257 original size:18 final size:19
Alignment explanation
Indices: 85957235--85957283 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
85957225 AATAGGCACA
85957235 ATAAAAAAAATATTTTAAT
1 ATAAAAAAAATATTTTAAT
* *
85957254 -TAAAAAATATTTTTTAAT
1 ATAAAAAAAATATTTTAAT
85957272 ATAAAAAAAATA
1 ATAAAAAAAATA
85957284 CACCTGTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAAAAAATATTTTAAT
Found at i:85958028 original size:15 final size:15
Alignment explanation
Indices: 85957981--85958031 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
85957971 TTTGCTCTTA
85957981 TTATATTTTAATTAT
1 TTATATTTTAATTAT
*
85957996 TTAT-TTTTAA-AAT
1 TTATATTTTAATTAT
85958009 ATTATATTTTAATTAT
1 -TTATATTTTAATTAT
85958025 TTATATT
1 TTATATT
85958032 ATTATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 2 0.06
14 10 0.32
15 17 0.55
16 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:85958030 original size:20 final size:20
Alignment explanation
Indices: 85958007--85958044 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85957997 TATTTTTAAA
85958007 ATATTA-TATTTTAATTATTT
1 ATATTATTATTTT-ATTATTT
85958027 ATATTATTATTTTATTAT
1 ATATTATTATTTTATTAT
85958045 AAAATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATTATTATTTTATTATTT
Found at i:85958181 original size:34 final size:34
Alignment explanation
Indices: 85958143--85958212 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
85958133 ATGTGATGAG
85958143 AATAAATTTTTAATAAAATAAATTTAATTAATTA
1 AATAAATTTTTAATAAAATAAATTTAATTAATTA
* * *
85958177 AATAAATTTTTAGTGAAATAAGTTTAATTAATTA
1 AATAAATTTTTAATAAAATAAATTTAATTAATTA
85958211 AA
1 AA
85958213 AATTTTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (34 bp):
AATAAATTTTTAATAAAATAAATTTAATTAATTA
Found at i:85958197 original size:16 final size:16
Alignment explanation
Indices: 85958143--85958188 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
85958133 ATGTGATGAG
85958143 AATAAATTTTTAATAA
1 AATAAATTTTTAATAA
*
85958159 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATAA
85958177 AATAAATTTTTA
1 AATAAATTTTTA
85958189 GTGAAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATAAATTTTTAATAA
Found at i:85961705 original size:58 final size:58
Alignment explanation
Indices: 85961632--85961751 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
85961622 ATAATACGCA
85961632 GTAGGGCTAGCGTATATGCAGTACAGTGCAATG-TGGTAGTCCGTTGTACAGATAAGTT
1 GTAGGGCTAGCGTATATGCAGTACAGTGCAATGCT-GTAGTCCGTTGTACAGATAAGTT
* * *
85961690 GTAGGGCTAGTGTATATGTAGTACAGTGCAATGCTGTAGTCTGTTGTACAGATAAGTT
1 GTAGGGCTAGCGTATATGCAGTACAGTGCAATGCTGTAGTCCGTTGTACAGATAAGTT
85961748 GTAG
1 GTAG
85961752 TTTAAACTAC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.32
Consensus pattern (58 bp):
GTAGGGCTAGCGTATATGCAGTACAGTGCAATGCTGTAGTCCGTTGTACAGATAAGTT
Found at i:85967335 original size:22 final size:22
Alignment explanation
Indices: 85967310--85967351 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85967300 CCATTTTTTA
85967310 AAAAGAAAAGAAAAAAGAAAGC
1 AAAAGAAAAGAAAAAAGAAAGC
**
85967332 AAAAGAAAAGCCAAAAGAAA
1 AAAAGAAAAGAAAAAAGAAA
85967352 AGGGAAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAGAAAAAAGAAAGC
Found at i:85970166 original size:21 final size:21
Alignment explanation
Indices: 85970127--85970166 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
85970117 ACTCACACGT
** *
85970127 TCGTGTGTCCACCAGACACTA
1 TCGTGTGTCCAAAACACACTA
85970148 TCGTGTGTCCAAAACACAC
1 TCGTGTGTCCAAAACACAC
85970167 GCCGGTGAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
TCGTGTGTCCAAAACACACTA
Found at i:85970701 original size:12 final size:12
Alignment explanation
Indices: 85970684--85970716 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
85970674 CACCATTTTT
85970684 AAAAAAGAAAAG
1 AAAAAAGAAAAG
85970696 AAAAAAG-AAAG
1 AAAAAAGAAAAG
85970707 -AAAAAGAAAA
1 AAAAAAGAAAA
85970717 TCCAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 7 0.35
12 7 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:85971688 original size:12 final size:12
Alignment explanation
Indices: 85971671--85971700 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85971661 ATTTCAAACG
85971671 AAAATTTTAGCT
1 AAAATTTTAGCT
85971683 AAAATTTTAGCT
1 AAAATTTTAGCT
*
85971695 TAAATT
1 AAAATT
85971701 CTACAATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
AAAATTTTAGCT
Found at i:85974559 original size:28 final size:27
Alignment explanation
Indices: 85974519--85974619 Score: 100
Period size: 28 Copynumber: 3.7 Consensus size: 27
85974509 TAAACACATC
* *
85974519 TGAAAAGGAATGCCTTTGTGGCAATAT
1 TGAAAAGAAATGACTTTGTGGCAATAT
*
85974546 ATGAAAAGAAATGCCTTTGTGGCAATA-
1 -TGAAAAGAAATGACTTTGTGGCAATAT
*
85974573 TGTAGAAAG-AATGACTTTGCGGCAA-ACT
1 TG-A-AAAGAAATGACTTTGTGGCAATA-T
*
85974601 TTAAAAGAAATGACTTTGT
1 TGAAAAGAAATGACTTTGT
85974620 TGCAGACTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
