Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 248 of 378
Found at i:73957946 original size:27 final size:27
Alignment explanation
Indices: 73957872--73957947 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
73957862 CCCCCAGTTT
* * * *
73957872 GTAAAATTACCGTAATGCCCATGTAGG
1 GTAAAATAACCGTAATACCCCTATAGG
**
73957899 GTAAAATAACCAAAATACCCCTATAGG
1 GTAAAATAACCGTAATACCCCTATAGG
*
73957926 GTAAAATGACCGTAATACCCCT
1 GTAAAATAACCGTAATACCCCT
73957948 GTTTAGTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
GTAAAATAACCGTAATACCCCTATAGG
Found at i:73987204 original size:37 final size:37
Alignment explanation
Indices: 73987151--73987241 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
73987141 TATAAAAGAA
*
73987151 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
73987188 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
73987225 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
73987242 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:73987392 original size:49 final size:49
Alignment explanation
Indices: 73987337--73987752 Score: 679
Period size: 49 Copynumber: 8.4 Consensus size: 49
73987327 TTTTACATTA
* *
73987337 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
73987386 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
73987435 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
73987484 GCCATTAGGCCTCATCACATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGG-C-C-T--CATCACATATACATACACTTTCACATTCATCACATCG
*
73987538 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
73987587 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
73987636 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
* * *
73987685 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
* *
73987734 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
73987753 CATATATGTA
Statistics
Matches: 350, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
49 299 0.85
50 1 0.00
51 2 0.01
52 2 0.01
53 1 0.00
54 45 0.13
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
Found at i:73987682 original size:201 final size:196
Alignment explanation
Indices: 73987337--73987752 Score: 715
Period size: 201 Copynumber: 2.1 Consensus size: 196
73987327 TTTTACATTA
73987337 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
73987402 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTT
*
73987467 TCACATTCATCACATCGGCCATTAGGCCTCATCACATCACATATACATCCACTTTCACATTCATC
131 TCACATTCATCACATCGGCCATTAGGCCT--T---ATCACATATACATACACTTTCACATTCATC
73987532 ACATCG
191 ACATCG
* * *
73987538 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
*
73987603 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTT
* *
73987668 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATT
131 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATC
73987733 G
196 G
*
73987734 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
73987753 CATATATGTA
Statistics
Matches: 206, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
196 50 0.24
199 1 0.00
201 155 0.75
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (196 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATC
G
Found at i:73994598 original size:25 final size:25
Alignment explanation
Indices: 73994564--73994613 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
73994554 ACACACAGAG
73994564 TAAGCTACAAAGAGCTTAGTAAGCC
1 TAAGCTACAAAGAGCTTAGTAAGCC
73994589 TAAGCTACAAAGAGCTTAGTAAGCC
1 TAAGCTACAAAGAGCTTAGTAAGCC
73994614 AAATACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
TAAGCTACAAAGAGCTTAGTAAGCC
Found at i:73995001 original size:42 final size:43
Alignment explanation
Indices: 73994899--73995006 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 43
73994889 AACAAGTACA
* * * *
73994899 ATGCCGATGTCCCGGA-TGTGGTCTTACATGTAACTCAATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
** *
73994942 ATGCCTCTGTCCTAGACAGGGTCTTACACG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
*
73994984 ATGCCGATGTCCCAGACATGGTC
1 ATGCCGATGTCCCAGACAGGGTC
73995007 CTATACTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
42 26 0.50
43 25 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Found at i:74002401 original size:49 final size:49
Alignment explanation
Indices: 74002333--74002434 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 49
74002323 TCTTATAGAG
*
74002333 AACATATGAAAAGCATTAAATACA-TTATATTCTTTCCAAAA-AGAATTAT
1 AACATATGAAAAGCATTAAAGA-AGTTATATTCTTTCCAAAAGA-AATTAT
* *
74002382 AACATATGGAAAGTATTAAAGAATGTTATATTCTTTCCAAAAGAAATTAT
1 AACATATGAAAAGCATTAAAGAA-GTTATATTCTTTCCAAAAGAAATTAT
74002432 AAC
1 AAC
74002435 TATTATGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
48 1 0.02
49 19 0.40
50 26 0.55
51 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (49 bp):
AACATATGAAAAGCATTAAAGAAGTTATATTCTTTCCAAAAGAAATTAT
Found at i:74004709 original size:46 final size:45
Alignment explanation
Indices: 74004642--74004836 Score: 282
Period size: 46 Copynumber: 4.2 Consensus size: 45
74004632 GATTTTAAAG
74004642 ATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGAC-AGAAATGAATAAGACCATGGTTGAAAGATACC
*
74004688 ATGGCAACATGACATGAAATGAATAAGACCATGGTTGAATGATACC
1 ATGGCAACATGACA-GAAATGAATAAGACCATGGTTGAAAGATACC
*
74004734 ATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGAC-AGAAATGAATAAGACCATGGTTGAAAGATACC
* * * * *
74004780 ATGGCAACATGACAGAAAATGAGTAAGACTATAGTTGAAAGACACT
1 ATGGCAACATGACAG-AAATGAATAAGACCATGGTTGAAAGATACC
*
74004826 ATGGCATCATG
1 ATGGCAACATG
74004837 TCGAAGATAA
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.01
46 134 0.99
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (45 bp):
ATGGCAACATGACAGAAATGAATAAGACCATGGTTGAAAGATACC
Found at i:74008277 original size:42 final size:42
Alignment explanation
Indices: 74008159--74008277 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
74008149 CGAACCAATT
** * *
74008159 CCATATCCCAGATATGGTCTTACATGTGATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACATAATCTCATATCGATG
* * *
74008201 CCAATAGCCCAGCTATGGTCTTACACCA-AGTCTCATATCGATG
1 CC-ATATCCCAGATATGGTCTTACA-CATAATCTCATATCGATG
*
74008244 CCATATCCCAGATATGGTCTTATACATAATCTCA
1 CCATATCCCAGATATGGTCTTACACATAATCTCA
74008278 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
41 2 0.03
42 27 0.43
43 34 0.54
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACATAATCTCATATCGATG
Found at i:74012197 original size:20 final size:20
Alignment explanation
Indices: 74012141--74012197 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
74012131 AAGCTTATAC
* *
74012141 TAAGTAAATGGAAAGGAAAG
1 TAAGTAAATGGAATGGTAAG
74012161 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
*
74012181 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
74012198 TCATAGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:74020088 original size:40 final size:39
Alignment explanation
Indices: 74020043--74020250 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
74020033 CGGAATACAA
*
74020043 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
74020083 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
74020123 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
74020163 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
74020203 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
74020243 CCGGATAT
1 CCGGATAT
74020251 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:74020183 original size:80 final size:80
Alignment explanation
Indices: 74020043--74020249 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
74020033 CGGAATACAA
* * *
74020043 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
74020107 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
74020123 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
74020187 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
74020203 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
74020250 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:74028113 original size:40 final size:40
Alignment explanation
Indices: 74028068--74028275 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
74028058 CGGAATACAA
*
74028068 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
74028108 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
74028148 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *** * *
74028188 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * * *
74028228 CCGGATATAATTACTAGCATAAATGTCTTTGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
74028268 CCGGATAT
1 CCGGATAT
74028276 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:74038876 original size:66 final size:68
Alignment explanation
Indices: 74038798--74038984 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
74038788 TAGTACCACT
*
74038798 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
74038860 CACG
65 CACG
74038864 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
74038929 ATCACG
63 ATCACG
