Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 712 of 770
Found at i:224994722 original size:27 final size:27
Alignment explanation
Indices: 224994675--224994741 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
224994665 GTGTAGATCA
224994675 CGAAATTACCGCTAAAGAGCAAAATTAC
1 CGAAATTACC-CTAAAGAGCAAAATTAC
224994703 CGAAATTACCCTAAAGAGCAAAATTAC
1 CGAAATTACCCTAAAGAGCAAAATTAC
*
224994730 CGATA-TACCCTA
1 CGAAATTACCCTA
224994742 GGGTTTTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 21 0.55
28 10 0.26
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCTAAAGAGCAAAATTAC
Found at i:225001031 original size:20 final size:20
Alignment explanation
Indices: 225001006--225001043 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
225000996 GTTTATTCGC
*
225001006 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
225001026 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
225001044 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:225002702 original size:28 final size:28
Alignment explanation
Indices: 225002670--225002738 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
225002660 GCGTAGATCA
225002670 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
225002698 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
225002726 CGATA-TACCCCTA
1 CGAAATTACCCCTA
225002739 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:225008980 original size:40 final size:39
Alignment explanation
Indices: 225008935--225009142 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
225008925 CGGAATACAA
*
225008935 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
225008975 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
225009015 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * ** * * *
225009055 CCAGATTTAGTCACTGGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
225009095 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
225009135 CCGGATAT
1 CCGGATAT
225009143 CATTTAATTG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 138 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:225009082 original size:80 final size:80
Alignment explanation
Indices: 225008935--225009141 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
225008925 CGGAATACAA
* * * * *
225008935 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTGGCACAAATG
*
225009000 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
225009015 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATTTAG-TC-ACTGGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGA--TAGAACGACTGGCACAAA
*
225009078 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
* * ** * * *
225009095 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATA
225009142 TCATTTAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
80 102 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTGGCACAAATG
CCTTCGGGTATTAAC
Found at i:225018503 original size:40 final size:40
Alignment explanation
Indices: 225018430--225018530 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
225018420 CAATTGAATG
* * * *
225018430 ATATCCGGGCTAAGTCCTGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAACT
* * * *
225018470 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAACT
*
225018510 ACATCCGGGCTAAGACCCGAA
1 ATATCCGGGCTAAGACCCGAA
225018531 CGCATTCGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTAACT
Found at i:225029529 original size:19 final size:18
Alignment explanation
Indices: 225029504--225029551 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
225029494 AGAAATGAAA
*
225029504 AAAAAAAAAAGAGAATATG
1 AAAAAAAAAAGAGAA-AAG
*
225029523 AAGAAAAACAA-AGAAAAG
1 AA-AAAAAAAAGAGAAAAG
225029541 AAAAAAAAAAG
1 AAAAAAAAAAG
225029552 TGTTCATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 6 0.25
20 7 0.29
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAGAGAAAAG
Found at i:225030738 original size:29 final size:29
Alignment explanation
Indices: 225030705--225030797 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
225030695 TGACGAGATT
* *
225030705 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
225030734 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
225030763 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
225030792 GGCACT
1 GGCACT
225030798 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:225030810 original size:29 final size:29
Alignment explanation
Indices: 225030705--225030810 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
225030695 TGACGAGATT
* *
225030705 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
225030734 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
225030763 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
225030792 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
225030811 CGAGGGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:225035156 original size:22 final size:22
Alignment explanation
Indices: 225035128--225035171 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
225035118 CCCCAGTGTT
225035128 AGTACAGCCGGAGTCCGGTAAA
1 AGTACAGCCGGAGTCCGGTAAA
225035150 AGTACAGCCGGAGTCCGGTAAA
1 AGTACAGCCGGAGTCCGGTAAA
225035172 GAGTTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.14
Consensus pattern (22 bp):
AGTACAGCCGGAGTCCGGTAAA
Found at i:225039217 original size:70 final size:71
Alignment explanation
Indices: 225039066--225039228 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
225039056 GAGATGTATC
225039066 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
225039131 AGGACA
66 AGGACA
225039137 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
225039201 CGGACA
66 AGGACA
225039207 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
225039229 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:225047057 original size:46 final size:46
Alignment explanation
Indices: 225047006--225047187 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
225046996 AGTTAAATAT
225047006 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
225047052 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
225047098 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
225047144 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
225047188 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:225047245 original size:47 final size:47
Alignment explanation
Indices: 225047191--225047301 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
225047181 ATGTATGAGA
* * *
225047191 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
225047238 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
225047285 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
225047302 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:225051079 original size:70 final size:71
Alignment explanation
Indices: 225050928--225051090 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
225050918 GAGATGTATC
225050928 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
225050993 AGGACA
66 AGGACA
225050999 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
225051063 CGGACA
66 AGGACA
225051069 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
225051091 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:225062519 original size:40 final size:39
Alignment explanation
Indices: 225062380--225062533 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
225062370 TGTGAATGAA
* *
225062380 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
225062419 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
225062458 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
225062498 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
225062534 TGTTTTGAAC
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:225062519 original size:79 final size:79
Alignment explanation
Indices: 225062380--225062533 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
225062370 TGTGAATGAA
** *
225062380 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
225062445 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
225062458 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
225062523 TGTCCCGAAGG
65 AGTCCCGAAGG
225062534 TGTTTTGAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.49
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:225066151 original size:28 final size:28
Alignment explanation
Indices: 225066105--225066173 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
225066095 TTTAAAACCC
*
225066105 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
225066132 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
225066160 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
225066174 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:225067925 original size:70 final size:71
Alignment explanation
Indices: 225067774--225067936 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
225067764 GAGATGTATC
225067774 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
225067839 AGGACA
66 AGGACA
225067845 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
225067909 CGGACA
66 AGGACA
225067915 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
225067937 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:225075398 original size:71 final size:71
Alignment explanation
Indices: 225075310--225075473 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
225075300 GAGATGTATC
225075310 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
225075375 AGGACA
66 AGGACA
*
225075381 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
