Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 31 of 50
Found at i:14019326 original size:15 final size:15
Alignment explanation
Indices: 14019306--14019351 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
14019296 TTCTTAAAAT
14019306 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
14019321 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
14019336 AACTTTAAAATCAAA
1 AACTTTAAAACCAAA
14019351 A
1 A
14019352 TCTCTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 25 0.89
16 2 0.07
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:14027943 original size:54 final size:55
Alignment explanation
Indices: 14027849--14027965 Score: 175
Period size: 54 Copynumber: 2.1 Consensus size: 55
14027839 TACTCTCTCT
*
14027849 TCCCCCACCAGCCTTACTTTTCCTTCCTTTTCACTACCCACATCAG-GCTTCTCAG
1 TCCCCCACCAGCCTTACTTTTCCTTCCTCTTCACTACCCACAT-AGAGCTTCTCAG
* * *
14027904 TCCCCCACCAGGCTTAC-TTTCCTTCCTCTTCACTGCCCACATTGAGCTTCTCAG
1 TCCCCCACCAGCCTTACTTTTCCTTCCTCTTCACTACCCACATAGAGCTTCTCAG
14027958 TCCCCCAC
1 TCCCCCAC
14027966 GTCACTCTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 1 0.02
54 40 0.70
55 16 0.28
ACGTcount: A:0.15, C:0.45, G:0.09, T:0.31
Consensus pattern (55 bp):
TCCCCCACCAGCCTTACTTTTCCTTCCTCTTCACTACCCACATAGAGCTTCTCAG
Found at i:14035650 original size:42 final size:43
Alignment explanation
Indices: 14035570--14035657 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 43
14035560 CATCATCACC
*
14035570 ATCGGCTTATGCGCACTCCCAACTCGCACATAGCCGGGTCAGT
1 ATCGGCTTATGCGCACTCCCAACTCGCACATAGCCGGGTCAAT
* * *
14035613 ATCGGCTTATGCGCACT-TCTACTCGTACATAGCCGGGTCAAT
1 ATCGGCTTATGCGCACTCCCAACTCGCACATAGCCGGGTCAAT
14035655 ATC
1 ATC
14035658 ATTACACAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (43 bp):
ATCGGCTTATGCGCACTCCCAACTCGCACATAGCCGGGTCAAT
Found at i:14045207 original size:89 final size:89
Alignment explanation
Indices: 14044945--14045212 Score: 464
Period size: 89 Copynumber: 3.0 Consensus size: 89
14044935 TCAGATTTTG
* *
14044945 CCCTTTTATCCATCTCTGGCTTAGTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
1 CCCTTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
**
14045010 TAGACAAAGGGCTACCAATAAATA
66 TAGACAAAGGGCTACCAATTTATA
* *
14045034 GCCTTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGAACTAACTCCTCTCTTTATAGTTG
1 CCCTTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
14045099 TAGACAAAGGGCTACCAATTTATA
66 TAGACAAAGGGCTACCAATTTATA
* *
14045123 CCCTTTTTTCCATCTCTGGCTTACTACAACTCTGGAGCTTGACCTAACTCCTCTCTTTATAGTTG
1 CCCTTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
14045188 TAGACAAAGGGCTACCAATTTATA
66 TAGACAAAGGGCTACCAATTTATA
14045212 C
1 C
14045213 TACTACTTCA
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 169 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.35
Consensus pattern (89 bp):
CCCTTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
TAGACAAAGGGCTACCAATTTATA
Found at i:14051218 original size:22 final size:22
Alignment explanation
Indices: 14051126--14051262 Score: 102
Period size: 22 Copynumber: 6.2 Consensus size: 22
14051116 AGTTGATAGG
14051126 GCATTGCATGATTGA-TTTTAA
1 GCATTGCATGATTGATTTTTAA
** *
14051147 GCATTAAATAATTGA-TTTTAA
1 GCATTGCATGATTGATTTTTAA
* * *
14051168 GGTATT--ATGAGACTGATTTTTAG
1 -GCATTGCAT--GATTGATTTTTAA
14051191 GACATTGCATGATTGATTTTTAA
1 G-CATTGCATGATTGATTTTTAA
* * * *
14051214 GCATTTCGTGATCGGTTTTTAA
1 GCATTGCATGATTGATTTTTAA
* *
14051236 GCATTGCATGATTGGTTTTTAG
1 GCATTGCATGATTGATTTTTAA
14051258 GCATT
1 GCATT
14051263 ATGTGACTGG
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
20 2 0.02
21 18 0.20
22 49 0.54
23 20 0.22
25 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
GCATTGCATGATTGATTTTTAA
Found at i:14051291 original size:23 final size:21
Alignment explanation
Indices: 14051236--14051420 Score: 100
Period size: 23 Copynumber: 8.2 Consensus size: 21
14051226 CGGTTTTTAA
* * *
14051236 GCATTGCATGATTGGTTTTTAG
1 GCATTGCGTGACTGG-TTGTAG
**
14051258 GCATTATGTGACTGGTTGATACG
1 GCATTGCGTGACTGGTTG-TA-G
* *
14051281 ACATTGCGTGACCGGTCTGTAG
1 GCATTGCGTGACTGGT-TGTAG
* *
14051303 GCATTGCATGACTAGTTTGTAAG
1 GCATTGCGTGACT-GGTTGT-AG
* ** *
14051326 GCATTGCGTGATTAATTTTTAG
1 GCATTGCGTGACT-GGTTGTAG
* *
14051348 GCATTGTGTGACTGCTTGATAG
1 GCATTGCGTGACTGGTTG-TAG
*
14051370 GACATTGCGTGACTGGTTTTTAAG
1 G-CATTGCGTGACTGG-TTGT-AG
* *
14051394 GCATTGCATGACTAGTATGTAG
1 GCATTGCGTGACTGGT-TGTAG
14051416 GCATT
1 GCATT
14051421 ATAGAGTAGG
Statistics
Matches: 125, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
21 4 0.03
22 52 0.42
23 62 0.50
24 7 0.06
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (21 bp):
GCATTGCGTGACTGGTTGTAG
Found at i:14051308 original size:22 final size:23
Alignment explanation
Indices: 14051282--14051336 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
14051272 GTTGATACGA
*
14051282 CATTGCGTGACCGGTCTGT-AGG
1 CATTGCGTGACCAGTCTGTAAGG
* * *
14051304 CATTGCATGACTAGTTTGTAAGG
1 CATTGCGTGACCAGTCTGTAAGG
14051327 CATTGCGTGA
1 CATTGCGTGA
14051337 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (23 bp):
CATTGCGTGACCAGTCTGTAAGG
Found at i:14051315 original size:45 final size:45
Alignment explanation
Indices: 14051233--14051406 Score: 154
Period size: 45 Copynumber: 3.9 Consensus size: 45
14051223 GATCGGTTTT
* * *** *
14051233 TAAG-CATTGCATGATTGGTTTTTAGGCATTATGTGACTGGTTGA
1 TAAGACATTGCGTGACTGGTTTTTAGGCATTGCATGACTGCTTGA
* * * * *
14051277 TACGACATTGCGTGACCGGTCTGTAGGCATTGCATGACTAGTTTG-
1 TAAGACATTGCGTGACTGGTTTTTAGGCATTGCATGACT-GCTTGA
* * ** **
14051322 TAAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGACTGCTTGA
1 TAAGACATTGCGTGACTGGTTTTTAGGCATTGCATGACTGCTTGA
*
14051367 TAGGACATTGCGTGACTGGTTTTTAAGGCATTGCATGACT
1 TAAGACATTGCGTGACTGGTTTTT-AGGCATTGCATGACT
14051407 AGTATGTAGG
Statistics
Matches: 98, Mismatches: 28, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 7 0.07
45 74 0.76
46 17 0.17
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (45 bp):
TAAGACATTGCGTGACTGGTTTTTAGGCATTGCATGACTGCTTGA
Found at i:14051352 original size:90 final size:91
Alignment explanation
Indices: 14051228--14051420 Score: 266
Period size: 90 Copynumber: 2.2 Consensus size: 91
14051218 TTCGTGATCG
* ** *
14051228 GTTTTTAA-GCATTGCATGATTGGTTTTTAGGCATTATGTGACTGGTTGATACGACATTGCGTGA
1 GTTTGTAAGGCATTGCATGATTAATTTTTAGGCATTATGTGACTGCTTGATACGACATTGCGTGA
14051292 CCGGTCTGT-AGGCATTGCATGACTA
66 CCGGTCTGTAAGGCATTGCATGACTA
* * *
14051317 GTTTGTAAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGACTGCTTGATAGGACATTGCGTGA
1 GTTTGTAAGGCATTGCATGATTAATTTTTAGGCATTATGTGACTGCTTGATACGACATTGCGTGA
* * *
14051382 CTGGTTTTTAAGGCATTGCATGACTA
66 CCGGTCTGTAAGGCATTGCATGACTA
*
14051408 GTATGT-AGGCATT
1 GTTTGTAAGGCATT
14051421 ATAGAGTAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 7 0.08
90 63 0.69
91 21 0.23
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (91 bp):
GTTTGTAAGGCATTGCATGATTAATTTTTAGGCATTATGTGACTGCTTGATACGACATTGCGTGA
CCGGTCTGTAAGGCATTGCATGACTA
Found at i:14052847 original size:36 final size:36
Alignment explanation
Indices: 14052807--14052889 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
14052797 CATCTAACTT
*
14052807 AGAGCACACGTCCTCTTGC-GACCCCACATCATGCTC
1 AGAGCACACCTCCTCTTGCAG-CCCCACATCATGCTC
* * *
14052843 AGAGCACACCTCTTTTTGCAGCCCCACGTCATGCTC
1 AGAGCACACCTCCTCTTGCAGCCCCACATCATGCTC
*
14052879 AGAACACACCT
1 AGAGCACACCT
14052890 TCTTTTGCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (36 bp):
AGAGCACACCTCCTCTTGCAGCCCCACATCATGCTC
Found at i:14056583 original size:17 final size:17
Alignment explanation
Indices: 14056563--14056595 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14056553 TTCTTGATAA
14056563 AATAA-AACTCTTTATTG
1 AATAATAACT-TTTATTG
14056580 AATAATAACTTTTATT
1 AATAATAACTTTTATT
14056596 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
AATAATAACTTTTATTG
Found at i:14056788 original size:29 final size:28
Alignment explanation
Indices: 14056756--14056899 Score: 162
Period size: 29 Copynumber: 5.0 Consensus size: 28
14056746 AAATATTTTA
* * *
14056756 TCTTGTCTAAATTTGAGACAAATATGTAT
1 TCTTGTCTAAA-TTAAGACAAACATGTTT
* * * *
14056785 TCTTGTCTAGATTAAGATAAAAAATATTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
*
14056814 TCCTTGTCTTAAATTAAGACAAACATATTT
1 T-CTTGTC-TAAATTAAGACAAACATGTTT
*
14056844 TCTGGTCTAAATTAAGATCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
14056873 TCTTGTCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
14056900 AAAGCTGCCA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.25
29 49 0.49
30 16 0.16
31 9 0.09
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:14056836 original size:59 final size:57
Alignment explanation
Indices: 14056734--14056898 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 57
14056724 TCCTGTCCGT
* * * *
14056734 AATTAAGACAAAAAATATTTTATCTTGTCTAAATTTGAGACAAATATGTATTCTTGTCTA
1 AATTAAGATAAAAAATA-TTT-TCTTGTCTAAA-TTAAGACAAACATGTATTCTGGTCTA
* * *
14056794 GATTAAGATAAAAAATATTTTCCTTGTCTTAAATTAAGACAAACATATTTTCTGGTCTA
1 AATTAAGATAAAAAATATTTT-CTTGTC-TAAATTAAGACAAACATGTATTCTGGTCTA
* * *
14056853 AATTAAGATCAAACATGTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGATAAAAAATATTTTCTTGTCTAAATTAAGACAAACATGT
14056899 TAAAGCTGCC
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 18 0.20
58 7 0.08
59 47 0.52
60 19 0.21
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (57 bp):
AATTAAGATAAAAAATATTTTCTTGTCTAAATTAAGACAAACATGTATTCTGGTCTA
Found at i:14060988 original size:37 final size:37
Alignment explanation
Indices: 14060894--14060989 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 37
14060884 ATATTGCCCG
*
14060894 TGTGCACGATGTGGGGGGATGTACATGATAGCATTAGA
1 TGTGCACGATGTGGGGGGATGCACATGATAGCA-TAGA
* * *
14060932 TATGCACGATGTGGTGGGATGCACATGAT-GTCA-ACTA
1 TGTGCACGATGTGGGGGGATGCACATGATAG-CATA-GA
14060969 TGTGCACGATGTGGGGGGATG
1 TGTGCACGATGTGGGGGGATG
14060990 AATATGAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
36 1 0.02
37 21 0.42
38 28 0.56
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (37 bp):
TGTGCACGATGTGGGGGGATGCACATGATAGCATAGA
Found at i:14065876 original size:23 final size:22
Alignment explanation
Indices: 14065827--14065876 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 22
14065817 TGCTGCACCT
*
14065827 GGTAGCAGCTTGTGTTGTTGCC
1 GGTAGCAGCTTGTGCTGTTGCC
14065849 -G-AGCAG-TATGTGCTGTTGTCC
1 GGTAGCAGCT-TGTGCTGTTG-CC
14065870 GGTAGCA
1 GGTAGCA
14065877 ACACACTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 3 0.13
22 1 0.04
23 4 0.17
ACGTcount: A:0.14, C:0.18, G:0.36, T:0.32
Consensus pattern (22 bp):
GGTAGCAGCTTGTGCTGTTGCC
Found at i:14068693 original size:20 final size:20
Alignment explanation
Indices: 14068668--14068708 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14068658 ATAAGCCTTG
*
14068668 TTGATTTTTATGAAACGAAA
1 TTGATTTATATGAAACGAAA
*
14068688 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAACGAAA
14068708 T
1 T
14068709 GAGATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGATTTATATGAAACGAAA
Found at i:14070265 original size:29 final size:28
Alignment explanation
Indices: 14070223--14070376 Score: 166
Period size: 29 Copynumber: 5.3 Consensus size: 28
14070213 TTAAGACAAA
*
14070223 AAATAT-TTTATCTTGTCTAAATTTGAGAC
1 AAATATGTTT-TCTTGTCTAAA-TTAAGAC
* *
14070252 AAATATGTATTCTTGTCTAGATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
* * *
14070280 AAAAAATATTTTCCTTGTCTTAAATTAAGAT
1 -AAATATGTTTT-CTTGTC-TAAATTAAGAC
* *
14070311 AAACATATTTTCTTGTCTAAATTAAGACC
1 AAATATGTTTTCTTGTCTAAATTAAGA-C
*
14070340 AAATATGTTTTCTTGTCTAAATTAAGAT
1 AAATATGTTTTCTTGTCTAAATTAAGAC
14070368 AAATATGTT
1 AAATATGTT
14070377 AAAGCTGCCA
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.23
29 55 0.51
30 18 0.17
31 9 0.08
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (28 bp):
AAATATGTTTTCTTGTCTAAATTAAGAC
Found at i:14070326 original size:59 final size:57
Alignment explanation
Indices: 14070211--14070370 Score: 194
Period size: 59 Copynumber: 2.7 Consensus size: 57
14070201 TCTTGTCCGT
* * * *
14070211 AATTAAGACAAAAAATATTTTATCTTGTCTAAATTTGAGACAAATATGTATTCTTGTCTA
1 AATTAAGACAAAAAATA-TTT-TCTTGTCTAAA-TTAAGATAAACATATATTCTTGTCTA
* *
14070271 GATTAAGACAAAAAATATTTTCCTTGTCTTAAATTAAGATAAACATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTT-CTTGTC-TAAATTAAGATAAACATATATTCTTGTCTA
* * *
14070330 AATTAAGACCAAATATGTTTTCTTGTCTAAATTAAGATAAA
1 AATTAAGACAAAAAATATTTTCTTGTCTAAATTAAGATAAA
14070371 TATGTTAAAG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
57 14 0.16
58 7 0.08
59 47 0.53
60 20 0.23
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (57 bp):
AATTAAGACAAAAAATATTTTCTTGTCTAAATTAAGATAAACATATATTCTTGTCTA
Found at i:14073142 original size:21 final size:20
Alignment explanation
Indices: 14073118--14073165 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14073108 TTTTACCCTT
*
14073118 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
14073139 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
14073160 TTTTTC
1 TTTTTC
14073166 CACCTAGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:14073165 original size:22 final size:22
Alignment explanation
Indices: 14073123--14073163 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14073113 CCCTTTTTTT
*
14073123 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
14073145 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
14073164 TCCACCTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:14075125 original size:22 final size:22
Alignment explanation
Indices: 14075099--14075181 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
14075089 CATTGCATGA
*
14075099 ATTAAGAATTGCGTGACTAGTT
1 ATTAAGCATTGCGTGACTAGTT
* * * *
14075121 ATTAAGCATTGTGTAATTCGTT
1 ATTAAGCATTGCGTGACTAGTT
* *
14075143 ATTAGGCATTGCGTGA-TTGATT
1 ATTAAGCATTGCGTGACTAG-TT
* *
14075165 ACTAGGCATTGCGTGAC
1 ATTAAGCATTGCGTGAC
14075182 CGCATCTGGC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.04
22 47 0.96
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (22 bp):
ATTAAGCATTGCGTGACTAGTT
Found at i:14076103 original size:2 final size:2
Alignment explanation
Indices: 14076096--14076121 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14076086 TGGTTAATAA
14076096 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14076122 TGGCATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14078151 original size:66 final size:66
Alignment explanation
Indices: 14078044--14078192 Score: 262
Period size: 66 Copynumber: 2.2 Consensus size: 66
14078034 GGAGTCATTG
14078044 TGTGCACCCCCACATCGCGCACAACTATGTCATCCTCTAGACTCCCACACCCCATCATTATCGGC
1 TGTGCACCCCCACATCGCGCACAACTATGTCATCCTCTAGACTCCCACACCCCATCATTATCGGC
14078109 A
66 A
* * *
14078110 TGTGCACCCCCACATCGTGCACAACTATGTCATCCTTTAGACTCCCACACCCCGTCATTATCGGC
1 TGTGCACCCCCACATCGCGCACAACTATGTCATCCTCTAGACTCCCACACCCCATCATTATCGGC
14078175 A
66 A
14078176 TGTGCATCCCCCACATC
1 TGTGCA-CCCCCACATC
14078193 ACCACATGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 69 0.87
67 10 0.13
ACGTcount: A:0.23, C:0.42, G:0.13, T:0.23
Consensus pattern (66 bp):
TGTGCACCCCCACATCGCGCACAACTATGTCATCCTCTAGACTCCCACACCCCATCATTATCGGC
A
Found at i:14085789 original size:13 final size:13
Alignment explanation
Indices: 14085771--14085795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14085761 GGAGAAATTG
14085771 TGATTTTATAAAA
1 TGATTTTATAAAA
14085784 TGATTTTATAAA
1 TGATTTTATAAA
14085796 CTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14091744 original size:28 final size:29
Alignment explanation
Indices: 14091704--14091768 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
14091694 TGGCAGCGTT
* *
14091704 AACATTTTTGTCTTAATTTAGACAAGA-A
1 AACATATTTGTCTCAATTTAGACAAGATA
14091732 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTCAATTTAGACAAGATA
14091761 AA-ATATTT
1 AACATATTT
14091769 TTTTGTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (29 bp):
AACATATTTGTCTCAATTTAGACAAGATA
Found at i:14091955 original size:17 final size:17
Alignment explanation
Indices: 14091933--14091965 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14091923 ATAATAATAA
14091933 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
14091950 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
14091966 TTTTCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:14093604 original size:13 final size:13
Alignment explanation
Indices: 14093576--14093614 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14093566 TAATCTTTTC
*
14093576 CAAATAATCAAAAT
1 CAAATAA-CTAAAT
14093590 CAAATAACTAAAT
1 CAAATAACTAAAT
*
14093603 CAATTAACTAAA
1 CAAATAACTAAA
14093615 GCTAATTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
CAAATAACTAAAT
Found at i:14100417 original size:21 final size:21
Alignment explanation
Indices: 14100384--14100435 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
14100374 TGAGATGGGA
*
14100384 GGAAAAAGAAGAAGAA-TCCGCT
1 GGAAAATG-AGAAGAAGT-CGCT
*
14100406 GGAAAATGAGAAGAAGTTGCT
1 GGAAAATGAGAAGAAGTCGCT
14100427 GGAAAATGA
1 GGAAAATGA
14100436 TATTTATAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.48, C:0.08, G:0.31, T:0.13
Consensus pattern (21 bp):
GGAAAATGAGAAGAAGTCGCT
Found at i:14106364 original size:49 final size:49
Alignment explanation
Indices: 14106311--14106428 Score: 155
Period size: 49 Copynumber: 2.4 Consensus size: 49
14106301 CATTCATCGT
* *
14106311 CATAGCCAGGTCATTATCATCATCAGCTTATGCCCACTCCCTACTCGCA
1 CATAGCCGGGTCATTATCATCATCAGCTTATGCCCACTCCCAACTCGCA
* * * * *
14106360 CATAGCCGGGTCATCATCATCATCGGCTTATGCGCACTCTCAACTTGCA
1 CATAGCCGGGTCATTATCATCATCAGCTTATGCCCACTCCCAACTCGCA
* *
14106409 CATAACCGGGTCAATATCAT
1 CATAGCCGGGTCATTATCAT
14106429 TACACAACAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (49 bp):
CATAGCCGGGTCATTATCATCATCAGCTTATGCCCACTCCCAACTCGCA
Found at i:14116348 original size:5 final size:5
Alignment explanation
Indices: 14116338--14116389 Score: 77
Period size: 5 Copynumber: 10.0 Consensus size: 5
14116328 CATATATATA
*
14116338 TTTCT TTTCT TTTCT CTTCT TTTCT TTTCT TTTCT TTTCT TTCTCT CTTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT-TCT -TTTCT
14116390 CTTCCTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 35 0.81
6 6 0.14
7 2 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTCT
Found at i:14116363 original size:20 final size:20
Alignment explanation
Indices: 14116338--14116402 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
14116328 CATATATATA
14116338 TTTCTTTTCTTTTCTCTTCT
1 TTTCTTTTCTTTTCTCTTCT
*
14116358 TTTCTTTTCTTTTCTTTTCT
1 TTTCTTTTCTTTTCTCTTCT
*
14116378 TTCTCTCTTTCTCTTC-C-TCT
1 TT-TCT-TTTCTTTTCTCTTCT
14116398 TTTCT
1 TTTCT
14116403 CCAGCCGACT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 3 0.08
20 26 0.65
21 3 0.08
22 8 0.20
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCTTTTCTTTTCTCTTCT
Found at i:14124934 original size:35 final size:34
Alignment explanation
Indices: 14124895--14125009 Score: 131
Period size: 35 Copynumber: 3.3 Consensus size: 34
14124885 ATAGTCGGAG
* * * *
14124895 TCATCATGTGCACACCAACATTGCGCACATCAACA
1 TCATCATGTGCACTCCTAC-TCGCACACATCAACA
* *
14124930 TCATCGTGTGCACTCTTTACTCGCACACATCAACA
1 TCATCATGTGCACTC-CTACTCGCACACATCAACA
*
14124965 TCATCGTGTGCACTCCTTACTCGCACACATCAACA
1 TCATCATGTGCACTCC-TACTCGCACACATCAACA
*
14125000 TCATTATGTG
1 TCATCATGTG
14125010 TGTCACAACC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 67 0.97
36 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (34 bp):
TCATCATGTGCACTCCTACTCGCACACATCAACA
Found at i:14126359 original size:38 final size:38
Alignment explanation
Indices: 14126262--14126375 Score: 156
Period size: 38 Copynumber: 3.0 Consensus size: 38
14126252 CACACTCAAC
* *** * *
14126262 TCATGTGCACTCCCTACACGCACAAGGCGATATCATTA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
*
14126300 TCATGTGCACTCCCTACTCGCACATTTCAATGTCATCA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
*
14126338 TCATGTGCACTCCCTAGTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
14126376 CACGCATTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (38 bp):
TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
Found at i:14135095 original size:644 final size:642
Alignment explanation
Indices: 14133867--14135458 Score: 2618
Period size: 644 Copynumber: 2.5 Consensus size: 642
14133857 CTCGCTAAAG
* *
14133867 ATGAAATTCATATTATCCAAGAAGCAGAAGAGAACAACTCAGAGATCGATGTCCCTCATCTTTTC
1 ATGAAATTCATATTATCCAAGAAGCAGAAGAGAACAACTCAGAGATCAATGTCCCTCATCTCTTC
14133932 AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATGCTATAAAAAAACCATCATTCTT
66 AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATGCTATAAAAAAACCATCATTCTT
14133997 TTTTTATATAGCATGAATGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATGTTTTAAAA
131 TTTTTATATAGCATG-ATGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATGTTTT-AAA
14134062 TAATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGAAGCTATGAT
194 TAATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGAAGCTATGAT
14134127 TGGACTCACTCAATGTTGAAAGGATATGGCCCAACCAATCTTCAATCATTTCTAACTACCTTCAA
259 TGGACTCACTCAATGTTGAAAGGATATGGCCCAACCAATCTTCAATCATTTCTAACTACCTTCAA
* *
14134192 AATTTGACAAGTTTGACCATTAAGGATTGTCACAACTTAAAACACATATTATCATTTTCTGTGTG
324 AATTTAACAAGTTTGACCATTAAGGATTGGCACAACTTAAAACACATATTATCATTTTCTGTGTG
* *
14134257 TCAAAGTCTGACACATCTCAAAAGTTTTGAAATAAATGGATGTGAGTGCTTAAAAGAGATAATAG
389 TCAAAGTCTGACACATCTCAAAAGTTTTGAAATAAATAGATGCGAGTGCTTAAAAGAGATAATAG
*
14134322 TCACAGAAGATACAGAAGAAGATATGATGGGCCAAGTTTTCCCTAAACTAGAAGTTTTGGAGCTC
454 TCACAGAAGATACAGAAGAAGATATGATGGGCCAAGTTTTCCCTAAACTAGAACTTTTGGAGCTC
* * *
14134387 CAAGATCTTCCCAATCTCACAAGATTTTGCCATGGAAGTAACTTTGAACTCCCCATGTTGAAAGA
519 CAAGACCTTCCCAATCTCACAAGATTCTGCCATGGAAATAACTTTGAACTCCCCATGTTGAAAGA
* * *
14134452 GCTTATTATAAGGGATTGTCCTACATTGAAGACATTAATCTCTAATTCTACCATGGCAA
584 GCTTATTACAAGGGATTATCCTACATTGAAGACATTAATCTCTAAATCTACCATGGCAA
* *
14134511 ATGAAATTCATATTATCCAAGAAGCAAAAGAGAACAACTCAGAGATTAATGTCCCTCATCTCTTC
1 ATGAAATTCATATTATCCAAGAAGCAGAAGAGAACAACTCAGAGATCAATGTCCCTCATCTCTTC
*
14134576 AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATCCTATAAAAAAACCATCATTCTT
66 AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATGCTATAAAAAAACCATCATTCTT
14134641 TTTTTATATAGCATGAGTGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATGTTCTTAAA
131 TTTTTATATAGCATGA-TGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATGTT-TTAAA
** *
14134706 TAATTTTTAATGTATAAGAACAACATTTGTGTAGATAAAGTTCCCTTGCTTGGAAAAGCTATGAT
194 TAATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGAAGCTATGAT
* * * *
14134771 TGGAATCACTCAATGTTGAAAGGATATGGCCTAACCCATCTTCAATCATTTTTAACTACCTTCAA
259 TGGACTCACTCAATGTTGAAAGGATATGGCCCAACCAATCTTCAATCATTTCTAACTACCTTCAA
* *
14134836 AATTTAACAAGTTTGACCATTGAGGATTGGCACAACTTAAAACATATATTATCATTTTCTGTGTG
324 AATTTAACAAGTTTGACCATTAAGGATTGGCACAACTTAAAACACATATTATCATTTTCTGTGTG
14134901 -CAGAAGTCTGACACATCTCAAAAGTTTTGAAATAAATAGATGCGAGTGCTTAAAAGAGATAATA
389 TCA-AAGTCTGACACATCTCAAAAGTTTTGAAATAAATAGATGCGAGTGCTTAAAAGAGATAATA
* * *
14134965 GTCATAGAAGATATAGAAGAAGATATGATGGGCCAGGTTTTCCCTAAACTAGAACTTTTGGAGCT
453 GTCACAGAAGATACAGAAGAAGATATGATGGGCCAAGTTTTCCCTAAACTAGAACTTTTGGAGCT
* *
14135030 CCAAGACCTTCCTAATCTCACAAGATTCTGCCATGGAAATAACTTTGAACTCCTCATGTTGAAAG
518 CCAAGACCTTCCCAATCTCACAAGATTCTGCCATGGAAATAACTTTGAACTCCCCATGTTGAAAG
* * * *
14135095 AGCTTATTACAAGGGATTATCTTGCATTGAAGACATTCATCTCTAAATCTACCATGGTAA
583 AGCTTATTACAAGGGATTATCCTACATTGAAGACATTAATCTCTAAATCTACCATGGCAA
* * * *
14135155 ATGAAATTCATATTATCCAAGAAGTAGAAGAAAATAACTCAGAGATCAGTGTCCCTCATCTCTTC
1 ATGAAATTCATATTATCCAAGAAGCAGAAGAGAACAACTCAGAGATCAATGTCCCTCATCTCTTC
* * ** * * *
14135220 AATGAAAAGATGACTATACTCTCCTTTTCTTATTACATTTAAGCTATAAAAAAA--AT-A-TCTC
66 AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATGCTATAAAAAAACCATCATTCTT
* *
14135281 TTTTTATATAGCATGTATGTTATGTAACTATTATATTGAAATTTGAATTTTTTTATGTTTTTTAA
131 TTTTTATATAGCATG-ATGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATG-TTTTAAA
* *
14135346 TAATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGGAGCTACGAT
194 TAATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGAAGCTATGAT
* * *
14135411 TGGACTAAATCAATGTTGAAAGGATATGGCCCAACCAATCTTTAATCA
259 TGGACTCACTCAATGTTGAAAGGATATGGCCCAACCAATCTTCAATCA
14135459 CACTAAAGAT
Statistics
Matches: 882, Mismatches: 61, Indels: 14
0.92 0.06 0.01
Matches are distributed among these distances:
640 163 0.18
641 4 0.00
642 2 0.00
643 3 0.00
644 708 0.80
645 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (642 bp):
ATGAAATTCATATTATCCAAGAAGCAGAAGAGAACAACTCAGAGATCAATGTCCCTCATCTCTTC
AATGAAAAGGTGACTAAACTCTCCTTCGCTTATTGCATTTATGCTATAAAAAAACCATCATTCTT
TTTTTATATAGCATGATGTTATGTAATTATTATATTGAAATTTGAATTTTTTTATGTTTTAAATA
ATTTTTAATGTATAAGAATTACATTTGTGTAGATAAAGTTCCCTTGCTTGGAGAAGCTATGATTG
GACTCACTCAATGTTGAAAGGATATGGCCCAACCAATCTTCAATCATTTCTAACTACCTTCAAAA
TTTAACAAGTTTGACCATTAAGGATTGGCACAACTTAAAACACATATTATCATTTTCTGTGTGTC
AAAGTCTGACACATCTCAAAAGTTTTGAAATAAATAGATGCGAGTGCTTAAAAGAGATAATAGTC
ACAGAAGATACAGAAGAAGATATGATGGGCCAAGTTTTCCCTAAACTAGAACTTTTGGAGCTCCA
AGACCTTCCCAATCTCACAAGATTCTGCCATGGAAATAACTTTGAACTCCCCATGTTGAAAGAGC
TTATTACAAGGGATTATCCTACATTGAAGACATTAATCTCTAAATCTACCATGGCAA
Found at i:14140037 original size:20 final size:20
Alignment explanation
Indices: 14139990--14140037 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
14139980 AGGGAGAATG
* *
14139990 TATCAATATATTCTCCAATG
1 TATCGATATATTCTCCAATA
*
14140010 TATTGATATATTC-CCTAATA
1 TATCGATATATTCTCC-AATA
14140030 TATCGATA
1 TATCGATA
14140038 CGCTTTTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (20 bp):
TATCGATATATTCTCCAATA
Found at i:14141773 original size:2 final size:2
Alignment explanation
Indices: 14141768--14141794 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14141758 TGTGTATATA
14141768 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
14141795 TATTTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14144620 original size:22 final size:21
Alignment explanation
Indices: 14144568--14144627 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
14144558 AATGCTTCGT
* *
14144568 TCACGCAATGCCTTAAAACAG
1 TCACGCAATGCCTAAAAACAA
*
14144589 TCACGTAATGCCTAAAAATCAA
1 TCACGCAATGCCTAAAAA-CAA
* *
14144611 TCACACAATGCATAAAA
1 TCACGCAATGCCTAAAA
14144628 GCTAGACACA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (21 bp):
TCACGCAATGCCTAAAAACAA
Found at i:14144659 original size:38 final size:38
Alignment explanation
Indices: 14144616--14144734 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 38
14144606 ATCAATCACA
*
14144616 CAATGCAT-AAAAGCTAGACACACAATGATTAAGTCATG
1 CAATGCATAAAAAGC-AGACACGCAATGATTAAGTCATG
* * * ** *
14144654 TAATGCTTAAAAAGCAGTCTTGCAATGACTAAGTCATG
1 CAATGCATAAAAAGCAGACACGCAATGATTAAGTCATG
* * * *
14144692 CAATGCCTAAAAAGCAGAGACGCAAAGATTAAGTCACG
1 CAATGCATAAAAAGCAGACACGCAATGATTAAGTCATG
14144730 CAATG
1 CAATG
14144735 TCTAAAAGCC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
38 58 0.91
39 6 0.09
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (38 bp):
CAATGCATAAAAAGCAGACACGCAATGATTAAGTCATG
Found at i:14146665 original size:26 final size:26
Alignment explanation
Indices: 14146599--14146678 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
14146589 ACCGTGTTTA
** **
14146599 AAAAATAATATTGTTACATACCACATT
1 AAAAA-AATATTGTTACACGCCATGTT
* *
14146626 CAAAAAAATGTTGTTACACGCTATGTT