26 7 0.11
27 26 0.41
28 30 0.48
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
TGAAAAGAAATGACTTTGTGGCAATAT
Found at i:85974634 original size:27 final size:26
Alignment explanation
Indices: 85974577--85974639 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
85974567 GCAATATGTA
85974577 GAAAGAATGACTTTGCGGCAAACTTT
1 GAAAGAATGACTTTGCGGCAAACTTT
* ** *
85974603 AAAAGAAATGACTTTGTTGCAGACTTT
1 GAAAG-AATGACTTTGCGGCAAACTTT
85974630 GAAAGGAATG
1 GAAA-GAATG
85974640 CCTGTTGGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.83
28 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (26 bp):
GAAAGAATGACTTTGCGGCAAACTTT
Found at i:85977422 original size:46 final size:46
Alignment explanation
Indices: 85977347--85977440 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
85977337 CTTTTTCTTG
85977347 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
1 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
* * * * *
85977393 AAAGGATTTATATCTAAATTTATATGGTAAACTATTGTAAGGTATT
1 AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
85977439 AA
1 AA
85977441 TCTTCATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.37
Consensus pattern (46 bp):
AAAGAATTTATATATAAATTCATAGGGTAAACTATTGCAAGGTATT
Found at i:85978501 original size:35 final size:34
Alignment explanation
Indices: 85978455--85978523 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
85978445 GATCTTAATT
85978455 ACAAATGTGTTAAAATCATTAATT-AAATATTTAAA
1 ACAAATGTGTTAAAATC--TAATTAAAATATTTAAA
*
85978490 ACAAATGTGTTAATATCTAATTACAAATATTTAA
1 ACAAATGTGTTAAAATCTAATTA-AAATATTTAA
85978524 TGGTTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 5 0.16
35 26 0.84
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (34 bp):
ACAAATGTGTTAAAATCTAATTAAAATATTTAAA
Found at i:85979320 original size:34 final size:34
Alignment explanation
Indices: 85979273--85979341 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
85979263 AGTCGTTGCT
*
85979273 TGTCCTCAGGAAAGAGCAAAAGAAAAATGGAAAC
1 TGTCCTCAAGAAAGAGCAAAAGAAAAATGGAAAC
85979307 TGTCCTCAAGAAAGAGCAAAAGAAAAATGGAAAC
1 TGTCCTCAAGAAAGAGCAAAAGAAAAATGGAAAC
85979341 T
1 T
85979342 AAGAGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.13
Consensus pattern (34 bp):
TGTCCTCAAGAAAGAGCAAAAGAAAAATGGAAAC
Found at i:85983208 original size:23 final size:24
Alignment explanation
Indices: 85983171--85983283 Score: 124
Period size: 23 Copynumber: 4.8 Consensus size: 24
85983161 CGGCTTGTAA
85983171 GAGCTTACTGTTTTCAGCTCGTTG
1 GAGCTTACTGTTTTCAGCTCGTTG
85983195 GAGCTTA-TGTTTTCAGCTCGTTG
1 GAGCTTACTGTTTTCAGCTCGTTG
* * **
85983218 GAGCTTACTG-TTTCAACTCATAA
1 GAGCTTACTGTTTTCAGCTCGTTG
* * **
85983241 GAGCTTACTGTTTCCAGCTCATCA
1 GAGCTTACTGTTTTCAGCTCGTTG
*
85983265 GAGCTTACAGTTTT-AGCTC
1 GAGCTTACTGTTTTCAGCTC
85983284 AATAGAGCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
23 47 0.60
24 31 0.40
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCGTTG
Found at i:85983224 original size:47 final size:48
Alignment explanation
Indices: 85983170--85983296 Score: 136
Period size: 47 Copynumber: 2.7 Consensus size: 48
85983160 TCGGCTTGTA
* ** * * *
85983170 AGAGCTTACTGTTTTCAGCTCGTTGGAGCTTA-TGTTTTCAGCTCGTT
1 AGAGCTTACTGTTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
* *
85983217 GGAGCTTACTG-TTTCAACTCATAAGAGCTTACTGTTTCCAGCTCATC
1 AGAGCTTACTGTTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
*
85983264 AGAGCTTACAGTTTT-AGCTCA-ATAGAGCTTACT
1 AGAGCTTACTGTTTTCAGCTCATA-AGAGCTTACT
85983297 ATCCATCAGC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 17 0.26
47 46 0.70
48 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (48 bp):
AGAGCTTACTGTTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
Found at i:85983290 original size:23 final size:23
Alignment explanation
Indices: 85983168--85983296 Score: 118
Period size: 23 Copynumber: 5.5 Consensus size: 23
85983158 TATCGGCTTG
*
85983168 TAAGAGCTTACTGTTTTCAGCTCG
1 TAAGAGCTTACTG-TTTCAGCTCA
** *
85983192 TTGGAGCTTA-TGTTTTCAGCTCG
1 TAAGAGCTTACTG-TTTCAGCTCA
** *
85983215 TTGGAGCTTACTGTTTCAACTCA
1 TAAGAGCTTACTGTTTCAGCTCA
85983238 TAAGAGCTTACTGTTTCCAGCTCA
1 TAAGAGCTTACTGTTT-CAGCTCA
* * *
85983262 TCAGAGCTTACAGTTTTAGCTCA
1 TAAGAGCTTACTGTTTCAGCTCA
85983285 -ATAGAGCTTACT
1 TA-AGAGCTTACT
85983297 ATCCATCAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
23 60 0.67
24 30 0.33
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (23 bp):
TAAGAGCTTACTGTTTCAGCTCA
Found at i:85990388 original size:18 final size:18
Alignment explanation
Indices: 85990365--85990415 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
85990355 AGAAAATAAG
*
85990365 TAAAACTAAAACTCTTAA
1 TAAAACTAAAACTCTAAA
* *
85990383 TAAAACCTAATA-TAATAAA
1 TAAAA-CTAAAACT-CTAAA
85990402 TAAAACTAAAACTC
1 TAAAACTAAAACTC
