Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 204 of 235
Found at i:69407000 original size:13 final size:13
Alignment explanation
Indices: 69406982--69407011 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
69406972 TTACATAATA
69406982 CATAAATATATAT
1 CATAAATATATAT
69406995 CATAAATATATAT
1 CATAAATATATAT
69407008 CATA
1 CATA
69407012 TCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:69407018 original size:56 final size:56
Alignment explanation
Indices: 69406957--69407167 Score: 352
Period size: 56 Copynumber: 3.8 Consensus size: 56
69406947 TAATAACTTA
*
69406957 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* * *
69407013 CATAACTTACACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
69407069 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCATAAATATATATCATAT
69407126 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
69407168 TCATAACTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
55 1 0.01
56 91 0.63
57 51 0.35
58 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:69407127 original size:113 final size:112
Alignment explanation
Indices: 69406957--69407167 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
69406947 TAATAACTTA
69406957 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
*
69407022 CACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
66 CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
* *
69407069 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTATCATAACT
1 CATAACTTACAAAACTTACATAATACAT--AAATATATATCATAAATATATATCATATCATAACT
*
69407133 TACACAACTTACATAATACATAAATATATATCATA
64 TACACAACTAACATAATACATAAATATATATCATA
69407168 TCATAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (112 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
Found at i:69407204 original size:113 final size:109
Alignment explanation
Indices: 69406936--69407192 Score: 342
Period size: 113 Copynumber: 2.3 Consensus size: 109
69406926 TAATATTTAT
*
69406936 TATATATCATATAATAACTTACATAACTTACA-AAACTTACATAATACATAAATATATATCATAA
1 TATATATCATATAATAACTTACATATCTTACATAAACTTACATAATACATAAATATATATCATAA
69407000 ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
66 ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
69407044 TATATTTCATA-AATATGTATCATATCATAACTTACA-CAACTTACATAATAC-TCCAAATATAT
1 TATATATCATATAATA---A-CTTA-CATATCTTACATAAACTTACATAATACAT--AAATATAT
* *
69407106 ATCATAAATATATATCTTATCATAACTTACACAACTTACATAATACATAAA
59 ATCATAAATATATATCATATCATAACTTACACAACTAACATAATACATAAA
* *
69407157 TATATATCATATCATAACTTACATGTCTTACATAAA
1 TATATATCATATAATAACTTACATATCTTACATAAA
69407193 TGTATATCAT
Statistics
Matches: 129, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
107 4 0.03
108 10 0.08
109 9 0.07
110 6 0.05
111 5 0.04
112 25 0.19
113 67 0.52
114 3 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (109 bp):
TATATATCATATAATAACTTACATATCTTACATAAACTTACATAATACATAAATATATATCATAA
ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:69407218 original size:9 final size:9
Alignment explanation
Indices: 69407121--69407241 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
69407111 AAATATATAT
69407121 CTTATCATAA
1 CTTA-CATAA
*
69407131 CTTACACAA
1 CTTACATAA
69407140 CTTACATAA
1 CTTACATAA
69407149 --TACATAA
1 CTTACATAA
* * *
69407156 -ATATATAT
1 CTTACATAA
*
69407164 CATATCATAA
1 CTTA-CATAA
**
69407174 CTTACATGT
1 CTTACATAA
69407183 CTTACATAA
1 CTTACATAA
* * *
69407192 ATGTATATCA
1 CT-TACATAA
*
69407202 -TAACATAA
1 CTTACATAA
69407210 CTTACATAA
1 CTTACATAA
69407219 CTTACA-AA
1 CTTACATAA
*
69407227 GCTTACTTAA
1 -CTTACATAA
69407237 CTTAC
1 CTTAC
69407242 GTAATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 17 0.20
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (9 bp):
CTTACATAA
Found at i:69407223 original size:36 final size:36
Alignment explanation
Indices: 69407138--69407224 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
69407128 TAACTTACAC
*
69407138 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
** *
69407172 AACTTACATGTCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
69407208 AACTTACATAACTTACA
1 AACTTACATAACTTACA
69407225 AAGCTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.20
36 36 0.80
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:69412887 original size:21 final size:21
Alignment explanation
Indices: 69412810--69412906 Score: 117
Period size: 21 Copynumber: 4.6 Consensus size: 21
69412800 ACTTAGAGCG
* *
69412810 GAGGCAGCAGAGAGGGAGGTA
1 GAGGCAGCAGCGAGGGAGGCA
69412831 GCA-GCAGCAGCGAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
69412852 GCGGCAGCAGTGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
69412873 GAGGTA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
69412894 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
69412907 TGGCAGCAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 61 0.95
22 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.51, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:69413316 original size:43 final size:42
Alignment explanation
Indices: 69413288--69413445 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 42
69413278 TTTGCCATAA
* * *
69413288 AAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGCCTTTCCAAC
1 AAACGCCGCTAAAGGCCATGGCTTTTAGCGGCG-CTTTCCAAC
*
69413331 AAACGCCGCTAAAGGCCGTGGCTTTTAGCGGCGCCTTTCCAAC
1 AAACGCCGCTAAAGGCCATGGCTTTTAGCGGCG-CTTTCCAAC
*
69413374 AAACACCGCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAAC
1 AAACGCCGCTAAAGGCCATGGCTTTTAGCGGCG-CTTTCCAAC
69413417 AAACGCCGCTAAAGGCCATGGCTTTTAGC
1 AAACGCCGCTAAAGGCCATGGCTTTTAGC
69413446 AGCGTTTTTT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGGCCATGGCTTTTAGCGGCGCTTTCCAAC
Found at i:69413414 original size:86 final size:86
Alignment explanation
Indices: 69413288--69413445 Score: 271
Period size: 86 Copynumber: 1.8 Consensus size: 86
69413278 TTTGCCATAA
* * *
69413288 AAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCGTGGC
1 AAACACCGCTAAAAGCCATGACTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGC
69413353 TTTTAGCGGCGCCTTTCCAAC
66 TTTTAGCGGCGCCTTTCCAAC
* *
69413374 AAACACCGCTAAAGGCCATGGCTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGC
1 AAACACCGCTAAAAGCCATGACTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGC
69413439 TTTTAGC
66 TTTTAGC
69413446 AGCGTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (86 bp):
AAACACCGCTAAAAGCCATGACTTTTAGCGGCGCCTTTCCAACAAACGCCGCTAAAGGCCATGGC
TTTTAGCGGCGCCTTTCCAAC
Found at i:69415255 original size:41 final size:41
Alignment explanation
Indices: 69415131--69415256 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 41
69415121 AAAATGATAC
* * ** *
69415131 TTTGCGGTGTTTTTCTCAT-AGTGCCACTAATGCTTAACCT
1 TTTGAGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
* * **
69415171 TTGGCGGTATTTTTCTCATAAACATCACTAATGCTTGACCT
1 TTTGAGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
* *
69415212 TTTGATGTATTTTTCTCATAAACGCCGCTAATGCTTGACCT
1 TTTGAGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
69415253 TTTG
1 TTTG
69415257 TAGCGTTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 17 0.24