1 -AAAAAAATATTGTTACACGCCATGTT
*
14146653 AAAAAAATATTGTTACATGCCATGTT
1 AAAAAAATATTGTTACACGCCATGTT
14146679 TAAGTTGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
26 23 0.53
27 15 0.35
28 5 0.12
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (26 bp):
AAAAAAATATTGTTACACGCCATGTT
Found at i:14146758 original size:28 final size:29
Alignment explanation
Indices: 14146726--14146788 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
14146716 ATACAAAGAT
* * *
14146726 AAAAACCATGTTATACGTCATGTT-AAAA
1 AAAAAACATGTTACACATCATGTTGAAAA
**
14146754 AAAAAAGTTGTTACACATCATGTTGAAAA
1 AAAAAACATGTTACACATCATGTTGAAAA
14146783 AAAAAA
1 AAAAAA
14146789 GTTATTACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (29 bp):
AAAAAACATGTTACACATCATGTTGAAAA
Found at i:14146777 original size:125 final size:125
Alignment explanation
Indices: 14146627--14146903 Score: 294
Period size: 125 Copynumber: 2.2 Consensus size: 125
14146617 TACCACATTC
* * * * *
14146627 AAAAAAATGTTGTTACACGCTATGTT-AAAAAAATA-TTGTTACATGCCATGTTTAAGTTGTTTA
1 AAAAAAAAGTTGTTACACGCTATGTTAAAAAAAAAAGTTATTACACGCCATGCTT--G-TGTTTA
* * * * * *
14146690 ACTCCAAGAGTTTATGTTC-TAGTGAAATACAAAGATAAAAACCATGTTATACGTCATGTT-AA
63 ACTCCAAGAGTTTA-GATCTTAGTAAAATACAAAGATAAAAACCAAGTTACACGCCATATTGAA
*
14146752 AAAAAAAAGTTGTTACAC-ATCATGTTGAAAAAAAAAAGTTATTACACGCCATGCTTGTGTTTAA
1 AAAAAAAAGTTGTTACACGCT-ATGTT-AAAAAAAAAAGTTATTACACGCCATGCTTGTGTTTAA
* * * * *
14146816 CTCTAATAGTTTAGATCTTAGTAAAATACAAAGATAGATATCAAGTTACACGCCATATTGAA
64 CTCCAAGAGTTTAGATCTTAGTAAAATACAAAGATAAAAACCAAGTTACACGCCATATTGAA
* *
14146878 AAAAAAAAGTTGTTGCGCGCTATGTT
1 AAAAAAAAGTTGTTACACGCTATGTT
14146904 GTGAAAAAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
124 4 0.03
125 73 0.58
126 24 0.19
127 9 0.07
128 15 0.12
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (125 bp):
AAAAAAAAGTTGTTACACGCTATGTTAAAAAAAAAAGTTATTACACGCCATGCTTGTGTTTAACT
CCAAGAGTTTAGATCTTAGTAAAATACAAAGATAAAAACCAAGTTACACGCCATATTGAA
Found at i:14146784 original size:153 final size:153
Alignment explanation
Indices: 14146481--14146800 Score: 344
Period size: 153 Copynumber: 2.1 Consensus size: 153
14146471 AGAAAAGTTA
* * *
14146481 TTATTACATGCCATGTTGAAAAAAAAAATTATTACACGTCATGTTTAAGGTGTTTAACTCCAAAA
1 TTATTACACGCTATGTT--AAAAAAAAATTATTACACGCCATGTTTAAGGTGTTTAACTCCAAAA
* * * *
14146546 GTTTATGTCTTAGTGAAATAAAAAGATAGAGACCAAGTTACATACCGTGTTTAAAAAATAATATT
64 GTTTATGTCTTAGTGAAATAAAAAGATAAAAACCAAGTTA-ATACCATGTTTAAAAAATAAAATT
* * *
14146611 GTTACATACCACATT-CAAAAAAATG
128 GTTACACACCACATTAAAAAAAAAAG
* * * * * *
14146636 TTGTTACACGCTATGTTAAAAAAATATTGTTACATGCCATGTTTAAGTTGTTTAACTCCAAGAGT
1 TTATTACACGCTATGTTAAAAAAAAATTATTACACGCCATGTTTAAGGTGTTTAACTCCAAAAGT
* *
14146701 TTATGT-TCTAGTGAAATACAAAGATAAAAACCATGTT-ATACGTCATG-TTAAAAAA-AAAAGT
66 TTATGTCT-TAGTGAAATAAAAAGATAAAAACCAAGTTAATAC--CATGTTTAAAAAATAAAA-T
* **
14146762 TGTTACACATCATGTTGAAAAAAAAAAG
127 TGTTACACACCACATT-AAAAAAAAAAG
14146790 TTATTACACGC
1 TTATTACACGC
14146801 CATGCTTGTG
Statistics
Matches: 137, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
151 7 0.05
152 22 0.16
153 76 0.55
154 18 0.13
155 14 0.10
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (153 bp):
TTATTACACGCTATGTTAAAAAAAAATTATTACACGCCATGTTTAAGGTGTTTAACTCCAAAAGT
TTATGTCTTAGTGAAATAAAAAGATAAAAACCAAGTTAATACCATGTTTAAAAAATAAAATTGTT
ACACACCACATTAAAAAAAAAAG
Found at i:14146796 original size:29 final size:28
Alignment explanation
Indices: 14146743--14146798 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
14146733 ATGTTATACG
*
14146743 TCATGTTAAAAAAAAAAGTTGTTACACA
1 TCATGTTAAAAAAAAAAGTTATTACACA
14146771 TCATGTTGAAAAAAAAAAGTTATTACAC
1 TCATGTT-AAAAAAAAAAGTTATTACAC
14146799 GCCATGCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (28 bp):
TCATGTTAAAAAAAAAAGTTATTACACA
Found at i:14151543 original size:2 final size:2
Alignment explanation
Indices: 14151536--14151568 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14151526 TATAATGTTG
*
14151536 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14151569 CTATGTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14169140 original size:35 final size:35
Alignment explanation
Indices: 14169036--14169176 Score: 140
Period size: 36 Copynumber: 3.9 Consensus size: 35
14169026 ATTCTTTACG
* * * **
14169036 AATAAAGCCCATATGTGTGGGAAAGAATACCACATG
1 AATAAAACCCAAATGTG-GGGTAAGAATACCACACA
* * * *
14169072 GATTAAACCCAGATGTGGGGGAAAGAATACCACACA
1 AATAAAACCCAAATGT-GGGGTAAGAATACCACACA
*
14169108 AATAAAACCCAAATGTGAGGTAAGAATACCACACA
1 AATAAAACCCAAATGTGGGGTAAGAATACCACACA
*
14169143 AA-AAAAGCCCATATGTGGGGATAAGAATACCACA
1 AATAAAA-CCCAAATGTGGGG-TAAGAATACCACA
14169177 TGTTTTAGAA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
34 4 0.04
35 30 0.34
36 54 0.61
37 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (35 bp):
AATAAAACCCAAATGTGGGGTAAGAATACCACACA
Found at i:14169474 original size:180 final size:179
Alignment explanation
Indices: 14169170--14169530 Score: 713
Period size: 180 Copynumber: 2.0 Consensus size: 179
14169160 GGGATAAGAA
14169170 TACCACATGTTTTAGAACGATCCCCATGTTGGAGTAGGATCTTAGTGAATTAATGTGATTGTGTA
1 TACCACATGTTTTAGAACGATCCCCATGTTGGAGTAGGATCTTAGTGAATTAATGTGATTGTGTA
14169235 AAGCATGGATTTCAAAAATTTATTTTATAAAGGAAACAAGCAATCTAATTACATAAGCGAAAACA
66 AAGCATGGATTTCAAAAATTTATTTTATAAAGGAAACAAGCAATCTAATTACATAAGCGAAAACA
14169300 CACATTATTGTTATTTCAAGTAACATTATCACAAAAAAAAAGAATCTAT
131 CACATTATTGTTATTTCAAGTAACATTATCACAAAAAAAAAGAATCTAT
14169349 TANCCACATGTTTTAGAACGATCCCCATGTTGGAGTAGGATCTTAGTGAATTAATGTGATTGTGT
1 TA-CCACATGTTTTAGAACGATCCCCATGTTGGAGTAGGATCTTAGTGAATTAATGTGATTGTGT
14169414 AAAGCATGGATTTCAAAAATTTATTTTATAAAGGAAACAAGCAATCTAATTACATAAGCGAAAAC
65 AAAGCATGGATTTCAAAAATTTATTTTATAAAGGAAACAAGCAATCTAATTACATAAGCGAAAAC
14169479 ACACATTATTGTTATTTCAAGTAACATTATCACAAAAAAAAAGAATCTAT
130 ACACATTATTGTTATTTCAAGTAACATTATCACAAAAAAAAAGAATCTAT
14169529 TA
1 TA
14169531 AGTAAGAAAA
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 2 0.01
180 179 0.99
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (179 bp):
TACCACATGTTTTAGAACGATCCCCATGTTGGAGTAGGATCTTAGTGAATTAATGTGATTGTGTA
AAGCATGGATTTCAAAAATTTATTTTATAAAGGAAACAAGCAATCTAATTACATAAGCGAAAACA
CACATTATTGTTATTTCAAGTAACATTATCACAAAAAAAAAGAATCTAT
Found at i:14174317 original size:11 final size:11
Alignment explanation
Indices: 14174301--14174325 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14174291 TTCGTATGCG
14174301 ATAAAATAATA
1 ATAAAATAATA
14174312 ATAAAATAATA
1 ATAAAATAATA
14174323 ATA
1 ATA
14174326 TCTTATTGAG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:14174450 original size:19 final size:19
Alignment explanation
Indices: 14174419--14174457 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14174409 GCTAGAGGAA
14174419 AATTTTGGAATAAAAGAAT
1 AATTTTGGAATAAAAGAAT
*
14174438 AATTATTGG-ATAAAATAAT
1 AATT-TTGGAATAAAAGAAT
14174457 A
1 A
14174458 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (19 bp):
AATTTTGGAATAAAAGAAT
Found at i:14177492 original size:27 final size:27
Alignment explanation
Indices: 14177412--14177492 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 27
14177402 GGGCTGTTTG
* *
14177412 ACGTGGCTAGGCCACAGTCTGTGATATAT
1 ACGTGGCAAGGCCACAG-GT-TGATATAT
*
14177441 ATGTGGCAAGGCCACAGGTTG--ATAT
1 ACGTGGCAAGGCCACAGGTTGATATAT
**
14177466 ACGTGGTTAGGCCAC-GAGTTGATATAT
1 ACGTGGCAAGGCCACAG-GTTGATATAT
14177493 GTGGTTTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 1 0.02
25 20 0.47
27 6 0.14
28 1 0.02
29 15 0.35
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (27 bp):
ACGTGGCAAGGCCACAGGTTGATATAT
Found at i:14177497 original size:25 final size:25
Alignment explanation
Indices: 14177437--14177498 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
14177427 AGTCTGTGAT
**
14177437 ATATATGTGGCAAGGCCACAGGTTG
1 ATATATGTGGTTAGGCCACAGGTTG
*
14177462 ATATACGTGGTTAGGCCAC-GAGTTG
1 ATATATGTGGTTAGGCCACAG-GTTG
14177487 ATATATGTGGTT
1 ATATATGTGGTT
14177499 TCAACCACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (25 bp):
ATATATGTGGTTAGGCCACAGGTTG
Found at i:14181269 original size:20 final size:20
Alignment explanation
Indices: 14181244--14181289 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14181234 TTTTGACCCC
14181244 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
14181264 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
14181284 ATTTGA
1 ATTTGA
14181290 GGTTTATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:14191144 original size:20 final size:20
Alignment explanation
Indices: 14191119--14191164 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14191109 TTTTTATCCC
14191119 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
14191139 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
14191159 ATTTGA
1 ATTTGA
14191165 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:14191240 original size:28 final size:27
Alignment explanation
Indices: 14191209--14191261 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14191199 TTTGGAGTAT
*
14191209 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
14191237 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