85990416 CTATTGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAACTAAAACTCTAAA
Found at i:85996950 original size:43 final size:43
Alignment explanation
Indices: 85996889--85997035 Score: 142
Period size: 43 Copynumber: 3.4 Consensus size: 43
85996879 CAATGCCAAC
85996889 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATTGAAGCCACT
1 GTCCCAGACAG-GGTCTTACATGTAATCAAATATTGAAGCCACT
* * * * *
85996932 GTCCCAGACAGGGTCTTACACGAAATCATATA-TGATGCCAAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATATTGAAGCCACT
**
85996974 GTCCCAGACATAGTCTTACATGTAAATCACAA-ATT-AATGCCAAC-
1 GTCCCAGACAGGGTCTTACATGT-AATCA-AATATTGAA-GCC-ACT
*
85997018 GTCCCAGACATGGTCTTA
1 GTCCCAGACAGGGTCTTA
85997036 GATGATAACA
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.32
43 34 0.40
44 23 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATATTGAAGCCACT
Found at i:85999536 original size:12 final size:12
Alignment explanation
Indices: 85999519--85999548 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85999509 TCATAGAGTT
*
85999519 ACACGGGGTAGG
1 ACACGGGCTAGG
85999531 ACACGGGCTAGG
1 ACACGGGCTAGG
85999543 ACACGG
1 ACACGG
85999549 CCATGTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.43, T:0.07
Consensus pattern (12 bp):
ACACGGGCTAGG
Found at i:86001438 original size:19 final size:19
Alignment explanation
Indices: 86001397--86001439 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
86001387 CCATATTAAC
* *
86001397 ACAGTTGGGCCCATTCAAT
1 ACAGTTGGGCCCATACAAA
86001416 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCAT-ACAAA
86001435 ACAGT
1 ACAGT
86001440 CTCATATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
ACAGTTGGGCCCATACAAA
Found at i:86027232 original size:10 final size:10
Alignment explanation
Indices: 86027206--86027248 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
86027196 TGACTAAATC
*
86027206 TGATTAAATG
1 TGATTATATG
*
86027216 TAATTATATG
1 TGATTATATG
*
86027226 TGCTTATATG
1 TGATTATATG
86027236 TGATTGATATG
1 TGATT-ATATG
86027247 TG
1 TG
86027249 TTAGAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 20 0.74
11 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (10 bp):
TGATTATATG
Found at i:86029888 original size:18 final size:18
Alignment explanation
Indices: 86029865--86029907 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
86029855 TTCTTATTGA
*
86029865 TATAAAACTCCTAAATAAC
1 TATAAAA-TACTAAATAAC
*
86029884 T-TAAAATACTTAATAAC
1 TATAAAATACTAAATAAC
86029901 TATAAAA
1 TATAAAA
86029908 ATTTGAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (18 bp):
TATAAAATACTAAATAAC
Found at i:86031762 original size:21 final size:21
Alignment explanation
Indices: 86031736--86031775 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
86031726 AATGTTTGCC
*
86031736 TCTATGGTTGAGGGCCTTAAT
1 TCTATGGTTAAGGGCCTTAAT
86031757 TCTATGGTTAAGGGCCTTA
1 TCTATGGTTAAGGGCCTTA
86031776 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (21 bp):
TCTATGGTTAAGGGCCTTAAT
Found at i:86034276 original size:27 final size:26
Alignment explanation
Indices: 86034246--86034422 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
86034236 AAATTGTACA
* *
86034246 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
86034273 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
86034300 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
86034327 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
86034355 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
86034382 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
86034409 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
86034423 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:86034369 original size:82 final size:81
Alignment explanation
Indices: 86034246--86034401 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
86034236 AAATTGTACA
* * * *
86034246 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
86034310 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
86034327 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
86034392 TGCGAGTTGA
65 TGCGAATTGA
86034402 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:86034413 original size:82 final size:81
Alignment explanation
Indices: 86034242--86034422 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
86034232 GATTAAATTG
* * * *
86034242 TACAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
86034307 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
86034323 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
86034387 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
86034405 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
86034423 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:86038195 original size:40 final size:39
Alignment explanation
Indices: 86038117--86038226 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 39