225075446 CGGACA
66 AGGACA
225075452 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
225075474 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:225080959 original size:40 final size:40
Alignment explanation
Indices: 225080885--225081105 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
225080875 AACCCAAGTA
* *
225080885 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
225080924 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
225080964 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
225081003 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
225081043 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
225081083 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
225081106 CATTCGAATA
Statistics
Matches: 171, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 48 0.28
40 120 0.70
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:225081016 original size:79 final size:80
Alignment explanation
Indices: 225080885--225081105 Score: 367
Period size: 79 Copynumber: 2.8 Consensus size: 80
225080875 AACCCAAGTA
* * *
225080885 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
225080948 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
225080964 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
225081028 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
225081043 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
225081106 CATTCGAATA
Statistics
Matches: 134, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
78 7 0.05
79 70 0.52
80 57 0.43
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:225094855 original size:40 final size:40
Alignment explanation
Indices: 225094753--225094936 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
225094743 AAATTGAATG
* * * * *
225094753 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
225094793 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
225094833 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
225094873 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
225094913 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
225094937 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:225098255 original size:40 final size:40
Alignment explanation
Indices: 225098181--225098402 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
225098171 AACCCAAGTA
* *
225098181 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
225098220 CCTTCGGGTCTTAGCCCTGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
225098260 CCTTCTGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
225098300 CCTTCGGGACATAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
225098340 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
225098380 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
225098403 CATTCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 150 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:225102694 original size:58 final size:59
Alignment explanation
Indices: 225102597--225102709 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
225102587 GAAAAAAAAA
225102597 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
225102656 AAAAG-AAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
225102710 GAAAAGGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.04
58 37 0.79
59 8 0.17
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (59 bp):
AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:225103970 original size:40 final size:40
Alignment explanation
Indices: 225103904--225104070 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
225103894 AAATTGAATG
* * *
225103904 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225103943 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
225103983 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
225104023 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
225104063 ATATCCGG
1 ATATCCGG
225104071 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225111973 original size:40 final size:40
Alignment explanation
Indices: 225111907--225112057 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
225111897 AAATTGAATG
* * *
225111907 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225111946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
225111986 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
225112026 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
225112058 ACGTGATTAC
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225121252 original size:119 final size:119
Alignment explanation
Indices: 225121074--225121637 Score: 966
Period size: 119 Copynumber: 4.7 Consensus size: 119
225121064 ACATTTATGT
* *
225121074 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
* *
225121139 TTTGACTCTCAAACGTTCTCAAAGATAGCAGATCTAACCTTTAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
*
225121193 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
225121258 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
225121312 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
* * *
225121377 TTTGACTCTCCGACGTTCTCAAAAATAGCAGATCTAACCTTCAGATGTTTATAC
66 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
* *
225121431 TAAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAGCAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
* * * * *
225121496 TTTGATTCTTAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAT
66 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
* *
225121550 TGAAGCAGATCCAAGATGATTTGATATTCTTGTATTTACAAGGAACAAATCGAGGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
*
225121615 TTTGACTCTCAGATGTTCTCAAA
66 TTTGACTCTCAGACGTTCTCAAA
225121638 CAGACTCAAG
Statistics
Matches: 424, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 424 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGA
TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
Found at i:225121673 original size:83 final size:83
Alignment explanation
Indices: 225121585--225121830 Score: 375
Period size: 84 Copynumber: 3.0 Consensus size: 83
225121575 ATTCTTGTAT
* * *
225121585 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
225121650 GGTTTGGCATCCTTGTGC
66 GGTTTGGCATCCTTGTGC
*
225121668 TTACAAGGAACAAATCGAGGACATTGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
* *
225121733 GGTTTAAGCACCCTTGTGC
66 GGTTT-GGCATCCTTGTGC
* * * *
225121752 TTACAAGGAACAAGTCGAGGACCTTGCAGATATGACTCTCAAATGTTTTCAGACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
* *
225121817 GATTTGACATCCTT
66 GGTTTGGCATCCTT
225121831 ACAAATCGAA
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
83 72 0.49
84 75 0.51
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
GGTTTGGCATCCTTGTGC
Found at i:225123336 original size:16 final size:17
Alignment explanation
Indices: 225123315--225123355 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
225123305 TTATATTATA
225123315 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
225123331 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
225123348 TAATTATA
1 T-ATTATA
225123356 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:225123361 original size:16 final size:16
Alignment explanation
Indices: 225123324--225123401 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
225123314 ATATTATAAA
225123324 ATTATTTT-ATTATAAGT
1 ATTATTTTAATTAT-A-T
225123341 ATTATTTTAATTATAT
1 ATTATTTTAATTATAT
*
225123357 ATTATTATTACTTATTATGT
1 ATTATT-TTA---ATTATAT
** *
225123377 ATTATTTTTCTTAAAT
1 ATTATTTTAATTATAT
225123393 ATTATTTTA
1 ATTATTTTA
225123402 CATCTCTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 19 0.38
17 12 0.24
18 5 0.10
19 2 0.04
20 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTATTTTAATTATAT
Found at i:225123373 original size:20 final size:18
Alignment explanation
Indices: 225123324--225123382 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 18
225123314 ATATTATAAA
*
225123324 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
225123341 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
*
225123360 ATTATTACTTATTATGTATT
1 ATTATT--TTATTATATATT
225123380 ATT
1 ATT
225123383 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.17
19 8 0.22
20 12 0.33
21 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:225123379 original size:36 final size:34
Alignment explanation
Indices: 225123320--225123402 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
225123310 TTATATATTA
225123320 TAAA-ATTATTTTA-TTATAAGTATTATTTTAAT
1 TAAATATTATTTTACTTATAAGTATTATTTTAAT
* * **
225123352 TATATATTATTATTACTTATTATGTATTATTTTTCT
1 TAAATATTATT-TTACTTA-TAAGTATTATTTTAAT
225123388 TAAATATTATTTTAC
1 TAAATATTATTTTAC
225123403 ATCTCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 6 0.14
34 3 0.07
35 7 0.17
36 23 0.55
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (34 bp):
TAAATATTATTTTACTTATAAGTATTATTTTAAT
Found at i:225123381 original size:10 final size:9
Alignment explanation
Indices: 225123324--225123382 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
225123314 ATATTATAAA
225123324 ATTATT-TT
1 ATTATTATT
* *
225123332 ATTATAAGT
1 ATTATTATT
225123341 ATTATT-TT
1 ATTATTATT
225123349 AATTATATATT
1 -ATTAT-TATT
225123360 ATTATTACTT
1 ATTATTA-TT
225123370 ATTATGTATT
1 ATTAT-TATT
225123380 ATT
1 ATT
225123383 TTTCTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 18 0.44
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:225123398 original size:3 final size:3