14191262 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:14191267 original size:28 final size:28
Alignment explanation
Indices: 14191209--14191267 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
14191199 TTTGGAGTAT
* *
14191209 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
14191237 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
14191265 AGG
1 AGG
14191268 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:14201755 original size:43 final size:43
Alignment explanation
Indices: 14201694--14201846 Score: 184
Period size: 43 Copynumber: 3.6 Consensus size: 43
14201684 TTGACTCAGC
* * *
14201694 TATGTGTGATTAGAGAGTGCGCATAAGCCGAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCGAGTGATGACCCGGT
* *
14201737 TATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGATCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCGAGTGATGACCCGGT
* ** *
14201780 TATGTGCGAATAGGGAGTGCGCATAACCCG-GTGATGACCTAGC
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCGAGTGATGACCCGGT
*
14201823 CATGTGCGAGTAGGGAGTGCGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
14201847 GAGCTGGTGA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
42 4 0.04
43 89 0.94
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCGAGTGATGACCCGGT
Found at i:14201856 original size:43 final size:43
Alignment explanation
Indices: 14201738--14201860 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
14201728 TGACCCGGTT
* * **
14201738 ATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGATCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGATCCAGCC
*
14201781 ATGTGCGAATAGGGAGTGCGCATAACCCGGTGATGA-CCTAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGATCC-AGCC
* * *
14201824 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGAT
1 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGAT
14201861 GATGATGGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.03
43 67 0.97
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGATCCAGCC
Found at i:14209800 original size:2 final size:2
Alignment explanation
Indices: 14209795--14209859 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
14209785 CACACACATT
**
14209795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
14209837 TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
14209860 GTAAAATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14213729 original size:2 final size:2
Alignment explanation
Indices: 14213722--14213754 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14213712 ATAATAATAA
14213722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14213755 AAAGAGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14214256 original size:33 final size:33
Alignment explanation
Indices: 14214214--14214276 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
14214204 TGTTATCGTG
14214214 ACTAGCGGTGAGAGTGAAAGTAGAGAGGGTACC
1 ACTAGCGGTGAGAGTGAAAGTAGAGAGGGTACC
14214247 ACTAGCGGTGAGAGTGAAAGTAGAGAGGGT
1 ACTAGCGGTGAGAGTGAAAGTAGAGAGGGT
14214277 GCTACCGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.41, T:0.16
Consensus pattern (33 bp):
ACTAGCGGTGAGAGTGAAAGTAGAGAGGGTACC
Found at i:14214289 original size:33 final size:33
Alignment explanation
Indices: 14214217--14214299 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
14214207 TATCGTGACT
*
14214217 AGCGGTGAGAGTGAAAGTAGAGAGGGTACCACT
1 AGCGGTGAGAGTGAAAGTAGAGAGGGTACCACG
* *
14214250 AGCGGTGAGAGTGAAAGTAGAGAGGGTGCTACCG
1 AGCGGTGAGAGTGAAAGTAGAGAGGGTACCA-CG
*
14214284 A-CGGTGAGAGAGAAAG
1 AGCGGTGAGAGTGAAAG
14214300 AGGAAGGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 43 0.96
34 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.42, T:0.13
Consensus pattern (33 bp):
AGCGGTGAGAGTGAAAGTAGAGAGGGTACCACG
Found at i:14220954 original size:20 final size:20
Alignment explanation
Indices: 14220931--14220976 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
14220921 CTTCTAAACC
*
14220931 TCAAATCATACTTCAATAAG
1 TCAAATCATACTCCAATAAG
*
14220951 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
14220971 TCAAAT
1 TCAAAT
14220977 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:14225203 original size:28 final size:30
Alignment explanation
Indices: 14225145--14225204 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
14225135 TTTTTGAAAT
14225145 TTACACTTTTGCCCCAATAAAAGTGAAAAA
1 TTACACTTTTGCCCCAATAAAAGTGAAAAA
* *
14225175 TTACATTTTTG-CCCAA-AAAATTGAAAAA
1 TTACACTTTTGCCCCAATAAAAGTGAAAAA
14225203 TT
1 TT
14225205 GCCCAAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.46
29 5 0.18
30 10 0.36
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCAATAAAAGTGAAAAA
Found at i:14225946 original size:18 final size:19
Alignment explanation
Indices: 14225918--14225965 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
14225908 GTTGCGAGTG
*
14225918 AAAAGAATATTTT-GAAAT
1 AAAATAATATTTTAGAAAT
* *
14225936 AAAATATTATTTTATAAAT
1 AAAATAATATTTTAGAAAT
14225955 AAAATAATATT
1 AAAATAATATT
14225966 AAAATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAATAATATTTTAGAAAT
Found at i:14228623 original size:178 final size:180
Alignment explanation
Indices: 14228349--14228675 Score: 541
Period size: 179 Copynumber: 1.8 Consensus size: 180
14228339 AGTGAAAGCA
* *
14228349 GTCCAGCTCACTGTTATGACATGAATTTCAGTTTTAATTAACAAGAAAGTCTTGGAAATTAATTC
1 GTCCAGCTCACTGTTATGACATGAATTTCAATTTTAATTAACAAGAAACTCTTGGAAATTAATTC
*
14228414 TGAAAAATTCCAGGAAAATTATCTTTATTAAAATGTTCAATAAGGA-TATTTCTGGAAAATATCA
66 TGAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAGGATTATTTCTGGAAAATATCA
* *
14228478 TGGTCAAACATGCTGATTTCGAGCAAGAAAATTGGTGCAAATATAAATCT
131 TGGCCAAACAAGCTGATTTCGAGCAAGAAAATTGGTGCAAATATAAATCT
* * *
14228528 GTCCAGCTCACTGTTTTGGCATGAATTTCAATTTTAATTGACAAGAAACTCTT-GAAATTAATTC
1 GTCCAGCTCACTGTTATGACATGAATTTCAATTTTAATTAACAAGAAACTCTTGGAAATTAATTC
* * *
14228592 TGAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATGAGGATTATTTCTGGAAATTTTCA
66 TGAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAGGATTATTTCTGGAAAATATCA
14228657 TGGCCAAACAAGCTGATTT
131 TGGCCAAACAAGCTGATTT
14228676 AAGCTATTAA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
178 55 0.40
179 81 0.60
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (180 bp):
GTCCAGCTCACTGTTATGACATGAATTTCAATTTTAATTAACAAGAAACTCTTGGAAATTAATTC
TGAAAAATTCCAGAAAAATTATCTTTATTAAAATGTTCAATAAGGATTATTTCTGGAAAATATCA
TGGCCAAACAAGCTGATTTCGAGCAAGAAAATTGGTGCAAATATAAATCT
Found at i:14229533 original size:121 final size:120
Alignment explanation
Indices: 14229318--14229556 Score: 442
Period size: 121 Copynumber: 2.0 Consensus size: 120
14229308 AAATTAGGAC
* * *
14229318 TTCTAATAATGATTAGAGCTCTACAATTAGTGAATGGATATTACTAGATTAAAAGGTGGATAAAG
1 TTCTAATAATGATTAGAACTCTACAATTAGTGAATGGATAATACAAGATTAAAAGGTGGATAAAG
14229383 ACCTTTCTAAAATATTTAGGACACATGATTTGGATCATGAAACCTTTTAAAATGG
66 ACCTTTCTAAAATATTTAGGACACATGATTTGGATCATGAAACCTTTTAAAATGG
14229438 TNTCTAATAATGATTAGAACTCTACAATTAGTGAATGGATAATACAAGATTAAAAGGTGGATAAA
1 T-TCTAATAATGATTAGAACTCTACAATTAGTGAATGGATAATACAAGATTAAAAGGTGGATAAA
14229503 GACCTTTCTAAAATATTTAGGACACATGATTTGGATCATGAAACCTTTTAAAAT
65 GACCTTTCTAAAATATTTAGGACACATGATTTGGATCATGAAACCTTTTAAAAT
14229557 TGTTTATGAT
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
120 1 0.01
121 114 0.99
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (120 bp):
TTCTAATAATGATTAGAACTCTACAATTAGTGAATGGATAATACAAGATTAAAAGGTGGATAAAG
ACCTTTCTAAAATATTTAGGACACATGATTTGGATCATGAAACCTTTTAAAATGG
Found at i:14231910 original size:33 final size:34
Alignment explanation
Indices: 14231847--14231927 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
14231837 GTAGCTTTGG
* *
14231847 CTGCTGATTTTTTGAAGGAAAAATAGAGCAGCTTAG
1 CTGCTGA--TTTTGAAGGAAAAATAAAGCAGCTTAA
* *
14231883 CTGTTGATTTTG-AGGAGAAATAAAGCAGCTTAA
1 CTGCTGATTTTGAAGGAAAAATAAAGCAGCTTAA
14231916 CTGCTGATTTTG
1 CTGCTGATTTTG
14231928 GTGTGGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 29 0.73
34 5 0.12
36 6 0.15
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (34 bp):
CTGCTGATTTTGAAGGAAAAATAAAGCAGCTTAA
Found at i:14237209 original size:107 final size:106
Alignment explanation
Indices: 14237043--14237260 Score: 314
Period size: 107 Copynumber: 2.1 Consensus size: 106
14237033 CGTAATTAAC
* *
14237043 TAAA-TTGTTTAATTGAATCATTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTA
1 TAAATTTGTTTAATTGAATCATTAGGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCCTA
14237107 ATTAATTAAATTAAAAAATTAAGTTATTAGGCCTAATTGAT
66 ATTAATTAAATTAAAAAATTAAGTTATTAGGCCTAATTGAT
* * * * *
14237148 TGAATTTGTTTAATT-AAGTCATTAGGCCTAGTTGATTCAAATTGTTTAATTAAATTATTGGGCT
1 TAAATTTGTTTAATTGAA-TCATTAGGCCTAATTAATT-AAATTGTTTAATTAAATCATTGGGCC
***
14237212 TAATTAATTAAATTATTTAATTAAGTTATTAGGCCTAATTGAT
64 TAATTAATTAAATTAAAAAATTAAGTTATTAGGCCTAATTGAT
14237255 TAAATT
1 TAAATT
14237261 AAACAATTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
105 5 0.05
106 26 0.26
107 68 0.69
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (106 bp):
TAAATTTGTTTAATTGAATCATTAGGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCCTA
ATTAATTAAATTAAAAAATTAAGTTATTAGGCCTAATTGAT
Found at i:14237261 original size:35 final size:35
Alignment explanation
Indices: 14237012--14237260 Score: 263
Period size: 35 Copynumber: 7.1 Consensus size: 35
14237002 CACTTGATTA
* *
14237012 AAATTGTTTAATTAAGTTA-T--GCGTAATTAACT
1 AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
* *
14237044 AAATTGTTTAATTGAA-TCATTGGGCCTAATTAATT
1 AAATTGTTTAATT-AAGTTATTAGGCCTAATTAATT
* *
14237079 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
**** *
14237114 AAATTAAAAAATTAAGTTATTAGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
* * * *
14237149 GAATTTGTTTAATTAAGTCATTAGGCCTAGTTGATT
1 -AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
* * *
14237185 CAAATTGTTTAATTAAATTATTGGGCTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
* *
14237221 AAATTATTTAATTAAGTTATTAGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
14237256 AAATT
1 AAATT
14237261 AAACAATTAA
Statistics
Matches: 181, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
32 15 0.08
33 3 0.02
34 2 0.01
35 105 0.58
36 56 0.31
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTAGGCCTAATTAATT
Found at i:14239854 original size:38 final size:40
Alignment explanation
Indices: 14239803--14239906 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
14239793 ATAGTGCCCG
*
14239803 TGTGCACGATGTGGGGGGATGTACACAAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACAATGGTGC-CGGATA
* * * *
14239841 TGTGCACAATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACAATGGTGCCGGATA
14239881 TGTGCACGATGTGGGGGGGATGTACA
1 TGTGCACGATGT-GGGGGGATGTACA
14239907 TGAGCCAGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
38 26 0.47
39 4 0.07
40 13 0.24
41 12 0.22
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACAATGGTGCCGGATA
Found at i:14244427 original size:22 final size:20
Alignment explanation
Indices: 14244392--14244434 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
14244382 GTTTTGGCTG
14244392 AGCTTGGTAAAAGCCATTGTAA
1 AGCTTGGTAAAAG-C-TTGTAA
**
14244414 AGCTTGGTGGAAGCTTGTAA
1 AGCTTGGTAAAAGCTTGTAA
14244434 A
1 A
14244435 TTTCACTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (20 bp):
AGCTTGGTAAAAGCTTGTAA
Found at i:14257441 original size:22 final size:22
Alignment explanation
Indices: 14257399--14257439 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14257389 TACCTTTTGT
*
14257399 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
14257421 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
14257440 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:14257497 original size:11 final size:10
Alignment explanation
Indices: 14257452--14257495 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
14257442 CACCTAGGGT
14257452 TTTGTTCTTC
1 TTTGTTCTTC
*
14257462 CTT-TTCTTCC
1 TTTGTTCTT-C
14257472 TTTGTTCTTGC
1 TTTGTTCTT-C
14257483 TTTGTTCTTC
1 TTTGTTCTTC
14257493 TTT
1 TTT
14257496 TGGCCGGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 5 0.17
10 9 0.31
11 15 0.52
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (10 bp):
TTTGTTCTTC
Found at i:14261675 original size:22 final size:22
Alignment explanation
Indices: 14261632--14261675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14261622 TTTAAAACAA
* *
14261632 CTTTAAACCCAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
14261654 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
14261676 ACCACTGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:14265102 original size:43 final size:43
Alignment explanation
Indices: 14265040--14265163 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
14265030 ATTGACTTGG
**
14265040 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGAG-GATGACCCGG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTG-GTGATGACCCAA
*
14265083 TTATGTGCGAGTAGGGAGTGCGCATAA-CTCGGTGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCT-GGTGATGACCCAA
* * *
14265126 CCACGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGA
14265164 TGATGATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.20
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAA
Found at i:14266020 original size:22 final size:22
Alignment explanation
Indices: 14265979--14266019 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14265969 TACCTTTTGT
*
14265979 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
14266001 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
14266020 TTCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:14266065 original size:11 final size:11
Alignment explanation
Indices: 14266032--14266077 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
14266022 CACCTAGGGT
14266032 TTTGTTCTTCC
1 TTTGTTCTTCC
14266043 -TT-TTCTTCC
1 TTTGTTCTTCC
*
14266052 TTTGTTCTTGC
1 TTTGTTCTTCC
14266063 TTTGTTCTTCC
1 TTTGTTCTTCC
14266074 TTTG
1 TTTG
14266078 ACCGGCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.23
10 4 0.13
11 20 0.65
ACGTcount: A:0.00, C:0.24, G:0.11, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:14269071 original size:22 final size:21
Alignment explanation
Indices: 14269023--14269071 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
14269013 ACCCTAGGTG
*
14269023 GAAAAA-TTCAAGGGAAAAGT
1 GAAAAAGTTCAAGGAAAAAGT
**
14269043 GTGAAAGTTCAAGGAAACAAGT
1 GAAAAAGTTCAAGGAAA-AAGT
14269065 GAAAAAG
1 GAAAAAG
14269072 GAAAGATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.27, T:0.14
Consensus pattern (21 bp):
GAAAAAGTTCAAGGAAAAAGT
Found at i:14276248 original size:37 final size:37
Alignment explanation
Indices: 14276180--14276300 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 37
14276170 TGATGTTGGG
* * * * *
14276180 TGATGATG-TTGAGTGTGCAAGCAGGGAGTGCACATA
1 TGATGATGATGGAGTGTGCGAGTAAGGAGTGCACACA
*
14276216 TGATGATGATGGAGTTTGCGAGTAAGGAGTGCACACA
1 TGATGATGATGGAGTGTGCGAGTAAGGAGTGCACACA
* * *
14276253 TGATGATGATAGAGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGATGGAGTGTGCGAGTAAGGAGTGCACACA
*
14276290 TGATGACGATG
1 TGATGATGATG
14276301 TATGTATATG
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
36 8 0.11
37 64 0.89
ACGTcount: A:0.29, C:0.10, G:0.36, T:0.25
Consensus pattern (37 bp):
TGATGATGATGGAGTGTGCGAGTAAGGAGTGCACACA
Found at i:14276512 original size:22 final size:21
Alignment explanation
Indices: 14276482--14276528 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
14276472 GGTGCCTTAC
*
14276482 TTCTCGCTGTAACGAGAAAGCA
1 TTCTCGCTGCAACGAGAAA-CA
* *
14276504 TTCTTGCTGCAGCGAGAAACA
1 TTCTCGCTGCAACGAGAAACA
14276525 TTCT
1 TTCT
14276529 GTTTTGGCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
TTCTCGCTGCAACGAGAAACA
Found at i:14277902 original size:21 final size:21
Alignment explanation
Indices: 14277876--14277922 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14277866 AAAGTGACTA
* *
14277876 TCTCGCTACAGTGATATACAT
1 TCTCGCTACAGAGAAATACAT
**
14277897 TCTCGCTGTAGAGAAATACAT
1 TCTCGCTACAGAGAAATACAT
14277918 TCTCG
1 TCTCG
14277923 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (21 bp):
TCTCGCTACAGAGAAATACAT
Found at i:14278270 original size:43 final size:43
Alignment explanation
Indices: 14278222--14278340 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
14278212 TCACCAGCTC
* ** * *
14278222 ATGCGCACTCCCTACTTGCACATGGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
*
14278265 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
* * *
14278308 ATGCGCATTCCCTACTCGCACATAGCCAAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCA
14278341 ATATAATTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 64 0.98
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:14290115 original size:28 final size:30
Alignment explanation
Indices: 14290079--14290134 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
14290069 TTTCAAGCAT
* *
14290079 AGGGTAAAATAGTCATTTT-C-CCACCCTA
1 AGGGCAAAATAGTAATTTTACACCACCCTA
*
14290107 AGGGCAAAATGGTAATTTTACACCACCC
1 AGGGCAAAATAGTAATTTTACACCACCC
14290135 AACACTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 1 0.04
30 6 0.26
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (30 bp):
AGGGCAAAATAGTAATTTTACACCACCCTA
Found at i:14293002 original size:25 final size:25
Alignment explanation
Indices: 14292968--14293026 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
14292958 CTATGATATA
*
14292968 TATACGTGGCAAGGCCA-TGGGATGT
1 TATACGTGGCAAGGCCACT-AGATGT
* *
14292993 TATACGTGGCTAGGCCACTAGTTGT
1 TATACGTGGCAAGGCCACTAGATGT
14293018 TATACGTGG
1 TATACGTGG
14293027 TTGTGACCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACTAGATGT
Found at i:14304041 original size:15 final size:16
Alignment explanation
Indices: 14304023--14304052 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14304013 AACCATTTTT
14304023 TGTAAAA-CTTTGCAA
1 TGTAAAACCTTTGCAA
14304038 TGTAAAACCTTTGCA
1 TGTAAAACCTTTGCA
14304053 TGAGGTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (16 bp):
TGTAAAACCTTTGCAA
Found at i:14305142 original size:30 final size:31
Alignment explanation
Indices: 14305091--14305157 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
14305081 AGTCTAACCT
* *
14305091 TCTT-TTTTTTTTTTTTCCTTTCTTACTTTC