86038107 AATTCAGGAT
* * *
86038117 TACCAAAGTACAAACA-GGGCCCGTATGTGTAGTCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTG-CGTCAGGGG
* *
86038156 TACCGAAGTACAACCAGGGGCACGTATGTGCGTTTAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCG-TCAGGGG
* * *
86038196 TACCGAAGCACAAATAGGGGCACATATGTGC
1 TACCGAAGTACAAACAGGGGCACGTATGTGC
86038227 ATTCATTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (39 bp):
TACCGAAGTACAAACAGGGGCACGTATGTGCGTCAGGGG
Found at i:86043617 original size:43 final size:46
Alignment explanation
Indices: 86043563--86043680 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 46
86043553 TAGGCTTCGG
* *
86043563 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTCTGA
* * *
86043606 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTCTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTCTGA
86043651 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
86043681 AATGTTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 3 0.05
45 31 0.49
46 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (46 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTCTGA
Found at i:86044019 original size:38 final size:38
Alignment explanation
Indices: 86043950--86044147 Score: 204
Period size: 38 Copynumber: 5.2 Consensus size: 38
86043940 ATGATATTTG
* ** *
86043950 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGAATTA
** *
86043988 TATCCAAGTTAAACCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
*
86044026 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* *
86044064 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * * *
86044102 TATCCGGGTTAAATCCTGAAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
*
86044140 TATTCGGG
1 TATCCGGG
86044148 CCTTTAAGCC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
37 2 0.01
38 134 0.97
39 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:86044293 original size:44 final size:44
Alignment explanation
Indices: 86044200--86044298 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
86044190 TATCCTTTGG
* * * * *
86044200 GCCTAGCAGGATATAATGCGGTGAGATACTATTCGGGCTTTCGA
1 GCCTAGCAGGCTATAATGCGATGAAATACTAATCGGGCTCTCGA
86044244 GCCTAGCAGGCTATAATGCCGATGAAATGA-TAATCGGGC-CTCGA
1 GCCTAGCAGGCTATAATG-CGATGAAAT-ACTAATCGGGCTCTCGA
*
86044288 TCCTAGCAGGC
1 GCCTAGCAGGC
86044299 GAAATGCTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 31 0.66
45 15 0.32
46 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (44 bp):
GCCTAGCAGGCTATAATGCGATGAAATACTAATCGGGCTCTCGA
Found at i:86046394 original size:27 final size:27
Alignment explanation
Indices: 86046341--86046399 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
86046331 CAGCGACAGT
*
86046341 AATATAATCGACACACAACCATGAATA
1 AATATAATCGACACACAACCATCAATA
* * **
86046368 AATATGATCGACACAGAGTCATCAATA
1 AATATAATCGACACACAACCATCAATA
86046395 AATAT
1 AATAT
86046400 TATAGGCACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (27 bp):
AATATAATCGACACACAACCATCAATA
Found at i:86046463 original size:22 final size:23
Alignment explanation
Indices: 86046433--86046492 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
86046423 ATACGATTTT
*
86046433 CACAAAGCCATAATTAACG-TAG
1 CACAGAGCCATAATTAACGTTAG
* * *
86046455 CACAGAGCCAT-ATTTAGGTTGG
1 CACAGAGCCATAATTAACGTTAG
86046477 CACAGAGCCATAATTA
1 CACAGAGCCATAATTA
86046493 GATTAAGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 5 0.16
22 23 0.74
23 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (23 bp):
CACAGAGCCATAATTAACGTTAG
Found at i:86046873 original size:27 final size:27
Alignment explanation
Indices: 86046843--86047066 Score: 288
Period size: 27 Copynumber: 8.3 Consensus size: 27
86046833 TAAAATAGTC
* * *
86046843 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
86046870 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
86046897 ATTTTACACTAAAAGGGTATTTC-AGTA
1 ATTTTACACTACAAGGGTATTTCGA-TA
* *
86046924 ATTTTTCACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
86046951 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
86046978 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
86047005 ATTTTACACTACAAAGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
86047032 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
86047059 ATTTTACA
1 ATTTTACA
86047067 AATCGAGGTC
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 172 0.99
28 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:86046967 original size:81 final size:81
Alignment explanation
Indices: 86046843--86047066 Score: 349
Period size: 81 Copynumber: 2.8 Consensus size: 81
86046833 TAAAATAGTC
* * * * *
86046843 ATTTTACCCTATAGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGGTAATTTTACACTA
1 ATTTTACACTACAAGGGTATTTCGATAATTTTACACTATAAGGGTATTTTGGTAATTTTACACTA
*
86046908 AAAGGGTATTTCAGTA
66 AAAGGGTATTTCAATA
* *
