Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 273 of 425
Found at i:84108418 original size:46 final size:45
Alignment explanation
Indices: 84108272--84108442 Score: 222
Period size: 46 Copynumber: 3.8 Consensus size: 45
84108262 AACCCGCCCC
* *
84108272 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCA
* *
84108317 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGC-A--TCCA
* *
84108363 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCA
84108409 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84108443 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 34 0.31
46 63 0.58
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCA
Found at i:84108433 original size:92 final size:91
Alignment explanation
Indices: 84108277--84108445 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 91
84108267 GCCCCTAAGT
*
84108277 GAACTCGGACTCAACTCAACGAGCTCGGAGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
84108342 GAGTTCGGATGCCTAGTTACATTCAC
66 GAGTTCGGATGCCTAGTTACATTCAC
*
84108368 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-ATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84108433 CGAGTTCGGATGC
65 CGAGTTCGGATGC
84108446 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 28 0.37
92 47 0.63
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTCAC
Found at i:84108461 original size:46 final size:46
Alignment explanation
Indices: 84108274--84108461 Score: 160
Period size: 46 Copynumber: 4.1 Consensus size: 46
84108264 CCCGCCCCTA
* * *
84108274 AGTGAACTCGGACTCAACTCAACGAGCTCGGA-GTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
84108318 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
84108366 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
84108411 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
84108457 AGTGA
1 AGTGA
84108462 CATGTCACTT
Statistics
Matches: 117, Mismatches: 11, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
44 9 0.08
45 33 0.28
46 65 0.56
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:84110834 original size:15 final size:15
Alignment explanation
Indices: 84110806--84110868 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
84110796 CAAAGATAAC
84110806 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
84110819 AAGAAATCCA-AGAT-
1 AAGAAATCCAGA-ATA
84110833 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
84110848 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
84110863 AAGAAA
1 AAGAAA
84110869 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.13
14 15 0.33
15 24 0.53
ACGTcount: A:0.62, C:0.13, G:0.14, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:84110863 original size:29 final size:28
Alignment explanation
Indices: 84110806--84110870 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
84110796 CAAAGATAAC
84110806 AAGAAACCGAATAAAGAAATCCAAGAT-
1 AAGAAACCGAATAAAGAAATCCAAGATA
84110833 AAGAAATCCAGAATAAAGAAATCC-AGAATA
1 AAGAAA-CC-GAATAAAGAAATCCAAG-ATA
84110863 AAGAAACC
1 AAGAAACC
84110871 CAAGATACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 6 0.18
28 4 0.12
29 18 0.53
30 6 0.18
ACGTcount: A:0.60, C:0.15, G:0.14, T:0.11
Consensus pattern (28 bp):
AAGAAACCGAATAAAGAAATCCAAGATA
Found at i:84118967 original size:39 final size:40
Alignment explanation
Indices: 84118833--84118970 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
84118823 GGATATAACG
* * * **
84118833 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
84118873 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
84118913 ACTTGCAC-AAAGCCTTCGGGA-TTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
84118951 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
84118971 ATCCTAGTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 21 0.25
39 22 0.27
40 36 0.43
41 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:84119007 original size:40 final size:37
Alignment explanation
Indices: 84118858--84119021 Score: 121
Period size: 40 Copynumber: 4.2 Consensus size: 37
84118848 TTCGGGACGA
* ** *
84118858 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
84118898 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
84118936 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
84118976 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
84119016 AGCCCG
1 AGCCCG
84119022 AACATCATTC
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 47 0.47
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:84121347 original size:92 final size:93
Alignment explanation
Indices: 84121236--84121405 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
84121226 GCCCCTAAGT
*
84121236 GAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
84121300 ACGAG-TCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
84121328 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84121393 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84121406 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 3 0.04
92 63 0.85
93 8 0.11
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:84121402 original size:46 final size:46
Alignment explanation
Indices: 84121231--84121402 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
84121221 TAACCGCCCC
* *
84121231 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
84121277 TAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
84121324 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
84121369 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84121403 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 4 0.04
46 80 0.75
47 7 0.07
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:84123816 original size:15 final size:15
Alignment explanation
Indices: 84123790--84123845 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
84123780 CAAGGAAACC
84123790 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
84123805 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
84123820 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
84123835 GAATAAAGAAA
1 GAATAAAGAAA
84123846 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:84126907 original size:93 final size:93
Alignment explanation
Indices: 84126800--84126970 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
84126790 GCCCCTAAGT
*
84126800 GAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
84126864 ATGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
84126893 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84126958 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84126971 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:84126967 original size:46 final size:46
Alignment explanation
Indices: 84126795--84126967 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
84126785 TAACCGCCCC
* *
84126795 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * *
84126841 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
84126889 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
84126934 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84126968 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 5 0.05
46 58 0.55
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:84135109 original size:28 final size:28
Alignment explanation
Indices: 84135069--84135123 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
84135059 TACTGCTGGG
84135069 TATTTATAAGGTCTTATTTTGACTACCA
1 TATTTATAAGGTCTTATTTTGACTACCA
84135097 TATTTATAAGGTCTTATTTTGACTACC
1 TATTTATAAGGTCTTATTTTGACTACC
84135124 TTACTCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (28 bp):
TATTTATAAGGTCTTATTTTGACTACCA
Found at i:84136546 original size:42 final size:42
Alignment explanation
Indices: 84136453--84136607 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 42
84136443 CCGAAGGCTG
* * * *
84136453 AACAGAAGCTTATGAGAGCT-AACCAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAA-CAGAAACCTATAAGGGTTA
*
84136495 AAC-GAAAGCTCATAAGAGTTGAACAGAAACCTATAAGGGTTA
1 AACAG-AAGCTCATAAGAGCTGAACAGAAACCTATAAGGGTTA
* * *
84136537 AACAGAAGCTCAATAA-AGCTGAATAGAAA-CTCATATGAGTTA
1 AACAGAAGCTC-ATAAGAGCTGAACAGAAACCT-ATAAGGGTTA
* * * *
84136579 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
84136608 GTAAGCACGA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 5 0.05
42 81 0.87
43 7 0.08
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCTATAAGGGTTA
Found at i:84136585 original size:21 final size:21
Alignment explanation
Indices: 84136476--84136585 Score: 91
Period size: 21 Copynumber: 5.2 Consensus size: 21
84136466 GAGAGCTAAC
* *
84136476 CAGAAACCCATAAGGGTTGAA
1 CAGAAACTCATAAGAGTTGAA
84136497 C-GAAAGCTCATAAGAGTTGAA
1 CAGAAA-CTCATAAGAGTTGAA
* *
84136518 CAGAAAC-CTATAAGGGTTAAA
1 CAGAAACTC-ATAAGAGTTGAA
* *
84136539 CAGAAGCTCAATAA-AGCTGAA
1 CAGAAACTC-ATAAGAGTTGAA
* * *
84136560 TAGAAACTCATATGAGTTAAA
1 CAGAAACTCATAAGAGTTGAA
84136581 CAGAA
1 CAGAA
84136586 GCTCGTGAGA
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 8 0.12
21 52 0.75
22 9 0.13
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (21 bp):
CAGAAACTCATAAGAGTTGAA
Found at i:84140147 original size:384 final size:384
Alignment explanation
Indices: 84139438--84140204 Score: 1534
Period size: 384 Copynumber: 2.0 Consensus size: 384
84139428 TCCCAGGTCA
84139438 GTTGTTGTAACCCGCTTTGCCTTTGCACAAAGAAATGGTATCAGTCTAAAGCTTTGCCCTCTAAA
1 GTTGTTGTAACCCGCTTTGCCTTTGCACAAAGAAATGGTATCAGTCTAAAGCTTTGCCCTCTAAA
84139503 TGTAACATAACCATCCTAACTTTGGCTTGATCTTCGATATTTTCAGCTTCAAAGAACTGTTTTAG
66 TGTAACATAACCATCCTAACTTTGGCTTGATCTTCGATATTTTCAGCTTCAAAGAACTGTTTTAG
84139568 CTTGAACCACCACCCCCGAAAATCATTCCCATCAAATTTTGGACATTCAAACTGAAGTGTTTTGT
131 CTTGAACCACCACCCCCGAAAATCATTCCCATCAAATTTTGGACATTCAAACTGAAGTGTTTTGT
84139633 TGGTAAAGTCCAGGAGACCAACTCGAGAAGGTGTATTCGCCAGGTCTGAGGCAGGAGACAGTGCG
196 TGGTAAAGTCCAGGAGACCAACTCGAGAAGGTGTATTCGCCAGGTCTGAGGCAGGAGACAGTGCG
84139698 AGTGGTTCTTTGGGAGGGAACCTAGGTGGGGTGCCCCCCAGAATACTTTTACCCTTGTCTTGAAC
261 AGTGGTTCTTTGGGAGGGAACCTAGGTGGGGTGCCCCCCAGAATACTTTTACCCTTGTCTTGAAC
84139763 TCCCTCAGCAACACTGGTAGAAGCCTGTTGGTTAAAGTATTGCTCAAAAAGGGAACGGG
326 TCCCTCAGCAACACTGGTAGAAGCCTGTTGGTTAAAGTATTGCTCAAAAAGGGAACGGG
84139822 GTTGTTGTAACCCGCTTTGCCTTTGCACAAAGAAATGGTATCAGTCTAAAGCTTTGCCCTCTAAA