74038935 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
74038985 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:74038909 original size:71 final size:71
Alignment explanation
Indices: 74038821--74038984 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
74038811 CGATTTGTCT
74038821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
74038886 CTTTCA
66 CTTTCA
74038892 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
74038957 CTTTCA
66 CTTTCA
74038963 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
74038985 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:74046408 original size:66 final size:68
Alignment explanation
Indices: 74046330--74046516 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
74046320 TAGTACCACT
*
74046330 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
74046392 CACG
65 CACG
74046396 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
74046461 ATCACG
63 ATCACG
74046467 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
74046517 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:74046441 original size:71 final size:71
Alignment explanation
Indices: 74046353--74046516 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
74046343 CGATTTGTCT
74046353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
74046418 CTTTCA
66 CTTTCA
74046424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
74046489 CTTTCA
66 CTTTCA
74046495 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
74046517 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:74046554 original size:71 final size:70
Alignment explanation
Indices: 74046353--74046550 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
74046343 CGATTTGTCT
* * * *
74046353 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
74046418 CTTTCA
65 CTTTCA
* * * *
74046424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
74046489 CTTTCA
65 CTTTCA
* *
74046495 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
74046551 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:74049034 original size:29 final size:27
Alignment explanation
Indices: 74049000--74049102 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
74048990 TACTCAATCA
*
74049000 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
74049029 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
74049058 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
74049087 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
74049103 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:74056806 original size:29 final size:27
Alignment explanation
Indices: 74056772--74056874 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
74056762 TACTCAATCA
*
74056772 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
74056801 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
74056830 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
74056859 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
74056875 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:74062585 original size:25 final size:25
Alignment explanation
Indices: 74062557--74062635 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
74062547 ACTCAGCCCT
*
74062557 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
74062582 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
74062604 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
74062629 ATCACAT
1 ATCACAT
74062636 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:74062728 original size:49 final size:47
Alignment explanation
Indices: 74062507--74062872 Score: 563
Period size: 47 Copynumber: 7.7 Consensus size: 47
74062497 GCCTTCGGGA
* * * * *
74062507 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
74062554 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74062601 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74062648 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74062695 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74062744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74062791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74062840 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
74062873 GCGTAAAATC
Statistics
Matches: 299, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 186 0.62
49 112 0.37
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74062737 original size:96 final size:96
Alignment explanation
Indices: 74062507--74062872 Score: 580
Period size: 96 Copynumber: 3.8 Consensus size: 96
74062497 GCCTTCGGGA
* * * * *
74062507 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATA
* *
74062569 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
74062601 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
74062664 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
74062695 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
74062760 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
74062791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATTTAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA--TAT
*
74062856 ACACATTCACATTCATC
64 ACACTTTCACATTCATC
74062873 GCGTAAAATC
Statistics
Matches: 254, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 88 0.35
96 144 0.57
98 19 0.07
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74065602 original size:48 final size:48
Alignment explanation
Indices: 74065531--74065923 Score: 588
Period size: 48 Copynumber: 8.0 Consensus size: 48
74065521 GGGTGTCACA
* * *
74065531 TTCACATTAGCCATTCGCCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
74065579 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
74065627 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
74065675 TTCACATTAGCCATTCGGCTTTACTACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
74065723 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
74065771 TTCACATTCGCCATTCGCCATTCGGCTTTACGACATATACATATCACACATATAT
1 TTCACATT----A---GCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
74065826 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC-T-CATATATAT
74065876 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
74065924 ATATTTATCT
Statistics
Matches: 313, Mismatches: 23, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
48 222 0.71
49 1 0.00
50 45 0.14
51 1 0.00
52 1 0.00
55 43 0.14
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:74075665 original size:17 final size:17
Alignment explanation
Indices: 74075643--74075704 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
74075633 TTCAAAATCT
74075643 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
* * *
74075660 ATCAATTAAAAT-TTAT
1 ATCAATCAAAATCATAA
74075676 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
*
74075693 ATCAATTAAAAT
1 ATCAATCAAAAT
74075705 TTATCCTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
16 13 0.35
17 24 0.65
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (17 bp):
ATCAATCAAAATCATAA
Found at i:74075680 original size:33 final size:33
Alignment explanation
Indices: 74075642--74075708 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
74075632 ATTCAAAATC
74075642 TATCAATCAAAATCATAAATCAATTAAAATTTA
1 TATCAATCAAAATCATAAATCAATTAAAATTTA
74075675 TATCAATCAAAATCATAAATCAATTAAAATTTA
1 TATCAATCAAAATCATAAATCAATTAAAATTTA
74075708 T
1 T
74075709 CCTAAATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (33 bp):
TATCAATCAAAATCATAAATCAATTAAAATTTA
Found at i:74075681 original size:16 final size:16
Alignment explanation
Indices: 74075660--74075708 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
74075650 AAAATCATAA
74075660 ATCAATTAAAATTTAT
1 ATCAATTAAAATTTAT
* * *
74075676 ATCAATCAAAATCATAA
1 ATCAATTAAAAT-TTAT
74075693 ATCAATTAAAATTTAT
1 ATCAATTAAAATTTAT
74075709 CCTAAATATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (16 bp):
ATCAATTAAAATTTAT
Found at i:74085465 original size:27 final size:25
Alignment explanation
Indices: 74085404--74085465 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
74085394 CTCAAACAAC
* *
74085404 AAAATTAAATCACAAAAATTTCACA
1 AAAATTAATTCACAAAAATATCACA
* * *
74085429 GATATAAATTCACACAAAATAATCACA
1 AAAATTAATTCACA-AAAAT-ATCACA
74085456 AAAATTAATT
1 AAAATTAATT
74085466 TTTAAATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
25 10 0.37
26 5 0.19
27 12 0.44
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.26
Consensus pattern (25 bp):
AAAATTAATTCACAAAAATATCACA
Found at i:74092549 original size:29 final size:29
Alignment explanation
Indices: 74092516--74092572 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
74092506 ATTTGGCTAT
* *
74092516 AGCATGTATA-AAATCATATATTTCATTTC
1 AGCATATATATAAAT-ATATATTACATTTC
*
74092545 AGCATATATATATATATATATTACATTT
1 AGCATATATATAAATATATATTACATTT
74092573 AATTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (29 bp):
AGCATATATATAAATATATATTACATTTC
Found at i:74093344 original size:17 final size:17
Alignment explanation
Indices: 74093322--74093356 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