86046924 ATTTTTCACTACAAGGGTATTTTGATAATTTTACACTATAAGGGTATTTTGGTAATTTTACACTA
1 ATTTTACACTACAAGGGTATTTCGATAATTTTACACTATAAGGGTATTTTGGTAATTTTACACTA
*
86046989 CAAGGGTATTTCAATA
66 AAAGGGTATTTCAATA
* *
86047005 ATTTTACACTACAAAGGTATTTCAATAATTTTACACTATAAGGGTATTTTGGTAATTTTACA
1 ATTTTACACTACAAGGGTATTTCGATAATTTTACACTATAAGGGTATTTTGGTAATTTTACA
86047067 AATCGAGGTC
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 130 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (81 bp):
ATTTTACACTACAAGGGTATTTCGATAATTTTACACTATAAGGGTATTTTGGTAATTTTACACTA
AAAGGGTATTTCAATA
Found at i:86047995 original size:19 final size:19
Alignment explanation
Indices: 86047971--86048008 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
86047961 AATAAGATAT
*
86047971 TCGGCTTTAGAGGGAAAGA
1 TCGGCTTTAGAGAGAAAGA
86047990 TCGGCTTTAGAGAGAAAGA
1 TCGGCTTTAGAGAGAAAGA
86048009 GGAAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (19 bp):
TCGGCTTTAGAGAGAAAGA
Found at i:86057873 original size:29 final size:29
Alignment explanation
Indices: 86057834--86057897 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
86057824 ATGATATTTA
86057834 TATGATATGATACTTATTATCATGAAATAT
1 TATG-TATGATACTTATTATCATGAAATAT
*
86057864 TATGTATGATGCTTATTATCATGAAATAT
1 TATGTATGATACTTATTATCATGAAATAT
86057893 TATGT
1 TATGT
86057898 TTTGTGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (29 bp):
TATGTATGATACTTATTATCATGAAATAT
Found at i:86071662 original size:17 final size:17
Alignment explanation
Indices: 86071640--86071672 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86071630 AGCACCGGTG
*
86071640 TTAGTGCAATCTGAGTC
1 TTAGTGCAACCTGAGTC
86071657 TTAGTGCAACCTGAGT
1 TTAGTGCAACCTGAGT
86071673 AGAGGAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (17 bp):
TTAGTGCAACCTGAGTC
Found at i:86076221 original size:46 final size:46
Alignment explanation
Indices: 86076168--86076529 Score: 391
Period size: 46 Copynumber: 7.8 Consensus size: 46
86076158 TATTTGGGCA
*
86076168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
86076214 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
86076259 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
86076307 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
86076352 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
86076400 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * * *
86076445 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
86076493 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86076530 GCGGGTTACA
Statistics
Matches: 265, Mismatches: 30, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
43 18 0.07
45 12 0.05
46 120 0.45
47 86 0.32
48 12 0.05
50 17 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:86076302 original size:93 final size:93
Alignment explanation
Indices: 86076164--86076521 Score: 662
Period size: 93 Copynumber: 3.8 Consensus size: 93
86076154 GGGATATTTG
86076164 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
86076229 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
86076257 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
86076322 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
86076350 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
86076415 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * *
86076443 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
86076508 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
86076522 ACTTATGGGC
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:86079928 original size:40 final size:40
Alignment explanation
Indices: 86079873--86080051 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
86079863 AGTATAAGCA
* *
86079873 GGGCACGTATATGCATTCAGGGGTACCGAAGTACAATCAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* ** * *
86079913 GGGCACATATGTGCATTCAAAGGTACCGAAGAACAAACAA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * *
86079953 AGGCATGTATGTGCATTCAGGGGTA-CGAAAGTACAAAAAG
1 GGGCACGTATGTGCATTCAGGGGTACCG-AAGTACAAACAG
* *
86079993 GGGCATGTATGTGCATTCAGGGGTACTGAAGTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
*
86080033 GGGCACGTATATGCATTCA
1 GGGCACGTATGTGCATTCA
86080052 TTCAATAATT
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 114 0.97
41 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
Found at i:86080014 original size:20 final size:20
Alignment explanation
Indices: 86079954--86080015 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
86079944 AACAAACAAA
86079954 GGCATGTATGTGCATTCAGG
1 GGCATGTATGTGCATTCAGG
* * * * * ***
86079974 GGTACGAAAGTACAAAAAGG
1 GGCATGTATGTGCATTCAGG
86079994 GGCATGTATGTGCATTCAGG
1 GGCATGTATGTGCATTCAGG
86080014 GG
1 GG
86080016 TACTGAAGTA
Statistics
Matches: 26, Mismatches: 16, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (20 bp):
GGCATGTATGTGCATTCAGG
Found at i:86082434 original size:52 final size:51
Alignment explanation