1 GTTGTTGTAACCCGCTTTGCCTTTGCACAAAGAAATGGTATCAGTCTAAAGCTTTGCCCTCTAAA
84139887 TGTAACATAACCATCCTAACTTTGGCTTGATCTTCGATATTTTCAGCTTCAAAGAACTGTTTTAG
66 TGTAACATAACCATCCTAACTTTGGCTTGATCTTCGATATTTTCAGCTTCAAAGAACTGTTTTAG
84139952 CTTGAACCACCACCCCCGAAAATCATTCCCATCAAATTTTGGACATTCAAACTGAAGTGTTTTGT
131 CTTGAACCACCACCCCCGAAAATCATTCCCATCAAATTTTGGACATTCAAACTGAAGTGTTTTGT
84140017 TGGTAAAGTCCAGGAGACCAACTCGAGAAGGTGTATTCGCCAGGTCTGAGGCAGGAGACAGTGCG
196 TGGTAAAGTCCAGGAGACCAACTCGAGAAGGTGTATTCGCCAGGTCTGAGGCAGGAGACAGTGCG
84140082 AGTGGTTCTTTGGGAGGGAACCTAGGTGGGGTGCCCCCCAGAATACTTTTACCCTTGTCTTGAAC
261 AGTGGTTCTTTGGGAGGGAACCTAGGTGGGGTGCCCCCCAGAATACTTTTACCCTTGTCTTGAAC
84140147 TCCCTCAGCAACACTGGTAGAAGCCTGTTGGTTAAAGTATTGCTCAAAAAGGGAACGG
326 TCCCTCAGCAACACTGGTAGAAGCCTGTTGGTTAAAGTATTGCTCAAAAAGGGAACGG
84140205 AGTTCAGTTC
Statistics
Matches: 383, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
384 383 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (384 bp):
GTTGTTGTAACCCGCTTTGCCTTTGCACAAAGAAATGGTATCAGTCTAAAGCTTTGCCCTCTAAA
TGTAACATAACCATCCTAACTTTGGCTTGATCTTCGATATTTTCAGCTTCAAAGAACTGTTTTAG
CTTGAACCACCACCCCCGAAAATCATTCCCATCAAATTTTGGACATTCAAACTGAAGTGTTTTGT
TGGTAAAGTCCAGGAGACCAACTCGAGAAGGTGTATTCGCCAGGTCTGAGGCAGGAGACAGTGCG
AGTGGTTCTTTGGGAGGGAACCTAGGTGGGGTGCCCCCCAGAATACTTTTACCCTTGTCTTGAAC
TCCCTCAGCAACACTGGTAGAAGCCTGTTGGTTAAAGTATTGCTCAAAAAGGGAACGGG
Found at i:84141242 original size:22 final size:22
Alignment explanation
Indices: 84141217--84141259 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
84141207 TTTTATTGTT
84141217 TTGCTA-TCATTTCGTTATTATA
1 TTGCTACT-ATTTCGTTATTATA
*
84141239 TTGCTACTATTTTGTTATTAT
1 TTGCTACTATTTCGTTATTAT
84141260 TATTTGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACTATTTCGTTATTATA
Found at i:84147618 original size:44 final size:44
Alignment explanation
Indices: 84147570--84147658 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
84147560 GTATTAGAGT
* *
84147570 AGATTAAAGCAATAAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTAAAGCAACAAGCCTTATCTCCCTGAAGTTACAGTGGAGC
* ** *
84147614 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTAAAGCAACAAGCCTTATCTCCCTGAAGTTACAGTGGAGC
84147658 A
1 A
84147659 CACTGAAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATTAAAGCAACAAGCCTTATCTCCCTGAAGTTACAGTGGAGC
Found at i:84147666 original size:44 final size:45
Alignment explanation
Indices: 84147587--84147691 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 45
84147577 AGCAATAAGC
* * * * *
84147587 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA-AGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCACACTGAAGATACAGAAT
*
84147631 CTTATCTCCCTGAAGTTACAGTGGAGCACACTGAAGATAGAGAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCACACTGAAGATACAGAAT
*
84147676 CTTATTTCCCTGAAGT
1 CTTATCTCCCTGAAGT
84147692 CGTAGTGGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 36 0.68
45 17 0.32
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCACACTGAAGATACAGAAT
Found at i:84149486 original size:71 final size:71
Alignment explanation
Indices: 84149403--84149566 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84149393 CGATTTGTCT
84149403 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84149468 CTTTCA
66 CTTTCA
84149474 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84149539 CTTTCA
66 CTTTCA
84149545 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84149567 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84149604 original size:71 final size:70
Alignment explanation
Indices: 84149403--84149600 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
84149393 CGATTTGTCT
* * *
84149403 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84149468 CTTTCA
65 CTTTCA
* * *
84149474 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84149539 CTTTCA
65 CTTTCA
* *
84149545 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
84149601 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:84156023 original size:71 final size:71
Alignment explanation
Indices: 84155935--84156097 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
84155925 CGATTTGTCT
84155935 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84156000 CTTTCA
66 CTTTCA
84156006 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84156070 CTTTCA
66 CTTTCA
84156076 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84156098 GATACATCTC
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84168033 original size:49 final size:49
Alignment explanation
Indices: 84167960--84168145 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
84167950 TGAGGTCATG
*
84167960 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTTGGTCGCA
* * * * * *
84168009 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTG-TGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTTGGTCGCA
* *
84168060 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTTGGTCGCA
*
84168109 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
84168146 TAGCTTCGGC
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
48 4 0.03
49 68 0.59
50 4 0.03
51 34 0.30
52 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTTGGTCGCA
Found at i:84168133 original size:100 final size:100
Alignment explanation
Indices: 84167959--84168142 Score: 350
Period size: 100 Copynumber: 1.8 Consensus size: 100
84167949 GTGAGGTCAT
84167959 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGT
84168024 GCAGACTACTATGCGTACCCGAAAACTGTGATCAC
66 GCAGACTACTATGCGTACCCGAAAACTGTGATCAC
*
84168059 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGACTGTTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGT
*
84168124 GCAGGCTACTATGCGTACC
66 GCAGACTACTATGCGTACC
84168143 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGT
GCAGACTACTATGCGTACCCGAAAACTGTGATCAC
Found at i:84183494 original size:27 final size:27
Alignment explanation
Indices: 84183472--84183649 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
84183462 TTAGTTTACC
84183472 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
84183499 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
84183526 AAATTATCAAAAAACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
84183553 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
84183580 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
84183607 AAATTACCAAAATACACCT-GATTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
**
84183633 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
84183650 TCAACCTGTA
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 19 0.15
27 111 0.85
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:84183609 original size:81 final size:80
Alignment explanation
Indices: 84183472--84183649 Score: 250
Period size: 81 Copynumber: 2.2 Consensus size: 80
84183462 TTAGTTTACC
* *
84183472 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTATCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAA
* *
84183537 AAACCCCTGGTTTGTA
66 AAACACCT-GATTGTA
*
84183553 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTGGTTTATAAAATTACCAA
* *
84183617 AATACACCTGATTGTG
65 AAAACACCTGATTGTA
**
84183633 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
84183650 TCAACCTGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 21 0.24
81 66 0.76
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAA
AAACACCTGATTGTA
Found at i:84183673 original size:80 final size:81
Alignment explanation
Indices: 84183472--84183697 Score: 233
Period size: 81 Copynumber: 2.8 Consensus size: 81
84183462 TTAGTTTACC
*** * * * *
84183472 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTATCAAA
1 AAATTACCAAAATACCCCTAACCTGTAAAATTATTAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
84183537 AAACCCCTGGTTTGTA
66 AAACACCTGGATTGTA
*** *
84183553 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAACCTGTAAAATTATTAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
84183618 ATACACCT-GATTGTG
66 AAACACCTGGATTGTA
** * **
84183633 AAATTACTGAAATA-CCCTCAACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCA
1 AAATTACCAAAATACCCCT-AACCTGTAAAATTATTAAAATACCCCT-GGTTTGTAAAATTACCA
84183696 AA
64 AA
84183698 GTACCCTTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
79 8 0.06
80 51 0.41
81 66 0.53
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAACCTGTAAAATTATTAAAATACCCCTGGTTTGTAAAATTACCAAA
AAACACCTGGATTGTA
Found at i:84183702 original size:27 final size:27
Alignment explanation
Indices: 84183472--84183704 Score: 154
Period size: 27 Copynumber: 8.7 Consensus size: 27
84183462 TTAGTTTACC
* *
84183472 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* * ** *
84183499 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* * **
84183526 AAATTATCAAAAAACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
84183553 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* **
84183580 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
*
84183607 AAATTACCAAAATACACCT-GA-TTGTG
1 AAATTACCAAAATAC-CCTCGACTTGTA
** * *
84183633 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
***
84183660 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
*
84183687 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
84183705 TAATTTACAG
Statistics
Matches: 166, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.02
26 18 0.11
27 143 0.86
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:84183758 original size:27 final size:27
Alignment explanation
Indices: 84183659--84183758 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 27
84183649 CTCAACCTGT
** * **
84183659 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCGAAATACCCTCGATTTAC
**
84183686 AAAATTACC-AAAGTACCCTTAATTTAC
1 AAAATTACCGAAA-TACCCTCGATTTAC
* * *** *
84183713 AGAATTATCGTTTTTCCCTCGATTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
84183740 AAAATTACCGAAATACCCT
1 AAAATTACCGAAATACCCT
84183759 TGTAGGGTAG
Statistics
Matches: 50, Mismatches: 21, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
26 3 0.06
27 47 0.94
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTAC
Found at i:84183775 original size:27 final size:27