Alignment explanation
Indices: 225123324--225123382 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
225123314 ATATTATAAA
* *
225123324 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
225123370 ATT ATGT ATT ATT
1 ATT AT-T ATT ATT
225123383 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:225123493 original size:35 final size:34
Alignment explanation
Indices: 225123449--225123514 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
225123439 TATTTATTAA
225123449 TTATATATATATATATATTGTT-TTATATGTTACT
1 TTATATATATATAT-TATTGTTCTTATATGTTACT
* *
225123483 TTATATTATATCTATTATTTTTCTTATATGTT
1 TTATA-TATATATATTATTGTTCTTATATGTT
225123515 TATATTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (34 bp):
TTATATATATATATTATTGTTCTTATATGTTACT
Found at i:225127256 original size:71 final size:71
Alignment explanation
Indices: 225127170--225127333 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
225127160 CGATTTGTCT
225127170 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
225127235 CTTTCA
66 CTTTCA
225127241 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
225127306 CTTTCA
66 CTTTCA
225127312 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
225127334 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:225127371 original size:71 final size:70
Alignment explanation
Indices: 225127170--225127367 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
225127160 CGATTTGTCT
* * * *
225127170 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
225127235 CTTTCA
65 CTTTCA
* * * *
225127241 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
225127306 CTTTCA
65 CTTTCA
* *
225127312 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
225127368 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:225134812 original size:71 final size:71
Alignment explanation
Indices: 225134726--225134889 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
225134716 CGATTTGTCT
225134726 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
225134791 CTTTCA
66 CTTTCA
225134797 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
225134862 CTTTCA
66 CTTTCA
225134868 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
225134890 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:225134927 original size:71 final size:70
Alignment explanation
Indices: 225134726--225134923 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
225134716 CGATTTGTCT
* * * *
225134726 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
225134791 CTTTCA
65 CTTTCA
* * * *
225134797 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
225134862 CTTTCA
65 CTTTCA
* *
225134868 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
225134924 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:225136329 original size:49 final size:49
Alignment explanation
Indices: 225136270--225136619 Score: 637
Period size: 49 Copynumber: 7.1 Consensus size: 49
225136260 TGCCACATAA
* * *
225136270 ATATATACACTTTCACATTCATCACGTCGTCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
225136319 ATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
225136368 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
225136417 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
225136466 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
225136515 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
225136564 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
225136613 ATATACA
1 ATATACA
225136620 TCTCATACAT
Statistics
Matches: 292, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 292 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:225140399 original size:43 final size:42
Alignment explanation
Indices: 225140346--225140455 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
225140336 CATCGTGTAC
* *
225140346 GACCGTGTCTGGGACATAGGCCTCG-AT-TGAGATTTACGTATAA
1 GACCATGTCTGGGACATAGGCATCGTATCT--GATTT-CGTATAA
* * *
225140389 GACCATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAT
1 GACCATGTCTGGGACATAGGCATCGTATCTGATTTCGTATAA
* *
225140431 GACCATGTCTGGGATAGAGGCATCG
1 GACCATGTCTGGGACATAGGCATCG
225140456 ATATTGAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 27 0.47
43 27 0.47
44 2 0.04
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
GACCATGTCTGGGACATAGGCATCGTATCTGATTTCGTATAA
Found at i:225143470 original size:39 final size:40
Alignment explanation
Indices: 225143393--225143559 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
225143383 TGAATGATAC
* *
225143393 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
225143433 CCGGGCTAAGACCCGAA-GCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* *** *
225143472 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
225143512 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
225143552 CC-GGCTAA
1 CCGGGCTAA
225143560 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 38 0.36
40 67 0.64
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:225143524 original size:79 final size:80
Alignment explanation
Indices: 225143393--225143559 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 80
225143383 TGAATGATAC
* * ** *
225143393 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAA-GC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
225143456 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
225143472 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
225143537 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
225143552 CC-GGCTAA
1 CCGGGCTAA
225143560 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
79 55 0.73
80 17 0.23
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:225151769 original size:40 final size:40
Alignment explanation
Indices: 225151690--225151847 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
225151680 TTCGAATGAT
* * * *
225151690 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
225151730 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
225151770 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
225151810 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
225151848 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:225151868 original size:80 final size:80
Alignment explanation
Indices: 225151690--225151877 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
225151680 TTCGAATGAT
* *
225151690 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
225151755 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
225151770 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
225151831 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
225151851 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
225151878 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:225159832 original size:40 final size:40
Alignment explanation
Indices: 225159753--225159910 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
225159743 TTCGAATGAT
* * * *
225159753 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
225159793 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
225159833 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
225159873 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
225159911 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:225159931 original size:80 final size:80
Alignment explanation
Indices: 225159753--225159940 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
225159743 TTCGAATGAT
* *
225159753 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
225159818 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
225159833 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
225159894 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
225159914 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
225159941 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:225161234 original size:11 final size:11
Alignment explanation
Indices: 225161218--225161242 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
225161208 GACAGTATGC
225161218 AGTAACCAGCT
1 AGTAACCAGCT
225161229 AGTAACCAGCT
1 AGTAACCAGCT
225161240 AGT
1 AGT
225161243 CTGGAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (11 bp):
AGTAACCAGCT
Found at i:225166734 original size:39 final size:40
Alignment explanation
Indices: 225166634--225166813 Score: 158
Period size: 39 Copynumber: 4.6 Consensus size: 40
225166624 TCGAATGATG
* * *
225166634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
225166674 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
225166714 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
225166753 CCCGGG-TTAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
225166793 -CCGGG-TTCGT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
225166814 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 14 0.12
39 61 0.52
40 35 0.30
41 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:225166782 original size:78 final size:80
Alignment explanation
Indices: 225166634--225166784 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
225166624 TCGAATGATG
* *
225166634 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAGGATCCGAAGGCATTC
225166699 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
225166714 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTA-G-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAGGAT-CCGAAGGCAT
225166775 TCGTGCGAGT
64 TCGTGCGAGT
225166785 CACTATAACC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
77 1 0.02
78 21 0.33
79 24 0.38