74093312 TTTGACTAAG
74093322 AAAAATAATGAACATAT
1 AAAAATAATGAACATAT
74093339 AAAAATAATGAACATAT
1 AAAAATAATGAACATAT
74093356 A
1 A
74093357 TATTATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAAATAATGAACATAT
Found at i:74098916 original size:43 final size:44
Alignment explanation
Indices: 74098804--74098916 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
74098794 CAATGCCAAC
* * *
74098804 GTCCCAGACGTGGTCTTACATGT-AATCAAATATTGATACCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCACT
* * * * *
74098847 ATCCCAGACAGGGTTTTACACG-AAATCAAATA-CGATGTCGA-T
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGAT-ACCACT
74098889 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
74098917 TTAAGTAGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCACT
Found at i:74107739 original size:29 final size:29
Alignment explanation
Indices: 74107686--74107742 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
74107676 AAAAGAGAAA
* *
74107686 AACTTCCAAATGTTTTTACCGTACCTTTT
1 AACTTCCAAATGTTTCTACCATACCTTTT
**
74107715 AACTTCCAAATGTTTCTATTATACCTTT
1 AACTTCCAAATGTTTCTACCATACCTTT
74107743 ATAATGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.46
Consensus pattern (29 bp):
AACTTCCAAATGTTTCTACCATACCTTTT
Found at i:74110419 original size:32 final size:34
Alignment explanation
Indices: 74110351--74110428 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 34
74110341 GTTAGGTTAC
* *
74110351 TTTTAAAATTCAGTTTTTAAATTAAATCTTTGAT
1 TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
* * *
74110385 TTTTAAATTTAAG-TTTT-AATTAGATTTTTTAT
1 TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
*
74110417 TTTAAAATTTAA
1 TTTTAAATTTAA
74110429 TTCTTATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 23 0.61
33 4 0.11
34 11 0.29
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTTAAATTTAAGTTTTTAAATTAAATCTTTGAT
Found at i:74110420 original size:25 final size:25
Alignment explanation
Indices: 74110382--74110430 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
74110372 TTAAATCTTT
**
74110382 GATTTTTAAATTTAAGTTTTAATTA
1 GATTTTTAAATTTAAAATTTAATTA
* *
74110407 GATTTTTTATTTTAAAATTTAATT
1 GATTTTTAAATTTAAAATTTAATT
74110431 CTTATGTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (25 bp):
GATTTTTAAATTTAAAATTTAATTA
Found at i:74110970 original size:26 final size:26
Alignment explanation
Indices: 74110941--74110994 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
74110931 CTCGGTTTTC
74110941 AATGCTAATGAAAAATGCAGTTTCGA
1 AATGCTAATGAAAAATGCAGTTTCGA
74110967 AATGCTAATGAAAAATGCAGTTTCGA
1 AATGCTAATGAAAAATGCAGTTTCGA
74110993 AA
1 AA
74110995 GTTCATTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (26 bp):
AATGCTAATGAAAAATGCAGTTTCGA
Found at i:74115609 original size:42 final size:41
Alignment explanation
Indices: 74115550--74115661 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 41
74115540 AGGTGCAGGA
*
74115550 TTCACACGGCCAAGACACACGGC-CGTGTCTTAGGCCT-TGTGT
1 TTCACAC-GCTAAGACACAC-GCTCGTGTCTT-GGCCTGTGTGT
*
74115592 TTCACACTGCTAAGACACACGCTCGTGTCTTGGGCTGTGTGT
1 TTCACAC-GCTAAGACACACGCTCGTGTCTTGGCCTGTGTGT
*
74115634 TTCACACGTCTAAGACACATGCTCGTGT
1 TTCACACG-CTAAGACACACGCTCGTGT
74115662 AACCAATTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 7 0.11
42 56 0.89
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.28
Consensus pattern (41 bp):
TTCACACGCTAAGACACACGCTCGTGTCTTGGCCTGTGTGT
Found at i:74133738 original size:28 final size:27
Alignment explanation
Indices: 74133675--74133742 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
74133665 ATAGTGAGTC
74133675 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
74133702 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
74133730 CGCACACTTAGTG
1 CGCACACTTAGTG
74133743 TGTACAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:74141756 original size:28 final size:27
Alignment explanation
Indices: 74141693--74141762 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
74141683 ATAGTGAGTC
74141693 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
74141720 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
74141748 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74141763 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:74149777 original size:28 final size:27
Alignment explanation
Indices: 74149714--74149783 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
74149704 ATAGTGAGTC
74149714 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
74149741 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
74149769 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74149784 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:74152863 original size:26 final size:26
Alignment explanation
Indices: 74152832--74152887 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
74152822 GGATGTTACA
*
74152832 AGCCATATAACCG-GAAGCTTACAAAG
1 AGCCAT-TAACCGAGAAGCTCACAAAG
* *
74152858 AGCCATTGATCGAGAAGCTCACAAAG
1 AGCCATTAACCGAGAAGCTCACAAAG
74152884 AGCC
1 AGCC
74152888 TATCAGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.14
Consensus pattern (26 bp):
AGCCATTAACCGAGAAGCTCACAAAG
Found at i:74155119 original size:25 final size:25
Alignment explanation
Indices: 74155090--74155142 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
74155080 ATTAAAAGAG
74155090 TATGATTGGTAAGTTTAATTCCTAT
1 TATGATTGGTAAGTTTAATTCCTAT
*
74155115 TATGATTGGTAAGTTTAATTCCTGT
1 TATGATTGGTAAGTTTAATTCCTAT
74155140 TAT
1 TAT
74155143 ATGAACTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (25 bp):
TATGATTGGTAAGTTTAATTCCTAT
Found at i:74159684 original size:46 final size:47
Alignment explanation
Indices: 74159626--74159746 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
74159616 GTATTGGTAC
* *
74159626 TAAGACAAGGATACCATGTTAGACCATG-TTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
*
74159672 TAAGACAAGGATACCATGTAAGACTATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
74159719 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
74159747 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 26 0.38
47 42 0.62
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:74159854 original size:55 final size:54
Alignment explanation
Indices: 74159725--74159921 Score: 247
Period size: 55 Copynumber: 3.6 Consensus size: 54
74159715 TTGGTAAGAT
* * *
74159725 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
** *
74159779 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* *
74159834 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
74159887 AAGGATAC-CACGTAAAACCATGTCAAGACATGGCA
1 AAGGAT-CTCATGTAAGACCATGCCAAGACATGGCA
74159922 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 43 0.34
55 44 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:74165116 original size:42 final size:43
Alignment explanation
Indices: 74165057--74165153 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
74165047 TGAGTTTACG
* * **
74165057 TGTAAGACCATATCTGGGATA-TGGAATCGATATGAGATTTCA
1 TGTAAGACCATAGCTGGGATATTGGAATCAATATGAGATCCCA
* * *
74165099 TGTAAGACCATAGCTGGGCTATTGGTATCAATTTGAGATCCCA
1 TGTAAGACCATAGCTGGGATATTGGAATCAATATGAGATCCCA
74165142 TGTAAGACCATA
1 TGTAAGACCATA
74165154 TTTGGGACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 19 0.40
43 28 0.60
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGATATTGGAATCAATATGAGATCCCA
Found at i:74167118 original size:7 final size:7
Alignment explanation
Indices: 74167097--74167242 Score: 157
Period size: 7 Copynumber: 20.4 Consensus size: 7
74167087 GGTGGATTTG
74167097 GGGTTTAA
1 GGGTTT-A
*
74167105 GGTTTTA
1 GGGTTTA
74167112 GGGTTTA
1 GGGTTTA
*
74167119 GGTTTTA
1 GGGTTTA
*
74167126 AGGTTTA
1 GGGTTTA
74167133 GGGTTTA
1 GGGTTTA
*
74167140 AGGTTTA
1 GGGTTTA
74167147 GGGTTTA
1 GGGTTTA
*
74167154 AGGTTTA
1 GGGTTTA
74167161 GGGTTTA
1 GGGTTTA
*
74167168 AGGTTTA
1 GGGTTTA
*
74167175 GGGTTCAAA
1 GGGTT--TA
74167184 GGGTTTA
1 GGGTTTA
*
74167191 TGGTTTA
1 GGGTTTA
*
74167198 TGGTTTA
1 GGGTTTA
74167205 GGGTTTA
1 GGGTTTA
*
74167212 TGGTTTA
1 GGGTTTA
74167219 GGGTTTA
1 GGGTTTA
74167226 GGGTTTA
1 GGGTTTA
**
74167233 AAGTTTA
1 GGGTTTA
74167240 GGG
1 GGG
74167243 CTTGGTGAGA
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
7 103 0.90
8 5 0.04
9 6 0.05
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:74167132 original size:21 final size:21
Alignment explanation
Indices: 74167097--74167242 Score: 184
Period size: 21 Copynumber: 6.8 Consensus size: 21
74167087 GGTGGATTTG
74167097 GGGTTTAAGGTTTTAGGGTTTA
1 GGGTTTAAGG-TTTAGGGTTTA
*
74167119 GGTTTTAAGGTTTAGGGTTTA
1 GGGTTTAAGGTTTAGGGTTTA
* * *
74167140 AGGTTTAGGGTTTAAGGTTTA
1 GGGTTTAAGGTTTAGGGTTTA
*
74167161 GGGTTTAAGGTTTAGGGTTCAAA
1 GGGTTTAAGGTTTAGGGTT--TA
* *
74167184 GGGTTTATGGTTTATGGTTTA
1 GGGTTTAAGGTTTAGGGTTTA
*
74167205 GGGTTTATGGTTTAGGGTTTA
1 GGGTTTAAGGTTTAGGGTTTA
*
74167226 GGGTTTAAAGTTTAGGG
1 GGGTTTAAGGTTTAGGG
74167243 CTTGGTGAGA
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