Indices: 86082314--86082461 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 51
86082304 ACTAGTGACT
*
86082314 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
86082363 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
86082415 CCAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTG
86082462 ACTACAAGGG
Statistics
Matches: 93, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
49 34 0.37
51 18 0.19
52 41 0.44
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:86090517 original size:54 final size:54
Alignment explanation
Indices: 86090434--86090569 Score: 209
Period size: 54 Copynumber: 2.5 Consensus size: 54
86090424 ATCCTTACGG
* *
86090434 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATAGATTCATAGAGCAATAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTACAGACTCATAGAGCAATAT
* * * *
86090488 TGGGATTACCACTCTAGGCTAAATCCCCCGTAGTACAGACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTACAGACTCATAGAGCAATAT
*
86090542 CGAGATTACCAGTCCAGGCTAAATCCCC
1 CGGGATTACCAGTCCAGGCTAAATCCCC
86090570 TGCAATGACA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTACAGACTCATAGAGCAATAT
Found at i:86098371 original size:54 final size:54
Alignment explanation
Indices: 86098287--86098416 Score: 199
Period size: 54 Copynumber: 2.4 Consensus size: 54
86098277 CCTTACGGCG
* * *
86098287 GGATTATCAGTCCAGGCTAAATCCCTCGTAGTTTAGACTCATAGAGCAATGTC-
1 GGATTACCAGTCCAGGCTAAATCCCCCGTAGTATAGACTCATAGAGCAATGTCA
86098340 GAGATTACCAGTCCAGGCTAAATCCCCCGTAGTATAGACTCATAGAGCAATGTCA
1 G-GATTACCAGTCCAGGCTAAATCCCCCGTAGTATAGACTCATAGAGCAATGTCA
* *
86098395 GGATTACCAGTCTAAGCTAAAT
1 GGATTACCAGTCCAGGCTAAAT
86098417 TTCCTGCAAC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.01
54 68 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCCGTAGTATAGACTCATAGAGCAATGTCA
Found at i:86108440 original size:19 final size:20
Alignment explanation
Indices: 86108413--86108453 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
86108403 GTCTCCTGTA
* *
86108413 TTTTGTAAAATTTTC-TAAG
1 TTTTCTAAAAATTTCATAAG
86108432 TTTTCTAAAAATTTCATAAG
1 TTTTCTAAAAATTTCATAAG
86108452 TT
1 TT
86108454 ATCAATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTCTAAAAATTTCATAAG
Found at i:86111678 original size:43 final size:43
Alignment explanation
Indices: 86111626--86111883 Score: 455
Period size: 43 Copynumber: 6.0 Consensus size: 43
86111616 TCGGCATTAC
*
86111626 GCCTGCTAGGCACGAAGGCCCGAATAAACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
86111669 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
86111712 GCCTGCTAGGCACGGAGGCCTGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
86111755 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
86111798 GCCTGCTAGGCACGAAGGCCCGAATACAC-TCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
86111840 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
86111883 G
1 G
86111884 GCCCGAATAC
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 41 0.20
43 165 0.80
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:86111886 original size:27 final size:27
Alignment explanation
Indices: 86111848--86111910 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
86111838 AAGCCTGCTA
86111848 GGCACGAAGGCCCAAATACACATCACC
1 GGCACGAAGGCCCAAATACACATCACC
*
86111875 GGCACGAAGGCCCGAATACACATCACC
1 GGCACGAAGGCCCAAATACACATCACC
*
86111902 GGGACGAAG
1 GGCACGAAG
86111911 CCTGCTAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.35, C:0.33, G:0.25, T:0.06
Consensus pattern (27 bp):
GGCACGAAGGCCCAAATACACATCACC
Found at i:86111894 original size:112 final size:113
Alignment explanation
Indices: 86111763--86111978 Score: 389
Period size: 112 Copynumber: 1.9 Consensus size: 113
86111753 AAGCCTGCTA
86111763 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC-
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
86111827 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCACC
66 TCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCACC
*
86111875 GGCACGAAGGCCCGAATACACATCACCGGGACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
86111940 TCACCAGCACGAAGCCTGCTAGGTACGAAGGCCCGAATA
66 TCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCAAATA
86111979 TAATTACCAG
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
112 63 0.64
113 36 0.36
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.09
Consensus pattern (113 bp):
GGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
TCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCACC
Found at i:86111918 original size:70 final size:69
Alignment explanation
Indices: 86111806--86111953 Score: 260
Period size: 70 Copynumber: 2.1 Consensus size: 69
86111796 AAGCCTGCTA
86111806 GGCACGAAGGCCCGAATACACTCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACAT
1 GGCACGAAGGCCCGAATACACTCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACAT
86111871 CACC
66 CACC
* *
86111875 GGCACGAAGGCCCGAATACACATCACCGGGACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 GGCACGAAGGCCCGAATACAC-TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACA
86111940 TCACC
65 TCACC
*
86111945 AGCACGAAG
1 GGCACGAAG
86111954 CCTGCTAGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 21 0.28
70 54 0.72
ACGTcount: A:0.32, C:0.34, G:0.25, T:0.08
Consensus pattern (69 bp):
GGCACGAAGGCCCGAATACACTCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACAT
CACC
Found at i:86111922 original size:43 final size:43
Alignment explanation
Indices: 86111875--86111978 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
86111865 ACACATCACC
* *
86111875 GGCACGAAGGCCCGAATACACATCACCGGGACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
86111918 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
1 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
*
86111961 GGTACGAAGGCCCGAATA
1 GGCACGAAGGCCCGAATA
86111979 TAATTACCAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.10
Consensus pattern (43 bp):
GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
Found at i:86112037 original size:38 final size:38
Alignment explanation
Indices: 86111971--86112079 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 38
86111961 GGTACGAAGG
** * * *
86111971 CCCGAATATAATTACCAGCATTAGGCCTGCGGGGTTTATC
1 CCCG-ATATAA-TACCAGCACGAAGCCTGCGGGATTTAAC
86112011 CCCGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
1 CCCGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
* **
86112049 CCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGATATAATACCAGCACGAAGCCTGCGGG
86112080 TCTTTAAGCC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 51 0.84
39 6 0.10
40 4 0.07
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (38 bp):
CCCGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
Found at i:86122323 original size:33 final size:33
Alignment explanation
Indices: 86122285--86122347 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
86122275 TACAGTATTG
* *
86122285 GTCTGGGCCTGAGCCCTATTCAATAACAGTACA
1 GTCTGGGCCTAAGCCCTATGCAATAACAGTACA
*
86122318 GTCTGGGCCTAAGCCCTATGCAGTAACAGT
1 GTCTGGGCCTAAGCCCTATGCAATAACAGT
86122348 GTGGGCCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (33 bp):
GTCTGGGCCTAAGCCCTATGCAATAACAGTACA
Found at i:86145343 original size:27 final size:27
Alignment explanation
Indices: 86145313--86145464 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
86145303 ATATTAAGTC
* *
86145313 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
86145340 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
86145368 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
86145395 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
86145422 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
86145450 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86145465 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:86145381 original size:55 final size:54
Alignment explanation
Indices: 86145313--86145464 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
86145303 ATATTAAGTC
* *
86145313 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
86145368 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
86145422 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
86145465 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:86145450 original size:82 final size:82
Alignment explanation
Indices: 86145313--86145464 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
86145303 ATATTAAGTC
* *
86145313 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
86145378 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
86145395 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
86145460 GTGCT
66 GTGCT
86145465 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:86151823 original size:27 final size:27
Alignment explanation
Indices: 86151792--86151847 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
86151782 CATAGTTATG
*
86151792 TTTGGCAAACT-ATGTTCGCATAAGTGT
1 TTTGGCAAACTGA-GTTCACATAAGTGT
*
86151819 TTTGGCAAACTGAGTTCACATATGTGT
1 TTTGGCAAACTGAGTTCACATAAGTGT
86151846 TT
1 TT
86151848 GTTCAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (27 bp):
TTTGGCAAACTGAGTTCACATAAGTGT
Found at i:86153423 original size:96 final size:96
Alignment explanation
Indices: 86153259--86153445 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
86153249 GACATTTGAG
* *
86153259 TGATATGTGTGCTAGTGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGATAGTG
1 TGATATGTGTGCTAATGTAAGACCATGTATGGGACATGGCATCAGCCACATTATGAGAGATAGTG
86153324 TAAGACCATGTCTGGGACAGGGCATCGATGT
66 TAAGACCATGTCTGGGACAGGGCATCGATGT
* *
86153355 TGATATGTGTGCTAATGTAAGATCATGTCTGGGACATGGCATCAGCCACATTATGAGA-ACTAGT
1 TGATATGTGTGCTAATGTAAGACCATGTATGGGACATGGCATCAGCCACATTATGAGAGA-TAGT