80 18 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAGGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:225171874 original size:40 final size:40
Alignment explanation
Indices: 225171677--225171879 Score: 247
Period size: 39 Copynumber: 5.1 Consensus size: 40
225171667 TCGAATGATG
* *
225171677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
225171717 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
225171756 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
225171795 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
225171835 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
225171875 TCCGG
1 TCCGG
225171880 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 76 0.52
40 62 0.42
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:225171891 original size:79 final size:78
Alignment explanation
Indices: 225171678--225171893 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
225171668 CGAATGATGT
* *
225171678 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAA-ATTCCGAAGGCAT
*
225171740 TTGTGCGAGTTACTAAT
62 TTGTGCGAGTTACTAAA
* * *
225171757 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTA-ATCCGGGTTAAGTCCCGAAGGCATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGGCATT
225171819 TGTGCGAGTTACTATAA
63 TGTGCGAGTTACTA-AA
* **
225171836 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
225171894 TACGTGATTC
Statistics
Matches: 115, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
78 35 0.30
79 67 0.58
80 13 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:225176087 original size:79 final size:79
Alignment explanation
Indices: 225175957--225176160 Score: 342
Period size: 79 Copynumber: 2.6 Consensus size: 79
225175947 AACCCATGTA
* *
225175957 CCTTCGGGATTTAG-CCGGATATAGCAACTCA-CACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATGCCTTCGGGACTTAG-CCGGATATA
225176020 GTAACTAGCAC-AATG
64 GTAACTAGCACAAATG
225176035 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
225176100 AACTAGCACAAATG
66 AACTAGCACAAATG
*
225176114 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGG
225176161 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
78 34 0.28
79 86 0.72
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
AACTAGCACAAATG
Found at i:225176167 original size:40 final size:40
Alignment explanation
Indices: 225175957--225176160 Score: 344
Period size: 39 Copynumber: 5.2 Consensus size: 40
225175947 AACCCATGTA
* *
225175957 CCTTCGGGATTTAG-CCGGATATAGCAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
225175996 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
225176035 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
225176075 CCTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
225176114 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
225176154 CCTTCGG
1 CCTTCGG
225176161 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
39 92 0.58
40 66 0.42
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:225177555 original size:13 final size:13
Alignment explanation
Indices: 225177537--225177562 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225177527 ATTTTTATTT
225177537 TTAACATAAAATA
1 TTAACATAAAATA
225177550 TTAACATAAAATA
1 TTAACATAAAATA
225177563 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:225181055 original size:40 final size:40
Alignment explanation
Indices: 225180989--225181139 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
225180979 AAATTGAATG
* * *
225180989 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225181028 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
225181068 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
225181108 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
225181140 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225189058 original size:40 final size:40
Alignment explanation
Indices: 225188992--225189142 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
225188982 AAATTGAATG
* * *
225188992 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225189031 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
225189071 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
225189111 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
225189143 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225195344 original size:39 final size:40
Alignment explanation
Indices: 225195270--225195393 Score: 175
Period size: 39 Copynumber: 3.2 Consensus size: 40
225195260 AACCCAAGTA
* * *
225195270 CCTTCGGGATTTAG-CCGGATATAAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTAGCACAAATG
225195310 CCTTC-GGACTTAGCCCGGATATAGTAACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
225195348 CCTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
225195387 CCTTCGG
1 CCTTCGG
225195394 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
38 25 0.32
39 39 0.51
40 13 0.17
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:225196787 original size:13 final size:13
Alignment explanation
Indices: 225196769--225196794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225196759 ATTTTTATTT
225196769 TTAACATAAAATA
1 TTAACATAAAATA
225196782 TTAACATAAAATA
1 TTAACATAAAATA
225196795 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:225200218 original size:40 final size:40
Alignment explanation
Indices: 225200091--225200220 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
225200081 ATGCTGGAAA
* *
225200091 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
225200131 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
225200171 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
225200211 TTATATCCGG
1 TTATATCCGG
225200221 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:225208260 original size:40 final size:40
Alignment explanation
Indices: 225208133--225208262 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
225208123 ATGCTGGAAA
* *
225208133 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
225208173 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
225208213 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
225208253 TTATATCCGG
1 TTATATCCGG
225208263 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:225210563 original size:27 final size:27
Alignment explanation
Indices: 225210525--225210586 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
225210515 CCATAAGTAT
* *
225210525 GATTTATGCTTATTGTATGGTAGGTAA
1 GATTTGTGCTTATTGCATGGTAGGTAA
225210552 GATTTGTGCTTATTGCATGGTAGGTAA
1 GATTTGTGCTTATTGCATGGTAGGTAA
225210579 GATTTGTG
1 GATTTGTG
225210587 TTTTGGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.05, G:0.29, T:0.44
Consensus pattern (27 bp):
GATTTGTGCTTATTGCATGGTAGGTAA
Found at i:225211448 original size:40 final size:40
Alignment explanation
Indices: 225211365--225211517 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
225211355 TCGAATGATG
* *
225211365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
225211405 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
225211445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
225211486 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
225211518 CGTATATCCG
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:225219444 original size:40 final size:40
Alignment explanation
Indices: 225219361--225219513 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
225219351 TCGAATGATG
* *
225219361 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
225219401 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
225219441 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
225219482 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
225219514 CGTTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:225224576 original size:40 final size:39
Alignment explanation
Indices: 225224521--225224683 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
225224511 TGAATGATAC
* * *
225224521 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
225224561 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * * *
225224601 GCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
225224641 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
225224680 CCGG
1 CCGG
225224684 TTAAATCCTG
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 86 0.83
41 6 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:225229329 original size:40 final size:40
Alignment explanation
Indices: 225229284--225229450 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
225229274 CGGAATATAA
225229284 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
225229324 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
225229364 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
225229404 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
225229443 CCGGATAT
1 CCGGATAT
225229451 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:225237316 original size:40 final size:40
Alignment explanation
Indices: 225237271--225237438 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
225237261 CGGAATATAA
225237271 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
225237311 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
225237351 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
225237391 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
225237431 CCGGATAT
1 CCGGATAT
225237439 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:225243779 original size:40 final size:39
Alignment explanation