Alignment explanation
Indices: 84183742--84184026 Score: 408
Period size: 27 Copynumber: 10.6 Consensus size: 27
84183732 CGATTTACAA
*
84183742 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84183769 AAATACCGAAATACCCTTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84183796 AATTACTGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84183823 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84183850 AATTATCGCAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84183877 AATTACTGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84183904 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84183931 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84183958 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84183985 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84184012 AATTACCGAGATACC
1 AATTACCGAAATACC
84184027 TTGTGGGGAA
Statistics
Matches: 233, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 233 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:84184523 original size:22 final size:22
Alignment explanation
Indices: 84184472--84184535 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
84184462 TAAAGCCTTT
* *
84184472 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
84184494 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
84184516 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
84184536 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:84184724 original size:27 final size:27
Alignment explanation
Indices: 84184694--84184795 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
84184684 ATTCTGTTAA
* *
84184694 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* * *
84184721 GTGGCTATGCCACAAATATATG-TTATG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
84184748 GTGGCTCTGCGACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
84184775 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
84184796 AAAACTGAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.79
28 6 0.10
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:84186642 original size:29 final size:28
Alignment explanation
Indices: 84186540--84186642 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
84186530 GTGACAAGAT
*
84186540 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATA-TA
**
84186569 TGGCACTAAGTGTGCGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
84186598 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
84186627 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84186643 TGATCGATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.06
29 58 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:84194639 original size:29 final size:29
Alignment explanation
Indices: 84194580--84194677 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
84194570 GTGACAAGAT
84194580 TGGCACTAAGTGTGC-AAGCTTGAAA--AGTA
1 TGGCACTAAGTGTGCGAA-CTT-AAATCA-TA
* *
84194609 TGGCACTAAGTGTGCGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATCATA
* * *
84194638 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATCATA
84194667 TGGCACTAAGT
1 TGGCACTAAGT
84194678 ATGCATGATC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.05
29 53 0.90
30 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATCATA
Found at i:84196274 original size:6 final size:6
Alignment explanation
Indices: 84196236--84196346 Score: 93
Period size: 6 Copynumber: 17.8 Consensus size: 6
84196226 TTGCATCCAC
* * *
84196236 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
84196286 -TTACCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
84196336 ATTCTG ATTCT
1 ATTCTG ATTCT
84196347 AGTTCTAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.07
6 61 0.72
7 13 0.15
8 5 0.06
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:84196331 original size:37 final size:31
Alignment explanation
Indices: 84196236--84196346 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
84196226 TTGCATCCAC
* *
84196236 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATTCTG
*
84196268 ATTCTGATTTTGATTCTGTTACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
*
84196299 ATTCTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
*
84196330 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
84196347 AGTTCTAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 68 0.91
32 7 0.09
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:84199728 original size:80 final size:80
Alignment explanation
Indices: 84199588--84199757 Score: 254
Period size: 80 Copynumber: 2.1 Consensus size: 80
84199578 CGGAATACAA
*
84199588 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
84199653 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
84199668 CCGGATTTAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
*
84199731 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
84199748 CCGGATATAA
1 CCGGATATAA
84199758 TTACTAGCAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 78 0.96
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:84199764 original size:40 final size:40
Alignment explanation
Indices: 84199588--84199795 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
84199578 CGGAATACAA
*
84199588 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
84199628 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
84199668 CCGGATTTAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
84199708 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84199748 CCGGATATAATTACTAGCATAAACGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84199788 CCGGATAT
1 CCGGATAT
84199796 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 138 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84199982 original size:125 final size:125
Alignment explanation
Indices: 84199760--84200101 Score: 607
Period size: 125 Copynumber: 2.8 Consensus size: 125
84199750 GGATATAATT
* * *
84199760 ACTAGCATAAACGTCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84199825 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84199885 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84199950 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* * *
84200010 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATA-A-AT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
*
84200073 CAATAATCATTACACATCCATATTTCATT
66 CAATAATCATTACACATCCATGTTTCATT
84200102 CCACATAATT
Statistics
Matches: 210, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
123 30 0.14
124 1 0.00
125 179 0.85
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (125 bp):
ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84207122 original size:80 final size:80
Alignment explanation
Indices: 84206982--84207151 Score: 254
Period size: 80 Copynumber: 2.1 Consensus size: 80
84206972 CGGAATACAA
*
84206982 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
84207047 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
84207062 CCGGATTTAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
*
84207125 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
84207142 CCGGATATAA
1 CCGGATATAA
84207152 TTACTAGCAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 78 0.96
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:84207158 original size:40 final size:40
Alignment explanation
Indices: 84206982--84207189 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
84206972 CGGAATACAA
*
84206982 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
84207022 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
84207062 CCGGATTTAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
84207102 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84207142 CCGGATATAATTACTAGCATAAACGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84207182 CCGGATAT
1 CCGGATAT
84207190 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 138 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84207376 original size:125 final size:125
Alignment explanation
Indices: 84207154--84208118 Score: 1803
Period size: 125 Copynumber: 7.8 Consensus size: 125
84207144 GGATATAATT
* * *
84207154 ACTAGCATAAACGTCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84207219 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
84207279 ACTAGCATAATCGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84207344 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84207404 ACTAGCATAATCGCCTTC-GGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
*
84207468 CAATAATCATTACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84207528 ACTAGCATAATCGCCTTC-GGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84207592 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84207652 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84207717 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84207777 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
84207842 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84207902 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
*
84207967 CAATAATCATTACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATC
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* * *
84208027 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATA-A-AT
1 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
* *
84208090 CAATAATCATTACACATACATATTTCATT
66 CAATAATCATTACACATCCATGTTTCATT
84208119 CCACATAATT
Statistics
Matches: 826, Mismatches: 13, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
123 29 0.04
124 246 0.30
125 551 0.67
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (125 bp):
ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84208094 original size:498 final size:498
Alignment explanation
Indices: 84207154--84208118 Score: 1817
Period size: 498 Copynumber: 1.9 Consensus size: 498
84207144 GGATATAATT
*
84207154 ACTAGCATAAACGTCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAAACGCCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
84207219 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAG
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAG
84207284 CATAATCGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATA
131 CATAATCGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATA
84207349 ATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAA
196 ATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAA
84207414 TCGCCTTCGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCATT
261 TCGCCTTCGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCATT
84207479 ACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATCGCCT
326 ACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATCGCCT
* * *
84207544 TCGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCATTACACAT
391 TCGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATATACATCAATAATCATTACACAT
* *
84207609 CCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
456 ACATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* *
84207652 ACTAGCATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACAT
1 ACTAGCATAAACGCCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
84207717 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAG
66 CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAG
*
84207782 CATAATCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATA
131 CATAATCGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATA
84207847 ATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAA
196 ATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAA
84207912 TCGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCAT
261 TCGCCTTC-GGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCAT
84207977 TACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATCGCC
325 TACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATCGCC
84208042 TTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATA-A-ATCAATAATCATTACAC
390 TTC-GGACTTAGCCCGGGTATCATTCAAATACTCATACACACATATACATCAATAATCATTACAC
84208105 ATACATATTTCATT
454 ATACATATTTCATT
84208119 CCACATAATT
Statistics
Matches: 456, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
498 293 0.64
499 125 0.27
500 38 0.08
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (498 bp):
ACTAGCATAAACGCCTTCGGGACTTAGCCCGGATATCATTCAATTGCTCATGCACACATATACAT
CAATAATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAG
CATAATCGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATA
ATCATTACACATCCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAA
TCGCCTTCGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATATACATCAATAATCATT
ACACATCCATGTTTCATTTTTGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATCGCCT
TCGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATATACATCAATAATCATTACACAT
ACATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84213860 original size:43 final size:42
Alignment explanation
Indices: 84213763--84213885 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
84213753 ATCGAGATGT
* *
84213763 GATTACATGTAAGACTATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT-A
84213806 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATT-
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T-ATTA
* * * * *
84213849 GATTTCGTGTAAGACCTTGTCTAGGACAGTGGCATCG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG
84213886 ATACGTGTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 67 0.94
44 1 0.01
45 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:84224048 original size:29 final size:29
Alignment explanation
Indices: 84224013--84224071 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
84224003 CGATTTTAGG
84224013 TAAGTTTGTGATAGAAGTGATTTTGATCA
1 TAAGTTTGTGATAGAAGTGATTTTGATCA
*
84224042 TAAGTTTGTGATGGAAGTGATTTTGATCA
1 TAAGTTTGTGATAGAAGTGATTTTGATCA
84224071 T
1 T
84224072 GAGATTATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (29 bp):
TAAGTTTGTGATAGAAGTGATTTTGATCA
Found at i:84226093 original size:27 final size:27
Alignment explanation
Indices: 84226062--84226537 Score: 461
Period size: 27 Copynumber: 17.7 Consensus size: 27
84226052 TTACACTACA
**
84226062 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
84226089 GGGGTGTTGCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
84226116 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226143 AGGGTATTTCAGTAGTTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226170 ATGGTGTTTTGGTAATTCTT-CAAATCG
1 AGGGTATTTCGGTAATT-TTACAAATCG
* * *
84226197 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226224 AGGGTGTTTCGGTAATTTCACAATTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226251 AGGGAATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * ** *
84226278 AATGTGTTTTTGTAATTTTACATATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226305 AGGGTGTTTCGTTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
84226332 AGGGTATTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
84226359 GGGGTATTTCGATTATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226386 AGGGTATTTCAGTAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
84226412 AGGGTATTTCGATAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
84226439 GGGGTATTTCGGTGATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
84226466 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *** *
84226493 AGGGTACTTCAAAAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
84226520 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
84226538 CTCTTTATTA
Statistics
Matches: 360, Mismatches: 86, Indels: 6
0.80 0.19 0.01
Matches are distributed among these distances:
26 22 0.06
27 336 0.93
28 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:84226825 original size:28 final size:28
Alignment explanation
Indices: 84226794--84226848 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
84226784 CCCCTTTAGG
*
84226794 CCAAATCTCGTTCACATGGCCCATCAGA
1 CCAAATCTCGTTCACATGACCCATCAGA
*
84226822 CCAAATCTTGTTCACATGACCCATCAG
1 CCAAATCTCGTTCACATGACCCATCAG
84226849 GCCCAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
CCAAATCTCGTTCACATGACCCATCAGA
Found at i:84229215 original size:11 final size:11
Alignment explanation
Indices: 84229199--84229224 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
84229189 CGAAGCCCAC
84229199 ATCACAATAAT
1 ATCACAATAAT
84229210 ATCACAATAAT
1 ATCACAATAAT
84229221 ATCA
1 ATCA
84229225 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:84229777 original size:27 final size:27
Alignment explanation
Indices: 84229760--84230205 Score: 452
Period size: 27 Copynumber: 16.7 Consensus size: 27
84229750 TTACACTACA
*
84229760 AGGGTATTTCAATAATTTTACAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
* *
84229786 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
84229813 AGGGTATTTC-ACTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
84229840 AGGATATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
84229867 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
84229894 AGGGTGTCTT-GGTAATTTCACAAATAG
1 AGGGTAT-TTCGATAATTTTACAAATCG
* *
84229921 GGGGTATTTCTATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
84229948 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
84229975 AGGGT-TTTACG-TAATTTTTCAAATCG
1 AGGGTATTT-CGATAATTTTACAAATCG
* * * **
84230001 AGGGTGTTTTGGTAA-TTT-CAAATATT
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
84230027 AGGGGTATTTCGATAAATTTACAAATCG
1 A-GGGTATTTCGATAATTTTACAAATCG
* *
84230055 AGGGTATTTC-AGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
84230081 AGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
84230108 AGGGTATTT-AATAATTTTACAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
84230133 AGGGGTATTTCGATAATTTTACAAATC-
1 A-GGGTATTTCGATAATTTTACAAATCG
* * *
84230160 AGGGGTACTTCGGTAATTTTACAAA-CC
1 A-GGGTATTTCGATAATTTTACAAATCG
*
84230187 AGGGGTATTTCGGTAATTT
1 A-GGGTATTTCGATAATTT
84230206 CTCTTTATTA
Statistics
Matches: 361, Mismatches: 41, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
25 6 0.02
26 99 0.27
27 244 0.68
28 7 0.02
29 5 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:84232926 original size:12 final size:12
Alignment explanation
Indices: 84232911--84232946 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
84232901 CCGGCCACAT
84232911 GCCCATGTGCCA
1 GCCCATGTGCCA
*
84232923 GCCCGTGTGCCA
1 GCCCATGTGCCA
84232935 GCCCATGTGCCA
1 GCCCATGTGCCA
84232947 AACACGGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.42, G:0.28, T:0.17
Consensus pattern (12 bp):
GCCCATGTGCCA
Found at i:84234070 original size:43 final size:43
Alignment explanation
Indices: 84234018--84234156 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 43
84234008 TATCCTAGAT
* *
84234018 ATGG-CTTACATGTTATCACATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTTATCACATATCGATGCCAATGTCCCAGAC
* ** * * *
84234060 AAGGTCTTACACGAAATCATATAACTATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTTATCACATATCGATGCCAATGTCCCAGAC
* * *
84234103 ATGGCCTTACACATTATCACA-ATAGAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTTATCACATATCG-ATGCCAATGTCCCAGAC
84234146 ATGGTCTTACA
1 ATGGTCTTACA
84234157 TGTAATTACA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
42 4 0.05
43 73 0.95
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTTATCACATATCGATGCCAATGTCCCAGAC
Found at i:84242185 original size:29 final size:29
Alignment explanation
Indices: 84242143--84242200 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
84242133 TCGGGTCTTA
84242143 CCCGGACAAAATCTCCACACGTAGTCATC
1 CCCGGACAAAATCTCCACACGTAGTCATC
*
84242172 CCCGGACATAATCTCCACACGTAGTCATC
1 CCCGGACAAAATCTCCACACGTAGTCATC
84242201 GGGTCTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.38, G:0.14, T:0.19
Consensus pattern (29 bp):
CCCGGACAAAATCTCCACACGTAGTCATC
Found at i:84242413 original size:48 final size:48
Alignment explanation
Indices: 84242355--84242934 Score: 856
Period size: 48 Copynumber: 12.1 Consensus size: 48
84242345 ATATACACAC
* * *
84242355 ATCTCCTACATATTTCACATTAGCCATCCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242403 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* **
84242451 ATCTTATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * ***
84242499 ATCTCATATATATTTCACACTAGCCATTTTTCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242547 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