1 TCTTCTTTTTCTTTCTTCCTTTCTTACTTTC
*
14305121 TCTTCTTTTTCTTTCTT-CTTTCTTCCTTTC
1 TCTTCTTTTTCTTTCTTCCTTTCTTACTTTC
*
14305151 TTTTCTT
1 TCTTCTT
14305158 ACTTGGTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (31 bp):
TCTTCTTTTTCTTTCTTCCTTTCTTACTTTC
Found at i:14307955 original size:22 final size:23
Alignment explanation
Indices: 14307922--14307965 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14307912 GTGATAAAAA
14307922 AAAAGAGAAAAAAAGTGTTGAAC
1 AAAAGAGAAAAAAAGTGTTGAAC
*
14307945 AAAA-AGAAAAAAATTGTTGAA
1 AAAAGAGAAAAAAAGTGTTGAA
14307966 AATGGTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (23 bp):
AAAAGAGAAAAAAAGTGTTGAAC
Found at i:14310851 original size:22 final size:22
Alignment explanation
Indices: 14310826--14310875 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
14310816 CTTGCTGCAA
14310826 CGAGAATCCATTTTCGCTACAG
1 CGAGAATCCATTTTCGCTACAG
* * *
14310848 CGAGAATTCTTTTTCGCTGCAG
1 CGAGAATCCATTTTCGCTACAG
*
14310870 CAAGAA
1 CGAGAA
14310876 ACAAGGCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (22 bp):
CGAGAATCCATTTTCGCTACAG
Found at i:14311205 original size:43 final size:42
Alignment explanation
Indices: 14311144--14311261 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 42
14311134 TTGTCATGTA
* * * *
14311144 CACTCCTTACTCACACATAGCCTGGTCATCATCGGCTTACGAG
1 CACTCCCTACTCGCACATAG-CTGGTCATCATCAGCTCACGAG
* * * *
14311187 CACTCCCTACTCGCACATAGTCGGGTCATCATTAGCTCATGTG
1 CACTCCCTACTCGCACATAG-CTGGTCATCATCAGCTCACGAG
*
14311230 CATTCCC-ACATCGCACATAGCTAGGTCATCAT
1 CACTCCCTAC-TCGCACATAGCT-GGTCATCAT
14311262 TATCACATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.05
43 59 0.95
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (42 bp):
CACTCCCTACTCGCACATAGCTGGTCATCATCAGCTCACGAG
Found at i:14315274 original size:35 final size:35
Alignment explanation
Indices: 14315224--14315294 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
14315214 TCCCACCAAG
* * * * *
14315224 CTTTTACACTGGCTTTTTACAAGCTCAACCACAAC
1 CTTTAACAATGGCTTTTCACAAGATCAACCAAAAC
*
14315259 CTTTAACAATGGCTTTTCCCAAGATCAACCAAAAC
1 CTTTAACAATGGCTTTTCACAAGATCAACCAAAAC
14315294 C
1 C
14315295 CAAAACTAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.31, G:0.08, T:0.28
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTCACAAGATCAACCAAAAC
Found at i:14323856 original size:19 final size:18
Alignment explanation
Indices: 14323832--14323869 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
14323822 GATTTTGAAA
*
14323832 TTTTTATGTTTTGATTCT
1 TTTTTAGGTTTTGATTCT
14323850 NTTTTTAGGTTTTGATTCT
1 -TTTTTAGGTTTTGATTCT
14323869 T
1 T
14323870 AGTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.68
Consensus pattern (18 bp):
TTTTTAGGTTTTGATTCT
Found at i:14335747 original size:28 final size:29
Alignment explanation
Indices: 14335706--14335765 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
14335696 GTCTATGGGC
*
14335706 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
14335734 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
14335764 AA
1 AA
14335766 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:14339958 original size:35 final size:35
Alignment explanation
Indices: 14339913--14339979 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
14339903 TCCCACCAAG
* * *
14339913 CTTTTACAATGGCTTTTCACAAGCTCAGCCACTAC
1 CTTTAACAATGGCTTTTCACAAGATCAACCACTAC
* *
14339948 CTTTAACAATGGTTTTTCCCAAGATCAACCAC
1 CTTTAACAATGGCTTTTCACAAGATCAACCAC
14339980 CCAAAACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTCACAAGATCAACCACTAC
Found at i:14340520 original size:73 final size:73
Alignment explanation
Indices: 14340379--14340594 Score: 294
Period size: 73 Copynumber: 3.0 Consensus size: 73
14340369 AAATTCAATT
* * *
14340379 TTTTTGACAA-AATGCTCTTAGTCGACTAACTATGCTTCTTAGTCGATTAAGTCGTCTCTGTTTT
1 TTTTAGACAATAA-GCTCTTAGTCGACTAACTAAGCTTCTTAGTCGATTAAGTCGTCTCTGTTTC
14340443 TGAACCCAA
65 TGAACCCAA
* * * *
14340452 TTTCTAG-CAATAAGCTCTTAGTCGACTAACTAAACTTCTTAGTCGATTAAGTTGTCTTTGTCTC
1 TTT-TAGACAATAAGCTCTTAGTCGACTAACTAAGCTTCTTAGTCGATTAAGTCGTCTCTGTTTC
14340516 TGAACCCAA
65 TGAACCCAA
* * *
14340525 TTTTTGACAATAAGCTCTTAGTCGACTAAC-AATGCTTATTAGTCGATTAAGTCATCTCTGTTTC
1 TTTTAGACAATAAGCTCTTAGTCGACTAACTAA-GCTTCTTAGTCGATTAAGTCGTCTCTGTTTC
14340589 TGAACC
65 TGAACC
14340595 GACCATCTTC
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
72 4 0.03
73 117 0.94
74 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (73 bp):
TTTTAGACAATAAGCTCTTAGTCGACTAACTAAGCTTCTTAGTCGATTAAGTCGTCTCTGTTTCT
GAACCCAA
Found at i:14345956 original size:28 final size:30
Alignment explanation
Indices: 14345925--14345984 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
14345915 TTTTTCAAAG
* **
14345925 CATAGGGGCAAAATGGTAA-TTTT-ACCAC
1 CATAAGGGCAAAAAAGTAATTTTTCACCAC
14345953 CATAAGGGCAAAAAAGTAATTTTTCACCAC
1 CATAAGGGCAAAAAAGTAATTTTTCACCAC
14345983 CA
1 CA
14345985 GGACATTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.59
29 4 0.15
30 7 0.26
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (30 bp):
CATAAGGGCAAAAAAGTAATTTTTCACCAC
Found at i:14347154 original size:17 final size:17
Alignment explanation
Indices: 14347132--14347167 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14347122 AAATATGAAT
14347132 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
14347149 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
14347166 TT
1 TT
14347168 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:14350489 original size:28 final size:28
Alignment explanation
Indices: 14350433--14350635 Score: 208
Period size: 28 Copynumber: 7.0 Consensus size: 28
14350423 TTAAGACAAC
* * *
14350433 TCTTGTCTTTAATTAAGACAAAAATATGTTA
1 TCTTGTC-TAAATTAAGAC--AAACATGTTT
* *
14350464 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
14350492 TCTTGTCTAGATTTAGACAAAGCATATTTT
1 TCTTGTCTAAATTAAGACAAA-CAT-GTTT
*
14350522 TCTTGTCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
*
14350551 TATTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
* * *
14350580 TCTTTTTTAAATTAAGATAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
14350608 TATTGTCTAAATTAAGACAAAACATGTT
1 TCTTGTCTAAATTAAGAC-AAACATGTT
14350636 AAAGATGGCA
Statistics
Matches: 147, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
28 62 0.42
29 44 0.30
30 22 0.15
31 19 0.13
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:14350602 original size:57 final size:57
Alignment explanation
Indices: 14350443--14350635 Score: 224
Period size: 57 Copynumber: 3.3 Consensus size: 57
14350433 TCTTGTCTTT
* * * * * * *
14350443 AATTAAGACAAAAATATGTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGAC-AAAACATGTTTTCTTTTTTAAATTAAGACAAACATGTTTTATTGTCTA
* * * * * *
14350501 GATTTAGACAAAGCATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTATTGTCTA
1 AATTAAGACAAAACAT-GTTTTCTT-TTTTAAATTAAGACAAACATGTTTTATTGTCTA
* *
14350560 AATTAAGACCAAACATGTTTTCTTTTTTAAATTAAGATAAACATGTTTTATTGTCTA
1 AATTAAGACAAAACATGTTTTCTTTTTTAAATTAAGACAAACATGTTTTATTGTCTA
14350617 AATTAAGACAAAACATGTT
1 AATTAAGACAAAACATGTT
14350636 AAAGATGGCA
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
57 53 0.48
58 20 0.18
59 38 0.34
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.40
Consensus pattern (57 bp):
AATTAAGACAAAACATGTTTTCTTTTTTAAATTAAGACAAACATGTTTTATTGTCTA
Found at i:14358437 original size:10 final size:10
Alignment explanation
Indices: 14358416--14358465 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
14358406 CCATGCCCAC
14358416 TCTTTT-TTT
1 TCTTTTCTTT
14358425 TCTTTTCTTT
1 TCTTTTCTTT
14358435 TCTTTTCTTT
1 TCTTTTCTTT
14358445 T-TTTTCTTCT
1 TCTTTTCTT-T
14358455 T-TTTTCCTTT
1 TCTTTT-CTTT
14358465 T
1 T
14358466 TAAGTTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.34
10 22 0.58
11 3 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTCTTT
Found at i:14358440 original size:19 final size:20
Alignment explanation
Indices: 14358416--14358466 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
14358406 CCATGCCCAC
14358416 TCTTTT-TTTTCTTTTCTT-T
1 TCTTTTCTTTT-TTTTCTTCT
14358435 TCTTTTCTTTTTTTTCTTCT
1 TCTTTTCTTTTTTTTCTTCT
14358455 T-TTTTCCTTTTT
1 TCTTTT-CTTTTT
14358467 AAGTTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TCTTTTCTTTTTTTTCTTCT
Found at i:14358443 original size:24 final size:25
Alignment explanation
Indices: 14358416--14358465 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
14358406 CCATGCCCAC
14358416 TCTTTTTTTTCTT-TTCTTTT-CTTT
1 TCTTTTTTTTCTTCTT-TTTTCCTTT
14358440 TCTTTTTTTTCTTCTTTTTTCCTTT
1 TCTTTTTTTTCTTCTTTTTTCCTTT
14358465 T
1 T
14358466 TAAGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (25 bp):
TCTTTTTTTTCTTCTTTTTTCCTTT
Found at i:14365129 original size:22 final size:22
Alignment explanation
Indices: 14365104--14365145 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14365094 GAGTTATTAG
14365104 AGCTTAATT-TTGATAGTAATTT
1 AGCTTAATTCTTG-TAGTAATTT
*
14365126 AGCTTAGTTCTTGTAGTAAT
1 AGCTTAATTCTTGTAGTAAT
14365146 GCATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (22 bp):
AGCTTAATTCTTGTAGTAATTT
Found at i:14370758 original size:25 final size:24