Indices: 225243724--225243886 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 39
225243714 TGAATGATAC
* * *
225243724 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
225243764 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
225243804 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
225243844 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
225243883 CCGG
1 CCGG
225243887 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 88 0.84
41 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:225246738 original size:39 final size:39
Alignment explanation
Indices: 225246684--225246772 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
225246674 GAATGTTCGA
*
225246684 GTGATATCCGGGCTAAG-CCGAAGGCAAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGC-AATTGTGCGAACT
*
225246723 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAACT
*
225246762 ATGATATCCGG
1 GTGATATCCGG
225246773 TTGTGGAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 38 0.83
40 8 0.17
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAACT
Found at i:225251297 original size:39 final size:39
Alignment explanation
Indices: 225251243--225251395 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
225251233 GAATGTTCGA
*
225251243 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
225251282 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
225251321 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
225251360 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
225251396 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:225251411 original size:40 final size:39
Alignment explanation
Indices: 225251244--225251425 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
225251234 AATGTTCGAG
* *
225251244 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
225251283 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
225251322 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
225251361 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
225251401 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
225251426 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:225256515 original size:39 final size:39
Alignment explanation
Indices: 225256461--225256613 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
225256451 GAATGTTCGA
*
225256461 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
225256500 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
225256539 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
225256578 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
225256614 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:225256629 original size:40 final size:39
Alignment explanation
Indices: 225256462--225256643 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
225256452 AATGTTCGAG
* *
225256462 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
225256501 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
225256540 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
225256579 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
225256619 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
225256644 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:225259969 original size:29 final size:29
Alignment explanation
Indices: 225259907--225260009 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
225259897 GTGACGAGAT
* * *
225259907 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
225259936 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
225259965 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
225259994 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
225260010 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:225267926 original size:29 final size:28
Alignment explanation
Indices: 225267864--225267964 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
225267854 GTGACGAGAT
* * *
225267864 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
225267893 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
225267922 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
225267949 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
225267965 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:225267971 original size:27 final size:27
Alignment explanation
Indices: 225267894--225267971 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
225267884 TGTAATGTAC
*
225267894 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
225267923 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
225267950 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
225267972 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:225276954 original size:29 final size:28
Alignment explanation
Indices: 225276922--225277024 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
225276912 GTGACGAGAT
* *
225276922 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
225276951 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
225276980 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
225277009 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
225277025 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:225284359 original size:39 final size:39
Alignment explanation
Indices: 225284259--225284405 Score: 167
Period size: 39 Copynumber: 3.8 Consensus size: 39
225284249 AAATTGAATG
* * * * *
225284259 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TACT
*
225284298 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTACT
**
225284337 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTACT
*
225284375 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
225284406 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
37 27 0.28
38 9 0.09
39 58 0.61
40 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTACT
Found at i:225292413 original size:41 final size:39
Alignment explanation
Indices: 225292320--225292467 Score: 162
Period size: 37 Copynumber: 3.8 Consensus size: 39
225292310 GAATTGAATG
* * *
225292320 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-AGTT
* *
225292358 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-A-GTT
225292399 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-A-AGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAGTT
* *
225292436 TTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
225292468 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
37 29 0.31
38 16 0.17
39 16 0.17
40 6 0.06
41 28 0.29
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGTT
Found at i:225292451 original size:78 final size:78
Alignment explanation
Indices: 225292320--225292467 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 78
225292310 GAATTGAATG
*
225292320 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GAAATTATATCCGGGCTAAGACCCGAAGGCAAT
225292385 TGTGCTAGTAGGCT
65 TGTGCTAGTAGGCT
* * * * *
225292399 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AAGTTTTATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGAAATTATATCCGGGCTAAGACCCGAAGGCAA
225292462 TTGTGC
64 TTGTGC
225292468 AAATCGTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 33 0.54
79 17 0.28
80 11 0.18
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTAGGCT
Found at i:225295748 original size:12 final size:12
Alignment explanation
Indices: 225295733--225295774 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
225295723 ATTATTTTTA
225295733 TTATTATACATT
1 TTATTATACATT
*
225295745 TTATTTATAAATT
1 TTA-TTATACATT
225295758 TTATTATACATT
1 TTATTATACATT
*
225295770 ATATT
1 TTATT
225295775 TTTTACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATACATT
Found at i:225295758 original size:13 final size:13
Alignment explanation
Indices: 225295736--225295775 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
225295726 ATTTTTATTA
225295736 TTATACATTTTAT
1 TTATACATTTTAT
*
225295749 TTATAAATTTTA-
1 TTATACATTTTAT
*
225295761 TTATACATTATAT
1 TTATACATTTTAT
225295774 TT
1 TT
225295776 TTTACTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATACATTTTAT
Found at i:225297295 original size:25 final size:27
Alignment explanation
Indices: 225297258--225297310 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
225297248 TCAAACATGC
225297258 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
225297284 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
225297310 A
1 A
225297311 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:225299214 original size:30 final size:30
Alignment explanation
Indices: 225299159--225299318 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
225299149 ATAGTGAATC
225299159 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
225299188 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
225299218 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
225299247 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
225299275 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
225299305 CGCACACTTAGTGC
1 CGCACACTTAGTGC
225299319 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:225299251 original size:59 final size:57
Alignment explanation
Indices: 225299159--225299318 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
225299149 ATAGTGAATC
*
225299159 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
225299218 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
225299275 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
