Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 182 of 325
Found at i:55909469 original size:40 final size:38
Alignment explanation
Indices: 55909420--55909527 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55909410 ATCACGATTT
*
55909420 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55909460 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55909500 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55909528 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55915968 original size:93 final size:93
Alignment explanation
Indices: 55915856--55916026 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55915846 GCCCATAAGT
* *
55915856 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55915921 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55915949 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55916014 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55916027 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55916023 original size:46 final size:46
Alignment explanation
Indices: 55915848--55916023 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55915838 TGTAACCCGC
* * *
55915848 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55915894 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55915944 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55915987 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55916024 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55918438 original size:30 final size:30
Alignment explanation
Indices: 55918394--55918482 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
55918384 CAAAGATAAC
55918394 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
55918423 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
55918453 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
55918483 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:55918442 original size:15 final size:15
Alignment explanation
Indices: 55918394--55918473 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
55918384 CAAAGATAAC
*
55918394 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55918408 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55918423 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
55918438 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55918453 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55918468 AAGAAA
1 AAGAAA
55918474 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55918482 original size:15 final size:15
Alignment explanation
Indices: 55918405--55918482 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55918395 AGAAAACCGA
55918405 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55918420 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55918434 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55918449 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55918465 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55918480 ATA
1 ATA
55918483 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55921505 original size:93 final size:93
Alignment explanation
Indices: 55921393--55921563 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55921383 GCCCATAAGT
* *
55921393 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55921458 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55921486 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55921551 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55921564 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55921560 original size:46 final size:46
Alignment explanation
Indices: 55921385--55921560 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55921375 TGTAACCCGC
* * *
55921385 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55921431 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55921481 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55921524 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55921561 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55924001 original size:26 final size:26
Alignment explanation
Indices: 55923972--55924031 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
55923962 TCCCTTTGAA
* * *
55923972 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
55923998 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
55924026 CCATTC
1 TCATTC
55924032 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:55924047 original size:28 final size:28
Alignment explanation
Indices: 55923987--55924057 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
55923977 CGATATTTTG
* *
55923987 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
*
55924015 CACACTAAGTGCCATTCTCAATATTTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
* * *
55924043 TACACTGAGTACCAT
1 CACACTAAGTGCCAT
55924058 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:55926045 original size:96 final size:96
Alignment explanation
Indices: 55925881--55926190 Score: 365
Period size: 96 Copynumber: 3.2 Consensus size: 96
55925871 GTGAATTGAT
* * * * *
55925881 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT-GTAGAGGCCGATGCCATGTCCCAG
1 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAATA-TGGCTGATGCCATGTCCCAG
*
55925944 ACATGGTCTTACACTAGCTCTCGTCTCAATGCC
64 ACATGGTCTTACACTAGCTCTCGTATCAATGCC
* *
55925977 GATGCCATATCCTAGACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
* * * *
55926042 ATGGTCTTACACTAGCACACGTATCAATACT
66 ATGGTCTTACACTAGCTCTCGTATCAATGCC
* * * * * * *
55926073 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCGCTGATGCCATGTTCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
* * *
55926138 ATGGTCTTACACTGGCTCTCATATC-GTAGCC
66 ATGGTCTTACACTAGCTCTCGTATCAAT-GCC
*
55926169 GATGCCATGTCCCAGACATGGT
1 GATGCCATGTCCTAGACATGGT
55926191 ACTAAACTGG
Statistics
Matches: 181, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 4 0.02
96 175 0.97
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCGTATCAATGCC
Found at i:55926140 original size:144 final size:144
Alignment explanation
Indices: 55925880--55926190 Score: 362
Period size: 144 Copynumber: 2.2 Consensus size: 144
55925870 GGTGAATTGA
* * * * * *
55925880 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTAGAGGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
* * *
55925945 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATCCTAGACATGGTCTTACACTGGC
66 CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATATCCTAAACATGGTCTTACACTGGC
* *
55926010 TCTTATAAT-ATGGC
131 TCTCAT-ATCATAGC
* * * * *
55926024 TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACGTATCA-ATACTGATGTCATGTCCTAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AGAGACCGATGCCATGTCCCAG
* *
55926088 ACATGGTCTTACACTAGCTCTC-ACA-ACATCGCTGATGCCATGTTCC-AAACATGGTCTTACAC
65 ACATGGTCTTACACTAGCTCTCGACACA-AT-GCCGATGCCAT-ATCCTAAACATGGTCTTACAC
*
55926150 TGGCTCTCATATCGTAGC
127 TGGCTCTCATATCATAGC
*
55926168 CGATGCCATGTCCCAGACATGGT
1 TGATGCCATGTCCCAGACATGGT
55926191 ACTAAACTGG
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
142 1 0.01
143 5 0.04
144 132 0.93
145 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATATCCTAAACATGGTCTTACACTGGC
TCTCATATCATAGC
Found at i:55926201 original size:48 final size:48
Alignment explanation
Indices: 55925881--55926190 Score: 304
Period size: 48 Copynumber: 6.5 Consensus size: 48
55925871 GTGAATTGAT
* * * * *
55925881 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGT-AGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATA-GCC
* * *
55925929 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCA-ATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATA-GCC
* * * * *
55925977 GATGCCATATCCTAGACATGGTCTTACACTGGCTCTTATAAT-ATGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATAGCC
* * * * *
55926025 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACGTATCAATA-CT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATAGCC
* * * * * * *
55926073 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGCC
* * *
55926121 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGCC
55926169 GATGCCATGTCCCAGACATGGT
1 GATGCCATGTCCCAGACATGGT
55926191 ACTAAACTGG
Statistics
Matches: 213, Mismatches: 43, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
47 4 0.02
48 205 0.96
49 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATAGCC
Found at i:55932308 original size:47 final size:48
Alignment explanation
Indices: 55932221--55932377 Score: 144
Period size: 47 Copynumber: 3.4 Consensus size: 48
55932211 TAAGATGTCA
* * *
55932221 ATGCCATGTCCCAGACACAGTCTTACACGGGCTCATATCTC-AAGTCG
1 ATGCCATGTCCCAGACACAGTCTTACACTGACTCATATCTCGAAGCCG
* * *
55932268 ATGCCATGTCCTAGACACGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACACAGTCTTACACTGACTCAT-ATCTCGAAGCCG
* * * * ** * *
55932316 ATG-CATATCCCAGACA-TGTCTTACACTGGCTTACGTATCGAGGCCG
1 ATGCCATGTCCCAGACACAGTCTTACACTGACTCATATCTCGAAGCCG
55932362 ATG-CATGTCCCAGACA
1 ATGCCATGTCCCAGACA
55932378 TGCCTTACAC
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
46 38 0.42
47 46 0.51
48 7 0.08
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACACAGTCTTACACTGACTCATATCTCGAAGCCG
Found at i:55932342 original size:46 final size:46
Alignment explanation
Indices: 55932287--55932388 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
55932277 CCTAGACACG
*
55932287 GTCTTACACTGAC-TATCATCTCGTA-GCCGATGCATATCCCAGACAT
1 GTCTTACACTGACTTA-CATATCG-AGGCCGATGCATATCCCAGACAT
* * *
55932333 GTCTTACACTGGCTTACGTATCGAGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTGACTTACATATCGAGGCCGATGCATATCCCAGACAT
*
55932379 GCCTTACACT
1 GTCTTACACT
55932389 AGCTTTCGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.94
47 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GTCTTACACTGACTTACATATCGAGGCCGATGCATATCCCAGACAT
Found at i:55932408 original size:46 final size:46
Alignment explanation
Indices: 55932312--55932486 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
55932302 TCATCTCGTA
* * *