21 80 0.75
22 9 0.08
23 18 0.17
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.44
Consensus pattern (21 bp):
GGGTTTAAGGTTTAGGGTTTA
Found at i:74170792 original size:20 final size:20
Alignment explanation
Indices: 74170767--74170806 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
74170757 GTATGATTGG
74170767 TAAGTTTAATTCCTATTATA
1 TAAGTTTAATTCCTATTATA
74170787 TAAGTTTAATTCCTATTATA
1 TAAGTTTAATTCCTATTATA
74170807 CAAACTTATT
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:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TAAGTTTAATTCCTATTATA
Found at i:74174037 original size:42 final size:42
Alignment explanation
Indices: 74173919--74174072 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
74173909 TACCATGCCA
* * * *
74173919 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * * * ** *
74173961 ATGCCAATAGCCTAGTTATAGTCTTATGCGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATTG
*
74174004 ATGCCATATCCCAGGTATGGTCTTACACGAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
*
74174046 ATGCCATATCCCAGATATGATCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
74174073 TATAGACTTA
Statistics
Matches: 91, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
42 60 0.66
43 31 0.34
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:74181708 original size:6 final size:6
Alignment explanation
Indices: 74181699--74181734 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
74181689 AGATACAGTC
74181699 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TACAGA
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT T-CAGA
74181735 AATAGATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
TCAGAT
Found at i:74183682 original size:40 final size:39
Alignment explanation
Indices: 74183637--74183844 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
74183627 CGGAATACAA
*
74183637 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
74183677 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
74183717 CCAGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
74183757 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
74183797 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
74183837 CCGGATAT
1 CCGGATAT
74183845 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:74183785 original size:80 final size:81
Alignment explanation
Indices: 74183640--74183842 Score: 232
Period size: 80 Copynumber: 2.5 Consensus size: 81
74183630 AATACAACCG
* * *
74183640 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAATGCC
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCC
*
74183704 TTCGGGTATTAGCCCA
66 TTCGGGTATTAACCCA
* * *
74183720 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAATTGC
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAATGC
* *
74183783 CTTCGGGTCTTAACCCG
65 CTTCGGGTATTAACCCA
** * ** * *
74183800 GATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
74183843 ATCATTCAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 100 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCC
TTCGGGTATTAACCCA
Found at i:74185703 original size:30 final size:31
Alignment explanation
Indices: 74185621--74185707 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
74185611 CACAATGTAA
*
74185621 CATGCCCGTATGGGCCCACACGCCCATATGG
1 CATGCCCGTGTGGGCCCACACGCCCATATGG
*
74185652 CAT-CCCTGTGTGGGCCCACACGCCCATGTGG
1 CATGCCC-GTGTGGGCCCACACGCCCATATGG
*
74185683 CATGCCCGTGTAGG-CCACACGCCCA
1 CATGCCCGTGTGGGCCCACACGCCCA
74185708 ACTTGGCGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
30 14 0.27
31 34 0.67
32 3 0.06
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.16
Consensus pattern (31 bp):
CATGCCCGTGTGGGCCCACACGCCCATATGG
Found at i:74189055 original size:48 final size:48
Alignment explanation
Indices: 74188984--74189323 Score: 599
Period size: 48 Copynumber: 7.0 Consensus size: 48
74188974 AGATAAATAT
74188984 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
74189032 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
74189080 ATATGTATATGTGGTAGAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
74189128 ATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
74189176 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
74189226 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
74189274 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
74189322 AT
1 AT
74189324 GTGTGTATAT
Statistics
Matches: 282, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 233 0.83
49 4 0.01
50 45 0.16
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:74189518 original size:37 final size:37
Alignment explanation
Indices: 74189468--74189566 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
74189458 ATATATTCCG
*
74189468 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCA
* *
74189505 GGTAAGACCCGATGACTACGTGTGGAGATTTTGCCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCA
*
74189542 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
74189567 GGACTATTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCA
Found at i:74190087 original size:43 final size:43
Alignment explanation
Indices: 74190026--74190111 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
74190016 TACTTTGTTT
*
74190026 CCTCTATTTTATAGATCTCATTTGGAAGCTATAGGCTCGGGGA
1 CCTCTATTTTATAGATCTCATTTGGAAGCTACAGGCTCGGGGA
*
74190069 CCTCTGTTTTATAGATCTCATTTGGAAGCTACAGGCTCGGGGA
1 CCTCTATTTTATAGATCTCATTTGGAAGCTACAGGCTCGGGGA
74190112 TCGTCAGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (43 bp):
CCTCTATTTTATAGATCTCATTTGGAAGCTACAGGCTCGGGGA
Found at i:74193214 original size:31 final size:31
Alignment explanation
Indices: 74193146--74193215 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
74193136 TAATTAAAAA
* *
74193146 ATCAAATCAACTCTTTTTCAAAAGGTTGAAG
1 ATCAAATTAACTCTTTTTCAAAAGATTGAAG
*
74193177 AACAAATTAGACTCTTTTT-AAAAGATTGAA-
1 ATCAAATTA-ACTCTTTTTCAAAAGATTGAAG
74193207 AGTCAAATT
1 A-TCAAATT
74193216 TAATTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.03
31 23 0.70
32 9 0.27
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (31 bp):
ATCAAATTAACTCTTTTTCAAAAGATTGAAG
Found at i:74199892 original size:23 final size:23
Alignment explanation
Indices: 74199865--74199908 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74199855 TTATTTAAAC
74199865 AAATACTCATATTTATATAATTA
1 AAATACTCATATTTATATAATTA
* *
74199888 AAATATTCATATTTTTATAAT
1 AAATACTCATATTTATATAAT
74199909 AGATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATACTCATATTTATATAATTA
Found at i:74199916 original size:27 final size:26
Alignment explanation
Indices: 74199876--74199926 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
74199866 AATACTCATA
74199876 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
74199901 TTTATAATAGATTAAAATATGTCATA
1 TTTAT-ATA-ATTAAAATATGTCATA
74199927 AGTCCTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 10 0.43
28 5 0.22
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:74200302 original size:15 final size:16
Alignment explanation
Indices: 74200281--74200349 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 16
74200271 TATACTACAA
74200281 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
74200297 -ATATTTATAATTTTAAT
1 AATATTTAT--TATTAAT
74200314 AGATATTTATTATTTAA-
1 A-ATATTTATTA-TTAAT
*
74200331 AATA-TTAATATTGAAT
1 AATATTTATTATT-AAT
74200347 AAT
1 AAT
74200350 TTTTCAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
14 2 0.05
15 15 0.35
16 6 0.14
17 8 0.19
18 4 0.09
19 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:74200314 original size:17 final size:18
Alignment explanation
Indices: 74200292--74200336 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
74200282 ATATTTATTA
74200292 TTAAT-ATATTTATAATT
1 TTAATAATATTTATAATT
*
74200309 TTAATAGATATTTATTA-T
1 TTAATA-ATATTTATAATT
74200327 TTAA-AATATT
1 TTAATAATATT
74200337 AATATTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 5 0.20
19 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTAATAATATTTATAATT
Found at i:74204889 original size:97 final size:97
Alignment explanation
Indices: 74204716--74204897 Score: 224
Period size: 97 Copynumber: 1.9 Consensus size: 97
74204706 TGGCCACATC
* * * *
74204716 ATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATATACAAGCTAGTGGAAG
1 ATGAGAGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAAGCTAGTGGAAG
*
74204781 ACCTGTCTGGGACATAGCATCAACACCTATAA
66 ACCTATCTGGGACATAGCATCAACACCTATAA
* ** * * *
74204813 ATGAGAGCCAATGTAAGACCTGTCTAGGACATGGTGTCGGCCTCGATATATGA-AAGTTAGTGTA
1 ATGAGAGCCAATGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-ACAAGCTAGTGGA
*
74204877 AGACCTAT-TGGGACATGGCAT
64 AGACCTATCTGGGACATAGCAT
74204898 TGACTTTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
97 40 0.56
98 30 0.42
99 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (97 bp):
ATGAGAGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAAGCTAGTGGAAG
ACCTATCTGGGACATAGCATCAACACCTATAA