225299319 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:225307081 original size:27 final size:29
Alignment explanation
Indices: 225307051--225307136 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 29
225307041 ATACAAGAGC
*
225307051 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
225307078 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
225307107 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
225307137 GTACAATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 19 0.37
30 25 0.48
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:225307118 original size:30 final size:30
Alignment explanation
Indices: 225307063--225307165 Score: 154
Period size: 30 Copynumber: 3.5 Consensus size: 30
225307053 ATAGTGAATC
225307063 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
225307092 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* * * * *
225307122 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
225307152 CGCACACTTAGTGC
1 CGCACACTTAGTGC
225307166 CAATCTTGTC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 19 0.28
30 49 0.72
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:225309789 original size:32 final size:32
Alignment explanation
Indices: 225309752--225309848 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
225309742 AATGCTTGCC
*
225309752 ATGCCCGTCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
225309784 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
* *
225309816 ATCCCCATCATCCATTAACTACTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
225309848 A
1 A
225309849 AATGCATACA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:225314550 original size:19 final size:19
Alignment explanation
Indices: 225314526--225314566 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
225314516 CTTAACATGG
225314526 CTCGATCATACGGCCCATT
1 CTCGATCATACGGCCCATT
225314545 CTCGATCATACGGCCCATT
1 CTCGATCATACGGCCCATT
225314564 CTC
1 CTC
225314567 ATCCACCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.39, G:0.15, T:0.27
Consensus pattern (19 bp):
CTCGATCATACGGCCCATT
Found at i:225314662 original size:12 final size:12
Alignment explanation
Indices: 225314640--225314669 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
225314630 AGTACTACCT
225314640 CGGCC-CGACCA
1 CGGCCTCGACCA
225314651 CGGCCTCGACCA
1 CGGCCTCGACCA
225314663 CGGCCTC
1 CGGCCTC
225314670 TTCCTCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.13, C:0.53, G:0.27, T:0.07
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:225317806 original size:31 final size:31
Alignment explanation
Indices: 225317768--225317859 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
225317758 TGCTACCATG
* *
225317768 CCCATCATCCATTAACTATTAAAATACTAAT
1 CCCATCATCCATTAACTATTAAAATGCTAAC
225317799 CCCATCATCCATTAACTATTAAAATGCTATAC
1 CCCATCATCCATTAACTATTAAAATGCTA-AC
225317831 CCCAT-ATCCATTAACTATTAAAATGCTAA
1 CCCATCATCCATTAACTATTAAAATGCTAA
225317860 AATGCATACA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 1 0.02
31 51 0.88
32 6 0.10
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (31 bp):
CCCATCATCCATTAACTATTAAAATGCTAAC
Found at i:225320368 original size:9 final size:9
Alignment explanation
Indices: 225320336--225320432 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
225320326 GTATTATAAA
225320336 TATGTATA-
1 TATGTATAT
225320344 TATGTATACTT
1 TATGTATA--T
225320355 TATGTATAT
1 TATGTATAT
225320364 TATGTATA-
1 TATGTATAT
*
225320372 TATTTTATAT
1 TA-TGTATAT
*
225320382 T-T-TATAAA
1 TATGTAT-AT
225320390 TAT-TATAT
1 TATGTATAT
*
225320398 GTATATATAT
1 -TATGTATAT
* *
225320408 TTTAATATAT
1 TAT-GTATAT
225320418 TATGTATAT
1 TATGTATAT
*
225320427 TGTGTA
1 TATGTA
225320433 CATACTATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
7 3 0.04
8 14 0.19
9 33 0.46
10 14 0.19
11 8 0.11
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (9 bp):
TATGTATAT
Found at i:225320396 original size:25 final size:25
Alignment explanation
Indices: 225320368--225320426 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
225320358 GTATATTATG
*
225320368 TATATAT-TTTATATTTTATAAATAT
1 TATATATATATATATTTTA-AAATAT
* *
225320393 TATATGTATATATATTTTAATATAT
1 TATATATATATATATTTTAAAATAT
*
225320418 TATGTATAT
1 TATATATAT
225320427 TGTGTACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
TATATATATATATATTTTAAAATAT
Found at i:225320959 original size:6 final size:6
Alignment explanation
Indices: 225320950--225320978 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
225320940 ATTTTTGTTA
225320950 TCGTTT TCGTTT TCGTTT TCGTTT TCGTT
1 TCGTTT TCGTTT TCGTTT TCGTTT TCGTT
225320979 ATCATTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.66
Consensus pattern (6 bp):
TCGTTT
Found at i:225323092 original size:6 final size:6
Alignment explanation
Indices: 225323051--225323082 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
225323041 TCATTCCATA
225323051 CATTTG CATTTG CATTTG CATTTG CA-TTG CAT
1 CATTTG CATTTG CATTTG CATTTG CATTTG CAT
225323083 CATTTGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
CATTTG
Found at i:225325752 original size:10 final size:10
Alignment explanation
Indices: 225325728--225325766 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
225325718 CATTCAATCC
225325728 AAAAAAAGAGAG
1 AAAAAAA-AG-G
225325740 AAAAAAAAGG
1 AAAAAAAAGG
*
225325750 AAAAAAAAAG
1 AAAAAAAAGG
225325760 AAAAAAA
1 AAAAAAA
225325767 GAAAAAGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 2 0.08
12 7 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:225327767 original size:43 final size:44
Alignment explanation
Indices: 225327581--225327777 Score: 152
Period size: 43 Copynumber: 4.5 Consensus size: 44
225327571 ATTCACAAGC
* *
225327581 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTCAA-ATTTACAGAT
* * * * * * * **
225327626 CTTAACCCCCTAAGTAGTAGGGAAATA-GATCAAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTCAAA-TTTACAGAT
* * * * *
225327669 CTTTAACTCCATAAGCAGTAGGGTAACAAGC-CGAATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTCAAATTTACAGA-T
* *
225327713 CTTATCTCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTCAAATTTACAGAT
*
225327756 CTTAACCCCCTAAGTAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
225327778 AAATAGATCG
Statistics
Matches: 114, Mismatches: 31, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
43 58 0.51
44 32 0.28
45 24 0.21
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTCAAATTTACAGAT
Found at i:225327804 original size:130 final size:131
Alignment explanation
Indices: 225327569--225327860 Score: 423
Period size: 130 Copynumber: 2.2 Consensus size: 131
225327559 TAGAATCAGT
* *
225327569 GAATTCACAAGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 GAATTTACAAGCCTT-ATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
* *
225327633 CCCTAAGTAGTAGGGAAATAGATCAAAGATGATGGGCTTTAACTCCATAAGCAGTAGGGTAACAA
65 CCCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAAC-CCATAAGCAGTAGGGTAACAA
225327698 GCC
129 GCC
225327701 GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * *
225327764 CCTAAGTAGTAGGGAAATAGATCGAAGACGAAGGGCTTTAACCCCTAAGCAGTAGGGTAACAGGC
66 CCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAACCCATAAGCAGTAGGGTAACAAGC
*
225327829 T
131 C
* * *
225327830 GAA-TTA-TAGATCTTGTCTCCCTAAGCAGTAG
1 GAATTTACAAG-CCTTATCTCCCTAAGCAGTAG
225327861 TGGAGTAGAT
Statistics
Matches: 147, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
127 2 0.01
128 22 0.15
129 24 0.16
130 57 0.39
131 4 0.03
132 38 0.26
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (131 bp):
GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAACCCATAAGCAGTAGGGTAACAAGC
C
Found at i:225328172 original size:87 final size:87
Alignment explanation
Indices: 225327707--225328311 Score: 363
Period size: 87 Copynumber: 6.9 Consensus size: 87
225327697 AGCCGAATTT
* * * * * *
225327707 ACAAGCCTT-ATCTCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGT
1 ACAAGCCTTAAAC-CCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGC
* *
225327771 AGTAGGGAAATAGATCGAAGACG
65 AGTAGGGAAACAGATCGAAGACA
* * * * * * *
225327794 A-AGGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTATAGATCTTGTCTCCCTAAGCA
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGCA
**
225327857 GTAGTGG-AGTAGATCGAAGACGA
66 GTAG-GGAAACAGATCGAAGAC-A
** ** * * * * * *
225327880 A-GGGCCTTAGCCCCCTAGGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGTCTCCCTGAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTG-AATTTACAGATCTTATCACCCT-AAG
** * * * ** *
225327944 TTGCAGTGG-AACAAATCAAATCCG
64 CAGTAG-GGAAACAGATCGAAGACA
* * ** ** ** * * * * *
225327968 GCGAA-TCTT-GTCTTGCTGAAGTTGCAGTG-AAGC-AGATTGAAGATTTACAAATCTTA-CCCC
1 AC-AAGCCTTAAAC-CCCT-AAGCAGTAGGGTAA-CAAG-CTG-A-ATTTACAGATCTTATCACC
* * *
225328028 CTAAGCAGCAAGGAAACAGATCGAAGATA
59 CTAAGCAGTAGGGAAACAGATCGAAGACA
* * * *
225328057 ACGAG-CTTCAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTGCAGATCTTATCACCCTAAGC
1 ACAAGCCTT-AAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGC
* *
225328121 AGTAGGGAAACAGATCGAAGCCG
65 AGTAGGGAAACAGATCGAAGACA
** * * * *
225328144 A-TGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGC
1 ACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGC
*
225328208 AGTAGGGAAATAGATCGAAGACA
65 AGTAGGGAAACAGATCGAAGACA
* * *
225328231 ACAAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGC
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAA-TTTACAGATCTTATCACCCTAAGC
*
225328296 AGTAGGGAAGCAGATC