55932312 GCCGATGCATATCCCAGACATGTCTTACACTGGCTTACGTATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTATCAAG
* * * *
55932358 GCCGATGCATGTCCCAGACATGCCTTACACTAGCTTTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTATCAAG
* * * **
55932404 GCCGATACCATGTCCCAAACATGGTCTTACACTAGCTCT-CATAAT-GTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCT-TACGT-ATCAAG
** *
55932452 GTTGATGCATGTCCCAAACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
55932487 CACAAACAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 59 0.55
47 27 0.25
48 19 0.18
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTATCAAG
Found at i:55938577 original size:29 final size:29
Alignment explanation
Indices: 55938543--55938628 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 29
55938533 TCGTTTTATT
*
55938543 TTACCCTAACCTCTTTAATTCTTTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
* **
55938572 TTACCCTAA-AT-TTT--CT-TTTTA-TT
1 TTACCCTAACATCTTTAATTCTTTTACAA
*
55938595 TTACCCTAACTTCTTTAATTC-TTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
55938623 TTACCC
1 TTACCC
55938629 AAAATTTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
23 9 0.21
24 6 0.14
25 4 0.09
27 8 0.19
28 7 0.16
29 9 0.21
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (29 bp):
TTACCCTAACATCTTTAATTCTTTTACAA
Found at i:55938593 original size:52 final size:51
Alignment explanation
Indices: 55938536--55938636 Score: 175
Period size: 52 Copynumber: 2.0 Consensus size: 51
55938526 TTTGTCATCG
*
55938536 TTTTATTTTACCCTAACCTCTTTAATTCTTTTACAATTACCCTAAATTTTCT
1 TTTTATTTTACCCTAACCTCTTTAATTC-TTTACAATTACCCAAAATTTTCT
*
55938588 TTTTATTTTACCCTAACTTCTTTAATTCTTTACAATTACCCAAAATTTT
1 TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTT
55938637 ATTTCTCTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 20 0.43
52 27 0.57
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (51 bp):
TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTTCT
Found at i:55941264 original size:40 final size:40
Alignment explanation
Indices: 55941179--55941329 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
55941169 AATTGAATGA
* * * **
55941179 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
55941219 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
55941260 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
55941299 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55941330 ACTGTTATAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:55947296 original size:40 final size:40
Alignment explanation
Indices: 55947251--55947417 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55947241 CGGAATATAA
55947251 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55947291 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55947331 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55947371 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55947410 CCGGATAT
1 CCGGATAT
55947418 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55947401 original size:80 final size:79
Alignment explanation
Indices: 55947267--55947417 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55947257 ATAATCACGT
*
55947267 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55947332 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55947347 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55947410 CCGGATAT
64 CCGGATAT
55947418 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55954715 original size:40 final size:40
Alignment explanation
Indices: 55954670--55954836 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55954660 CGGAATATAA
55954670 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55954710 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55954750 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55954790 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55954829 CCGGATAT
1 CCGGATAT
55954837 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55954820 original size:80 final size:79
Alignment explanation
Indices: 55954686--55954836 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55954676 ATAATCACGT
*
55954686 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55954751 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55954766 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55954829 CCGGATAT
64 CCGGATAT
55954837 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55969808 original size:40 final size:40
Alignment explanation
Indices: 55969723--55969873 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
55969713 AATTGAATGA
* * * * *
55969723 TATCCGGGCTAAGCCCCGAAGACAGTTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
55969763 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
55969804 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
55969843 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55969874 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:55969887 original size:40 final size:40
Alignment explanation
Indices: 55969760--55969889 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
55969750 ATGCTGGAAA
* * *
55969760 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
55969800 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
55969840 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
55969880 TTATATCCGG
1 TTATATCCGG
55969890 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:55969888 original size:80 final size:80
Alignment explanation
Indices: 55969722--55969889 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
55969712 AAATTGAATG
* *
55969722 ATATCCGGGCTAAGCCCCGAAGACAGTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAGTTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
55969787 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
55969802 ACATCCGGGCTAAGACCCGAAGGCA-TTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAGTT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
55969865 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
55969882 ATATCCGG
1 ATATCCGG
55969890 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 4 0.05
80 71 0.95
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAGTTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:55971971 original size:93 final size:93
Alignment explanation
Indices: 55971812--55971980 Score: 230
Period size: 93 Copynumber: 1.8 Consensus size: 93
55971802 ATATTTGGGC
* * * * *
55971812 ATCCGAACTCGTTAAGTTGAGTCCGATTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 ATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
55971877 AGTCCGAGTTCGAGAGATGTAACTAGGA
66 AGTCCGAGTTCGAGAGATGTAACTAGGA
* * * * **
55971905 ATCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGTTTTG
1 ATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
*
55971970 AGTTCGAGTTC
66 AGTCCGAGTTC
55971981 ACTTATGGGC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 64 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
ATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGA
Found at i:55977961 original size:35 final size:35
Alignment explanation
Indices: 55977922--55977994 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
55977912 AGTATGTGAT
*
55977922 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGAGTGATCTGACGAGA
55977957 ATATATATTATTTATGTGAGAGTGATCTGACGAGA
1 ATATATATTATTTATGTGAGAGTGATCTGACGAGA
55977992 ATA
1 ATA
55977995 AAGAATGTGT
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:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGAGTGATCTGACGAGA
Found at i:55984822 original size:55 final size:54
Alignment explanation
Indices: 55984715--55984919 Score: 234
Period size: 55 Copynumber: 3.8 Consensus size: 54
55984705 AAGATTTAAG
* * * *
55984715 GATACCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTT-TCTCAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAA
* * * *
55984770 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAA
* * * * *
55984825 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* *
55984878 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
55984920 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 48 0.38
54 8 0.06
55 69 0.55
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
Found at i:55984918 original size:108 final size:110
Alignment explanation
Indices: 55984719--55984919 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
55984709 TTTAAGGATA
* *
55984719 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTCAGGCAAAGAAATCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGAAACCATGTAAGA
*
55984784 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
55984829 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAAGAAACCATGTAAG
*
55984891 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
55984920 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55985061 original size:23 final size:24
Alignment explanation
Indices: 55985035--55985079 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
55985025 AAGGTAAGAT
*
55985035 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
55985058 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
55985080 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:55985179 original size:16 final size:16
Alignment explanation
Indices: 55985158--55985188 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55985148 ATAAATTTGA
55985158 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
55985174 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
55985189 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:55987938 original size:46 final size:46
Alignment explanation
Indices: 55987871--55987999 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
55987861 TGTAACCCGC
* * * *
55987871 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55987917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55987963 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55988000 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55988018 original size:46 final size:45