41 55 0.76
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (41 bp):
TTTGAGGTATTTTTCTCATAAACGCCACTAATGCTTGACCT
Found at i:69417576 original size:29 final size:28
Alignment explanation
Indices: 69417518--69417578 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
69417508 GATTTCGCGG
* *
69417518 AAAATGGCCTATTCCGGTAAATAATCAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
*
69417546 AAAATCGGCCCATTTCGGTAAATTAA-AAA
1 AAAAT-GGCCCATTCCGGTAAA-TAATAAA
69417575 AAAA
1 AAAA
69417579 GGGCTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 20 0.71
30 3 0.11
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:69419401 original size:24 final size:24
Alignment explanation
Indices: 69419373--69419424 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
69419363 CTAGAAAGTC
** *
69419373 AAATAAACTATGCTAATAAATTCT
1 AAATAAACTACACTAATAAATACT
* *
69419397 AAATATATTACACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
69419421 AAAT
1 AAAT
69419425 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:69421827 original size:49 final size:50
Alignment explanation
Indices: 69421751--69421995 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
69421741 TAGACAAGGC
* * *
69421751 TATCTGGTACACATAGTAGCCT-CTACTTAGTACTACATATGCGA-CCAAT
1 TATCTGGTACACGTAGTAGCCTGC-ACTTAGTACTACACACGCGACCCAAT
* * *
69421800 TATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCCAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCCAAT
* * * * * *
69421850 CATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCCAA-T
* * * * *
69421901 TATCAGGTACGCATATTAGCCTGCACTTAGTACTACACATGCGA-CCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCCAAT
* *
69421950 TATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
69421996 TCACAATAGA
Statistics
Matches: 162, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 76 0.47
50 51 0.31
51 35 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCCAAT
Found at i:69421990 original size:100 final size:99
Alignment explanation
Indices: 69421752--69421995 Score: 294
Period size: 100 Copynumber: 2.5 Consensus size: 99
69421742 AGACAAGGCT
* * * * * *
69421752 ATCTGGTACACATAGTAGCCT-CTACTTAGTACTACATATGCGACCAATTATCTGGTACACGTAG
1 ATCTGGTACACGTAGTAGCCTGC-ACTTAGTACTACACACGTGACCAATTATCAGGTACACATAG
* *
69421816 TAGCCTGTACTTAGTACTACACACGTGACCCAACC
65 TAGCCTGCACTTAGTACTACACACGCGACCCAACC
* * * *
69421851 ATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTATCAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
* * **
69421916 TTAGCCTGCACTTAGTACTACACATGCGA-CCAATT
64 GTAGCCTGCACTTAGTACTACACACGCGACCCAACC
*
69421951 ATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
69421996 TCACAATAGA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 36 0.30
100 48 0.39
101 38 0.31
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCCAACC
Found at i:69423356 original size:13 final size:13
Alignment explanation
Indices: 69423340--69423364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69423330 TGAACGAAAT
69423340 TTTCATGAAATTA
1 TTTCATGAAATTA
69423353 TTTCATGAAATT
1 TTTCATGAAATT
69423365 GTAGACCATA
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTCATGAAATTA
Found at i:69424560 original size:24 final size:24
Alignment explanation
Indices: 69424528--69424580 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
69424518 AATATGGAGA
69424528 TAAAAAACTAAACCCCAAAAACCC
1 TAAAAAACTAAACCCCAAAAACCC
**
69424552 TAAAAAACTAAACCCTGAAAACCC
1 TAAAAAACTAAACCCCAAAAACCC
*
69424576 GAAAA
1 TAAAA
69424581 CAAAGAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.28, G:0.04, T:0.09
Consensus pattern (24 bp):
TAAAAAACTAAACCCCAAAAACCC
Found at i:69424727 original size:24 final size:24
Alignment explanation
Indices: 69424699--69424750 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
69424689 TTAGCAAGTC
*
69424699 AAATAAACTACGCTAATAAATACT
1 AAATAAACTACACTAATAAATACT
* * *
69424723 AAATATATTATACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
69424747 AAAT
1 AAAT
69424751 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:69426693 original size:24 final size:24
Alignment explanation
Indices: 69426666--69426717 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
69426656 TTAGCAAGTC
*
69426666 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
69426690 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
69426714 AAAT
1 AAAT
69426718 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:69431374 original size:50 final size:49
Alignment explanation
Indices: 69431299--69431399 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 49
69431289 AACTCCTACC
*
69431299 TTATTTAACCTCCAAGATAGCCGAATGCCCTAGACCAATTTCCTTCCTCT
1 TTATTTAACCTCCAAGATAGCCGAATGCCCTAGA-CAAATTCCTTCCTCT
69431349 TTATTTAACCTCCAAGATAGCCGAATGCCCTAGACAAATTCCTTCCTCT
1 TTATTTAACCTCCAAGATAGCCGAATGCCCTAGACAAATTCCTTCCTCT
69431398 TT
1 TT
69431400 CCCTTTTGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 16 0.32
50 34 0.68
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TTATTTAACCTCCAAGATAGCCGAATGCCCTAGACAAATTCCTTCCTCT
Found at i:69432389 original size:30 final size:30
Alignment explanation
Indices: 69432353--69432439 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 30
69432343 CCCAACACTT
69432353 CGAATTTGGGATGACTTACCTTAAAAGTGC
1 CGAATTTGGGATGACTTACCTTAAAAGTGC
*
69432383 CGAATTTTAGGCGGGTATTG-TTTACCTTAAAAGTGC
1 CGAA-TTT----GGG-A-TGACTTACCTTAAAAGTGC
69432419 CGAATTTGGGATGACTTACCT
1 CGAATTTGGGATGACTTACCT
69432440 CGACTGTACC
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
29 2 0.04
30 11 0.23
31 6 0.13
35 6 0.13
36 20 0.43
37 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (30 bp):
CGAATTTGGGATGACTTACCTTAAAAGTGC
Found at i:69442756 original size:43 final size:42
Alignment explanation
Indices: 69442622--69442770 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 42
69442612 TGTGATTTCG
*
69442622 TGTATGACCATGTCTGGGAC-GTTGGCATCA-ATTTGAGATCTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCATATTT--GAT-TACA
* *
69442666 TGTAAGACCATGTCTGGGACA-TCGACATCATATTTGATTTCA
1 TGTAAGACCATGTCTGGGACAGT-GGCATCATATTTGATTACA
*
69442708 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATATTTGATTACA
*
69442751 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
69442771 GTTGCCATTG
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
42 28 0.30
43 35 0.38
44 25 0.27
45 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTACA
Found at i:69446652 original size:47 final size:47
Alignment explanation
Indices: 69446593--69446765 Score: 256
Period size: 47 Copynumber: 3.7 Consensus size: 47
69446583 GTGAATGTGT
* *
69446593 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGC
* *
69446640 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGC
* * *
69446687 ATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATATGAACATGC
1 ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGC
* * *
69446734 ATATATGTGGTAAAGCCAAATGGCTAATGTGA
1 ATATATGTGATAAGGCCAAATGGCCAATGTGA
69446766 AATGTGTATG
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGC
Found at i:69446672 original size:22 final size:22
Alignment explanation
Indices: 69446601--69446672 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
69446591 GTATATATGA
69446601 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
69446623 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
69446648 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
69446670 GAT
1 GAT
69446673 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:69446898 original size:52 final size:48
Alignment explanation
Indices: 69446735--69446921 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
69446725 TGAACATGCA
* *
69446735 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
69446783 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
69446831 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
69446883 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
69446922 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 41 0.33
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:69446901 original size:100 final size:96
Alignment explanation
Indices: 69446736--69446921 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
69446726 GAACATGCAT
* *
69446736 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
69446801 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
69446832 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCAAATGGCT-AATGTG--A-A-ATATATATGAGATATGTATATGTGGTAAA
*
69446896 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
69446922 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
98 1 0.01
99 1 0.01
100 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:69447175 original size:37 final size:37
Alignment explanation
Indices: 69447067--69447175 Score: 166
Period size: 37 Copynumber: 2.9 Consensus size: 37
69447057 GGAAATATAT
* *
69447067 TCCGGGTAAGACCTGATGACTAT-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACT-TCGTGTGGAGATTTTG
*
69447104 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
*
69447141 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
69447176 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
Found at i:69448109 original size:34 final size:34
Alignment explanation
Indices: 69448071--69448143 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
69448061 AGTGACAGTC
* *
69448071 CAGTATCAGT-TAGGGCCATAGCCCATTACAGTAT
1 CAGTATCAGTAT-GGGCCATAGCCCAATACAGTAA
*
69448105 CAGTATCAGTATGGGCCTTAGCCCAATACAGTAA
1 CAGTATCAGTATGGGCCATAGCCCAATACAGTAA
69448139 CAGTA
1 CAGTA
69448144 ATGCAATCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (34 bp):
CAGTATCAGTATGGGCCATAGCCCAATACAGTAA
Found at i:69451477 original size:40 final size:40
Alignment explanation
Indices: 69451415--69452276 Score: 1656
Period size: 40 Copynumber: 21.6 Consensus size: 40
69451405 AACCCAAGTA
* * *
69451415 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
69451454 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451494 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451534 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451574 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451614 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451654 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451694 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451734 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451774 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451814 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451854 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451894 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451934 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69451974 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452014 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452054 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452094 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452134 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452174 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452214 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69452254 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69452277 CATTCGAATA
Statistics
Matches: 814, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 12 0.01
40 801 0.98
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:69460700 original size:40 final size:40
Alignment explanation
Indices: 69460626--69460746 Score: 167
Period size: 40 Copynumber: 3.0 Consensus size: 40
69460616 AACCCAAGTA
*
69460626 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
69460665 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
* *
69460705 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
69460745 CC
1 CC
69460747 ATATATCAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.16
40 58 0.78
41 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:69463782 original size:52 final size:52
Alignment explanation
Indices: 69463725--69463829 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
69463715 ATTGCATGGG
* * *
69463725 ATGGGATATATATATTATTAGAAGAGGTGTACTGAAAGACTATAAGTCTATT
1 ATGGGATATATATATTATTAGAAGAAGTGTACTAAAAGACTATAAGCCTATT
* * *
69463777 ATGGGATATATATATTATTGGAGGAAGTGTACTAAAAGGCTATAAGCCTATT
1 ATGGGATATATATATTATTAGAAGAAGTGTACTAAAAGACTATAAGCCTATT
69463829 A
1 A
69463830 CTGGCAGCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (52 bp):
ATGGGATATATATATTATTAGAAGAAGTGTACTAAAAGACTATAAGCCTATT
Found at i:69471277 original size:20 final size:20
Alignment explanation
Indices: 69471239--69471277 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
69471229 CCTCTTAAAG
*
69471239 AATTAAATCCTACATTTAAT
1 AATTAAATCCTACAATTAAT
69471259 AATTAAAT-CTACTAATTAA
1 AATTAAATCCTAC-AATTAA
69471278 GTTCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAATCCTACAATTAAT
Found at i:69481866 original size:40 final size:41
Alignment explanation
Indices: 69481788--69481868 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
69481778 TTAGTACCAT
69481788 CTCAAATAGCCAAAGCTACCTCAGTATCGCACACTTAGTGC
1 CTCAAATAGCCAAAGCTACCTCAGTATCGCACACTTAGTGC
* * *
69481829 CTCATATAGCCAAAGCTA-TTCCA-TTTCGCACACTTAGTGC
1 CTCAAATAGCCAAAGCTACCT-CAGTATCGCACACTTAGTGC
69481869 TATTTATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 17 0.47
41 19 0.53
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (41 bp):
CTCAAATAGCCAAAGCTACCTCAGTATCGCACACTTAGTGC
Found at i:69483892 original size:43 final size:42
Alignment explanation
Indices: 69483845--69483966 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 42
69483835 TCCTAGACGT
* * *
69483845 GGTCTTAAATGAAATCACATATCGATGCCACTGTCCGAAACAA
1 GGTCTTACATGAAATCACA-ATCGATGCCAATGTCCCAAACAA
* * * * * *
69483888 GGTCTTACATGAACTCATAAACGATGCTAATGTCCCAGACAT
1 GGTCTTACATGAAATCACAATCGATGCCAATGTCCCAAACAA
*
69483930 GGTCTTACACGCAAATCACAAATCGATG-CATATGTCC
1 GGTCTTACATG-AAATCAC-AATCGATGCCA-ATGTCC
69483967 TAGACGTGGA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 27 0.44
43 22 0.35
44 13 0.21
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGAAATCACAATCGATGCCAATGTCCCAAACAA