84242595 TTCTCATATATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
**
84242643 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242691 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242739 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242787 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
84242835 ATCTCATACATATTTCATATTAGCCATTCAGCTTTACC-CTATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC-ATATACAT
* * *
84242883 ATCTCATACATATTTCACATTAGCCATTTGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
84242931 ATCT
1 ATCT
84242935 ATTTATCTTG
Statistics
Matches: 482, Mismatches: 48, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 1 0.00
48 480 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:84244224 original size:13 final size:13
Alignment explanation
Indices: 84244206--84244231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84244196 GCTTGAATTT
84244206 TTATTTTTTTTTA
1 TTATTTTTTTTTA
84244219 TTATTTTTTTTTA
1 TTATTTTTTTTTA
84244232 CACATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTTTA
Found at i:84249715 original size:32 final size:33
Alignment explanation
Indices: 84249652--84249715 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
84249642 AATCAAAAAC
* *
84249652 AGTGTGGGCCTGAGCCCATTTCAGTAACAGTAT
1 AGTGTGGGCCTAAGCCCATTACAGTAACAGTAT
84249685 AGTG-GGGCCTAAGCCCATTACAG-AATCAGTA
1 AGTGTGGGCCTAAGCCCATTACAGTAA-CAGTA
84249716 CAGTATGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 22 0.79
33 4 0.14
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (33 bp):
AGTGTGGGCCTAAGCCCATTACAGTAACAGTAT
Found at i:84258703 original size:40 final size:40
Alignment explanation
Indices: 84258659--84258761 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
84258649 CTGAAAATTT
* *
84258659 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTAGCTA
* *
84258699 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGCTA
*
84258739 AATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGC
84258762 GTTTGTCCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGCTA
Found at i:84258784 original size:40 final size:40
Alignment explanation
Indices: 84258659--84258801 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 40
84258649 CTGAAAATTT
* * * * *
84258659 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTAGCT-A
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTCCAAATCG-TGA
* * * *
84258699 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTCCAAATCGTGA
* * *
84258739 AATCCGGGCTAAGACCCGAAGGCGTTTGTCCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTCCAAATCGTGA
* * *
84258779 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
84258802 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 83 0.95
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTCCAAATCGTGA
Found at i:84263310 original size:27 final size:27
Alignment explanation
Indices: 84263280--84263344 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
84263270 ACCCCTGGTT
84263280 TGTAAAATTACTGAAATACCCTCGACC
1 TGTAAAATTACTGAAATACCCTCGACC
* *
84263307 TGTAAAATTATTGAAATACCCTCGACT
1 TGTAAAATTACTGAAATACCCTCGACC
84263334 TGTAAAATTAC
1 TGTAAAATTAC
84263345 CAAAGTACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCTCGACC
Found at i:84263353 original size:27 final size:26
Alignment explanation
Indices: 84263257--84263353 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 26
84263247 TTAGTTTACC
**
84263257 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACC-AAATACCCTC-GACTTGTA
* *
84263284 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTAC-CAAATACCCTCGACTTGTA
**
84263311 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTA-CCAAATACCCTCGACTTGTA
84263338 AAATTACCAAAGTACC
1 AAATTACCAAA-TACC
84263354 ATTGATTTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.05
27 54 0.93
28 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGACTTGTA
Found at i:84263407 original size:27 final size:27
Alignment explanation
Indices: 84263283--84263409 Score: 80
Period size: 27 Copynumber: 4.7 Consensus size: 27
84263273 CCTGGTTTGT
* **
84263283 AAAATTA-CTGAAATACCCTCGACCTGT
1 AAAATTATC-GAAATACCCTCGACTTAC
* **
84263310 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTCGACTTAC
* * * *
84263337 AAAATTA-CCAAAGTACCATTGATTTAC
1 AAAATTATCGAAA-TACCCTCGACTTAC
* ** *
84263364 AGAATTATC-ATTTTACCCTCGATTTAC
1 AAAATTATCGA-AATACCCTCGACTTAC
84263391 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
84263410 TGTAAGGTAG
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
26 3 0.04
27 73 0.94
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGACTTAC
Found at i:84263429 original size:27 final size:27
Alignment explanation
Indices: 84263399--84263599 Score: 262
Period size: 27 Copynumber: 7.4 Consensus size: 27
84263389 ACAAAATTAT
* *
84263399 CGAAATACCCTTGTAAGGTAGAAATGC
1 CGAAATACCCTTGTAGGGTAGAAATAC
84263426 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
84263453 CGAAATACCCCTT-TAGGGTAGAAATAC
1 CGAAATA-CCCTTGTAGGGTAGAAATAC
* *
84263480 CGAAATA-CCTCTGTAGGGTAGAATTAT
1 CGAAATACCCT-TGTAGGGTAGAAATAC
** * *
84263507 TAAAATACCCTTATAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
84263534 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* *
84263561 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* *
84263588 TGAGATACCCTT
1 CGAAATACCCTT
84263600 CTGAGGTAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.02
26 1 0.01
27 141 0.92
28 8 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:84263904 original size:27 final size:26
Alignment explanation
Indices: 84263860--84263911 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84263850 CTCGCTGCAA
*
84263860 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
84263887 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
84263912 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:84263941 original size:2 final size:2
Alignment explanation
Indices: 84263936--84263961 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84263926 ACACACACAC
84263936 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
84263962 GTTCTAGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84264143 original size:6 final size:6
Alignment explanation
Indices: 84264134--84264338 Score: 159
Period size: 6 Copynumber: 33.3 Consensus size: 6
84264124 TTGCATTCAC
* *
84264134 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
84264184 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * * * *
84264233 GTTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTTTG GTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TCTG
* *
84264283 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
84264330 AGTTCTG AT
1 A-TTCTG AT
84264339 AATGTTTCTT
Statistics
Matches: 156, Mismatches: 28, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
5 9 0.06
6 128 0.82
7 13 0.08
8 6 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:84264203 original size:37 final size:37
Alignment explanation
Indices: 84264162--84264268 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
84264152 TTACCTGATA
84264162 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
84264199 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
* * *
84264236 CTGATTTTGATTCTGTTACCTGATACTGATTCT
1 CTGATTCTGATTCTGTTACCTAATTCTGATTCT
84264269 AATTTTGGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
Found at i:84264232 original size:62 final size:61
Alignment explanation
Indices: 84264134--84264329 Score: 234
Period size: 62 Copynumber: 3.2 Consensus size: 61
84264124 TTGCATTCAC
* * *
84264134 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG-TTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATT--CTGATTCTGATTCTG
* * *
84264196 GTTCTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTTCTGATTTTGATTCTG-TTACCTG
1 ATTCTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATT--CTG
* * * * *
84264258 ATACTGATTCTAATTTTGGTACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATTCTC
1 ATTCTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATTCTG
*
84264319 ATTTTGATTCT
1 ATTCTGATTCT
84264330 AGTTCTGATA
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
60 2 0.02
61 18 0.16
62 90 0.79
63 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTCTGATTCTGATTCTG
Found at i:84265220 original size:21 final size:21
Alignment explanation
Indices: 84265190--84265239 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
84265180 CGGGTAGGGA
84265190 ACACGAGCGTGTTCCCAAAGC
1 ACACGAGCGTGTTCCCAAAGC
*
84265211 ACATGAGCGTGTTCCCAAAGC
1 ACACGAGCGTGTTCCCAAAGC
84265232 ACACGAGC
1 ACACGAGC
84265240 ATGTGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (21 bp):
ACACGAGCGTGTTCCCAAAGC
Found at i:84272624 original size:28 final size:29
Alignment explanation
Indices: 84272592--84272646 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
84272582 ATGGGAGACC
84272592 ACACGGGCGTGT-CTAGGCCATGTGAAGG
1 ACACGGGCGTGTGCTAGGCCATGTGAAGG
*
84272620 ACACGGGCGTGTGCTTGGCCATGTGAA
1 ACACGGGCGTGTGCTAGGCCATGTGAA
84272647 AACCCCTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20
Consensus pattern (29 bp):
ACACGGGCGTGTGCTAGGCCATGTGAAGG
Found at i:84274838 original size:10 final size:10
Alignment explanation
Indices: 84274825--84274853 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
84274815 AATTATATCA
84274825 AATTTTGATT
1 AATTTTGATT
84274835 AATTTTGATT
1 AATTTTGATT
84274845 AATTTTGAT
1 AATTTTGAT
84274854 AGATAAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (10 bp):
AATTTTGATT
Found at i:84276933 original size:20 final size:20
Alignment explanation
Indices: 84276908--84276947 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
84276898 AGATTTGATT
84276908 TAACTACATTGAATCACCCA
1 TAACTACATTGAATCACCCA
84276928 TAACTACATTGAATCACCCA
1 TAACTACATTGAATCACCCA
84276948 CTGTACGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.25
Consensus pattern (20 bp):
TAACTACATTGAATCACCCA
Found at i:84277575 original size:21 final size:21
Alignment explanation