Alignment explanation
Indices: 55987879--55988018 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
55987869 GCCCATAAGC
* ** * *
55987879 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
55987925 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
55987971 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
55988017 GA
1 GA
55988019 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:55995339 original size:40 final size:40
Alignment explanation
Indices: 55995265--55995410 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
55995255 CCGCACCAAG
* * * * * *
55995265 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
55995305 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
55995345 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
55995385 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
55995411 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:55995425 original size:40 final size:40
Alignment explanation
Indices: 55995297--55995448 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
55995287 ATCACGATTT
* * * * *
55995297 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
55995337 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
55995377 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
55995417 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55995449 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:56002323 original size:40 final size:40
Alignment explanation
Indices: 56002257--56002423 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56002247 AAATTGAATG
* * *
56002257 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56002296 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56002336 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56002376 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56002416 ATATCCGG
1 ATATCCGG
56002424 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56010857 original size:46 final size:46
Alignment explanation
Indices: 56010805--56010898 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
56010795 GATTAAATTG
56010805 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAAATTATATAGATC
1 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAAATTATATAGATC
56010851 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAAATTATATAGATC
1 AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAAATTATATAGATC
56010897 AA
1 AA
56010899 GAACAAAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (46 bp):
AAAGAAATTGTGTTTAAATGAGGTTAATTTGAAAATTATATAGATC
Found at i:56013783 original size:20 final size:20
Alignment explanation
Indices: 56013758--56013814 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
56013748 ATGATTTGAC
*
56013758 ATGATATGCACATGTTACGT
1 ATGATATGCACATGATACGT
*
56013778 ATGATATGCACATGATATGT
1 ATGATATGCACATGATACGT
56013798 ATGATATGCACATGATA
1 ATGATATGCACATGATA
56013815 AATACATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATACGT
Found at i:56013794 original size:11 final size:11
Alignment explanation
Indices: 56013746--56013814 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
56013736 ATTTTGATAT
*
56013746 ACATGATTTG-
1 ACATGATATGC
56013756 ACATGATATGC
1 ACATGATATGC
*
56013767 ACATG-T-TAC
1 ACATGATATGC
**
56013776 GTATGATATGC
1 ACATGATATGC
56013787 ACATGATATG-
1 ACATGATATGC
*
56013797 -TATGATATGC
1 ACATGATATGC
56013807 ACATGATA
1 ACATGATA
56013815 AATACATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
9 13 0.29
10 11 0.24
11 21 0.47
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:56013896 original size:25 final size:25
Alignment explanation
Indices: 56013862--56013931 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
56013852 GAGGAAGTGC
*
56013862 AAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
56013887 AAAAGGGCTTTGCTCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
56013912 AAAAGGGCTGTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56013932 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:56014208 original size:31 final size:31
Alignment explanation
Indices: 56014151--56014228 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
56014141 CGTTTACAGT
* *
56014151 AAAGGCTTCAGCCTA-TGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGACATGAATAATGA
* *
56014181 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCAGCCCAGTGACATGAATAATGA
56014212 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
56014229 ATATGCTGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 13 0.31
31 29 0.69
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGACATGAATAATGA
Found at i:56017421 original size:29 final size:29
Alignment explanation
Indices: 56017328--56017410 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
56017318 GTGACGAGAT
56017328 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56017357 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
56017386 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
56017411 AATACAGCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56019377 original size:3 final size:3
Alignment explanation
Indices: 56019369--56019393 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56019359 TGTTTATAAA
56019369 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
56019394 GTAATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:56021589 original size:20 final size:20
Alignment explanation
Indices: 56021564--56021631 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
56021554 ATTTTGATAT
56021564 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56021584 ACATGATACGTATGATATGC
1 ACATGATATGTATGATATGC
56021604 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56021624 ACATGATA
1 ACATGATA
56021632 AATTCATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56021591 original size:11 final size:11
Alignment explanation
Indices: 56021575--56021631 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
56021565 CATGATATGT
56021575 ATGATATGCAC
1 ATGATATGCAC
**
56021586 ATGATA--CGT
1 ATGATATGCAC
56021595 ATGATATGCAC
1 ATGATATGCAC
*
56021606 ATGATATG--T
1 ATGATATGCAC
56021615 ATGATATGCAC
1 ATGATATGCAC
56021626 ATGATA
1 ATGATA
56021632 AATTCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56021618 original size:9 final size:9
Alignment explanation
Indices: 56021566--56021622 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56021556 TTTGATATAC
56021566 ATGATATGT
1 ATGATATGT
*
56021575 ATGATATGCAC
1 ATGATATG--T
*
56021586 ATGATACGT
1 ATGATATGT
*
56021595 ATGATATGCAC
1 ATGATATG--T
56021606 ATGATATGT
1 ATGATATGT
56021615 ATGATATG
1 ATGATATG
56021623 CACATGATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:56021713 original size:25 final size:25
Alignment explanation
Indices: 56021679--56021748 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
56021669 GAGGAAGTGC
* *
56021679 AAAAGGGCTTTACCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
56021704 AAAAGAGCTTTGCTCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
56021729 AAAAGGGCTGTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56021749 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:56022003 original size:30 final size:31
Alignment explanation
Indices: 56021969--56022042 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
56021959 CGTTTACAGT
*
56021969 AAAGGCTTCGGCCC-GTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGAAATGAATAATGA
*
56021999 AAAGGCTTCGGCCCAGTGAAATGAATAATGT
1 AAAGGCTTCGGCCCAGTGAAATGAATAATGA
56022030 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
56022043 TAGTATATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 14 0.34
31 27 0.66
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGAATAATGA
Found at i:56022957 original size:49 final size:50
Alignment explanation
Indices: 56022881--56022982 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 50
56022871 TTGTATAATC
* * *
56022881 GGCCATATAGGTAGGTACAAATGTGATGTTA-TATTGAA-CTTGAATGTTT
1 GGCCACATAGGTACGTACAAATATGATG-TACTATTGAATCTTGAATGTTT
* * * *
56022930 GGCCACATAGTTACGTACATATATGATGTACTATTGAATCTTGTATTTTT
1 GGCCACATAGGTACGTACAAATATGATGTACTATTGAATCTTGAATGTTT
56022980 GGC
1 GGC
56022983 TATGTAGGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.05
49 30 0.68
50 12 0.27
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (50 bp):
GGCCACATAGGTACGTACAAATATGATGTACTATTGAATCTTGAATGTTT
Found at i:56023007 original size:50 final size:49
Alignment explanation
Indices: 56022953--56023131 Score: 195
Period size: 50 Copynumber: 3.6 Consensus size: 49
56022943 CGTACATATA
* * *
56022953 TGATG-TACTATTGAATCTTGTATTTTTGGCTATGTAGGTAGGTATTTATG
1 TGATGATA-TATTGAACCTTGTATATTTGGCTAT-TAGGTAAGTATTTATG
* *
56023003 TGATGATATATTGAACCTTGTATATTCGG-TCATAAGGTAAGTATTTATG
1 TGATGATATATTGAACCTTGTATATTTGGCT-ATTAGGTAAGTATTTATG
* *
56023052 TGATGATATATTGAACCTCGTATATTTGGAC-ATCTGGGTAAGTATTTATG
1 TGATGATATATTGAACCTTGTATATTTGG-CTAT-TAGGTAAGTATTTATG
* *
56023102 TGATGATATATTTG-ATCTTGCATATTTGGC
1 TGATGATATA-TTGAACCTTGTATATTTGGC
56023132 AAAATGAGTG
Statistics
Matches: 111, Mismatches: 12, Indels: 13
0.82 0.09 0.10
Matches are distributed among these distances:
49 45 0.41
50 61 0.55
51 5 0.05
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (49 bp):
TGATGATATATTGAACCTTGTATATTTGGCTATTAGGTAAGTATTTATG
Found at i:56023056 original size:49 final size:50
Alignment explanation
Indices: 56022988--56023113 Score: 191
Period size: 49 Copynumber: 2.5 Consensus size: 50
56022978 TTGGCTATGT
* * *
56022988 AGGTAGGTATTTATGTGATGATATATTGAACCTTGTATATTCGGTCAT-A
1 AGGTAAGTATTTATGTGATGATATATTGAACCTCGTATATTCGGACATCA
* *
56023037 AGGTAAGTATTTATGTGATGATATATTGAACCTCGTATATTTGGACATCT
1 AGGTAAGTATTTATGTGATGATATATTGAACCTCGTATATTCGGACATCA
*
56023087 GGGTAAGTATTTATGTGATGATATATT
1 AGGTAAGTATTTATGTGATGATATATT
56023114 TGATCTTGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 44 0.63
50 26 0.37
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (50 bp):
AGGTAAGTATTTATGTGATGATATATTGAACCTCGTATATTCGGACATCA