Found at i:69483934 original size:42 final size:43
Alignment explanation
Indices: 69483826--69483994 Score: 128
Period size: 43 Copynumber: 3.9 Consensus size: 43
69483816 AGCTCGTACA
* * * * *
69483826 ATGCCAACGTCCTAGACGTGGTCTTAAATGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACATAACG
* * * * * *
69483869 ATGCCACTGTCCGAAACAAGGTCTTACATGAACTCATA-AACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACATAACG
* *
69483911 ATGCTAATGTCCCAGACATGGTCTTACACGCAAATCACA-AATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAATCACATAA-CG
* * ** *
69483955 ATG-CATATGTCCTAGACGTGGAGTTACACGAAATCACATA
1 ATGCCA-ATGTCCCAGACATGGTCTTACATGAAATCACATA
69483995 TCGGAATCTT
Statistics
Matches: 99, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
42 27 0.27
43 46 0.46
44 26 0.26
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACATAACG
Found at i:69486616 original size:27 final size:27
Alignment explanation
Indices: 69486578--69486729 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
69486568 GGGGTGAAAT
69486578 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** *
69486605 AATGACCGAAATACCCTTATAGGGCAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
69486632 AATGACCAAAACACCCCTATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
69486659 AATGACCGATATATCTCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** *
69486686 AATGACCGAAATTGCCCCATACGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
69486713 AATGACTGTAATACCCC
1 AATGACCGAAATACCCC
69486730 TGTAAGGTAA
Statistics
Matches: 101, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:69486715 original size:81 final size:81
Alignment explanation
Indices: 69486578--69486741 Score: 204
Period size: 81 Copynumber: 2.0 Consensus size: 81
69486568 GGGGTGAAAT
* *
69486578 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTTATAGGGCAAAATGACCAAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATACGGCAAAATGACCAAAA
69486643 CACCCCTATAAGGTAA
66 CACCCCTATAAGGTAA
* * * * * ***
69486659 AATGACCGATATATCTCCATAGGGTAAAATGACCGAAATTGCCC-CATACGGTAAAATGACTGTA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAA-TACCCTCATACGGCAAAATGACCAAA
* *
69486723 ATACCCCTGTAAGGTAA
65 ACACCCCTATAAGGTAA
69486740 AA
1 AA
69486742 GACTGTTTAG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
81 66 0.94
82 4 0.06
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (81 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATACGGCAAAATGACCAAAA
CACCCCTATAAGGTAA
Found at i:69486821 original size:54 final size:54
Alignment explanation
Indices: 69486738--69486845 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
69486728 CCTGTAAGGT
* * *
69486738 AAAAGACTGTTTAGCCATTATGTGTTAAAATAACGATTTTGCCCTTATATGGTA
1 AAAAGACAGTTTAGCCATTATGAGGTAAAATAACGATTTTGCCCTTATATGGTA
* * * ** *
69486792 AAAAGACAGTTTTGCCCTTATGAGGTAAAATGATTATTTTGCCCTTATGTGGTA
1 AAAAGACAGTTTAGCCATTATGAGGTAAAATAACGATTTTGCCCTTATATGGTA
69486846 GGATGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (54 bp):
AAAAGACAGTTTAGCCATTATGAGGTAAAATAACGATTTTGCCCTTATATGGTA
Found at i:69486851 original size:27 final size:27
Alignment explanation
Indices: 69486735--69486869 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 27
69486725 ACCCCTGTAA
* * *
69486735 GGTAAAA-GACTGTTTAGCCATTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
69486761 GTTAAAATAACGATTTTGCCCTTATAT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
69486788 GGTAAAAAGAC-AGTTTTGCCCTTATGA
1 GGTAAAATGACTA-TTTTGCCCTTATGT
*
69486815 GGTAAAATGATTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * *
69486842 GGTAGGATGACTATTTTTCCCCTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
69486869 G
1 G
69486870 ATGTATGTTT
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 7 0.08
27 78 0.91
28 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:69487183 original size:18 final size:18
Alignment explanation
Indices: 69487160--69487205 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
69487150 TGCTTACCGG
* *
69487160 TACTGCAATGTTTGCTGT
1 TACTGCAATGTTTACTAT
*
69487178 TACTGCATTGTTTACTAT
1 TACTGCAATGTTTACTAT
*
69487196 TATTGCAATG
1 TACTGCAATG
69487206 GGCCAAGGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (18 bp):
TACTGCAATGTTTACTAT
Found at i:69489380 original size:9 final size:9
Alignment explanation
Indices: 69489368--69489403 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
69489358 GAAAAAATGG
69489368 AAAAAATAA
1 AAAAAATAA
69489377 AAAAAATAA
1 AAAAAATAA
69489386 ATAAATAATAA
1 A-AAA-AATAA
69489397 AAAAAAT
1 AAAAAAT
69489404 TCTGTGGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.52
10 6 0.24
11 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATAA
Found at i:69492929 original size:44 final size:42
Alignment explanation
Indices: 69492879--69493031 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
69492869 TGTGTTCTCG
* *
69492879 TGTAAGACCATGTCTGGGACGTTGGCATTGACTTATGATTTACC
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TT-TGATTTACA
*
69492923 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGATTTACA
* * *
69492965 TGTATGACCCTGTCTGGGACAG-AGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCG--ATTTGATTTACA
*
69493008 TGTAAGACCACGTCTGGGACGTTG
1 TGTAAGACCATGTCTGGGACGTTG
69493032 CCATTGTATG
Statistics
Matches: 93, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
42 29 0.31
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTTGATTTACA
Found at i:69495597 original size:27 final size:26
Alignment explanation
Indices: 69495562--69495673 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
69495552 AGCATGGCTG
* *
69495562 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
69495588 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
69495616 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
69495643 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
69495670 CCAG
1 CCAG
69495674 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:69495626 original size:54 final size:54
Alignment explanation
Indices: 69495562--69495673 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
69495552 AGCATGGCTG
* *
69495562 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAGCCA
* * *
69495616 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
69495670 CCAG
1 CCAG
69495674 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
Found at i:69503842 original size:16 final size:16
Alignment explanation
Indices: 69503821--69503853 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
69503811 ATGTAACGCC
*
69503821 CCAAAAATCCCGAAAT
1 CCAAAAATCCCAAAAT
69503837 CCAAAAATCCCAAAAT
1 CCAAAAATCCCAAAAT
69503853 C
1 C
69503854 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCAAAAT
Found at i:69505112 original size:16 final size:16
Alignment explanation
Indices: 69505074--69505112 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69505064 ATGAATCGTC
*
69505074 AAAAGCCGAAATGCTA
1 AAAAGCTGAAATGCTA
*
69505090 AAAAGCTGAAATGCTG
1 AAAAGCTGAAATGCTA
69505106 AAAAGCT
1 AAAAGCT
69505113 AAAAGTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (16 bp):