65 AGTAGGGAAACAGATC
225328312 AAAAGACGGT
Statistics
Matches: 394, Mismatches: 100, Indels: 47
0.73 0.18 0.09
Matches are distributed among these distances:
85 36 0.09
86 76 0.19
87 134 0.34
88 74 0.19
89 47 0.12
90 16 0.04
91 11 0.03
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (87 bp):
ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTATCACCCTAAGCA
GTAGGGAAACAGATCGAAGACA
Found at i:225328211 original size:43 final size:44
Alignment explanation
Indices: 225328006--225328302 Score: 201
Period size: 44 Copynumber: 6.8 Consensus size: 44
225327996 GAAGCAGATT
* * * * *
225328006 GAAGATTTACAAATCTT-ACCCCCTAAGCAGCAAGGAAACAGATC
1 GAAG-TTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * * * *
225328050 GAAGATAAC-GAGCTTCAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAAGTTTACAGATCTT-AACCCCCTAAGCAGTAGGGTAACAGGTC
* * * * *
225328094 GAA-TTTGCAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
*** ** * * *
225328137 GAAGCCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * *
225328181 GAA-TTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATC
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
*** * *
225328224 GAAGACAACA-AGCTTTAACCCCCTAAGCAGTAGGGTAACAAG-C
1 GAAGTTTACAGATC-TTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * * *
225328267 TGAATTTTAAAGATCTTATCACCCTAAGCAGTAGGG
1 -GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGG
225328303 AAGCAGATCA
Statistics
Matches: 185, Mismatches: 60, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
42 4 0.02
43 65 0.35
44 114 0.62
45 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (44 bp):
GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
Found at i:225328381 original size:352 final size:350
Alignment explanation
Indices: 225327720--225328398 Score: 794
Period size: 352 Copynumber: 1.9 Consensus size: 350
225327710 AGCCTTATCT
* * * * *
225327720 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGA
* * * ** *
225327785 TCGAAGACGAAGGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTATAGATCTTGTCTCC
66 TCGAAGACGAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACCCC
* ** * * * *
225327850 CTAAGCAGTAGTGGAGTAGATCGAAGACGAAGGGCCTTAGCCCCCTAGGCAGTAGGGTAATAGGC
131 CTAAGCAGTAGTGGAATAGATCGAAGACGAAAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGC
* * * ** ** *
225327915 TGAAAATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCAAATCCGGCGAATCTTGTC
196 TGAAAATTAAAGATCTTATCACCCTGAAGCAGCAGTGGAACAAATCAAAGACGGCGAATCTTGCC
* * * * ** *
225327980 TTGCTGAAGTTGCAGTGAAGCAGATTGAAGATTTACAAATCTTACCCCCTAAGCAGCAAGGAAAC
261 CTCCTGAAGTTGCAATGAAGCAGATTCAAGATCCACAAACCTTACCCCCTAAGCAGCAAGGAAAC
225328045 AGATCGAAGATAACGAGCTTCAACC
326 AGATCGAAGATAACGAGCTTCAACC
* * *
225328070 CCCTAAGCAGTAGGGTAACAAGCCGAATTTGCAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGA
* * *
225328135 TCGAAGCCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACC
66 TCGAAGACGAAGG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTAACC
*
225328200 CCCTAAGCAGTAG-GGAAATAGATCGAAGAC-AACAAGCTTTAACCCCCTAAGCAGTAGGGTAAC
129 CCCTAAGCAGTAGTGG-AATAGATCGAAGACGAA-AAGCCTTAACCCCCTAAGCAGTAGGGTAAC
** * * *
225328263 AAGCTGAATTTTAAAGATCTTATCACCCT-AAGCAGTAG-GGAAGCAGATCAAAAGACGGTGAAT
192 AAGCTGAAAATTAAAGATCTTATCACCCTGAAGCAGCAGTGGAA-CAAATC-AAAGACGGCGAAT
* * * *
225328326 CTTGCCCTCCTGAAGTTGCAATGAAGCTGATTCAA-A-CCACCAAGCCTTAACCCCCTAAGTAGT
255 CTTGCCCTCCTGAAGTTGCAATGAAGCAGATTCAAGATCCA-CAAACCTT-ACCCCCTAAGCAGC
*
225328389 AGGGAAACAG
318 AAGGAAACAG
225328399 GCTGAAGATC
Statistics
Matches: 271, Mismatches: 50, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
350 73 0.27
351 54 0.20
352 144 0.53
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (350 bp):
CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGA
TCGAAGACGAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACCCC
CTAAGCAGTAGTGGAATAGATCGAAGACGAAAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGC
TGAAAATTAAAGATCTTATCACCCTGAAGCAGCAGTGGAACAAATCAAAGACGGCGAATCTTGCC
CTCCTGAAGTTGCAATGAAGCAGATTCAAGATCCACAAACCTTACCCCCTAAGCAGCAAGGAAAC
AGATCGAAGATAACGAGCTTCAACC
Found at i:225328731 original size:30 final size:30
Alignment explanation
Indices: 225328642--225328721 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
225328632 GGCTTCAACC
*
225328642 CCCTAAGCAGTAGGGTAACAAGCCGGATTT
1 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
225328672 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
1 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
*
225328702 CCCTAAACAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
225328722 GGTTGAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (30 bp):
CCCTAAGCAGTAGGGTAACAAGCCGAATTT
Found at i:225328957 original size:88 final size:85
Alignment explanation
Indices: 225328702--225328998 Score: 266
Period size: 88 Copynumber: 3.4 Consensus size: 85
225328692 AGCCGAATTT
* * *
225328702 CCCTAAACAGTAGGGTAACAGGTTGAA-TTTAAAGATCTTAACCCCCTTAAGC-GTTAGGGAAAC
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ATGATCTTAACCCCC-TAAGCAG-TAGGGAAAC
225328765 AGATCGAA--GATGGCAAGCCTTAAC
63 AGATCGAAGCGATGG---GCCTTAAC
* * ** *
225328789 CCCCAGACAGTAGGGTAACAGGCTGAAGATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATTAT-GATCTTAACCCCCTAAGCAGTAG-GGA--AA
** *
225328854 -ACCTACGATGC-ATGGGCCTTAAC
62 CAGAT-CGAAGCGATGGGCCTTAAC
225328877 CCCTAAACAGTAGGGTAACAGGCTGAAGATGTACTGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGAT-TA-TGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
225328942 GATCGAAGGCGATGGGACCATAAAC
64 GATCGAA-GCGATGGG-CC-TTAAC
* *
225328967 CCCTAAGCAATAGGGTAACAGGCTAGAA-ATTA
1 CCCTAAACAGTAGGGTAACAGGCT-GAAGATTA
225328999 CAAATCTCTT
Statistics
Matches: 171, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
86 5 0.03
87 37 0.22
88 60 0.35
89 28 0.16
90 34 0.20
91 7 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (85 bp):
CCCTAAACAGTAGGGTAACAGGCTGAAGATTATGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAGCGATGGGCCTTAAC
Found at i:225330652 original size:9 final size:9
Alignment explanation
Indices: 225330620--225330718 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
225330610 GTATTATAAA
225330620 TATGTATA-
1 TATGTATAT
225330628 TATGTATACTT
1 TATGTATA--T
225330639 TATGTATAT
1 TATGTATAT
225330648 TATGTATAT
1 TATGTATAT
* *
225330657 ATTTTTATAT
1 -TATGTATAT
* *
225330667 T-TTTATAAA
1 TATGTAT-AT
225330676 TAT-TATAT
1 TATGTATAT
*
225330684 GTATATATAT
1 -TATGTATAT
* *
225330694 TTTAATATAT
1 TAT-GTATAT
225330704 TATGTATAT
1 TATGTATAT
*
225330713 TGTGTA
1 TATGTA
225330719 CATACTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
8 14 0.19
9 31 0.42
10 21 0.28
11 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (9 bp):
TATGTATAT
Found at i:225331247 original size:6 final size:6
Alignment explanation
Indices: 225331238--225331266 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
225331228 ATTTTTGTTA
225331238 TCGTTT TCGTTT TCGTTT TCGTTT TCGTT
1 TCGTTT TCGTTT TCGTTT TCGTTT TCGTT
225331267 ATCATTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.66
Consensus pattern (6 bp):
TCGTTT
Found at i:225333381 original size:6 final size:6
Alignment explanation
Indices: 225333340--225333371 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
225333330 TCATTCCATA
225333340 CATTTG CATTTG CATTTG CATTTG CA-TTG CAT
1 CATTTG CATTTG CATTTG CATTTG CATTTG CAT
225333372 CATTTGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
CATTTG
Found at i:225336034 original size:12 final size:12
Alignment explanation
Indices: 225336017--225336059 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
225336007 CATTCAATCC
225336017 AAAAAAAGAGAG
1 AAAAAAAGAGAG
*
225336029 AAAAAAAAAG-G
1 AAAAAAAGAGAG
*
225336040 AAAAAAA-AAAG
1 AAAAAAAGAGAG
225336051 AAAAAAAGA
1 AAAAAAAGA
225336060 AAAAGGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 1 0.04
11 16 0.59
12 10 0.37
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:225338061 original size:43 final size:43
Alignment explanation
Indices: 225337875--225338155 Score: 151
Period size: 43 Copynumber: 6.5 Consensus size: 43
225337865 ATTCACAAGC
*
225337875 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGAT
* * * * * * * **
225337920 CTTAACCCCCTAAGTAGTAGGGAAATA-GATCAAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAA-TTTACAGAT
* * * ** *
225337963 CTTTAACTCCATAAGCAGTAGGGTAACAAGCCGAATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGA-T
* *
225338007 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
* * * * * ** **
225338050 CTTAACCCCCTAAGTAGTAGGGAAATAGATCGAAGA-CGA-AGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAGAT
* *
225338093 CTTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTATAGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
** *
225338136 CTTGTCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
225338156 TGGAGTAGAT
Statistics
Matches: 172, Mismatches: 54, Indels: 23
0.69 0.22 0.09
Matches are distributed among these distances:
42 18 0.10
43 70 0.41
44 59 0.34
45 25 0.15
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
Found at i:225338098 original size:130 final size:132
Alignment explanation
Indices: 225337863--225338155 Score: 425
Period size: 130 Copynumber: 2.2 Consensus size: 132
225337853 TAGAATCAGT
* *
225337863 GAATTCACAAGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 GAATTTACAAGCCTT-ATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
* * *