Found at i:74207298 original size:53 final size:53
Alignment explanation
Indices: 74207193--74207301 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
74207183 CTAACATACC
74207193 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
1 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
74207246 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
1 TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
74207299 TAA
1 TAA
74207302 TTGCAGAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (53 bp):
TAACATATTCAATTTCCTCTCTAAACTCTAGCTAAATTACTTTAAAACATAAG
Found at i:74207348 original size:26 final size:25
Alignment explanation
Indices: 74207289--74207354 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
74207279 AAATTACTTT
*
74207289 AAAACATAAGTAATTGCAGAAAAAA
1 AAAACATAAGTAATTACAGAAAAAA
74207314 AAAACATAAGTAATTACA-AAAAAA
1 AAAACATAAGTAATTACAGAAAAAA
74207338 AAAATCTATAAGTAATT
1 AAAA-C-ATAAGTAATT
74207355 TATATGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 10 0.26
25 18 0.47
26 10 0.26
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (25 bp):
AAAACATAAGTAATTACAGAAAAAA
Found at i:74208113 original size:2 final size:2
Alignment explanation
Indices: 74208106--74208137 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
74208096 CTTTAAAATA
74208106 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
74208138 TGGTAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74208530 original size:17 final size:17
Alignment explanation
Indices: 74208487--74208542 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
74208477 AAGTAACAAT
74208487 ATTTTAAAATA-AAATTACA
1 ATTTTAAAATATAAA--A-A
*
74208506 ATTTTTAAATATAAGAAA
1 ATTTTAAAATATAA-AAA
74208524 ATTTTAAAATATAAAAA
1 ATTTTAAAATATAAAAA
74208541 AT
1 AT
74208543 CCATAGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.15
18 14 0.42
19 11 0.33
20 2 0.06
21 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTTTAAAATATAAAAA
Found at i:74208641 original size:2 final size:2
Alignment explanation
Indices: 74208634--74208664 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74208624 TAATAAAGAG
74208634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74208665 ACGCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74212579 original size:16 final size:16
Alignment explanation
Indices: 74212558--74212588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74212548 ATAAATTTGA
74212558 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
74212574 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
74212589 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:74214339 original size:20 final size:20
Alignment explanation
Indices: 74214314--74214358 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
74214304 TGTGCCATTC
74214314 AGCTCCAATCAGCTCACTTG
1 AGCTCCAATCAGCTCACTTG
* * *
74214334 AGCTCCATTTAGCTCGCTTG
1 AGCTCCAATCAGCTCACTTG
74214354 AGCTC
1 AGCTC
74214359 GAATTTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
AGCTCCAATCAGCTCACTTG
Found at i:74214366 original size:21 final size:20
Alignment explanation
Indices: 74214324--74214370 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
74214314 AGCTCCAATC
*
74214324 AGCTCACTTGAGCTCCATTT
1 AGCTCACTTGAGCTCAATTT
*
74214344 AGCTCGCTTGAGCTCGAATTT
1 AGCTCACTTGAGCTC-AATTT
74214365 AGCTCA
1 AGCTCA
74214371 TTTCTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (20 bp):
AGCTCACTTGAGCTCAATTT
Found at i:74214601 original size:13 final size:13
Alignment explanation
Indices: 74214583--74214617 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
74214573 ATTATATGAA
*
74214583 TAATTATTTTATT
1 TAATTATGTTATT
74214596 TAATTATGTTATT
1 TAATTATGTTATT
74214609 TAATTATGT
1 TAATTATGT
74214618 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:74215554 original size:14 final size:14
Alignment explanation
Indices: 74215514--74215577 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
74215504 ACCTAAACCG
*
74215514 ACCAATTCATTCAT
1 ACCATTTCATTCAT
* *
74215528 ATCC-CTTCGTTCAT
1 A-CCATTTCATTCAT
74215542 ACCATTTCATTCAT
1 ACCATTTCATTCAT
*
74215556 ACCATTTCGTTCAT
1 ACCATTTCATTCAT
74215570 ACCATTTC
1 ACCATTTC
74215578 GACCATTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
13 2 0.05
14 39 0.91
15 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (14 bp):
ACCATTTCATTCAT
Found at i:74215554 original size:28 final size:28
Alignment explanation
Indices: 74215514--74215577 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
74215504 ACCTAAACCG
*
74215514 ACCAATTCATTCATATCC-CTTCGTTCAT
1 ACCATTTCATTCATA-CCACTTCGTTCAT
*
74215542 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
74215570 ACCATTTC
1 ACCATTTC
74215578 GACCATTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 2 0.06
28 31 0.94
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (28 bp):
ACCATTTCATTCATACCACTTCGTTCAT
Found at i:74215578 original size:14 final size:14
Alignment explanation
Indices: 74215533--74215578 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
74215523 TTCATATCCC
74215533 TTCGTTCATACCAT
1 TTCGTTCATACCAT
*
74215547 TTCATTCATACCAT
1 TTCGTTCATACCAT
74215561 TTCGTTCATACCAT
1 TTCGTTCATACCAT
74215575 TTCG
1 TTCG
74215579 ACCATTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCGTTCATACCAT
Found at i:74216789 original size:6 final size:6
Alignment explanation
Indices: 74216767--74216836 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
74216757 GAAAGAGAGC
* ** **
74216767 AAAAAG AAAGCAAG AAAAAG AAAATTG AAATTG AAAAAG AAAGTG AAAAAG
1 AAAAAG AAA--AAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG
* *
74216818 AAAAAG AGAAGG AAAAAG A
1 AAAAAG AAAAAG AAAAAG A
74216837 GATCGAGATC
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
6 39 0.80
7 4 0.08
8 6 0.12
ACGTcount: A:0.70, C:0.01, G:0.21, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:74216813 original size:18 final size:18
Alignment explanation
Indices: 74216778--74216836 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
74216768 AAAAGAAAGC
*
74216778 AAGAAAAAGAAAATTGAAA
1 AAGAAAAAG-AAAGTGAAA
**
74216797 TTGAAAAAGAAAGTGAAA
1 AAGAAAAAGAAAGTGAAA
74216815 AAGAAAAAGAGAAG-GAAA
1 AAGAAAAAGA-AAGTGAAA
74216833 AAGA
1 AAGA
74216837 GATCGAGATC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (18 bp):
AAGAAAAAGAAAGTGAAA
Found at i:74220172 original size:93 final size:93
Alignment explanation
Indices: 74220039--74220210 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
74220029 CGCCCATAAG
* * *
74220039 CGAACTCGGACTCAAATCAACGAGCTTGGGCGTTCTCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTTGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
74220104 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
74220132 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAAATCAACGAGCTT-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
74220196 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
74220211 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTTGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:74220207 original size:46 final size:46
Alignment explanation
Indices: 74220032--74220207 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
74220022 TGTAACCCGC
* * * *
74220032 CCATAAGCGAACTCGGACTCAAATCAACGAGCTT-GGGCGTTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACAT
*
74220078 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
*
74220128 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
74220171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
74220208 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 4 0.04
46 60 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:74221659 original size:20 final size:21
Alignment explanation
Indices: 74221636--74221682 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
74221626 AACTCCAATC
*
74221636 AGCTCACTTGAGCTC-CATTT
1 AGCTCACTTGAGCTCGAATTT
*
74221656 AGCTCGCTTGAGCTCGAATTT
1 AGCTCACTTGAGCTCGAATTT
74221677 AGCTCA
1 AGCTCA
74221683 TTTCTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGAATTT
Found at i:74221913 original size:13 final size:13
Alignment explanation
Indices: 74221895--74221929 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
74221885 ATTATATGAA
*
74221895 TAATTATTTTATT
1 TAATTATGTTATT
74221908 TAATTATGTTATT
1 TAATTATGTTATT
74221921 TAATTATGT
1 TAATTATGT
74221930 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:74224161 original size:58 final size:58
Alignment explanation
Indices: 74224061--74224213 Score: 184
Period size: 58 Copynumber: 2.6 Consensus size: 58
74224051 TACTAGCTGT
* * * * **
74224061 GAGCAATTTTACACTTAAGGAATTTTTTCGAAAATCGTCAGCTAGGAATATTAG-TCTGC
1 GAGCTATTTTAGACTTAAGGAA-ATTTTCAAAAATCAACAGCTAGGAATATTAGTTC-GC
*
74224120 GAGCTATTTT-GAGCTTAAGGAAATTTTCAAAAATCAACAGCTTGGAATATTAGTTCGC
1 GAGCTATTTTAGA-CTTAAGGAAATTTTCAAAAATCAACAGCTAGGAATATTAGTTCGC
* *
74224178 GAGCTATTTTAGACTTAAAGAAATTTTCTAAAATCA
1 GAGCTATTTTAGACTTAAGGAAATTTTCAAAAATCA