Found at i:56023741 original size:2 final size:2
Alignment explanation
Indices: 56023734--56023760 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56023724 GCAATGATAC
56023734 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
56023761 AGAATGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56024531 original size:42 final size:42
Alignment explanation
Indices: 56024408--56024570 Score: 141
Period size: 42 Copynumber: 3.8 Consensus size: 42
56024398 GATGCCAATG
* * * * *
56024408 CCATATCCTAGATATGGTCTTACA-TAGGATCACATATATCGATG
1 CCATATCCCAGACATGGTCTTACACGA-AATCAC--ATATCGATA
* * * * *
56024452 CCGATAGCCCAGATATGGGCTTACAC-AATGTCCCATATCGATA
1 CC-ATATCCCAGACATGGTCTTACACGAA-ATCACATATCGATA
* * *
56024495 CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATG
1 CCATATCCCAGACATGGTCTTACACGAAATCACATATCGATA
*
56024537 CCATATCCCAGATATGGTCTTACACGAAATCACA
1 CCATATCCCAGACATGGTCTTACACGAAATCACA
56024571 CATAACCCTA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 60 0.62
43 12 0.12
44 2 0.02
45 23 0.24
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
CCATATCCCAGACATGGTCTTACACGAAATCACATATCGATA
Found at i:56032641 original size:49 final size:50
Alignment explanation
Indices: 56032536--56032763 Score: 225
Period size: 49 Copynumber: 4.6 Consensus size: 50
56032526 CGAAGCTATC
* * * *
56032536 TGATACGCATAGTAGCCTGCACTTAGTACT--ACACGCGACC-AACAATC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATA
* * *
56032583 CGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCAT-
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATA
* * * *
56032632 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CCATA
* * * *
56032682 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTA
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCA-TA
* * *
56032733 TGGTACACGTAATAGCTTGCACTTAGTACTA
1 TGATACACGTAGTAGCCTGCACTTAGTACTA
56032764 TACATGTGTA
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
47 27 0.18
49 52 0.34
50 35 0.23
51 37 0.25
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATA
Found at i:56040142 original size:50 final size:49
Alignment explanation
Indices: 56040026--56040255 Score: 268
Period size: 50 Copynumber: 4.6 Consensus size: 49
56040016 TTGATATGCA
* * *
56040026 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAAC-ATCTGATACACG
*
56040075 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACATCTGATACACG
* *
56040125 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-AA--CATCTGA-TACACG
* * * * *
56040176 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACA-TCTGATACACG
*
56040226 TAGTAGCCTGCACTTAGTACTATACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
56040256 TATTCACAAT
Statistics
Matches: 156, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
48 2 0.01
49 32 0.21
50 78 0.50
51 43 0.28
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACATCTGATACACG
Found at i:56042713 original size:42 final size:43
Alignment explanation
Indices: 56042635--56042751 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
56042625 TTTGGGACGT
* * *
56042635 TGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTAGGACAT
1 TGGCATCGATATGTGATTT-CGTGTAAGACCATGTCTAGGACAG
* *
56042679 TGGCTTC-ATATGTGATTTCGTGTAAGACCCTGTCTAGGACAG
1 TGGCATCGATATGTGATTTCGTGTAAGACCATGTCTAGGACAG
* * *
56042721 TGGCATCGATATTTGATTACATGTAAGACCA
1 TGGCATCGATATGTGATTTCGTGTAAGACCA
56042752 CGTTTGGGAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 28 0.45
43 28 0.45
44 6 0.10
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGGCATCGATATGTGATTTCGTGTAAGACCATGTCTAGGACAG
Found at i:56053082 original size:40 final size:40
Alignment explanation
Indices: 56053023--56053228 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
56053013 CAGAATACAA
* * *
56053023 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
56053063 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
56053103 CCGGATTTAACAACTTGCACGAATGCCTT-GGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56053142 CCGGATGTAGTCG-CTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56053182 CC-GATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
56053221 CCGGATAT
1 CCGGATAT
56053229 CATTCAATTG
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 59 0.43
40 77 0.57
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56053162 original size:79 final size:80
Alignment explanation
Indices: 56053023--56053227 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
56053013 CAGAATACAA
* *
56053023 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
56053088 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
56053103 CCGGATTTAACAACTTGCACGAATGCCTT-GGGTCTTAGCCCGGAT-GTAGTCG-CTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-A-ACGACTAGCACAAA
*
56053165 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
** ** * *
56053182 CC-GATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
56053228 TCATTCAATT
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 19 0.18
79 57 0.54
80 28 0.27
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56056721 original size:49 final size:47
Alignment explanation
Indices: 56056604--56056920 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
56056594 GATTTTACGC
* *
56056604 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
56056651 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
56056698 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
56056747 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
56056796 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
56056843 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
56056890 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
56056921 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 4 0.02
47 143 0.59
48 10 0.04
49 85 0.35
50 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:56056728 original size:96 final size:93
Alignment explanation
Indices: 56056604--56056920 Score: 424
Period size: 96 Copynumber: 3.3 Consensus size: 93
56056594 GATTTTACGC
56056604 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
56056669 TATATGTGATAAGGCTGAATGGCCAATGT
65 TATATGTGATAAGGCTGAATGGCCAATGT
56056698 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
*
56056763 TATATATATGTGATAAGGCCT-AATGG-CAGATGT
61 TGTATATATGTGATAAGG-CTGAATGGCCA-ATGT
* *
56056796 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAGGTGT
* * * * *
56056860 ATATATGTGACAGGGCCGAGTGGCCAACGT
64 ATATATGTGATAAGGCTGAATGGCCAATGT
* *
56056890 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
56056921 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.00
94 59 0.29
95 11 0.05
96 84 0.42
97 7 0.03
98 37 0.18
99 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCTGAATGGCCAATGT
Found at i:56064674 original size:40 final size:39
Alignment explanation
Indices: 56064516--56064676 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56064506 TGTGTATGAA
56064516 TGTGCGA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56064554 TGTGCGA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56064592 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56064631 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56064671 TGTGCG
1 TGTGCG
56064677 GGTTACCATA
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 45 0.39
39 53 0.46
40 17 0.15
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56064692 original size:40 final size:39
Alignment explanation
Indices: 56064516--56064707 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
56064506 TGTGTATGAA
*
56064516 TGTGCGA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56064554 TGTGCGA-TTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56064592 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56064631 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56064671 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
56064708 GTTTGAACGA
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
38 45 0.32
39 53 0.38
40 41 0.29
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56072520 original size:39 final size:39
Alignment explanation
Indices: 56072466--56072628 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56072456 TGTGTATGAA
*
56072466 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56072505 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56072544 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56072583 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56072623 TGTGCG
1 TGTGCG
56072629 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56072644 original size:40 final size:39
Alignment explanation
Indices: 56072466--56072658 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
56072456 TGTGTATGAA
* *
56072466 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56072505 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56072544 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56072583 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56072623 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
56072659 TGTTTGAACG
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56074562 original size:20 final size:21
Alignment explanation
Indices: 56074509--56074576 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
56074499 AAATTTCAAA
56074509 AATTAAACATAATATAATATTTT
1 AATTAAA-ATAA-ATAATATTTT
*
56074532 AATATAGAAATAAATATTA-TTT
1 AAT-TA-AAATAAATAATATTTT
56074554 AATTAAAATAAAATAAT-TTTT
1 AATTAAAAT-AAATAATATTTT
56074575 AA
1 AA
56074577 AAGGTCATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.10
21 13 0.33
22 6 0.15
23 8 0.21
24 6 0.15
25 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
AATTAAAATAAATAATATTTT
Found at i:56074638 original size:43 final size:43
Alignment explanation
Indices: 56074588--56074815 Score: 287
Period size: 43 Copynumber: 5.3 Consensus size: 43
56074578 AGGTCATATT
* * *
56074588 TTTAGCGGTGTTTTTAGGAAAAGCGCCGCTACAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