Alignment explanation
Indices: 14370710--14370772 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
14370700 ATTTAAAAAA
14370710 ATTTAAATAAATTTTTATTCTTTT
1 ATTTAAATAAATTTTTATTCTTTT
*
14370734 ATTT-AATAAATCTTCTTATTTTTTT
1 ATTTAAATAAAT-TT-TTATTCTTTT
14370759 ATTTTAAATCAAAT
1 A-TTTAAAT-AAAT
14370773 AAATTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.21
24 6 0.18
25 10 0.30
26 3 0.09
27 3 0.09
28 4 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTAAATAAATTTTTATTCTTTT
Found at i:14371016 original size:19 final size:21
Alignment explanation
Indices: 14370982--14371028 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
14370972 AAAGAGTGAG
14370982 AATTTATTTAATTTTTTAAAT
1 AATTTATTTAATTTTTTAAAT
14371003 AATTTA-TT-ATTTTTTAAA-
1 AATTTATTTAATTTTTTAAAT
14371021 AATATTAT
1 AAT-TTAT
14371029 ATCTATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 2 0.08
21 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTATTTAATTTTTTAAAT
Found at i:14371436 original size:4 final size:4
Alignment explanation
Indices: 14371427--14371458 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
14371417 TCCTCACCCA
*
14371427 CTTT CTTT CTTT CTTT CTTT CTTT CCTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
14371459 TGCATTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:14386363 original size:21 final size:21
Alignment explanation
Indices: 14386322--14386364 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14386312 AAATATAAAA
*
14386322 TTAAATAAATTTATATTCTTT
1 TTAAATAAATTTATATACTTT
*
14386343 TTAATATAAATTTTTA-ACTTT
1 TTAA-ATAAATTTATATACTTT
14386364 T
1 T
14386365 CAATTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATAAATTTATATACTTT
Found at i:14387449 original size:20 final size:20
Alignment explanation
Indices: 14387410--14387449 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14387400 GGAAATTCAT
* *
14387410 ATAAATATATCAATATATTC
1 ATAAATATAACAATACATTC
*
14387430 ATAAATATAACGATACATTC
1 ATAAATATAACAATACATTC
14387450 CTAGTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAAATATAACAATACATTC
Found at i:14390284 original size:20 final size:20
Alignment explanation
Indices: 14390259--14390298 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14390249 AAATTTTAAA
* *
14390259 TTAGTTTTATTTTTAGTTTT
1 TTAGTTTTAATTTTAATTTT
14390279 TTAGTTTTAATTTTAATTTT
1 TTAGTTTTAATTTTAATTTT
14390299 AATTGTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (20 bp):
TTAGTTTTAATTTTAATTTT
Found at i:14394092 original size:23 final size:23
Alignment explanation
Indices: 14394049--14394092 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14394039 TCATGATAAT
*
14394049 TAATTAATTTAATTAGTTTAAAA
1 TAATTAATTTAATTAATTTAAAA
14394072 TAATTAA-TTAATTAATATTAA
1 TAATTAATTTAATTAAT-TTAA
14394093 TCACACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTAATTTAATTAATTTAAAA
Found at i:14400518 original size:19 final size:19
Alignment explanation
Indices: 14400494--14400531 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14400484 ACTTCTTAAC
14400494 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14400513 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14400532 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14401424 original size:57 final size:56
Alignment explanation
Indices: 14401349--14401485 Score: 220
Period size: 57 Copynumber: 2.4 Consensus size: 56
14401339 AGGAAGTCTT
14401349 CGGTTGCATACTAGCAAGGAAAAGAAAAGAAAACATAATGCCCCGAGACCAAAGCA
1 CGGTTGCATACTAGCAAGGAAAAGAAAAGAAAACATAATGCCCCGAGACCAAAGCA
* * * *
14401405 CTGGTTGCATACTAACAAGGAAAAGAAAAGAAAGCATAATGCCCCTAGCCCAAAGCA
1 C-GGTTGCATACTAGCAAGGAAAAGAAAAGAAAACATAATGCCCCGAGACCAAAGCA
14401462 CGGCTTGCATACTAGCAAGGAAAA
1 CGG-TTGCATACTAGCAAGGAAAA
14401486 TTAAAGCTGT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 3 0.04
57 71 0.96
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (56 bp):
CGGTTGCATACTAGCAAGGAAAAGAAAAGAAAACATAATGCCCCGAGACCAAAGCA
Found at i:14402444 original size:31 final size:31
Alignment explanation
Indices: 14402371--14402445 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
14402361 TTCAAATTGA
*
14402371 AGGTTATACCTTAACCATTAAAAGGTAGAGTT
1 AGGTTATACTTTAACCATTAAAAGGTAGAG-T
*
14402403 A-GTTATACTTTAACCATTAAAAAGTTAGAG-
1 AGGTTATACTTTAACCATT-AAAAGGTAGAGT
*
14402433 AGGTTAAACTTTA
1 AGGTTATACTTTA
14402446 GCTTTGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 26 0.68
32 11 0.29
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (31 bp):
AGGTTATACTTTAACCATTAAAAGGTAGAGT
Found at i:14403738 original size:11 final size:11
Alignment explanation
Indices: 14403722--14403757 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
14403712 AAAAATATTT
14403722 GGATTTGCAAC
1 GGATTTGCAAC
14403733 GGATTTGCAAC
1 GGATTTGCAAC
14403744 GGATTTGCAAC
1 GGATTTGCAAC
14403755 GGA
1 GGA
14403758 CTTATACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (11 bp):
GGATTTGCAAC
Found at i:14404086 original size:83 final size:85
Alignment explanation
Indices: 14403891--14404061 Score: 204
Period size: 85 Copynumber: 2.0 Consensus size: 85
14403881 TATAGTTTCC
* * * * * *
14403891 AATTTCCAATGGAAAATTCCATTGGAAATTCCGTTGGAACATAAAACTTTTAAAAAAATTGTTCA
1 AATTTCC-ATCGAAAATTCCGTTGGAAATTCCATCGGAACATAAAACTTTAAAAAAAAATGTTCA
14403956 ATCTTTTTACAATTTCCAACG
65 ATCTTTTTACAATTTCCAACG
* * *
14403977 GATTTCCATCGAAAATTTTCGTTGGAAA-TCCATCGGAACATTAAACTTTAAAAAAAAAT-TT-A
1 AATTTCCATCGAAAA-TTCCGTTGGAAATTCCATCGGAACATAAAACTTTAAAAAAAAATGTTCA
* *
14404039 ATTTTTTTACAGTTTCCAACG
65 ATCTTTTTACAATTTCCAACG
14404060 AA
1 AA
14404062 ATTTTCCGTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
83 21 0.29
84 2 0.03
85 33 0.46
86 16 0.22
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (85 bp):
AATTTCCATCGAAAATTCCGTTGGAAATTCCATCGGAACATAAAACTTTAAAAAAAAATGTTCAA
TCTTTTTACAATTTCCAACG
Found at i:14405387 original size:13 final size:13
Alignment explanation
Indices: 14405369--14405393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14405359 TTTCAAAAAA
14405369 TTTATAAAATCAT
1 TTTATAAAATCAT
14405382 TTTATAAAATCA
1 TTTATAAAATCA
14405394 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14425498 original size:19 final size:19
Alignment explanation
Indices: 14425474--14425511 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14425464 ACTTCTCAAC
14425474 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14425493 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14425512 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14436783 original size:59 final size:59
Alignment explanation
Indices: 14436712--14436829 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
14436702 TGTCCCTTAA
14436712 AAGCCTTCTTTAATATAATATATTAGCAATATCATTTGTTTCCTGTTTTAAGTTTATAG
1 AAGCCTTCTTTAATATAATATATTAGCAATATCATTTGTTTCCTGTTTTAAGTTTATAG
14436771 AAGCCTTCTTTAATATAATATATTAGCAATATCATTTGTTTCCTGTTTTAAGTTTATAG
1 AAGCCTTCTTTAATATAATATATTAGCAATATCATTTGTTTCCTGTTTTAAGTTTATAG
14436830 TGGTATGTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (59 bp):
AAGCCTTCTTTAATATAATATATTAGCAATATCATTTGTTTCCTGTTTTAAGTTTATAG
Found at i:14442549 original size:17 final size:17
Alignment explanation
Indices: 14442527--14442576 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
14442517 TTTTTCAATG
14442527 TAATTTTGCTTAAGATT
1 TAATTTTGCTTAAGATT
* *
14442544 TAA-TTT--TTCA-ATG
1 TAATTTTGCTTAAGATT
14442557 TAATTTTGCTTAAGATT
1 TAATTTTGCTTAAGATT
14442574 TAA
1 TAA
14442577 AAATTATGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
16 6 0.24
17 8 0.32
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (17 bp):
TAATTTTGCTTAAGATT
Found at i:14442551 original size:30 final size:30
Alignment explanation
Indices: 14442515--14442576 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14442505 CTTGAATGAA
14442515 AATTTTTCAATGTAATTTTGCTTAAGATTT
1 AATTTTTCAATGTAATTTTGCTTAAGATTT
14442545 AATTTTTCAATGTAATTTTGCTTAAGATTT
1 AATTTTTCAATGTAATTTTGCTTAAGATTT
14442575 AA
1 AA
14442577 AAATTATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (30 bp):
AATTTTTCAATGTAATTTTGCTTAAGATTT
Found at i:14448675 original size:56 final size:57
Alignment explanation
Indices: 14448589--14448701 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 57
14448579 AAGAAAACTA
* * *
14448589 GAATAACACAATCTTATTTCACCAAGTCAAGTTATAGTACATCTTATGGTTC-TATT
1 GAATAACACAATCTTATTTCACCAAGTCAAGTTATAGGACACCTTATGATTCATATT
* *
14448645 GAATAACACAATCTTATTTCATCAAGTCAAGTTGTAGGACACCTTATGATTCATATT
1 GAATAACACAATCTTATTTCACCAAGTCAAGTTATAGGACACCTTATGATTCATATT
14448702 AAATCAAGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 47 0.92
57 4 0.08
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (57 bp):
GAATAACACAATCTTATTTCACCAAGTCAAGTTATAGGACACCTTATGATTCATATT
Found at i:14455089 original size:11 final size:12
Alignment explanation
Indices: 14455059--14455088 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14455049 ACAATTTTGG
14455059 ATTTTTTATTTA
1 ATTTTTTATTTA
*
14455071 ATTTTTTATTTT
1 ATTTTTTATTTA
14455083 ATTTTT
1 ATTTTT
14455089 AGGGTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTTTTATTTA
Done.