AAAAGCTGAAATGCTA
Found at i:69505397 original size:29 final size:29
Alignment explanation
Indices: 69505328--69505438 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
69505318 GTGAGCATGA
* *
69505328 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
69505356 ATATCAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* * * *
69505385 ATAAGAATATGAACTGGG-CAAGATAGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* *
69505414 ATTTGAATAAG-ATTGGGCCTAGTGG
1 ATATGAATATGAATTGGGCCTAGTGG
69505439 ATCATGTGCA
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
28 14 0.22
29 51 0.78
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:69505733 original size:25 final size:27
Alignment explanation
Indices: 69505705--69505755 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
69505695 AAACCGTAAT
*
69505705 TAAGGG-AATAAT-ACCAAAATGCCCC
1 TAAGGGAAAAAATGACCAAAATGCCCC
69505730 TAAGGGAAAAAATGACCAAAATGCCC
1 TAAGGGAAAAAATGACCAAAATGCCC
69505756 TTAGGTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 5 0.22
27 12 0.52
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.14
Consensus pattern (27 bp):
TAAGGGAAAAAATGACCAAAATGCCCC
Found at i:69508967 original size:40 final size:39
Alignment explanation
Indices: 69508923--69509145 Score: 215
Period size: 39 Copynumber: 5.6 Consensus size: 39
69508913 GCTCCTCGTT
*
69508923 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
69508963 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
69509003 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* *
69509042 CAAATGCCTT-GGGGCTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * * * *
69509081 CAAATGCCTTC-GGATCTTAGTCCAGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGTATAGT-AATTCGCA
69509122 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
69509146 ACATCATTCA
Statistics
Matches: 156, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
38 4 0.03
39 68 0.44
40 68 0.44
41 15 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
Found at i:69509040 original size:39 final size:40
Alignment explanation
Indices: 69508923--69509146 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
69508913 GCTCCTCGTT
* *
69508923 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
69508963 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
69509003 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
69509042 CAAATGCCTT-GGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
69509081 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
69509122 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69509147 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
38 3 0.02
39 70 0.43
40 73 0.45
41 17 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:69509090 original size:78 final size:80
Alignment explanation
Indices: 69508923--69509146 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
69508913 GCTCCTCGTT
*
69508923 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
69508988 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
69509003 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTT-GGGGCTTAGCCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
*
69509064 GGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCA
* * * * * * *
69509081 CAAATGCCTTC-GGATCTTAGTCCAGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCC
69509144 GGA
64 GGA
69509147 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
77 2 0.02
78 39 0.31
79 45 0.36
80 37 0.30
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:69509130 original size:118 final size:120
Alignment explanation
Indices: 69508923--69509146 Score: 282
Period size: 118 Copynumber: 1.9 Consensus size: 120
69508913 GCTCCTCGTT
* *
69508923 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
*
69508988 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
69509042 CAAATGCCTT-GGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
69509103 CAGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CAGAT-TTAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
69509147 CATCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
117 6 0.07
118 54 0.59
119 31 0.34
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:69513805 original size:40 final size:38
Alignment explanation
Indices: 69513756--69513862 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 38
69513746 TACTAGCTCA
* *
69513756 AAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAGTACCAGCACG
*
69513796 AAGCCTGCGGGATTTAACCCGGATATGCATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATAT--AGTACCAGCACG
69513836 AAGCCTGCGGGATTTAACCCGGATATA
1 AAGCCTGCGGGATTTAACCCGGATATA
69513863 TAATATATCA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
38 10 0.16
39 5 0.08
40 47 0.76
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAGTACCAGCACG
Found at i:69516820 original size:40 final size:40
Alignment explanation
Indices: 69516765--69516909 Score: 272
Period size: 40 Copynumber: 3.6 Consensus size: 40
69516755 CGGATGATAA
69516765 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
69516805 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
69516845 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
69516885 CCGGGCTAAGTCCCGAATGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
69516910 AGTGAGTAGC
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:69516923 original size:80 final size:80
Alignment explanation
Indices: 69516765--69516942 Score: 270
Period size: 80 Copynumber: 2.2 Consensus size: 80
69516755 CGGATGATAA
*
69516765 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
69516830 TGCGAGTTACTATAT
66 AGCGAGTTACTATAT
*
69516845 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAATGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
69516910 AGTGAG-TAGCTATAT
66 AGCGAGTTA-CTATAT
* * *
69516925 -CTGGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
69516943 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 17 0.19
80 73 0.81
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATAT
Found at i:69522951 original size:40 final size:39
Alignment explanation
Indices: 69522907--69523100 Score: 253
Period size: 40 Copynumber: 4.9 Consensus size: 39
69522897 GGATATAGCT
* * * *
69522907 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
69522947 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
*
69522987 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
69523027 ACTCGCACAAATGCCTCCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GGTTTAGTA
* *
69523067 GCTCGCACAAATGCCTTCTGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
69523101 ATCATCCGAA
Statistics
Matches: 139, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 133 0.96
41 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:69529790 original size:53 final size:53
Alignment explanation
Indices: 69529619--69529814 Score: 167
Period size: 53 Copynumber: 3.6 Consensus size: 53
69529609 AGGATATCAA
* * * * * * * ** *
69529619 GTAAAACCATGCCAAGACATGACATTGGTAAGTTTTACAAGGCAAGGAAATAAT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAAGATACCAC
* * * * * * *
69529673 GTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAGATACCAC
** * *
69529728 GTAAGACCATGCCAAGGTATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
*
69529781 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
69529815 TAAAAAGGAA
Statistics
Matches: 112, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
53 45 0.40
54 29 0.26
55 38 0.34
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
Found at i:69533894 original size:17 final size:18
Alignment explanation
Indices: 69533867--69533900 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
69533857 AATTAAATAT
69533867 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
69533885 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
69533901 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:69539613 original size:27 final size:27
Alignment explanation
Indices: 69539575--69539631 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
69539565 TATTTTAGTT
*
69539575 GTTAGCTTGAGTCCTACCTAGCCCATG
1 GTTAGCTTGAGTCCTAACTAGCCCATG
*
69539602 GTTAGCTTGAGTTCTAACTAGCCCATG
1 GTTAGCTTGAGTCCTAACTAGCCCATG
69539629 GTT
1 GTT
69539632 GAAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
GTTAGCTTGAGTCCTAACTAGCCCATG
Found at i:69540786 original size:40 final size:41
Alignment explanation
Indices: 69540724--69540970 Score: 196
Period size: 40 Copynumber: 6.2 Consensus size: 41
69540714 CGGATGATAA
* **
69540724 CCGGTCTAAGTCCCG-AGAGCATTTAAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTAATAT
* * *
69540764 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTAATAT
* * * *
69540804 CTGGGCTAAGTCTCGAAGGCGTTTGTGC--G-AGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA--ATAT
* *
69540844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT---TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
* ** *
69540882 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
* *
69540923 CCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
69540963 CC-GGCTAA
1 CCGGGCTAA
69540971 ACTCCGAAGG
Statistics
Matches: 169, Mismatches: 24, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 39 0.23
40 117 0.69
41 5 0.03
42 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
Found at i:69540929 original size:79 final size:80
Alignment explanation
Indices: 69540764--69540947 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 80
69540754 GTGGCTAATT
* * * *
69540764 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCTGGGCTAAGTCTCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
69540829 TGCGAGCTATTATAT
66 TGCAAGCTACTATAA
* *
69540844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
69540908 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
*
69540923 CCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
69540948 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 57 0.61
80 36 0.39
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCAAGCTACTATAA
Found at i:69540969 original size:79 final size:78
Alignment explanation
Indices: 69540764--69540970 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 78
69540754 GTGGCTAATT
* * * *
69540764 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCTGGGCTAAGTCTCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC-CGGCTAAGTCCCGAAGGCATTTG
* * *
69540829 TGCGAGCTATTATAT
64 TGCAAGCTACTATAA
*
69540844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTG
*
69540908 TGCAAGTTACTATAA
64 TGCAAGCTACTATAA
* * * *
69540923 CCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
69540971 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 70 0.64
80 38 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAA
Found at i:69545481 original size:22 final size:22
Alignment explanation
Indices: 69545439--69545483 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
69545429 TTATTAACCC
*
69545439 AAATTAAATTGGATATAAATTA
1 AAATTAAATTAGATATAAATTA
*
69545461 AAATT-AATTAGATTATGAATTA
1 AAATTAAATTAGA-TATAAATTA
69545483 A
1 A
69545484 TACAGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (22 bp):
AAATTAAATTAGATATAAATTA
Found at i:69546798 original size:2 final size:2
Alignment explanation
Indices: 69546791--69546830 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
69546781 ATCTCTTCAC
*
69546791 CA CA CA CA CA CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
69546831 TTTATTCCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:69549109 original size:40 final size:39
Alignment explanation
Indices: 69549065--69549289 Score: 308
Period size: 40 Copynumber: 5.7 Consensus size: 39
69549055 GCCACTAGCT
69549065 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
69549105 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
69549144 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
69549184 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** *
69549224 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
69549264 CAAATG-CTTCCGGGACTTAGCCCGGT
1 CAAATGCCTT-CGGGACTTAGCCCGGT
69549290 TATCATCCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 42 0.25
40 127 0.75
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:69549164 original size:79 final size:78
Alignment explanation
Indices: 69549065--69549289 Score: 308
Period size: 79 Copynumber: 2.8 Consensus size: 78
69549055 GCCACTAGCT
69549065 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
69549130 TATAATAACTCGCA
65 TATAATAACTCGCA
* * *
69549144 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
69549209 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * ** *
69549224 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCACAAATG-CTTCCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTT-CGGGACTTAGCCCG
69549288 GT
64 GT
69549290 TATCATCCGA
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 66 0.51
80 63 0.49
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:69559568 original size:52 final size:50
Alignment explanation
Indices: 69559469--69559569 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 50
69559459 ATTAAGACAT
* *
69559469 CATGTTAGTTAAGTTTGCATCATAAATTATGACATGCACTATGTAACTCC
1 CATGTTAGTTAAGTTTGCATCATAAATTAAGACATGCACTAAGTAACTCC
* *
69559519 CATGTTAGTTAAAGTTTGCATCATTAAATTAAGTCATGTA-TAAAGTAACTC
1 CATGTTAGTT-AAGTTTGCATCA-TAAATTAAGACATGCACT-AAGTAACTC
69559570 ATTTGTTCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 10 0.23
51 13 0.30
52 21 0.48
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (50 bp):
CATGTTAGTTAAGTTTGCATCATAAATTAAGACATGCACTAAGTAACTCC
Found at i:69562991 original size:21 final size:21
Alignment explanation
Indices: 69562978--69563026 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
69562968 ATGATGAATC
69562978 CGGCTTCTAAGATGGATCAAT
1 CGGCTTCTAAGATGGATCAAT
*
69562999 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCTAAGATGGATCAAT
69563020 CGGCTTC
1 CGGCTTC
69563027 CTTGGAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (21 bp):
CGGCTTCTAAGATGGATCAAT
Found at i:69564106 original size:18 final size:18
Alignment explanation