* * * *
56074631 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
* *
56074674 TTAAGCGGCGTTTGTGGGAAAAGTGCCGCTACAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
* ** * *
56074717 TTTAGCGGCGTTTATGGGAAAAGCGCCATTACAAGTCATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
* * *
56074760 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCT-AGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGA-CC
56074803 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
56074816 TTTCAAAAAA
Statistics
Matches: 162, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 1 0.01
43 161 0.99
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACC
Found at i:56074831 original size:43 final size:44
Alignment explanation
Indices: 56074784--56074870 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
56074774 TGGGAAAAGC
*
56074784 GCCGCTAAAGGTCCT-AGTCTTTAGCGGCG-TTTTTTCAAAAAAA
1 GCCGCTAAAGGTCCTGA-TCTTTAACGGCGTTTTTTTCAAAAAAA
*
56074827 GCCGCTAAAGGTCCTGATCTTTAACGGCGTTTTTTTCTAAAAAA
1 GCCGCTAAAGGTCCTGATCTTTAACGGCGTTTTTTTCAAAAAAA
56074871 CGCCACTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
GCCGCTAAAGGTCCTGATCTTTAACGGCGTTTTTTTCAAAAAAA
Found at i:56074831 original size:129 final size:129
Alignment explanation
Indices: 56074588--56074858 Score: 319
Period size: 129 Copynumber: 2.1 Consensus size: 129
56074578 AGGTCATATT
* * * * *
56074588 TTTAGCGGTGTTTTTAGGAAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTTTTAGGAAAA
1 TTTAGCGGCGTTTATAGGAAAAGCGCCACTACAAGTCATGACCTTTAGCGGCGTTTGTAGGAAAA
** ** *
56074653 GCGCCGCTAAAAGTCATGACCTTAAGCGGCGTTTGTGGGAAAAGTGCCGCTACAGGTCATGACC
66 GCGCCGCTAAAAGTCATGACCTTAAGCGGCGTTTGTGCAAAAAAAGCCGCTAAAGGTCATGACC
* * * *
56074717 TTTAGCGGCGTTTATGGGAAAAGCGCCATTACAAGTCATGATCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTATAGGAAAAGCGCCACTACAAGTCATGACCTTTAGCGGCGTTTGTAGGAAAA
* * * * * * * *
56074782 GCGCCGCTAAAGGTCCT-AGTCTTTAGCGGCGTTTTTTCAAAAAAAGCCGCTAAAGGTCCTGATC
66 GCGCCGCTAAAAGTCATGA-CCTTAAGCGGCGTTTGTGCAAAAAAAGCCGCTAAAGGTCATGACC
*
56074846 TTTAACGGCGTTT
1 TTTAGCGGCGTTT
56074859 TTTTCTAAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
128 1 0.01
129 117 0.99
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (129 bp):
TTTAGCGGCGTTTATAGGAAAAGCGCCACTACAAGTCATGACCTTTAGCGGCGTTTGTAGGAAAA
GCGCCGCTAAAAGTCATGACCTTAAGCGGCGTTTGTGCAAAAAAAGCCGCTAAAGGTCATGACC
Found at i:56074845 original size:86 final size:85
Alignment explanation
Indices: 56074580--56074858 Score: 319
Period size: 86 Copynumber: 3.3 Consensus size: 85
56074570 TTTTTAAAAG
* * * *
56074580 GTCAT-ATTTTTAGCGGTGTTTTTAGGAAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTT
1 GTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTT
56074644 TTAGGAAAAGCGCCGCTAAAA
66 TTAGGAAAAGCGCCGCT-AAA
* * *
56074665 GTCATGACCTTAAGCGGCGTTTGTGGGAAAAGTGCCGCTACAGGTCATGACCTTTAGCGGCGTTT
1 GTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTT
* * **
56074730 ATGGGAAAAGCGCCATTACAA
66 TTAGGAAAAGCGCCGCTA-AA
* * *
56074751 GTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCT-AGTCTTTAGCGGCGTT
1 GTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGA-CCTTTAGCGGCGTT
*** **
56074815 TTTTCAAAAAAAGCCGCTAAA
65 TTTAGGAAAAGCGCCGCTAAA
* *
56074836 GGTCCTGATCTTTAACGGCGTTT
1 -GTCATGATCTTTAGCGGCGTTT
56074859 TTTTCTAAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
85 9 0.06
86 154 0.94
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
GTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTT
TTAGGAAAAGCGCCGCTAAA
Found at i:56077915 original size:37 final size:37
Alignment explanation
Indices: 56077862--56077952 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
56077852 TCTTATAAAA
56077862 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56077899 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56077936 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56077953 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:56078103 original size:49 final size:49
Alignment explanation
Indices: 56078048--56078164 Score: 189
Period size: 49 Copynumber: 2.4 Consensus size: 49
56078038 TTTTACATTA
56078048 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
56078097 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
56078146 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
56078165 CATATATGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:56080305 original size:41 final size:41
Alignment explanation
Indices: 56080208--56080305 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 41
56080198 TCGATTGTCC
* * * **
56080208 TCGGGACATAGCCCGG-TTATAGTTATTCGCACAATTGCCT
1 TCGGGACTTAGCCCGGATTATAGTAATTAGCACAAAAGCCT
*
56080248 T-GGGAATTAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
1 TCGGGACTTAGCCCGGATTATAGTAA-TTAGCACAAAAGCCT
56080288 TCGGGACTTAGCCCGGAT
1 TCGGGACTTAGCCCGGAT
56080306 ACCATTCGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 17 0.35
40 16 0.33
41 15 0.31
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (41 bp):
TCGGGACTTAGCCCGGATTATAGTAATTAGCACAAAAGCCT
Found at i:56080825 original size:29 final size:29
Alignment explanation
Indices: 56080789--56081008 Score: 417
Period size: 29 Copynumber: 7.7 Consensus size: 29
56080779 TGTTGAAAAA
*
56080789 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080818 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080847 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080876 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080905 CTCGCACACAT-GTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080933 CTCGCACACAT-GTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080961 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
56080990 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
56081009 AATCATTCGC
Statistics
Matches: 189, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 56 0.30
29 133 0.70
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:56080981 original size:114 final size:116
Alignment explanation
Indices: 56080789--56081008 Score: 417
Period size: 114 Copynumber: 1.9 Consensus size: 116
56080779 TGTTGAAAAA
56080789 CTCGCACACATAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGCAC
1 CTCGCACACATAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGCAC
56080854 ACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGAT
66 ACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGAT
*
56080905 CTCGCACACAT-GTGCCTCGATTACTGATCTCGCACACAT-GTGCCTCGATTACTGATCTCGCAC
1 CTCGCACACATAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGCAC
56080968 ACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTC
66 ACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTC
56081009 AATCATTCGC
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
114 65 0.63
115 27 0.26
116 11 0.11
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (116 bp):
CTCGCACACATAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGCAC
ACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGAT
Found at i:56083151 original size:37 final size:37
Alignment explanation
Indices: 56083098--56083188 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
56083088 TCTTATAAAA
*
56083098 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCAACACGTAGTCATCGG
*
56083135 GTCTTACCCGGTCATAATCTCAACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCAACACGTAGTCATCGG
*
56083172 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56083189 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCAACACGTAGTCATCGG
Found at i:56083339 original size:49 final size:49
Alignment explanation
Indices: 56083284--56083400 Score: 189
Period size: 49 Copynumber: 2.4 Consensus size: 49
56083274 TTTTACATTA
56083284 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
56083333 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
56083382 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
56083401 CATATATGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:56092976 original size:46 final size:46
Alignment explanation
Indices: 56092918--56093090 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
56092908 TGTAACCCGC
* * *
56092918 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
* *
56092964 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCACAT
* * * *
56093014 -C-TCA-CGAACTCGGACTCAATTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
*
56093057 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
56093091 GGATGCTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 56 0.53
47 25 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
Found at i:56093058 original size:93 final size:93
Alignment explanation
Indices: 56092925--56093096 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56092915 CGCCCATAAG
* *
56092925 CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
56092990 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
56093018 CGAACTCGGACTCAATTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
56093083 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56093097 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56093547 original size:30 final size:30
Alignment explanation
Indices: 56093512--56093572 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56093502 TCCTTAACTC
56093512 AAATTTTGGCAAAATTACAATTTTACCCCT
1 AAATTTTGGCAAAATTACAATTTTACCCCT
* * * * *
56093542 AAATTTTTGCATATTTACATTTTTGCCCCT
1 AAATTTTGGCAAAATTACAATTTTACCCCT
56093572 A
1 A
56093573 GGCTCGGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATTTTGGCAAAATTACAATTTTACCCCT
Found at i:56098776 original size:47 final size:47
Alignment explanation
Indices: 56098713--56099153 Score: 634
Period size: 47 Copynumber: 9.4 Consensus size: 47
56098703 CCCTTCGGGA
* * *
56098713 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