74224214 TCATCTGAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 60 0.73
59 22 0.27
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (58 bp):
GAGCTATTTTAGACTTAAGGAAATTTTCAAAAATCAACAGCTAGGAATATTAGTTCGC
Found at i:74224890 original size:213 final size:213
Alignment explanation
Indices: 74224512--74225030 Score: 528
Period size: 213 Copynumber: 2.4 Consensus size: 213
74224502 AACAGGCGGA
** * * * *
74224512 AGCTTTTAACTCTCGTTAACTATTTGGGGGGTTACAGTCTTAAACCTACAAGCTTTAAGGTGACA
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAAAGTGACA
* * * * *
74224577 ATTGAGAGTTTTTAACTCTTGCTAACTGTTTAGGGGGCTGTAGTCTTAAACTTTCAATCCTTAAA
66 ATTGAGAGTTTTTAACTCTTGCTAACTGCTTAGGGGGCTGGACTCTTAAACCTTCAAGCCTTAAA
* * * * * * * * * **
74224642 GTGCTAGTTGGGAGCTTTTTACTTTCTCCAACTATTTGGGGGGCTGTGGTCTTAAACTTTGAGCC
131 GTGATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGACTGCGGTCTTAAACCGTGAGCC
* *
74224707 TTAAAGTGATAGTT-GGG
196 TTAAAGTAACAGTTGGGG
* * *
74224724 AGCTTTTAGCTCTTACTAACTATTTGGGGGGCTACGGTCTTAAACCTACGAA-CATTAAAGTGAC
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTAC-AAGCATTAAAGTGAC
* * *
74224788 AATT-AGGATTTTTTTAACTCTTGCTAACTGCTT-GGAGGGTTGCGACT-TTAAACCTTCGAGCC
65 AATTGA-GA-GTTTTTAACTCTTGCTAACTGCTTAGG-GGGCTG-GACTCTTAAACCTTCAAGCC
* *
74224850 TTAAAGTGATAGCTGAGAGCTTTTAACTCTCGCTAACTATTTGGGCTACTGCGGTCTTAAACCGT
126 TTAAAGTGATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGACTGCGGTCTTAAACCGT
**
74224915 GATTCTTAAAGTAACAGTTGGGGG
191 GAGCCTTAAAGTAACAGTT-GGGG
* * * * * * *
74224939 TGCTTTTAACTCTCACTAACTGTTTGGGGGGATACGGTATTGAACCTGCAAGCCTTAATA-TGGC
1 AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAA-AGTGAC
** * *
74225003 ACCTGGGAGTTTTTAACTCTCGCTAACT
65 AATTGAGAGTTTTTAACTCTTGCTAACT
74225031 ATTTGGGGAG
Statistics
Matches: 249, Mismatches: 48, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
211 1 0.00
212 61 0.24
213 108 0.43
214 22 0.09
215 56 0.22
216 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (213 bp):
AGCTTTTAACTCTCACTAACTATTTGGGGGGATACGGTCTTAAACCTACAAGCATTAAAGTGACA
ATTGAGAGTTTTTAACTCTTGCTAACTGCTTAGGGGGCTGGACTCTTAAACCTTCAAGCCTTAAA
GTGATAGCTGAGAGCTTTTAACTCTCGCCAACTATTTGGGCGACTGCGGTCTTAAACCGTGAGCC
TTAAAGTAACAGTTGGGG
Found at i:74224910 original size:71 final size:71
Alignment explanation
Indices: 74224512--74225067 Score: 341
Period size: 71 Copynumber: 7.8 Consensus size: 71
74224502 AACAGGCGGA
* * * * * * * * *
74224512 AGCTTTTAACTCTCGTTAACTATTTGGGGGGTTACAGTCTTAAACCTACAAGCTTTAAGGTGACA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
*
74224577 ATTGAG
66 GTTGAG
* * * * ** * * * *
74224583 AGTTTTTAACTCTTGCTAACTGTTTAGGGGGCTGTAGTCTTAAACTTTCAATCCTTAAAGTGCTA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
*
74224648 GTTGGG
66 GTTGAG
* * * * * *
74224654 AGCTTTTTACTTTCTCCAACTATTTGGGGGGCTGTGGTCTTAAA-CTTTGAGCCTTAAAGTGATA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
*
74224718 GTTGGG
66 GTTGAG
* ** * * * * *
74224724 AGCTTTTAGCTCTTACTAACTATTTGGGGGGCTACGGTCTTAAACCTACGAACATTAAAGTGACA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
*
74224789 ATT-AGG
66 GTTGA-G
** * ** * * *
74224795 ATTTTTTTAACTCTTGCTAACTGCTTGGAGGGTTGC-GACTTTAAACCTTCGAGCCTTAAAGTGA
1 A-GCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTC-TTAAACCTTCGAGCCTTAAAGTGA
*
74224859 TAGCTGAG
64 TAGTTGAG
*** * ** * *
74224867 AGCTTTTAACTCTCGCTAACTATTTGGGCTACTGCGGTCTTAAACCGT-GATTCTTAAAGTAACA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
*
74224931 GTTGGGGG
66 GTT--GAG
* * * * * * * * * **
74224939 TGCTTTTAACTCTCACTAACTGTTTGGGGGGATACGGTATTGAACCTGCAAGCCTTAATA-TGGC
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAA-AGTGAT
** *
74225003 ACCTGGG
65 AGTTGAG
* * * * *
74225010 AGTTTTTAACTCTCGCTAACTATTTGGGGAGTTGCAGTCTTAAA-CTTGTGAGCCTTAA
1 AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTT-CGAGCCTTAA
74225068 TTTCGATAAA
Statistics
Matches: 362, Mismatches: 112, Indels: 22
0.73 0.23 0.04
Matches are distributed among these distances:
70 73 0.20
71 187 0.52
72 90 0.25
73 11 0.03
74 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (71 bp):
AGCTTTTAACTCTCGCTAACTATTTGGGGGGCTGCGGTCTTAAACCTTCGAGCCTTAAAGTGATA
GTTGAG
Found at i:74224960 original size:143 final size:142
Alignment explanation
Indices: 74224693--74225037 Score: 322
Period size: 143 Copynumber: 2.4 Consensus size: 142
74224683 GGCTGTGGTC
* * * ** * *
74224693 TTAAA-CTTTGAGCCTTAAAGTGATAGTTGGGAGCTTTTAGCTCTTACTAACTATTTGGGGGGCT
1 TTAAACCTTCGAGCCTTAAAGTGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGGCGACT
* ** **
74224757 ACGGTCTTAAACCTACGAACATTAAAGTGACAATTAGGATTTTTTTAACTCTTGCTAACTGCTTG
66 ACGGTCTTAAACCTA-GAACATTAAAGTAACAATTAGGATGCTTTTAACTCTCACTAACTGCTTG
* *
74224822 GAGGGTTGCGACT-
130 GAGGGATACG-CTA
* *
74224835 TTAAACCTTCGAGCCTTAAAGTGATAGCTGAGAGCTTTTAACTCTCGCTAACTATTTGGGCTACT
1 TTAAACCTTCGAGCCTTAAAGTGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGGCGACT
* * * * * *
74224900 GCGGTCTTAAACCGT-GATTC-TTAAAGTAACAGTTGGGGGTGCTTTTAACTCTCACTAACTGTT
66 ACGGTCTTAAACC-TAGA-ACATTAAAGTAACAATT-AGGATGCTTTTAACTCTCACTAACTGCT
* *
74224963 TGGGGGGATACGGTA
128 TGGAGGGATACGCTA
* * * ** * *
74224978 TTGAACCTGCAAGCCTTAATA-TGGCACCTGGGAGTTTTTAACTCTCGCTAACTATTTGGG
1 TTAAACCTTCGAGCCTTAA-AGTGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGG
74225038 GAGTTGCAGT
Statistics
Matches: 165, Mismatches: 32, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
142 20 0.12
143 143 0.87
144 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (142 bp):
TTAAACCTTCGAGCCTTAAAGTGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGGCGACT
ACGGTCTTAAACCTAGAACATTAAAGTAACAATTAGGATGCTTTTAACTCTCACTAACTGCTTGG
AGGGATACGCTA
Found at i:74228974 original size:48 final size:48
Alignment explanation
Indices: 74228916--74229013 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
74228906 CACAATGTCT
*
74228916 CATATCGATGCCAATGCCATATCCCAGATATGATCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
* * * * *
74228964 CATATTGATGCCAATGTCATGTCTCAGACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
74229012 CA
1 CA
74229014 CATAACCCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
Found at i:74229388 original size:30 final size:30
Alignment explanation
Indices: 74229354--74229412 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
74229344 CATAAATCAT
* * *
74229354 ACTTTGACAAAATTATAATTTTGCCCCTAA
1 ACTTTGACAAAATTACAAATTAGCCCCTAA
* *
74229384 ACTTTTACATAATTACAAATTAGCCCCTA
1 ACTTTGACAAAATTACAAATTAGCCCCTA
74229413 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
ACTTTGACAAAATTACAAATTAGCCCCTAA
Found at i:74254899 original size:50 final size:49
Alignment explanation
Indices: 74254788--74254963 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
74254778 CTGGTATGCA
* * **
74254788 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* * *
74254837 TAGTAACCTGCACTTAGTACTACATACGTGACCTCACTA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAC-AGTCTAATACACG
* *** * *
74254887 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
74254938 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
74254964 TGCGACCTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 29 0.27
50 41 0.39
51 33 0.31
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:74254910 original size:26 final size:26
Alignment explanation
Indices: 74254831--74254911 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
74254821 AACAGTCTGG
*
74254831 TACACGTAGTAACCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* *
74254857 TACA--TACGT-GACCT-CAC-TATCTAA
1 TACACGTA-GTAG-CCTGCACTTA-GTAC
74254881 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
74254907 TACAC
1 TACAC
74254912 ACGTGATCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
23 2 0.05
24 11 0.26
25 10 0.24
26 17 0.40
27 2 0.05
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:74254971 original size:101 final size:99
Alignment explanation
Indices: 74254788--74254974 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
74254778 CTGGTATGCA
* * *
74254788 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAACCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAACCTGCACTTA
* *
74254853 GTACTACATACGTGACCTCACTATCTAATACACG
66 GTACTACACACGCGACCTCACTATCTAATACACG
* * * *
74254887 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAACCTGCAC
*
74254951 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
74254975 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.40
101 41 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAACCTGCACTTA
GTACTACACACGCGACCTCACTATCTAATACACG
Found at i:74258825 original size:38 final size:37
Alignment explanation
Indices: 74258780--74258952 Score: 159
Period size: 38 Copynumber: 4.5 Consensus size: 37
74258770 GGCTTAAAGA
*
74258780 CCCGCAGGCTAT-ATGCTGGAAATATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGG-AATATATCCGGGTTAAAT
*
74258818 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCGGGTTAAAT
* * * *
74258856 CCCACAGGCTTCGTGCTTGTATCATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAAT-ATATCCGGGTTAAAT
* * * * *
74258894 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTCGTGCTGG-AATATATCCG-GGTTAAA-T
* *
74258934 CCCGCAGGTTTTGTGCTGG
1 CCCGCAGGCTTCGTGCTGG
74258953 TGATTGGATT
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
37 2 0.02
38 85 0.77
39 6 0.05
40 17 0.15
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (37 bp):
CCCGCAGGCTTCGTGCTGGAATATATCCGGGTTAAAT
Found at i:74264020 original size:18 final size:18
Alignment explanation
Indices: 74263982--74264020 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
74263972 TTGTTACAGT
*
74263982 AAGGAAGTGAAGAAGAGG
1 AAGGAAGTGAAGAAAAGG
* *
74264000 AAGGAAGTGATGAAAATG
1 AAGGAAGTGAAGAAAAGG
74264018 AAG
1 AAG
74264021 AAGACAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.38, T:0.10
Consensus pattern (18 bp):
AAGGAAGTGAAGAAAAGG
Found at i:74266874 original size:21 final size:21
Alignment explanation
Indices: 74266832--74266873 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74266822 CACTTTATGA
*
74266832 TATTTAATTTGATCTTTATTT
1 TATTAAATTTGATCTTTATTT
*
74266853 TATTAAATTTTAT-TTTATTT
1 TATTAAATTTGATCTTTATTT
74266873 T
1 T
74266874 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTAAATTTGATCTTTATTT
Found at i:74273778 original size:46 final size:46
Alignment explanation
Indices: 74273625--74273844 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 46
74273615 TTATTTGTGT
* *
74273625 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGAGA
* * * * ** * *
74273671 ACCAATGTAAGACCATGTCTGGGACATGGGATCGGTATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGAGA
* *
74273719 GCCAGAGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATG-AGA
* * *
74273765 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGATAT--GT
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGATGAGA
*
74273809 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
74273845 ACGTATAGAG
Statistics
Matches: 138, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 64 0.46
47 27 0.20
48 20 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGAGA
Found at i:74280667 original size:47 final size:47
Alignment explanation
Indices: 74280644--74281092 Score: 700
Period size: 47 Copynumber: 9.6 Consensus size: 47
74280634 ATACATGAGC
* * *
74280644 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
74280691 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
74280738 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
74280785 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
74280832 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
74280879 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
74280926 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
74280973 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* **
74281020 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
74281067 TAAGGCAGAATAGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
74281093 CGTGGATGTG
Statistics
Matches: 379, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 379 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:74280711 original size:24 final size:24
Alignment explanation
Indices: 74280684--74280758 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
74280674 AACATGCATT
74280684 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * **
74280708 TGTGATG--AATG-TGAACAT-GCATT
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
74280731 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
74280755 TGTG
1 TGTG
74280759 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:74280901 original size:22 final size:22
Alignment explanation
Indices: 74280873--74280948 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
74280863 ACATGCATAT
74280873 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
74280895 ATGTGATGAATG-TGAACATGTATA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
74280919 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
74280942 ATGTGAT
1 ATGTGAT
74280949 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:74289308 original size:20 final size:21
Alignment explanation
Indices: 74289269--74289308 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
74289259 GTTATAATGA
**
74289269 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
74289290 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
74289309 GTTTCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:74291768 original size:42 final size:42
Alignment explanation
Indices: 74291716--74291824 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 42
74291706 TTGAGATTAT
* **
74291716 GTGTTAGACCATATCTAGGATATGGCATCGACATAAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCGACATAAGATCCC
* * * * * *
74291758 GTGTAAGACCATAGCTTGGCTATTGGTATCGATATGAGATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCGACATAAGATCCC
* *
74291801 ATGTAAGACCATATCTAGTATATG
1 GTGTAAGACCATATCTAGGATATG
74291825 ACATTGTATG
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCGACATAAGATCCC
Found at i:74293902 original size:40 final size:40
Alignment explanation
Indices: 74293717--74293902 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
74293707 TCGAATGATG
*
74293717 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
74293757 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
74293797 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
74293837 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
74293878 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74293903 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:74293916 original size:40 final size:40
Alignment explanation
Indices: 74293810--74293921 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 40
74293800 GGACTAAGAT
* ** *
74293810 CCGAAGGCAATTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
74293850 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
74293890 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
74293922 TTAAACTCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 58 0.94
41 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:74300616 original size:42 final size:42
Alignment explanation
Indices: 74300553--74300674 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
74300543 TAGGGTTAGT
74300553 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATA
** * *
74300595 TGAGATTTTGTGTAAGGCCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATA
* ** * *
74300638 AGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCAT
74300675 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATA
Found at i:74304833 original size:43 final size:43
Alignment explanation
Indices: 74304785--74304907 Score: 214
Period size: 41 Copynumber: 2.9 Consensus size: 43
74304775 GCTAGTATTA
*
74304785 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
*
74304828 TATTCGGGCCTTCGTGCCTAGCAGGCGT--TGCCGGTCATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
74304869 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
74304908 AATGATATGT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 40 0.53
43 35 0.47
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:74305298 original size:45 final size:44
Alignment explanation
Indices: 74305249--74305349 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 44
74305239 GTTTAGCAAA
**
74305249 CTATAATGCCGGTGAGATACT-ATTCGGGCCTTCGAGCCTTGCAGG
1 CTATAATGCCGGTGAGA-ACTGATTCGGGCC-TCGAGCCTAACAGG
74305294 CTATAATGCCGGT--GAACTGATTCGGGCCTCGAGCCTAACAGG
1 CTATAATGCCGGTGAGAACTGATTCGGGCCTCGAGCCTAACAGG
*
74305336 C-AAAATGCCGGTGA
1 CTATAATGCCGGTGA
74305350 TTTGAGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 10 0.20
42 16 0.32
43 11 0.22
45 13 0.26
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (44 bp):
CTATAATGCCGGTGAGAACTGATTCGGGCCTCGAGCCTAACAGG
Found at i:74311786 original size:43 final size:42
Alignment explanation
Indices: 74311689--74311798 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
74311679 GACTTCTATT
* *
74311689 TTACGTGTAAGACCATGTCTGGGACATCGATATCGTATCTGA
1 TTACGTGTAAGACCCTGTCTGGGACATCGACATCGTATCTGA
* * *
74311731 TTTCGTGTAAGACCCTGTCTGGGACAGT-GACATCGATGTTTGA
1 TTACGTGTAAGACCCTGTCTGGGACA-TCGACATCG-TATCTGA
*
74311774 TTACATGTAAGACCAC-GTCTGGGAC
1 TTACGTGTAAGACC-CTGTCTGGGAC
74311799 GTTGGCATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 30 0.52
43 27 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACATCGACATCGTATCTGA
Found at i:74321011 original size:38 final size:38
Alignment explanation
Indices: 74320966--74321220 Score: 411
Period size: 38 Copynumber: 6.7 Consensus size: 38
74320956 GGCTTAAAGA
74320966 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
* *
74321004 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
*
74321042 CCCGCAAGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