Indices: 69564083--69564118 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69564073 GCTAAACAAG
69564083 TTACATAACATAGACTAA
1 TTACATAACATAGACTAA
69564101 TTACATAACATAGACTAA
1 TTACATAACATAGACTAA
69564119 CTATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TTACATAACATAGACTAA
Found at i:69567557 original size:41 final size:41
Alignment explanation
Indices: 69567498--69567579 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
69567488 TATACTCCTC
*
69567498 ATTCCTGCTATCAGTCTCATCAAAATAAGGTTTTAAACGGG
1 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAAACGGG
*
69567539 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAATCGGG
1 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAAACGGG
69567580 TGTTGTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (41 bp):
ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAAACGGG
Found at i:69576413 original size:48 final size:48
Alignment explanation
Indices: 69576346--69576573 Score: 193
Period size: 48 Copynumber: 4.9 Consensus size: 48
69576336 CACATGGTAG
* *
69576346 GATGCCAATGCCATATCCCAGATATGATCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATCACATATC
* * * ** **
69576394 AATGCCAATGTCATGTCCCAGACA-CAGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGA-TCTTACATGGGATCACATATC
* *
69576442 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATCACATATC
* * ** * *
69576490 GATGCCGAT---A-G-CCTC-G-CTATGGTCTTACATGAAATTACATACC
1 GATGCCAATGCCATGTCC-CAGAC-ATGATCTTACATGGGATCACATATC
* * *
69576533 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATC
69576574 GCACATAACC
Statistics
Matches: 139, Mismatches: 30, Indels: 22
0.73 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 30 0.22
44 2 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 101 0.73
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATCACATATC
Found at i:69585281 original size:114 final size:114
Alignment explanation
Indices: 69585135--69585365 Score: 462
Period size: 114 Copynumber: 2.0 Consensus size: 114
69585125 AGACATGGGC
69585135 TTTGAAGAACACGAAGCAACGATCACAAAAACGTAGAAATTATCAAAAACAGATGAAAATTCATA
1 TTTGAAGAACACGAAGCAACGATCACAAAAACGTAGAAATTATCAAAAACAGATGAAAATTCATA
69585200 CCTTAATCGAGGATTAAGCTAGCCGAATATCAAAACCCAATTTGATTCT
66 CCTTAATCGAGGATTAAGCTAGCCGAATATCAAAACCCAATTTGATTCT
69585249 TTTGAAGAACACGAAGCAACGATCACAAAAACGTAGAAATTATCAAAAACAGATGAAAATTCATA
1 TTTGAAGAACACGAAGCAACGATCACAAAAACGTAGAAATTATCAAAAACAGATGAAAATTCATA
69585314 CCTTAATCGAGGATTAAGCTAGCCGAATATCAAAACCCAATTTGATTCT
66 CCTTAATCGAGGATTAAGCTAGCCGAATATCAAAACCCAATTTGATTCT
69585363 TTT
1 TTT
69585366 TTCTTGCATC
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (114 bp):
TTTGAAGAACACGAAGCAACGATCACAAAAACGTAGAAATTATCAAAAACAGATGAAAATTCATA
CCTTAATCGAGGATTAAGCTAGCCGAATATCAAAACCCAATTTGATTCT
Found at i:69587958 original size:39 final size:39
Alignment explanation
Indices: 69587914--69588228 Score: 504
Period size: 39 Copynumber: 8.1 Consensus size: 39
69587904 ATTATATTAT
* * *
69587914 CAGCACAAAGCCTACGAGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
*
69587953 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
* *
69587992 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
*
69588031 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
* *
69588070 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
*
69588109 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
* *
69588148 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
* *
69588187 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTTC
1 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
69588226 CAG
1 CAG
69588229 TGTCTTGCAT
Statistics
Matches: 253, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 253 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
Found at i:69588043 original size:78 final size:78
Alignment explanation
Indices: 69587914--69588228 Score: 576
Period size: 78 Copynumber: 4.0 Consensus size: 78
69587904 ATTATATTAT
* * ** *
69587914 CAGCACAAAGCCTACGAGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
69587979 CCGGATACATTTC
66 CCGGATACATTTC
69587992 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
69588057 CCGGATACATTTC
66 CCGGATACATTTC
69588070 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
69588135 CCGGATACATTTC
66 CCGGATACATTTC
69588148 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
*
69588213 CTGGATACATTTC
66 CCGGATACATTTC
69588226 CAG
1 CAG
69588229 TGTCTTGCAT
Statistics
Matches: 231, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 231 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (78 bp):
CAGCACGAAGCCTACGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTC
Found at i:69602108 original size:20 final size:20
Alignment explanation
Indices: 69602083--69602123 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69602073 TATAGGTAGC
* *
69602083 AATTTTTCAATTGATTTTAA
1 AATTTTTCAATCGAGTTTAA
*
69602103 AATTTTTTAATCGAGTTTAA
1 AATTTTTCAATCGAGTTTAA
69602123 A
1 A
69602124 CAGTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
AATTTTTCAATCGAGTTTAA
Found at i:69603226 original size:44 final size:44
Alignment explanation
Indices: 69603176--69603263 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
69603166 AGTAACCTAC
* *
69603176 TTATGAGGTAACTATAAGCAAATTAGAATAGTTAAAAGGGAAAG
1 TTATGAGGTAACTATAAGCAAATTAGAATAGATAAAAGAGAAAG
69603220 TTATGAGGTAACTATAAGCAAATTAGAATAGATAAAAGAGAAAG
1 TTATGAGGTAACTATAAGCAAATTAGAATAGATAAAAGAGAAAG
69603264 AGAAATACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.50, C:0.05, G:0.22, T:0.24
Consensus pattern (44 bp):
TTATGAGGTAACTATAAGCAAATTAGAATAGATAAAAGAGAAAG
Found at i:69604188 original size:61 final size:61
Alignment explanation
Indices: 69604089--69604294 Score: 168
Period size: 61 Copynumber: 3.4 Consensus size: 61
69604079 ACTAGGAAAG
** ** *
69604089 GGAAAGCCTTTGTGGTGAGT-CTTAGATGTTAAGGAATGCCTTTATGACACAACTCTGGACA
1 GGAAAGCCTTTGTGGCAAGTAC-TAGATAATAAGAAATGCCTTTATGACACAACTCTGGACA
* * * * * * *
69604150 GGAAAGTCTTTTTGGTGAA-TACTAGATATTAATAAATGCCTTTGT-AGCACAACTTTGGACA
1 GGAAAGCCTTTGTGG-CAAGTACTAGATAATAAGAAATGCCTTTATGA-CACAACTCTGGACA
* * * * **
69604211 TGAAAGCCTTTGTGGCAAGTACTGGATAATAAGGAATGCCTTTATGGCACAACTCTAAAC-
1 GGAAAGCCTTTGTGGCAAGTACTAGATAATAAGAAATGCCTTTATGACACAACTCTGGACA
* *
69604271 GAGAAAGCCTTTATGGCGAGTACT
1 G-GAAAGCCTTTGTGGCAAGTACT
69604295 TAATGAAAAA
Statistics
Matches: 114, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
60 3 0.03
61 109 0.96
62 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (61 bp):
GGAAAGCCTTTGTGGCAAGTACTAGATAATAAGAAATGCCTTTATGACACAACTCTGGACA
Found at i:69609655 original size:21 final size:21
Alignment explanation
Indices: 69609630--69609682 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
69609620 TTGCAAGCTC
**
69609630 ACACGCCCGTGTGGTCCAAGG
1 ACACGCCCGTGTGACCCAAGG
* * *
69609651 GCACGCCCTTGTGACCCTAGG
1 ACACGCCCGTGTGACCCAAGG
69609672 ACACGCCCGTG
1 ACACGCCCGTG
69609683 CTACTGCCTG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAGG
Found at i:69614486 original size:40 final size:40
Alignment explanation