56098760 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56098807 CTTATCTCATATAT--ACTTTTACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56098852 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56098899 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56098948 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56098995 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56099042 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56099089 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56099136 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56099154 CTTGTACATC
Statistics
Matches: 354, Mismatches: 36, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 41 0.12
47 270 0.76
49 43 0.12
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56099004 original size:22 final size:22
Alignment explanation
Indices: 56098976--56099098 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
56098966 TTTCACATTC
56098976 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
56098998 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
56099022 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
56099045 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
56099069 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56099092 ATCACAT
1 ATCACAT
56099099 ATATGCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 28 0.39
23 11 0.15
24 11 0.15
25 21 0.30
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56102697 original size:40 final size:40
Alignment explanation
Indices: 56102642--56102953 Score: 509
Period size: 40 Copynumber: 7.8 Consensus size: 40
56102632 ATTTTGTCCA
**
56102642 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
* *
56102681 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
*
56102721 AGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
*
56102761 AGCACGAATGCTCTTCGGAACTTAGCCCGAATACATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
*
56102801 AGCACGAATGCTCTTCGGAACATAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
* * *
56102841 AGCACGAATGCTCTTCGGAACCTAGTCCGGATATATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
*
56102881 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
*
56102921 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGAACTTAGCCCGGATA
56102954 TAACATACTG
Statistics
Matches: 256, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 11 0.04
40 245 0.96
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
Found at i:56104877 original size:47 final size:47
Alignment explanation
Indices: 56104814--56105347 Score: 786
Period size: 47 Copynumber: 11.4 Consensus size: 47
56104804 CCCTTCGGGA
* * *
56104814 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56104861 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56104908 CTTATCTCATATAT--ACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56104953 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56105000 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56105049 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56105096 CTTATCACATATATGCACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56105143 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56105190 CTTATCACATATATGCAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56105236 CTTATCACATATACACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56105283 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56105330 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56105348 CTTGTACATC
Statistics
Matches: 437, Mismatches: 45, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
45 41 0.09
46 42 0.10
47 311 0.71
49 43 0.10
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56105105 original size:22 final size:22
Alignment explanation
Indices: 56105077--56105199 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
56105067 TTTCACATTC
56105077 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
56105099 ATCACATATATGCACTTTC-ACATTT
1 ATCACAT-T-GGC-CATTCGGC-CTT
* *
56105124 ATCACATCGGCCATTAGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
56105146 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
56105170 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56105193 ATCACAT
1 ATCACAT
56105200 ATATGCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 30 0.42
23 9 0.13
24 9 0.13
25 23 0.32
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56105129 original size:94 final size:94
Alignment explanation
Indices: 56104814--56105347 Score: 876
Period size: 94 Copynumber: 5.7 Consensus size: 94
56104804 CCCTTCGGGA
* * * * * *
56104814 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
* * * *
56104879 CTTCACATCCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* * * * *
56104908 CTTATCTCATATAT--ACTTTCACATTCATCACATTGGCCATTAGGTCTTATCTCATATATACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
56104971 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
56105000 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 CTTAT--CACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
56105065 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
*
56105096 CTTATCACATATATGCACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
56105161 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
56105190 CTTATCACATATATGCAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
*
56105254 TTTCACATTCATCACATTGGCCGTTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
56105283 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
56105348 CTTGTACATC
Statistics
Matches: 417, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
92 75 0.18
93 91 0.22
94 172 0.41
96 79 0.19
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:56105283 original size:187 final size:188
Alignment explanation
Indices: 56104814--56105347 Score: 876
Period size: 187 Copynumber: 2.8 Consensus size: 188
56104804 CCCTTCGGGA
* * * * * *
56104814 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
* * * * * *
56104879 CTTCACATCCATCACATCGGCCATTAGGCCTTATCTCATATAT--ACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACATC
* * *
56104942 GGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
56105000 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 CTTAT--CACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
*
56105065 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTTATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACA
56105130 TCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
129 TCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
56105190 CTTATCACATATATGCAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
*
56105254 TTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATATATGCACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACATC
56105319 GGCCATTAGGCCTTATCACATATACACAC
131 GGCCATTAGGCCTTATCACATATACACAC
56105348 CTTGTACATC
Statistics
Matches: 326, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
186 5 0.02
187 138 0.42
188 105 0.32
190 78 0.24
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (188 bp):
CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56113333 original size:40 final size:40
Alignment explanation
Indices: 56113278--56113378 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
56113268 TATTCGGATG
56113278 ATATCCGGGCTAAGTCCCGAAGCCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGCCATTTGTGCAAGTTACT
* * *
56113318 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGCCATTTGTGCAAGTTACT
*
56113358 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
56113379 ATACTTGGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGCCATTTGTGCAAGTTACT
Found at i:56117553 original size:46 final size:45
Alignment explanation
Indices: 56117392--56117564 Score: 145
Period size: 44 Copynumber: 3.7 Consensus size: 45
56117382 ATAAGTTGCC
* * *
56117392 GATGCCATGTCCCAGACATGGTCTTATACTAGCCCTCATAAATACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT--AT-TGTGCT
* * * *
56117442 GATGCATGTCCC-GAACATGTCTTACACTAGCAC-GACTCTT-AGCC
1 GATGCATGTCCCAG-ACATGTCTTACACTAGCACTCA-TATTGTGCT
* * * * *
56117486 AATGCATATCTCATACATGTCTTACACTGGCACTCATATTGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATATTGT-GCT
56117532 GATGCATGTCCCAGACATGTCTTACACTAGCAC
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC
56117565 ACAAGAAATC
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
44 32 0.33
45 1 0.01
46 31 0.32
47 1 0.01
48 15 0.16
49 12 0.12
50 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATATTGTGCT
Found at i:56122572 original size:19 final size:20
Alignment explanation
Indices: 56122548--56122587 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
56122538 GATAACTCAG
56122548 GAAAA-TTTTACAAAACATA
1 GAAAATTTTTACAAAACATA
*
56122567 GAAAATTTTTACAAAATATA
1 GAAAATTTTTACAAAACATA
56122587 G
1 G
56122588 GGGACACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
GAAAATTTTTACAAAACATA
Found at i:56143828 original size:2 final size:2
Alignment explanation
Indices: 56143821--56143861 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
56143811 TCATTTTAAC
56143821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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 TA TA T
56143862 CACAAATCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:56149401 original size:37 final size:37
Alignment explanation
Indices: 56149348--56149469 Score: 183
Period size: 37 Copynumber: 3.3 Consensus size: 37
56149338 TATAAAAGAA
* *
56149348 GTCTTACCCGGACATAATTTCCACACATAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACATAGTCATCGG
56149385 GTCTTACCCGGTCATAATCTCCACA-AGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACA-TAGTCATCGG
* *
56149422 ATCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACATAGTCATCGG
*
56149459 GTCTCACCCGG
1 GTCTTACCCGG
56149470 AACATATTCC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
36 1 0.01
37 76 0.99
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACATAGTCATCGG
Found at i:56149626 original size:49 final size:49
Alignment explanation
Indices: 56149571--56149834 Score: 483
Period size: 49 Copynumber: 5.4 Consensus size: 49