225337927 CCCTAAGTAGTAGGGAAATAGATCAAAGATGATGGGCTTTAACTCCATAAGCAGTAGGGTAACAA
65 CCCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAACCCCATAAGCAGTAGGGTAACAA
225337992 GCC
130 GCC
225337995 GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * *
225338058 CCTAAGTAGTAGGGAAATAGATCGAAGACGAAGGGCTTTAACCCCCTAAGCAGTAGGGTAACAGG
66 CCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAACCCCATAAGCAGTAGGGTAACAAG
*
225338123 CT
131 CC
* * *
225338125 GAA-TTA-TAGATCTTGTCTCCCTAAGCAGTAG
1 GAATTTACAAG-CCTTATCTCCCTAAGCAGTAG
225338156 TGGAGTAGAT
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
128 2 0.01
129 22 0.15
130 81 0.55
131 4 0.03
132 38 0.26
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (132 bp):
GAATTTACAAGCCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGTAGTAGGGAAATAGATCAAAGACGAAGGGCTTTAACCCCATAAGCAGTAGGGTAACAAG
CC
Found at i:225338105 original size:87 final size:87
Alignment explanation
Indices: 225338014--225338598 Score: 431
Period size: 87 Copynumber: 6.7 Consensus size: 87
225338004 AGCCTTATCT
* *
225338014 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCCCCCTAAGCAGTAGGGAAATAGA
225338079 TCGAAGACGAAGGGCTTTAACC
66 TCGAAGACGAAGGGCTTTAACC
* * * * *
225338101 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTATAGATCTTGTCTCCCTAAGCAGTAGTGG-AGTAG
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCCCCCTAAGCAGTAG-GGAAATAG
* *
225338164 ATCGAAGACGAAGGGCCTTAGCC
65 ATCGAAGACGAAGGGCTTTAACC
* * * * * ** *
225338187 CCCTAGGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACA
1 CCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAGATCTTATCCCCCT-AAGCAGTAG-GGAA-A
* * * *
225338252 -A-ATCAAATCCGGCGAA--TCTTGT--CT
62 TAGATCGAA---GACGAAGGGCTT-TAACC
** ** * * ** * * *
225338276 TGCTGAAGTTGCAGTG-AAGCAGATTGAAGATTTACAAATCTTA--CCCCTAAGCAGCAAGGAAA
1 CCCT-AAGCAGTAGGGTAA-CAGGCT-AA-ATTTACAGATCTTATCCCCCTAAGCAGTAGGGAAA
* * * *
225338338 CAGATCGAAGA-TAACGAGCTTCAACC
62 TAGATCGAAGACGAA-GGGCTTTAACC
* ** * * *
225338364 CCCTAAGCAGTAGGGTAACAAGCCGAATTTGCAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCCCCCTAAGCAGTAGGGAAATAGA
* * * * *
225338429 TCGAAGCCGATGGACCTTAAAC
66 TCGAAGACGAAGGGCTTTAACC
* * *
225338451 CCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCCCCCTAAGCAGTAGGGAAATAGA
**
225338516 TCGAAGAC-AACAAGCTTTAACC
66 TCGAAGACGAA-GGGCTTTAACC
* * * *
225338538 CCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCAGTAGGGAA
1 CCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAGATCTTATCCCCCTAAGCAGTAGGGAA
225338599 GCAGATCAAA
Statistics
Matches: 382, Mismatches: 90, Indels: 51
0.73 0.17 0.10
Matches are distributed among these distances:
84 2 0.01
85 13 0.03
86 73 0.19
87 172 0.45
88 66 0.17
89 23 0.06
90 16 0.04
91 12 0.03
92 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCCCCCTAAGCAGTAGGGAAATAGA
TCGAAGACGAAGGGCTTTAACC
Found at i:225338505 original size:43 final size:44
Alignment explanation
Indices: 225338301--225338596 Score: 192
Period size: 44 Copynumber: 6.8 Consensus size: 44
225338291 GAAGCAGATT
* * * * *
225338301 GAAGATTTACAAATCTT-A-CCCCTAAGCAGCAAGGAAACAGATC
1 GAAG-TTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * * * *
225338344 GAAGATAAC-GAGCTTCAACCCCCTAAGCAGTAGGGTAACAAGCC
1 GAAGTTTACAGATCTT-AACCCCCTAAGCAGTAGGGTAACAGGTC
* * * * *
225338388 GAA-TTTGCAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
*** ** * * *
225338431 GAAGCCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * *
225338475 GAA-TTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATC
1 GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
*** * *
225338518 GAAGACAACA-AGCTTTAACCCCCTAAGCAGTAGGGTAACAAG-C
1 GAAGTTTACAGATC-TTAACCCCCTAAGCAGTAGGGTAACAGGTC
* * * *
225338561 TGAATTTTAAAGATCTTATCACCCTAAGCAGTAGGG
1 -GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGG
225338597 AAGCAGATCA
Statistics
Matches: 184, Mismatches: 60, Indels: 17
0.70 0.23 0.07
Matches are distributed among these distances:
41 4 0.02
42 3 0.02
43 67 0.36
44 108 0.59
45 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (44 bp):
GAAGTTTACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGTC
Found at i:225339025 original size:30 final size:30
Alignment explanation
Indices: 225338936--225339015 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
225338926 GGCTTCAACC
*
225338936 CCCTAAGCAGTAGGGTAACAAGCCGGATTT
1 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
225338966 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
1 CCCTAAGCAGTAGGGTAACAAGCCGAATTT
*
225338996 CCCTAAACAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
225339016 GGTTGAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (30 bp):
CCCTAAGCAGTAGGGTAACAAGCCGAATTT
Found at i:225339251 original size:88 final size:85
Alignment explanation
Indices: 225338996--225339292 Score: 266
Period size: 88 Copynumber: 3.4 Consensus size: 85
225338986 AGCCGAATTT
* * *
225338996 CCCTAAACAGTAGGGTAACAGGTTGAA-TTTAAAGATCTTAACCCCCTTAAGC-GTTAGGGAAAC
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ATGATCTTAACCCCC-TAAGCAG-TAGGGAAAC
225339059 AGATCGAA--GATGGCAAGCCTTAAC
63 AGATCGAAGCGATGG---GCCTTAAC
* * ** *
225339083 CCCCAGACAGTAGGGTAACAGGCTGAAGATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATTAT-GATCTTAACCCCCTAAGCAGTAG-GGA--AA
** *
225339148 -ACCTACGATGC-ATGGGCCTTAAC
62 CAGAT-CGAAGCGATGGGCCTTAAC
225339171 CCCTAAACAGTAGGGTAACAGGCTGAAGATGTACTGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGAT-TA-TGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
225339236 GATCGAAGGCGATGGGACCATAAAC
64 GATCGAA-GCGATGGG-CC-TTAAC
* *
225339261 CCCTAAGCAATAGGGTAACAGGCTAGAA-ATTA
1 CCCTAAACAGTAGGGTAACAGGCT-GAAGATTA
225339293 CAAATCTCTT
Statistics
Matches: 171, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
86 5 0.03
87 37 0.22
88 60 0.35
89 28 0.16
90 34 0.20
91 7 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (85 bp):
CCCTAAACAGTAGGGTAACAGGCTGAAGATTATGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAGCGATGGGCCTTAAC
Found at i:225340944 original size:9 final size:9
Alignment explanation
Indices: 225340912--225341010 Score: 51
Period size: 9 Copynumber: 10.7 Consensus size: 9
225340902 GTATTATAAA
225340912 TATGTATA-
1 TATGTATAT
225340920 TATGTATACTT
1 TATGTATA--T
225340931 TATGTATAT
1 TATGTATAT
225340940 TATGTATAT
1 TATGTATAT
* *
225340949 ATTTTTATAT
1 -TATGTATAT
* *
225340959 T-TTTATAAA
1 TATGTAT-AT
225340968 TAT-TATAT
1 TATGTATAT
*
225340976 GTATATATAT
1 -TATGTATAT
* *
225340986 TTTAATATAT
1 TAT-GTATAT
225340996 TATGTATAT
1 TATGTATAT
*
225341005 TGTGTA
1 TATGTA
225341011 CATACTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
8 14 0.19
9 31 0.42
10 21 0.28
11 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (9 bp):
TATGTATAT
Found at i:225341338 original size:2 final size:2
Alignment explanation
Indices: 225341331--225341355 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
225341321 CATTATGTTT
225341331 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
225341356 TGTAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:225341539 original size:6 final size:6
Alignment explanation
Indices: 225341528--225341552 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
225341518 TTTGTTATCG
225341528 TTTCGT TTTCGT TTTCGT TTTCGT T
1 TTTCGT TTTCGT TTTCGT TTTCGT T
225341553 ATTTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTCGT
Found at i:225345451 original size:40 final size:40
Alignment explanation
Indices: 225345406--225345572 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
225345396 CGGAATATAA
225345406 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
225345446 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
225345486 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
225345526 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
225345565 CCGGATAT
1 CCGGATAT
225345573 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:225353034 original size:40 final size:40
Alignment explanation
Indices: 225352989--225353155 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
225352979 CGGAATATAA
225352989 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
225353029 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
225353069 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
225353109 CCGGATATAATTTCCAGCATAATTGTCTT-GGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
225353148 CCGGATAT
1 CCGGATAT
225353156 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 17 0.16
40 89 0.84
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:225359050 original size:28 final size:28
Alignment explanation
Indices: 225359010--225359081 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
225359000 AAAATTGTAC
* *
225359010 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
225359038 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
225359067 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
225359082 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:225366180 original size:27 final size:27
Alignment explanation
Indices: 225366142--225366196 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
225366132 TTCTTGGTGA
225366142 TAGGAATGATTCGGTTGGAATATTGAG
1 TAGGAATGATTCGGTTGGAATATTGAG
225366169 TAGGAATGATTCGGTTGGAATATTGAG
1 TAGGAATGATTCGGTTGGAATATTGAG
225366196 T
1 T
225366197 GAGGGAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.35
Consensus pattern (27 bp):
TAGGAATGATTCGGTTGGAATATTGAG
Done.