* *
86153419 GTAAGACCATGTTTGGGACATGGCATC
65 GTAAGACCATGTCTGGGACAGGGCATC
86153446 AGCAATTTAC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 83 0.99
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (96 bp):
TGATATGTGTGCTAATGTAAGACCATGTATGGGACATGGCATCAGCCACATTATGAGAGATAGTG
TAAGACCATGTCTGGGACAGGGCATCGATGT
Found at i:86153446 original size:48 final size:48
Alignment explanation
Indices: 86153270--86153448 Score: 202
Period size: 48 Copynumber: 3.7 Consensus size: 48
86153260 GATATGTGTG
* *
86153270 CTAGTGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA-A
* *** * **
86153319 -TAGTGTAAGACCATGTCTGGGACAGGGCATCGATG-TTGA-TATGTGTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC-A-GCCACATTATGAGAA
* *
86153366 CTAATGTAAGATCATGTCTGGGACATGGCATCAGCCACATTATGAGAA
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAA
*
86153414 CTAGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
86153449 AATTTACCCT
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 99 0.95
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAA
Found at i:86155960 original size:15 final size:15
Alignment explanation
Indices: 86155904--86155966 Score: 72
Period size: 16 Copynumber: 4.1 Consensus size: 15
86155894 CGTTTGGTTC
86155904 ACTGTAATGGAATAAG
1 ACTGTAATGGAAT-AG
* *
86155920 GCTGTAATTGAATAG
1 ACTGTAATGGAATAG
*
86155935 AGCTATAATGGAATAG
1 A-CTGTAATGGAATAG
*
86155951 ACCGTAATGGAATAG
1 ACTGTAATGGAATAG
86155966 A
1 A
86155967 AATGTAACAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 15 0.38
16 24 0.62
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:86156293 original size:57 final size:57
Alignment explanation
Indices: 86156178--86156302 Score: 132
Period size: 57 Copynumber: 2.2 Consensus size: 57
86156168 TTTTTATTAA
* * * **
86156178 AAAATAATAAATAATTTAATCATATTTTAACATAATTTTTACTAAATATAATTTAAT
1 AAAATAATATACAATTTAATAATATTTTAACATAATTTTTACTAAATATAATGAAAT
*
86156235 AAAATAATATACAATTTAATAATATTCTTAATATAATTATTATA-TAAAT-TAA-GAAAT
1 AAAATAATATACAATTTAATAATATT-TTAACATAATT-TT-TACTAAATATAATGAAAT
86156292 AATAAT-ATATA
1 AA-AATAATATA
86156303 GTATTATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
57 33 0.57
58 16 0.28
59 7 0.12
60 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
AAAATAATATACAATTTAATAATATTTTAACATAATTTTTACTAAATATAATGAAAT
Found at i:86162161 original size:121 final size:122
Alignment explanation
Indices: 86162020--86162312 Score: 390
Period size: 122 Copynumber: 2.4 Consensus size: 122
86162010 AAACAGAGGC
* * * * * *
86162020 TGCCACAAAGGTTTTCCTTTACATTCAATACTCGCCACAAAGGCTTTCCTGTCTAGAGTTTTGCC
1 TGCCACAAAGGTTGTCCTTTACATTTAGTACTCGCCAAAAAGGCTTTCCTGTCCAGAGTTATGCC
* *
86162085 ACAAAAGCTATC-ATTATATCCAATACTCATCACAAAGGCTTTCCTATCCAGAGTTT
66 ACAAAAGCTATCTATTATATCCAATACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
* **
86162141 TGCCACAAAGGTTGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCAAGTCCAGAGTTATGCC
1 TGCCACAAAGGTTGTCCTTTACATTTAGTACTCGCCAAAAAGGCTTTCCTGTCCAGAGTTATGCC
* * * * * *
86162206 ACAGAGGCTATCTTTTATATCTAGTACTCACCAAAAAGGCTTTCCTATCCAGATTTT
66 ACAAAAGCTATCTATTATATCCAATACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
* * * *
86162263 TCCCACAAAGGATGTCCTTTACATTTAGTACTTGCCATAAAGGCTTTCCT
1 TGCCACAAAGGTTGTCCTTTACATTTAGTACTCGCCAAAAAGGCTTTCCT
86162313 TCTCTTGGTG
Statistics
Matches: 147, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
121 66 0.45
122 81 0.55
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (122 bp):
TGCCACAAAGGTTGTCCTTTACATTTAGTACTCGCCAAAAAGGCTTTCCTGTCCAGAGTTATGCC
ACAAAAGCTATCTATTATATCCAATACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
Found at i:86162311 original size:61 final size:61
Alignment explanation
Indices: 86162020--86162312 Score: 275
Period size: 61 Copynumber: 4.8 Consensus size: 61
86162010 AAACAGAGGC
* * * * * * * *
86162020 TGCCACAAAGGTTTTCCTTTACATTCAATACTCGCCACAAAGGCTTTCCTGTCTAGAGTTT
1 TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
* * * * * ** * * *
86162081 TGCCACAAAAGCTAT-CATTATATCCAATACTCATCACAAAGGCTTTCCTATCCAGAGTTT
1 TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
* * *
86162141 TGCCACAAAGGTTGTCCTTTACATTTAGTACTCACCAAAAAGGCTTT-CAAGTCCAGAGTTA
1 TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCTA-TCCAGAGTTT
* * * * * * *
86162202 TGCCACAGAGGCTATCTTTTATATCTAGTACTCACCAAAAAGGCTTTCCTATCCAGATTTT
1 TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
* ** *
86162263 TCCCACAAAGGATGTCCTTTACATTTAGTACTTGCCATAAAGGCTTTCCT
1 TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCT
86162313 TCTCTTGGTG
Statistics
Matches: 188, Mismatches: 41, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
60 52 0.28
61 134 0.71
62 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (61 bp):
TGCCACAAAGGATGTCCTTTACATTTAGTACTCACCAAAAAGGCTTTCCTATCCAGAGTTT
Done.