56149561 TTTTACAGTA
56149571 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
56149620 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
56149669 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
56149718 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
56149767 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
56149816 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
56149835 CATATATGTA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:56152326 original size:40 final size:40
Alignment explanation
Indices: 56152218--56152327 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
56152208 ATTGAATGAT
* * * * *
56152218 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
56152258 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
56152298 ATCTGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
56152328 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:56152355 original size:40 final size:39
Alignment explanation
Indices: 56152218--56152367 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 39
56152208 ATTGAATGAT
* * * * * * *
56152218 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
56152258 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* * *
56152298 ATCTGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
56152338 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
56152368 GGGTTACCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 84 0.93
41 1 0.01
43 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:56156263 original size:17 final size:17
Alignment explanation
Indices: 56156241--56156274 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56156231 GTGTGACCAA
56156241 GCCATGTGCCTTACACG
1 GCCATGTGCCTTACACG
56156258 GCCATGTGCCTTACACG
1 GCCATGTGCCTTACACG
56156275 AGCACCAGAC
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:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
GCCATGTGCCTTACACG
Found at i:56157504 original size:42 final size:42
Alignment explanation
Indices: 56157403--56157690 Score: 337
Period size: 42 Copynumber: 6.8 Consensus size: 42
56157393 AACGGGTACA
* * *
56157403 ATGCCGATGTCCCAGACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATCAGATA-CG
** * * * *
56157446 ATGCCTCTGTCCCAGACAGGGTCTTACATGAAATTAGATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
56157488 ATGCCAATATCCCAGACATGGTCTTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* *
56157530 ATGCCGATGTCCCAGACATGGTTTTACACAAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
56157572 ATGCCAATGTCCCAGACAT-ATCTTACACGAAATCAGATAAG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
** * *
56157613 AAACCGATGTTCCAGACATGGTCTTACATGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
56157655 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATC
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATC
56157691 TCAAATTGAG
Statistics
Matches: 207, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
41 33 0.16
42 140 0.68
43 34 0.16
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
Found at i:56157628 original size:125 final size:126
Alignment explanation
Indices: 56157403--56157683 Score: 350
Period size: 125 Copynumber: 2.2 Consensus size: 126
56157393 AACGGGTACA
* ** * ** *
56157403 ATGCCGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGATGTCCCAGACATGGTCTTACA-CAAAATCAATATCGATGCCAATGTCCCAGACAGGAT
* * * **
56157468 CTTACATGAAATTAGATATGATGCCAATATCCCAGACATGGTCTTACACAAAATCAGATACG
65 CTTACACGAAATCAGATAAGAAACCAATATCCCAGACATGGTCTTACACAAAATCAGATACG
* *
56157530 ATGCCGATGTCCCAGACATGGTTTTACACAAAATCAGATA-CGATGCCAATGTCCCAGACA-TAT
1 ATGCCGATGTCCCAGACATGGTCTTACACAAAATCA-ATATCGATGCCAATGTCCCAGACAGGAT
* * * **
56157593 CTTACACGAAATCAGATAAGAAACCGATGTTCCAGACATGGTCTTACATGAAATCAGATACG
65 CTTACACGAAATCAGATAAGAAACCAATATCCCAGACATGGTCTTACACAAAATCAGATACG
*
56157655 ATGCCGATGTCCCAAACATGGTCTTACAC
1 ATGCCGATGTCCCAGACATGGTCTTACAC
56157684 GTAAATCTCA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 80 0.61
126 23 0.17
127 29 0.22
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (126 bp):
ATGCCGATGTCCCAGACATGGTCTTACACAAAATCAATATCGATGCCAATGTCCCAGACAGGATC
TTACACGAAATCAGATAAGAAACCAATATCCCAGACATGGTCTTACACAAAATCAGATACG
Found at i:56157631 original size:83 final size:84
Alignment explanation
Indices: 56157453--56157690 Score: 325
Period size: 83 Copynumber: 2.8 Consensus size: 84
56157443 TCGATGCCTC
* * * * *
56157453 TGTCCCAGACAGGGTCTTACATGAAATTAGATATGATGCCAATATCCCAGACATGGTCTTACACA
1 TGTCCCAGACATGGTCTTACATGAAATCAGATACGATGCCAATGTCCCAGACATGGTCTTACACG
* **
56157518 AAATCAGATACGATGCCGA
66 AAATCAGATAAGAAACCGA
* ** *
56157537 TGTCCCAGACATGGTTTTACACAAAATCAGATACGATGCCAATGTCCCAGACAT-ATCTTACACG
1 TGTCCCAGACATGGTCTTACATGAAATCAGATACGATGCCAATGTCCCAGACATGGTCTTACACG
56157601 AAATCAGATAAGAAACCGA
66 AAATCAGATAAGAAACCGA
* * *
56157620 TGTTCCAGACATGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACATGGTCTTACACG
1 TGTCCCAGACATGGTCTTACATGAAATCAGATACGATGCCAATGTCCCAGACATGGTCTTACACG
56157685 TAAATC
66 -AAATC
56157691 TCAAATTGAG
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 72 0.54
84 56 0.42
85 5 0.04
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
TGTCCCAGACATGGTCTTACATGAAATCAGATACGATGCCAATGTCCCAGACATGGTCTTACACG
AAATCAGATAAGAAACCGA
Found at i:56164341 original size:42 final size:42
Alignment explanation
Indices: 56164252--56164560 Score: 316
Period size: 42 Copynumber: 7.5 Consensus size: 42
56164242 GTCGACGTCT
* * * **
56164252 CAGACATGGTCTTACATGTAATTCA-ATATCAATGCCTCTGTCC
1 CAGACATGGTCTTACACG-AAATCAGATA-CGATGCCGATGTCC
* * *
56164295 CAGACAGGGTCTTACACGAAATCAGATATGATGCCAATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
*
56164337 CAGACATGGTCTTACACAAAATCAGAT---A---CGATG--C
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* * *
56164371 CA-A-ATGGTATTACACAAAATCAGATACGATGCTGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* ** * *
56164411 TAGACATGGTCTTACATAAAATCAAATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
*
56164453 CAGACATGGTCTTACACGAAATCGGATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* *
56164495 CAGACATGGTCTTACATGAAATCAGATACGATGTCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* *
56164537 CAGACATCGACTTACACGTAAATC
1 CAGACATGGTCTTACACG-AAATC
56164561 TCAAATTGAG
Statistics
Matches: 224, Mismatches: 30, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
32 21 0.09
33 1 0.00
34 3 0.01
35 1 0.00
36 4 0.02
38 4 0.02
39 1 0.00
40 2 0.01
41 1 0.00
42 162 0.72
43 24 0.11
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
Found at i:56164384 original size:32 final size:32
Alignment explanation
Indices: 56164342--56164402 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
56164332 TGTCCCAGAC
*
56164342 ATGGTCTTACACAAAATCAGATACGATGCCAA
1 ATGGTATTACACAAAATCAGATACGATGCCAA
56164374 ATGGTATTACACAAAATCAGATACGATGC
1 ATGGTATTACACAAAATCAGATACGATGC
56164403 TGATGTCCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (32 bp):
ATGGTATTACACAAAATCAGATACGATGCCAA
Found at i:56170557 original size:46 final size:46
Alignment explanation
Indices: 56170482--56170651 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
56170472 GGTGTGAGCC
*
56170482 AGTGTAAGACCATG-CTTGGGACATGGCATCGGCATTGAGACAAGTGCT
1 AGTGTAAGACCATGTC-TGGGACATGGCATCGGC-TTGAGA-ATGTGCT
* * *
56170530 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG-ATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCTTGAGAATGT--GCT
* *
56170576 AGTGTAAGA-CATGTCTGGGACAT-GAATCGGCTACGAG-ATGTG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGAATGTGCT
56170619 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG
56170652 TACGGATATG
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
44 13 0.12
45 17 0.16
46 52 0.49
47 14 0.13
48 10 0.09
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGAATGTGCT
Found at i:56176370 original size:40 final size:40
Alignment explanation
Indices: 56176306--56176496 Score: 192
Period size: 39 Copynumber: 4.8 Consensus size: 40
56176296 GCTACTCGTT
* * * * *
56176306 CAAACGCCTTCGGGACATAGCCCGGTTATGATAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
56176346 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
56176386 C-AATCGCCTTCGGG-CTTAGCCCGGATATCATATCTCGTA
1 CAAAT-GCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
** **
56176425 CATTTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
**
56176464 CATTTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
56176497 TTCGCACATT
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 88 0.67
40 44 0.33
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:56176434 original size:39 final size:39
Alignment explanation
Indices: 56176350--56176506 Score: 212
Period size: 39 Copynumber: 4.0 Consensus size: 39
56176340 CCCGCACAAA
* *
56176350 TGCCTTCGGGACTTAACCCGGATATCACAA-CTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACATT
* * *
56176390 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGTACATT
1 TGCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACATT
56176429 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACATT
56176468 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACATT
56176507 CATACACATC
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 95 0.89
40 11 0.10
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACATT
Found at i:56176506 original size:78 final size:79
Alignment explanation
Indices: 56176310--56176506 Score: 238
Period size: 78 Copynumber: 2.5 Consensus size: 79
56176300 CTCGTTCAAA
* * * * **
56176310 CGCCTTCGGGACATAGCCCGGTTATGATAA-CCCGCACAAATGCCTTCGGGACTTAACCCGGATA
1 CGCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACATTTGCCTTCGGGACTTAACCCGGATA
56176374 TCACAACTCGCACAAT
64 TCACAACTCGCACAAT
* * *
56176390 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGTACATTTGCCTTCGGG-CTTAGCCCGGATATC
1 CGCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACATTTGCCTTCGGGACTTAACCCGGATATC
* *
56176454 ACAATTCGCACATT
66 ACAACTCGCACAAT
*