** *
74321080 CCCGCAGGCTTCGTGCTGGTAACATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
*
74321118 CCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
*
74321156 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
* * *
74321194 CCCGCAGGCCTAGTACTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
74321221 TCAGGCCTTG
Statistics
Matches: 199, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 199 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
Found at i:74321283 original size:45 final size:44
Alignment explanation
Indices: 74321217--74321347 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 44
74321207 TACTGGTATT
* * *
74321217 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
74321260 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
74321306 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
74321347 A
1 A
74321348 ATAAAAGTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 16 0.21
44 15 0.19
45 31 0.40
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:74322552 original size:19 final size:17
Alignment explanation
Indices: 74322524--74322563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
74322514 GTGAATTGAT
74322524 AATG-AATTGAAATGAGA
1 AATGAAATTG-AATGAGA
74322541 ATATGAAATTGAATGAGA
1 A-ATGAAATTGAATGAGA
74322559 AATGA
1 AATGA
74322564 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (17 bp):
AATGAAATTGAATGAGA
Found at i:74328599 original size:20 final size:19
Alignment explanation
Indices: 74328552--74328608 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
74328542 ATACTGACAA
*
74328552 TTTATCTGCAATATTGAGAG
1 TTTATCTGCATTATTG-GAG
* *
74328572 CTTGTCTGCATTATTGGCAG
1 TTTATCTGCATTATTGG-AG
74328592 TTTATCTGCATTATTGG
1 TTTATCTGCATTATTGG
74328609 TGGCTCGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (19 bp):
TTTATCTGCATTATTGGAG
Found at i:74331371 original size:48 final size:48
Alignment explanation
Indices: 74331301--74331392 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
74331291 ACTGTGATTA
* * *
74331301 ATGATATTTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTG
1 ATGATATGTGTGCCTGTATAAGACCATGTCTAGGACATGGCATCGGTG
74331349 ATGATATGTGTG-CTAGTATAAGACCATGTCTAGGACATGGCATC
1 ATGATATGTGTGCCT-GTATAAGACCATGTCTAGGACATGGCATC
74331393 AACACTGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGATATGTGTGCCTGTATAAGACCATGTCTAGGACATGGCATCGGTG
Found at i:74333323 original size:22 final size:22
Alignment explanation
Indices: 74333281--74333323 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
74333271 GTGTCCAGGG
*
74333281 CACAAGGGCGTGTTCCTGTGTC
1 CACAAGGGCGTGTACCTGTGTC
*
74333303 CACACGGGCGTGTGACC-GTGT
1 CACAAGGGCGTGT-ACCTGTGT
74333324 TTCATGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (22 bp):
CACAAGGGCGTGTACCTGTGTC
Found at i:74335231 original size:49 final size:50
Alignment explanation
Indices: 74335157--74335352 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
74335147 TAGCCGAAGC
*
74335157 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
* * * * *
74335205 TAGTCTGGTACACGTAGTAGCATGCACTTAGTACTACACATGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
* ** * * * * *
74335256 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACA-A
* * * *
74335307 TTTCGGGTACGCATAGTAGCCTGCAGTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
74335353 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
48 2 0.02
49 38 0.32
50 42 0.35
51 38 0.32
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
Found at i:74335346 original size:101 final size:99
Alignment explanation
Indices: 74335170--74335356 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 99
74335160 CTGGTACGCA
* * *
74335170 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAGTCTGGTACACGTAGTAGCATGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCATGCACTTA
*
74335235 GTACTACACATGTGACCTCACCATCTAATACACG
66 GTACTACACATGCGACCTCACCATCTAATACACG
* * ** * * *
74335269 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCAGT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATAGTCGGGTACACATAGTAGCATGCACT
74335334 TAGTACTACACATGCGACCTCAC
64 TAGTACTACACATGCGACCTCAC
74335357 AATAGATCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 29 0.39
100 1 0.01
101 45 0.60
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCATGCACTTA
GTACTACACATGCGACCTCACCATCTAATACACG
Found at i:74340697 original size:49 final size:50
Alignment explanation
Indices: 74340613--74340750 Score: 190
Period size: 49 Copynumber: 2.8 Consensus size: 50
74340603 AGCCGAAGCT
* * *
74340613 ATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAC
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCAAC
** * *
74340661 AGTCTGTTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCAAC
74340712 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACAC
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACAC
74340751 ATGATCACAG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.47
50 36 0.46
51 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (50 bp):
ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTCAAC
Found at i:74340809 original size:101 final size:99
Alignment explanation
Indices: 74340613--74340811 Score: 229
Period size: 99 Copynumber: 2.0 Consensus size: 99
74340603 AGCCGAAGCT
* * ** * * *
74340613 ATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGTTACACGTAGT
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACATGACCAACAGTCGGGTACACATAGT
* **
74340678 AGCCTGCACTTAGTACTACACACGTGACCTCACC
66 AGCCTGCACTTAATACTACACACGCAACCTCACC
* * *
74340712 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACATGATC-ACAGTTTTCGGGTGCGCAT
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACATGACCAACAG---TCGGGTACACAT
* *
74340776 AGTAGCCTGCAGTTAATACTACACATGCAACCTCAC
63 AGTAGCCTGCACTTAATACTACACACGCAACCTCAC
74340812 AATAGATCAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
98 4 0.05
99 40 0.49
101 38 0.46
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACATGACCAACAGTCGGGTACACATAGT
AGCCTGCACTTAATACTACACACGCAACCTCACC
Found at i:74347594 original size:30 final size:30
Alignment explanation
Indices: 74347558--74347619 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
74347548 GGCTATTTCC
74347558 TAGCCTTATTTCTCACCCAAATTTAACCTT
1 TAGCCTTATTTCTCACCCAAATTTAACCTT
*
74347588 TAGCCTTATTTCTCGCCCAAATTTAACCTT
1 TAGCCTTATTTCTCACCCAAATTTAACCTT
74347618 TA
1 TA
74347620 ACCTACAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.40
Consensus pattern (30 bp):
TAGCCTTATTTCTCACCCAAATTTAACCTT
Found at i:74350964 original size:12 final size:12
Alignment explanation
Indices: 74350949--74350984 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
74350939 AATTGAAATG
74350949 AAAATAAAAAGA
1 AAAATAAAAAGA
*
74350961 AAAAGAAAAAGA
1 AAAATAAAAAGA
*
74350973 AAAATAATAAGA
1 AAAATAAAAAGA
74350985 TAAGAGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (12 bp):
AAAATAAAAAGA
Found at i:74359475 original size:13 final size:13
Alignment explanation
Indices: 74359457--74359485 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
74359447 AGTTGTTTAT
74359457 TAAACTAATTAAC
1 TAAACTAATTAAC
74359470 TAAACTAATTAAC
1 TAAACTAATTAAC
74359483 TAA
1 TAA
74359486 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:74361152 original size:24 final size:25
Alignment explanation
Indices: 74361111--74361157 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
74361101 AGCCTTGTAA
*
74361111 CGGGAAGCTCACACAAAG-CCATTT
1 CGGGAAGCTCACAAAAAGTCCATTT
*
74361135 CGGGAAGCTCATAAAAAGTCCAT
1 CGGGAAGCTCACAAAAAGTCCAT
74361158 CAGGAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCACAAAAAGTCCATTT
Found at i:74361236 original size:24 final size:24
Alignment explanation
Indices: 74361209--74361271 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
74361199 GCCAAAATCG
*
74361209 GGAAGCTCAC-AAGAAACATTGTCA
1 GGAAGTTCACAAAG-AACATTGTCA
74361233 GGAAGTTCACAAAGAACATTGTCA
1 GGAAGTTCACAAAGAACATTGTCA
74361257 GGAAGTTCACAAAGA
1 GGAAGTTCACAAAGA
74361272 TCCAGATCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 34 0.92
25 3 0.08
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (24 bp):
GGAAGTTCACAAAGAACATTGTCA
Found at i:74363975 original size:14 final size:14
Alignment explanation
Indices: 74363938--74363975 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
74363928 CATTTCACTA
74363938 TTATGTCTTTGTAT
1 TTATGTCTTTGTAT
*
74363952 TTATATCTTTGTAT
1 TTATGTCTTTGTAT
*
74363966 TTATGGCTTT
1 TTATGTCTTT
74363976 TATATTTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (14 bp):
TTATGTCTTTGTAT
Found at i:74369904 original size:20 final size:18
Alignment explanation
Indices: 74369864--74369904 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
74369854 CGGGTTAGGG
*
74369864 ACACGGGCGTGTGTGACC
1 ACACAGGCGTGTGTGACC
74369882 ACACAGGCGTGTGTGACC
1 ACACAGGCGTGTGTGACC
74369900 ACACA
1 ACACA
74369905 ACCTACCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (18 bp):
ACACAGGCGTGTGTGACC
Done.