Indices: 84277543--84277586 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
84277533 AAGGTCAAGG
*
84277543 GGCATCAAAGGAGCTAGTCTA
1 GGCATCAAAGGAGCTAGGCTA
84277564 GGCAT-AAGAGGAGCTAGGCTA
1 GGCATCAA-AGGAGCTAGGCTA
84277585 GG
1 GG
84277587 TTAAACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (21 bp):
GGCATCAAAGGAGCTAGGCTA
Found at i:84278867 original size:26 final size:27
Alignment explanation
Indices: 84278838--84278912 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 27
84278828 GGGCATTTTA
*
84278838 GTCATTTTGCCCTTCA-GGGCATAACG
1 GTCATTTTGCCCTACAGGGGCATAACG
*
84278864 GTCATTTCT-CCCTACAGGGGCATTACG
1 GTCATTT-TGCCCTACAGGGGCATAACG
* *
84278891 GCCATTTTG-CCTATAGGGGCAT
1 GTCATTTTGCCCTACAGGGGCAT
84278913 TGCGATCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
26 26 0.62
27 16 0.38
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (27 bp):
GTCATTTTGCCCTACAGGGGCATAACG
Found at i:84278913 original size:26 final size:27
Alignment explanation
Indices: 84278854--84278913 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
84278844 TTGCCCTTCA
* *
84278854 GGGCATAACGGTCATTTCTCCCTACAG
1 GGGCATTACGGCCATTTCTCCCTACAG
* *
84278881 GGGCATTACGGCCATTT-TGCCTATAG
1 GGGCATTACGGCCATTTCTCCCTACAG
84278907 GGGCATT
1 GGGCATT
84278914 GCGATCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (27 bp):
GGGCATTACGGCCATTTCTCCCTACAG
Found at i:84278922 original size:26 final size:26
Alignment explanation
Indices: 84278854--84278930 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
84278844 TTGCCCTTCA
* * * *
84278854 GGGCATAACGGTCATTTCTCCCTACAG
1 GGGCATTACGATCATTT-TACCTATAG
** *
84278881 GGGCATTACGGCCATTTTGCCTATAG
1 GGGCATTACGATCATTTTACCTATAG
*
84278907 GGGCATTGCGATCATTTTACCTAT
1 GGGCATTACGATCATTTTACCTAT
84278931 TTTGGGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 27 0.64
27 15 0.36
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (26 bp):
GGGCATTACGATCATTTTACCTATAG
Found at i:84280866 original size:40 final size:39
Alignment explanation
Indices: 84280802--84280989 Score: 205
Period size: 39 Copynumber: 4.8 Consensus size: 39
84280792 GCTACTCGTT
* * * ** *
84280802 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* * *
84280842 CAAAGGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
84280882 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
84280921 CAATTGCCTTCGGGCTTAGCCTGGATATCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* *
84280960 CAATTACCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
84280990 CTGGAACATT
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.66
40 44 0.34
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:84280917 original size:39 final size:39
Alignment explanation
Indices: 84280838--84280990 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
84280828 TATGGTAACC
** *
84280838 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
84280878 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
84280917 CGCACAATTGCCTTCGGGCTTAGCCTGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
84280956 TGCACAATTACCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
84280991 TGGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 87 0.84
40 16 0.16
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:84280970 original size:78 final size:79
Alignment explanation
Indices: 84280808--84280989 Score: 240
Period size: 78 Copynumber: 2.3 Consensus size: 79
84280798 CGTTCAAACG
* * **
84280808 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
*
84280873 CAACTCGCACAATTG
65 CAACTCGCACAATTA
* ** * *
84280888 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCTGGATATCAC
1 CCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCAC
* *
84280952 AATTTGCACAATTA
66 AACTCGCACAATTA
84280966 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
84280990 CTGGAACATT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 50 0.56
79 32 0.36
80 8 0.09
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCAC
AACTCGCACAATTA
Found at i:84288853 original size:47 final size:47
Alignment explanation
Indices: 84288796--84288925 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
84288786 GTGTGAGTAA
* * * *
84288796 TACCTTGATTTGGATACGGGGCATGGTATAGGTATTTC-GGAGGGAGT
1 TACCTTGATTTGGATACGGGCCATGGTATAGGTACTCCAGGA-GAAGT
* *
84288843 TACCTTGATTTGGATACGGGCCATGGTATAGGTGCTCCAGGATAAGT
1 TACCTTGATTTGGATACGGGCCATGGTATAGGTACTCCAGGAGAAGT
* * *
84288890 TACCTTGATTTGGCTACGAGCCATGGTATACGTACT
1 TACCTTGATTTGGATACGGGCCATGGTATAGGTACT
84288926 TATCGATTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 69 0.96
48 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGATACGGGCCATGGTATAGGTACTCCAGGAGAAGT
Found at i:84310760 original size:46 final size:46
Alignment explanation
Indices: 84310707--84310835 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
84310697 TATTTGGGCA
*
84310707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
84310753 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
84310799 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84310836 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:84313801 original size:15 final size:15
Alignment explanation
Indices: 84313781--84313849 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
84313771 GTATCTTGGG
84313781 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
84313796 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
84313811 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
84313826 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
84313841 TTTCTTTAT
1 TTTCTTTAT
84313850 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:84313850 original size:30 final size:30
Alignment explanation
Indices: 84313772--84313859 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
84313762 CATAGTATCG
* * * *
84313772 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
84313802 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
84313832 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
84313860 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:84316294 original size:46 final size:46
Alignment explanation
Indices: 84316241--84316369 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
84316231 TATTTGGGCA
*
84316241 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
84316287 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
84316333 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84316370 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:84318605 original size:31 final size:31
Alignment explanation
Indices: 84318525--84318643 Score: 177
Period size: 31 Copynumber: 3.7 Consensus size: 31
84318515 TTAGTCTTGA
*
84318525 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
84318555 CATATCACTGGTTGGGCCGAAGCCTTTTCATAAAT
1 CATATCAC----TGGGCCGAAGCCTTTTCATAAAT
84318590 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
84318621 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
84318644 ACTGTAAATG
Statistics
Matches: 82, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
30 5 0.06
31 47 0.57
35 30 0.37
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:84318714 original size:42 final size:42
Alignment explanation
Indices: 84318667--84318758 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
84318657 TGGCCCTTAG
*
84318667 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
84318709 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
84318751 GCCCATTT
1 GCCCATTT
84318759 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:84318957 original size:25 final size:26
Alignment explanation
Indices: 84318906--84318975 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
84318896 CTCTTTTAAT
*
84318906 AACTGGGGCAAAGCTC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
84318931 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
84318956 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
84318976 AACACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:84319846 original size:27 final size:27
Alignment explanation
Indices: 84319785--84319861 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
84319775 GGCATATTCA
84319785 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
84319812 TCACTTTACCCTACATGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
* *
84319839 TCTTTTTACC-TATTAAGGGTATT
1 TCATTTTACCATA-CAAGGGTATT
84319862 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:84319932 original size:27 final size:28
Alignment explanation
Indices: 84319902--84320009 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 28
84319892 GTAAATCTAC
84319902 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTGT
*
84319929 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTCTAGTAATTTTGT
* *
84319955 AGAAAGTCAAGGGTATTTCT-GTCATTTTGT
1 --AAA-CCAAGGGTATTTCTAGTAATTTTGT
* *
84319985 AAATC-AGGGATATTT-TGGTAATTTT
1 AAACCAAGGG-TATTTCTAGTAATTTT
84320010 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
26 6 0.09
27 35 0.51
28 8 0.12
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTGT
Found at i:84320053 original size:54 final size:54
Alignment explanation
Indices: 84319989--84320148 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
84319979 TTTTGTAAAT
* *
84319989 CAGGGATATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAAC
* * * *
84320043 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
* * ** * *
84320097 TAGGGGTATTTTGGTAATTCTATCTTA-TAGGGGCATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
84320149 TCGAAGGTAA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 84 0.95
55 4 0.05
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
Found at i:84320134 original size:27 final size:27
Alignment explanation
Indices: 84319990--84320118 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
84319980 TTTGTAAATC
* *
84319990 AGGGATATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTCTACAAACT
* * *
84320016 TGAGGGTATTTCGGTAATT-TCACAAACC
1 AG-GGGTATTTTGGTAATTCT-ACAAACT
* * *
84320044 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAACT
*
84320071 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAACT
84320098 AGGGGTATTTTGGTAATTCTA