56176468 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACATT
56176507 CATACACATC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 60 0.59
79 31 0.31
80 10 0.10
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (79 bp):
CGCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACATTTGCCTTCGGGACTTAACCCGGATATC
ACAACTCGCACAAT
Found at i:56184531 original size:79 final size:79
Alignment explanation
Indices: 56184424--56184575 Score: 229
Period size: 79 Copynumber: 1.9 Consensus size: 79
56184414 TTATGTAACC
56184424 CGCACAAATGCCTTCGGGACTTAACCCGGATATCAACAACTCGCACAATTGCC-TCGGGCTT-GC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATC-AC-ACTCGCACAATTGCCTTCGGGCTTAGC
56184487 CCGGATATCAATAGCT
64 CCGGATATCAATAGCT
* * *
56184503 CGCACAATTTGCCTTCGGG-CTTAGCCCGGATATCACATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAA-ATGCCTTCGGGACTTAACCCGGATATCACACTCGCACAATTGCCTTCGGGCTTAGCC
56184567 CGGATATCA
65 CGGATATCA
56184576 CAATTCGCAC
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
77 14 0.21
78 10 0.15
79 33 0.49
80 10 0.15
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCAATAGCT
Found at i:56184545 original size:39 final size:39
Alignment explanation
Indices: 56184424--56184586 Score: 217
Period size: 38 Copynumber: 4.2 Consensus size: 39
56184414 TTATGTAACC
* * *
56184424 CGCACAAATGCCTTCGGGACTTAACCCGGATATCAACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATC-ACAATT
*
56184465 CGCACAATTGCC-TCGGGCTT-GCCCGGATATCA-ATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-A-TT
56184503 CGCACAATTTGCCTTCGGGCTTAGCCCGGATATCAC-ATT
1 CGCACAA-TTGCCTTCGGGCTTAGCCCGGATATCACAATT
56184542 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
56184581 CGCACA
1 CGCACA
56184587 TTCATACACA
Statistics
Matches: 112, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
36 1 0.01
37 2 0.02
38 47 0.42
39 25 0.22
40 14 0.12
41 23 0.21
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:56188207 original size:40 final size:40
Alignment explanation
Indices: 56188143--56188332 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
56188133 GCTACTCGTT
* * * ***
56188143 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
56188183 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
56188223 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
56188262 C-ATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
56188300 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
56188333 TTCGCACATT
Statistics
Matches: 134, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.26
39 54 0.40
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:56188276 original size:38 final size:39
Alignment explanation
Indices: 56188179--56188340 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
56188169 TATGGTAACC
* *
56188179 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56188219 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56188258 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56188296 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
56188335 CGCACA
1 CGCACA
56188341 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56188338 original size:77 final size:78
Alignment explanation
Indices: 56188187--56188342 Score: 260
Period size: 77 Copynumber: 2.0 Consensus size: 78
56188177 CCCGCACAAA
56188187 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
56188252 ATAGCTCGCACAT
66 ACAACTCGCACAT
* *
56188265 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
56188329 ACAATTCGCACAT
66 ACAACTCGCACAT
56188342 T
1 T
56188343 CATACACATC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 63 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:56196317 original size:40 final size:40
Alignment explanation
Indices: 56196253--56196441 Score: 199
Period size: 38 Copynumber: 4.8 Consensus size: 40
56196243 GCTACTCGTT
* * * ***
56196253 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
56196293 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
56196333 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
56196372 C-ATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
56196410 C-ATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
56196442 TTCGCACATT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 66 0.49
39 23 0.17
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:56196386 original size:38 final size:38
Alignment explanation
Indices: 56196297--56196451 Score: 247
Period size: 38 Copynumber: 4.0 Consensus size: 38
56196287 CCCGCACAAA
*
56196297 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCAC-AT
* *
56196337 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAT
*
56196375 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAT
*
56196413 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAT
56196451 T
1 T
56196452 CATACACATC
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 76 0.70
39 23 0.21
40 10 0.09
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (38 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAT
Found at i:56198198 original size:43 final size:43
Alignment explanation
Indices: 56198119--56198204 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
56198109 ATTTTGTGGT
** * *
56198119 CCCGAAACCACATCCCGACTAGGGTCAATTTTGGGCTGTCACA
1 CCCGAAACCACATCCCGACTAGGGTCAAAATAGGGCTATCACA
*
56198162 CCCGAAACCACTTCCCGACTAGGGTCAAAATAGGGCTATCACA
1 CCCGAAACCACATCCCGACTAGGGTCAAAATAGGGCTATCACA
56198205 ACTCTCCCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.19
Consensus pattern (43 bp):
CCCGAAACCACATCCCGACTAGGGTCAAAATAGGGCTATCACA
Found at i:56198920 original size:40 final size:40
Alignment explanation
Indices: 56198854--56199014 Score: 252
Period size: 40 Copynumber: 4.0 Consensus size: 40
56198844 GATTACACAT
* * *
56198854 CACCGGCACGAATGCCCTTC-AGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGA-GACTTAGCCCGGATATAA
56198894 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
56198934 CACCACCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
56198974 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
56199014 C
1 C
56199015 TCTCAATTCT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 113 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:56210095 original size:39 final size:39
Alignment explanation
Indices: 56210037--56210191 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
56210027 AGTGATGAAG
* * *
56210037 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAC
1 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
56210076 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
56210115 TATATCCAGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
56210154 TATAACCAGACTTAAGGTCCGCAGACTACGTGCTGGAA
1 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAA
56210192 ATATGTCTGG
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:56231660 original size:53 final size:52
Alignment explanation
Indices: 56231513--56231713 Score: 206
Period size: 51 Copynumber: 4.0 Consensus size: 52
56231503 GACGGAAAAT
* * **
56231513 ATGTGATATGTGCTTCCGTATAAGACCATAGCTAGGCTATGGCATCAGTGCA
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
56231565 ATGTGATA-GT-ATTTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
1 ATGTGATATGTGA-TTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
* * * *
56231616 ATGTGATAATGTGATTCCATATAAGACCATATCTGGGATATGGCATC-G-GT-
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
* * *
56231666 A--TGATATGTGA-TCC-TGTAAGACCATGGC-AGGGCTATGGCTTCGGTGTG
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTA-GGCTATGGCATCGGTGTG
56231714 TGATATGTGA
Statistics
Matches: 127, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
45 21 0.17
46 4 0.03
47 8 0.06
48 4 0.03
50 1 0.01
51 47 0.37
52 10 0.08
53 31 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
Found at i:56237268 original size:26 final size:26
Alignment explanation
Indices: 56237237--56237344 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56237227 TGAAATGCCC
*
56237237 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56237263 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
56237289 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
56237315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56237341 ATCA
1 ATCA
56237345 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56243042 original size:13 final size:13
Alignment explanation
Indices: 56243024--56243051 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56243014 ACATATTATA
56243024 AATATTTTGTGTT
1 AATATTTTGTGTT
56243037 AATATTTTGTGTT
1 AATATTTTGTGTT
56243050 AA
1 AA
56243052 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:56243644 original size:40 final size:40
Alignment explanation
Indices: 56243596--56243877 Score: 477
Period size: 40 Copynumber: 7.2 Consensus size: 40
56243586 GGACTAAGAT
56243596 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56243636 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGT-
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
56243674 CCGAAGGCATTTGTGCTAGTGACTATA-CCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
56243713 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
56243753 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56243793 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56243833 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GG-TAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56243871 CCGAAGG
1 CCGAAGG
56243878 TACTTGGGTT
Statistics
Matches: 232, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
37 2 0.01
38 46 0.20
39 37 0.16
40 145 0.62
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56250397 original size:13 final size:13
Alignment explanation
Indices: 56250379--56250406 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56250369 ACATATTATA
56250379 AATATTTTGTGTT
1 AATATTTTGTGTT
56250392 AATATTTTGTGTT
1 AATATTTTGTGTT
56250405 AA
1 AA
56250407 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Done.