1 AGGGGTATTTTGGTAATTCTA
84320119 TCTTATAGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.02
27 85 0.96
28 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTCTACAAACT
Found at i:84320135 original size:81 final size:81
Alignment explanation
Indices: 84319990--84320148 Score: 180
Period size: 81 Copynumber: 2.0 Consensus size: 81
84319980 TTTGTAAATC
* * *
84319990 AGGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGATATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGCATTTC
* *
84320055 GGTAATTTTACAAACT
66 AGTAATTTCACAAACT
* * ** *
84320071 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATCTTA-TAGGGGCAT
1 AGGGATATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGCAT
84320133 TTCAGTAATTTCACAA
63 TTCAGTAATTTCACAA
84320149 TCGAAGGTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
80 3 0.05
81 58 0.89
82 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGATATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGCATTTC
AGTAATTTCACAAACT
Found at i:84320193 original size:27 final size:27
Alignment explanation
Indices: 84320147--84320314 Score: 203
Period size: 27 Copynumber: 6.2 Consensus size: 27
84320137 GTAATTTCAC
* * *
84320147 AATCGAAGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
84320174 AAGT-GAGGGTAAAATGGTAATTTTATA
1 AA-TCGAGGGTAAAACGGTAATTTTATA
* * *
84320201 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
84320228 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
84320255 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
84320282 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
84320309 AATCGA
1 AATCGA
84320315 AGGCATTTCA
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:84320221 original size:54 final size:53
Alignment explanation
Indices: 84320154--84320317 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 53
84320144 CACAATCGAA
* *
84320154 GGTAAAACAGTAATTTTGTAAAGTGAGGGTAAAATGGTAATTTTATAAATCAAG
1 GGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATAAATCAAG
* *
84320208 GGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATAAATCAAG
* *
84320262 GGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAAG
1 GGTAAAACGGTAATTTTGTAAAT-GAGGGTAAAATGGTAATTCTATAAATC-AAG
84320317 G
1 G
84320318 CATTTCAGTA
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 95 0.96
55 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (53 bp):
GGTAAAACGGTAATTTTGTAAATGAGGGTAAAATGGTAATTCTATAAATCAAG
Found at i:84324516 original size:2 final size:2
Alignment explanation
Indices: 84324509--84324546 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
84324499 ACCAGAACAG
84324509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84324547 GTGTGGCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84325306 original size:27 final size:27
Alignment explanation
Indices: 84325276--84325448 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
84325266 GGGGCAAAAT
* * *
84325276 GGTAATTTTACCCTATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
84325303 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84325330 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
84325357 GGTAAATCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
84325384 GGTAATTCTACTCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
84325411 GTTAAATCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
84325438 GGTAATTCTAC
1 GGTAATTCTAC
84325449 AACTTATCCA
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:84332230 original size:39 final size:39
Alignment explanation
Indices: 84332149--84332311 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
84332139 TATGGTAACC
* *
84332149 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
84332189 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
84332228 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
84332267 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
84332306 CGCACA
1 CGCACA
84332312 TTCATACACA
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:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:84340294 original size:39 final size:39
Alignment explanation
Indices: 84340178--84340401 Score: 322
Period size: 39 Copynumber: 5.7 Consensus size: 39
84340168 CTCATTCAAA
* * *** * *
84340178 TGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAA
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* *
84340218 TGCCTTCGGGACTTAACCCGGATATCACAACTTGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
*
84340258 TGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
84340297 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
84340336 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
84340375 TGCCTTCGGGCTTAGCCCGGATATCAC
1 TGCCTTCGGGCTTAGCCCGGATATCAC
84340402 TCGAACATTC
Statistics
Matches: 170, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 129 0.76
40 41 0.24
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:84342110 original size:40 final size:40
Alignment explanation
Indices: 84342051--84342128 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
84342041 TGTCACAGCC
*
84342051 CAGATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAGCT
1 CAGATATAGTAACTAGCACAAATGCCTTCG-GATCTTAGCT
*
84342091 CAGATATAGTCACTAGCACAAATGCCTTCGGATCTTAG
1 CAGATATAGTAACTAGCACAAATGCCTTCGGATCTTAG
84342129 TCCGGTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CAGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGCT
Found at i:84350182 original size:39 final size:40
Alignment explanation
Indices: 84350019--84350181 Score: 253
Period size: 39 Copynumber: 4.2 Consensus size: 40
84350009 AACCCAAGTA
* *
84350019 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
84350058 CCTTCGGGACTTAGCCCGGATATAGTAACT-GTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84350097 CCTTCGGGAC-TAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
84350136 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84350175 CCTTCGG
1 CCTTCGG
84350182 ATCTTAGTCG
Statistics
Matches: 114, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
38 23 0.20
39 76 0.67
40 15 0.13
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:84354891 original size:18 final size:18
Alignment explanation
Indices: 84354868--84354982 Score: 54
Period size: 18 Copynumber: 6.4 Consensus size: 18
84354858 TTTATCAGTT
84354868 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
84354886 TCATTCAATAACAATT-AC
1 TCATTCAGTAAC-ATTCAA
* * * *
84354904 TCGTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
** * *
84354922 TCATTCTTTAACAGTCAG
1 TCATTCAGTAACATTCAA
* * *
84354940 TTATTCAGTAATGA-TAAA
1 TCATTCAGTAA-CATTCAA
* *
84354958 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
84354976 TTATTCA
1 TCATTCA
84354983 TTAGCAGTCA
Statistics
Matches: 75, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
17 4 0.05
18 67 0.89
19 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:84354990 original size:18 final size:18
Alignment explanation
Indices: 84354930--84355021 Score: 87
Period size: 18 Copynumber: 5.1 Consensus size: 18
84354920 AGTCATTCTT
*
84354930 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* *
84354948 TAA-TGATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
*
84354966 TAACAGTCAATTATTCAT
1 TAACAGTCAATTATTCAG
* * *
84354984 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
* *
84355002 TAACAGTTAGTTATTCAG
1 TAACAGTCAATTATTCAG
84355020 TA
1 TA
84355022 TCTTTATTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
17 1 0.02
18 57 0.97
19 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:84356362 original size:18 final size:18
Alignment explanation
Indices: 84356324--84356362 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
84356314 GCCTATTCTG
*
84356324 TTTCTTTTCTTTGTTTCA
1 TTTCTTTTCTTTATTTCA
84356342 TTTCTTTTTCTTTATTT-A
1 TTTC-TTTTCTTTATTTCA
84356360 TTT
1 TTT
84356363 ACTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTCTTTTCTTTATTTCA
Found at i:84360093 original size:33 final size:33
Alignment explanation
Indices: 84360056--84360119 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
84360046 TGTACTGAAG
84360056 AGCATCAGTTATAATTCTAAATAGTTACGTACT
1 AGCATCAGTTATAATTCTAAATAGTTACGTACT
84360089 AGCATCAGTTATAATTCTAAATAGTTACGTA
1 AGCATCAGTTATAATTCTAAATAGTTACGTA
84360120 TTATCTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (33 bp):
AGCATCAGTTATAATTCTAAATAGTTACGTACT
Found at i:84361436 original size:27 final size:27
Alignment explanation
Indices: 84361406--84361562 Score: 181
Period size: 27 Copynumber: 5.8 Consensus size: 27
84361396 ATTACCAAAG
* *
84361406 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
84361433 TACCCTCGATTTACAGAATTTCCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
84361460 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
84361487 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* ****
84361514 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTGTTT
*
84361541 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
84361563 CAAAATACCC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:84361567 original size:27 final size:27
Alignment explanation
Indices: 84361514--84361788 Score: 238
Period size: 27 Copynumber: 10.2 Consensus size: 27
84361504 ATTACTGTTT
* *
84361514 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
84361541 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
84361568 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
84361595 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
84361621 TACCCTTGGTTTATAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
** *
84361648 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
84361675 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
84361702 TATCACTAG-TTTGTGAAATTACCGAAA
1 TA-CCCTCGATTTATAAAATTACCAAAA
* *
84361729 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
84361756 TACCCTTGATTTA-AAAAGTTA-CAGAAA
1 TACCCTCGATTTATAAAA-TTACCA-AAA
84361783 TACCCT
1 TACCCT
84361789 TGACTTTCTA
Statistics
Matches: 205, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 31 0.15
27 172 0.84
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:84361572 original size:81 final size:81
Alignment explanation
Indices: 84361361--84361574 Score: 205
Period size: 81 Copynumber: 2.6 Consensus size: 81
84361351 AATACTTTAG
* * * * * *
84361361 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTATAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAATACCCTCAATTTACAGAATT
84361426 ATCGTTTTACCCTCGA
66 ATCGTTTTACCCTCGA
* * * *** * * ***** **
84361442 TTTACAGAATTTCCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAATACCCTCAATTTACAGAATT
84361507 A-CTGTTTTACCCTCGA
66 ATC-GTTTTACCCTCGA
* *
84361523 TTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCTC
1 TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAATACCCTC
84361575 GATCAGTAAA
Statistics
Matches: 96, Mismatches: 36, Indels: 2
0.72 0.27 0.01
Matches are distributed among these distances:
80 1 0.01
81 95 0.99
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAATACCCTCAATTTACAGAATT
ATCGTTTTACCCTCGA
Found at i:84361599 original size:81 final size:80
Alignment explanation
Indices: 84361514--84361788 Score: 288
Period size: 81 Copynumber: 3.4 Consensus size: 80
84361504 ATTACTGTTT
* * * * * *
84361514 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTATAAAATTACTAAAATACCCTAG-TTTATAAAATTACCGAAATACCCTCAATT
*
84361579 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * * *
84361595 TACCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTTAATT
1 TACCCTCGATTTATAAAATTACTAAAATACCC-TAGTTTATAAAATTACCGAAATACCCTCAATT
84361659 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * * *
84361675 TACCC-CTAGTTTGTAAAATTACCAAAATATCACTAGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCTCGA-TTTATAAAATTACTAAAATA-CCCTAGTTTATAAAATTACCGAAATACCCTCAAT
84361739 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
84361756 TACCCTTGATTTA-AAAAGTTAC-AGAAATACCCT
1 TACCCTCGATTTATAAAA-TTACTA-AAATACCCT
84361789 TGACTTTCTA
Statistics
Matches: 161, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
80 71 0.44
81 87 0.54
82 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTAGTTTATAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:84361812 original size:29 final size:27
Alignment explanation
Indices: 84361753--84361847 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
84361743 AAAATTACCA
84361753 AAATACCCTTGATTTAAAAAGTTACAG
1 AAATACCCTTGATTTAAAAAGTTACAG
**
84361780 AAATACCCTTGACTTTCTAAAAA-TTATGG
1 AAATACCCTTGA--TT-TAAAAAGTTACAG
* * * *
84361809 AAATACCATTGGTTTAACAAAATTACTG
1 AAATACCCTTGATTTAA-AAAGTTACAG
84361837 AAATACCCTTG
1 AAATACCCTTG
84361848 GTTTGTAGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.05
27 17 0.30
28 14 0.25
29 16 0.29
30 6 0.11
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTAAAAAGTTACAG
Found at i:84361935 original size:27 final size:27
Alignment explanation
Indices: 84361905--84361992 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
84361895 ACACCTATTA
84361905 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
84361932 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* *
84361959 GGTAAAATGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
84361986 GGTAAAA
1 GGTAAAA
84361993 TAACGAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:84362874 original size:52 final size:51
Alignment explanation
Indices: 84362796--84362918 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
84362786 GAGGAAGTGC
84362796 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
84362848 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCG
*
84362899 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
84362919 ATTAAAGAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 9 0.13
51 22 0.31
52 39 0.56
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCG
Found at i:84362901 original size:25 final size:26
Alignment explanation
Indices: 84362796--84362918 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
84362786 GAGGAAGTGC
**
84362796 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
84362822 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
84362848 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
84362874 AAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
84362899 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
84362919 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 2 0.02
25 26 0.29
26 61 0.69
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:84363110 original size:42 final size:42
Alignment explanation
Indices: 84363063--84363154 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
84363053 TAGTCTCTCC
* ** *
84363063 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
84363105 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
84363147 AAATGGGC
1 AAATGGGC
84363155 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:84363213 original size:31 final size:31
Alignment explanation
Indices: 84363178--84363256 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
84363168 CGTTTACAGT
84363178 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
84363209 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
84363240 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
84363257 AATCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:84371972 original size:74 final size:74
Alignment explanation
Indices: 84371851--84371997 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
84371841 ATTGAACAAG
*
84371851 ATCAAATCTCGTTCATTTGATCAAATGATTAAATTTTCTTGTTTTCTTTTTAAATAAATGATTTA
1 ATCAAATCTCGTTCATTTGATCAAATAATTAAATTTTCTTGTTTTCTTTTTAAATAAATGATTTA
84371916 GGATGTATC
66 GGATGTATC
*
84371925 ATCAAATCTCGTTCATTTTATCAAATAATTAAATTTTCTTGTTTTCTTTTTAAATAAATGATTTA
1 ATCAAATCTCGTTCATTTGATCAAATAATTAAATTTTCTTGTTTTCTTTTTAAATAAATGATTTA
84371990 GGATGTAT
66 GGATGTAT
84371998 TTTTTGGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (74 bp):
ATCAAATCTCGTTCATTTGATCAAATAATTAAATTTTCTTGTTTTCTTTTTAAATAAATGATTTA
GGATGTATC
Found at i:84389613 original size:45 final size:45
Alignment explanation
Indices: 84389549--84389679 Score: 235
Period size: 45 Copynumber: 2.9 Consensus size: 45
84389539 AGGAATGCCA
*
84389549 TGTTGACTAAAGCAAACACAAATTAATAAAAATGATTTAAGGCCT
1 TGTTGACTAAAGGAAACACAAATTAATAAAAATGATTTAAGGCCT
**
84389594 TGTTGGTTAAAGGAAACACAAATTAATAAAAATGATTTAAGGCCT
1 TGTTGACTAAAGGAAACACAAATTAATAAAAATGATTTAAGGCCT
84389639 TGTTGACTAAAGGAAACACAAATTAATAAAAATGATTTAAG
1 TGTTGACTAAAGGAAACACAAATTAATAAAAATGATTTAAG
84389680 ATTTTCTTGT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.27
Consensus pattern (45 bp):
TGTTGACTAAAGGAAACACAAATTAATAAAAATGATTTAAGGCCT
Found at i:84395746 original size:21 final size:21
Alignment explanation
Indices: 84395700--84395746 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
84395690 TTTAGGGATG
*
84395700 ATATGTATGTAAATGATTGAT
1 ATATGTATGTAAATGATTAAT
* *
84395721 TTATGTTATGTATAT-ATTAAT
1 ATATG-TATGTAAATGATTAAT
84395742 ATATG
1 ATATG
84395747 AAATGTATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (21 bp):
ATATGTATGTAAATGATTAAT
Found at i:84403473 original size:27 final size:27
Alignment explanation
Indices: 84403425--84403584 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
84403415 GCGAGGCTGC
* *
84403425 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
84403452 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
84403478 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
84403505 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
84403532 CAGATATATGTGGCAGAGGCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
84403559 TAGATAAATTGTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
84403585 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 84 0.74
28 18 0.16
29 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:84403515 original size:54 final size:54
Alignment explanation
Indices: 84403443--84403584 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
84403433 GTGACGAAGT
*
84403443 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
84403497 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
84403551 CACCAGATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
84403585 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 5 0.06
54 57 0.70
55 20 0.24
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:84412944 original size:39 final size:40
Alignment explanation
Indices: 84412890--84413044 Score: 206
Period size: 39 Copynumber: 3.9 Consensus size: 40
84412880 TGTGTATGAA
* *
84412890 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
84412929 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * *
84412968 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* ** * *
84413008 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGC
84413045 GTTTGAACGA
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 62 0.60
40 41 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:84413029 original size:79 final size:79
Alignment explanation
Indices: 84412890--84413044 Score: 222
Period size: 79 Copynumber: 2.0 Consensus size: 79
84412880 TGTGTATGAA
** *
84412890 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAA
84412955 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
84412968 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTA
*
84413033 TGTCCCGAAGGC
65 AGTCCCGAAGGC
84413045 GTTTGAACGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 25 0.37
79 33 0.49
80 9 0.13
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:84413071 original size:79 final size:78
Alignment explanation
Indices: 84412900--84413082 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 78
84412890 TGTGCGAATT
* ** *
84412900 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGC
** *
84412965 AATTGTGCGAGTT
66 AATTGAACGAGTA
* * *
84412978 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG-CCCGAAG
**
84413043 GCGTTTGAACGAGTA
64 GCAATTGAACGAGTA
*
84413058 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCGGGTTAAGC-CCGAAGG
84413083 TATGTGATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
78 17 0.19
79 46 0.52
80 24 0.27
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGC
AATTGAACGAGTA
Done.