Indices: 69614450--69614544 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
69614440 CGGCTATTTG
69614450 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* * * * * *
69614490 TGGCACTTAGTGTACGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* *
69614530 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
69614545 GAGGCATTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
Found at i:69618916 original size:51 final size:51
Alignment explanation
Indices: 69618840--69618937 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
69618830 CTTTCGATGA
*
69618840 ATTTGACATAGTTCTGGGAATGGATTGGTTAACTCTGCATGATGCTATTGT
1 ATTTGACATAATTCTGGGAATGGATTGGTTAACTCTGCATGATGCTATTGT
*
69618891 ATTTGACATAATTCTGGGAATGGATTGGTTAACTTTGCATGATGCTA
1 ATTTGACATAATTCTGGGAATGGATTGGTTAACTCTGCATGATGCTA
69618938 CTGTGAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (51 bp):
ATTTGACATAATTCTGGGAATGGATTGGTTAACTCTGCATGATGCTATTGT
Found at i:69622276 original size:40 final size:40
Alignment explanation
Indices: 69622131--69622277 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
69622121 TACTAGCTCA
* * *
69622131 AAGCCTGCGGAACTTTAAGCCCGGATA-CAA-TACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAAATTACCAGCACG
*
69622171 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATAAATTACCAGCACG
69622211 AAGCCTGCGGGATTTAACCCGGATATAAATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATAAATTACCAGCACG
*
69622251 AAGCTTGCGGGATTTAACCCGGATATA
1 AAGCCTGCGGGATTTAACCCGGATATA
69622278 TAATATATCA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
38 8 0.08
39 6 0.06
40 85 0.86
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATAAATTACCAGCACG
Found at i:69623771 original size:85 final size:85
Alignment explanation
Indices: 69623673--69623843 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
69623663 AACTAAAAAA
*
69623673 ATTAACCCACAACATTTTAAATTCATCTTATTCCTCCCCCTTTTGACCGAATGAATATATATATC
1 ATTAAACCACAACATTTTAAATTCATCTTATTCCTCCCCCTTTTGACCGAATGAATATATATATC
69623738 AAATGAAAACTCAACTAAAC
66 AAATGAAAACTCAACTAAAC
69623758 ATTAAACCACAACATTTTAAATTCATCTTATTCCTCCCCCTTTTGACCGAATGAATATATATATC
1 ATTAAACCACAACATTTTAAATTCATCTTATTCCTCCCCCTTTTGACCGAATGAATATATATATC
69623823 AAATGAAAACTCAACTAAAC
66 AAATGAAAACTCAACTAAAC
69623843 A
1 A
69623844 ACAACATTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.32
Consensus pattern (85 bp):
ATTAAACCACAACATTTTAAATTCATCTTATTCCTCCCCCTTTTGACCGAATGAATATATATATC
AAATGAAAACTCAACTAAAC
Found at i:69630262 original size:40 final size:38
Alignment explanation
Indices: 69630218--69630324 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 38
69630208 TACTAGCTCA
* *
69630218 AAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAGTACCAGCACG
* * *
69630258 AAGCCTGCGGGATCTAACCCGGATATACATTACCAGTACG
1 AAGCCTGCGGGATTTAACCCGGATAT--AGTACCAGCACG
*
69630298 AAGCCTACGGGATTTAACCCGGATATA
1 AAGCCTGCGGGATTTAACCCGGATATA
69630325 TAATATATCG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.17
39 4 0.07
40 44 0.76
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAGTACCAGCACG
Found at i:69636999 original size:28 final size:28
Alignment explanation
Indices: 69636959--69637022 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
69636949 TGGGAAGTAG
* * *
69636959 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGACCATATGAACGAGA
*
69636987 TTGGGCCTGATGGACCATGTGAACGAGA
1 TTGGGCCTGATGGACCATATGAACGAGA
69637015 TTGGGCCT
1 TTGGGCCT
69637023 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGACCATATGAACGAGA
Found at i:69637797 original size:27 final size:27
Alignment explanation
Indices: 69637347--69637811 Score: 447
Period size: 27 Copynumber: 17.3 Consensus size: 27
69637337 AGAAATTATT
* * *
69637347 GAAATACTCTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * **
69637374 AAAATATCCC-CAATTTGTAAAATTGTC
1 GAAATA-CCCTCGATTTGTAAAATTACC
* *
69637401 GAAATACCCTC-AATTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
69637427 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
69637454 GAAATACCCCCGATTTTTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
69637481 GAAACACGCTTGATTGGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
69637508 AAAATACCC-CTAATTTGTAAAATTACT
1 GAAATACCCTC-GATTTGTAAAATTACC
* * *
69637535 GAAATACCTTC-AATTGTGAAATTA-C
1 GAAATACCCTCGATTTGTAAAATTACC
* *
69637560 TAAAGTACCCTCAATTTGTAAAATTACC
1 GAAA-TACCCTCGATTTGTAAAATTACC
* * ** *
69637588 AAAATACTCTTAATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
69637615 AAAACACCCTCGATTTGTAAACTTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
69637642 GAAACACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
69637669 GAAATACCCTTGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
69637696 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
69637723 AAAATACCCTCGATTAGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
69637750 GAAATACCCCCGATTTATAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
69637777 AAAATACCCTTG-TAGTGTAAAATTACT
1 GAAATACCCTCGAT-TTGTAAAATTACC
69637804 GAAATACC
1 GAAATACC
69637812 TTTGTAACGC
Statistics
Matches: 361, Mismatches: 68, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
25 3 0.01
26 43 0.12
27 308 0.85
28 7 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:69639215 original size:93 final size:93
Alignment explanation
Indices: 69639100--69639270 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
69639090 GCCCCTAAGT
* * *
69639100 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
69639165 TGAGTTCGGATGCCTGGTTACATCTCAC
66 CGAGTTCGGATGCCTGGTTACATCTCAC
* * *
69639193 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
69639258 CGAGTTCGGATGC
66 CGAGTTCGGATGC
69639271 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTGGTTACATCTCAC
Found at i:69639257 original size:46 final size:46
Alignment explanation
Indices: 69639095--69639267 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
69639085 AACCCGCCCC
* * * *
69639095 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
69639141 TAAATGAACTCGGGCTCAACTCAATGAGTTCGGATGCCTGGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CAT--TTGCATCCA
* *
69639189 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
69639234 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69639268 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 58 0.56
47 27 0.26
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:69642212 original size:47 final size:48
Alignment explanation
Indices: 69642161--69642257 Score: 169
Period size: 47 Copynumber: 2.0 Consensus size: 48
69642151 CGTAATACCG
*
69642161 CTTAATAATAGTTTAAACATTAAACAACTAGTGAGCAAATA-TTGCTT
1 CTTAATAATAATTTAAACATTAAACAACTAGTGAGCAAATATTTGCTT
*
69642208 CTTAATAATAATTTAAACATTAGACAACTAGTGAGCAAATATTTGCTT
1 CTTAATAATAATTTAAACATTAAACAACTAGTGAGCAAATATTTGCTT
69642256 CT
1 CT
69642258 ATTTTGCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 39 0.83
48 8 0.17
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (48 bp):
CTTAATAATAATTTAAACATTAAACAACTAGTGAGCAAATATTTGCTT
Found at i:69644774 original size:14 final size:14
Alignment explanation
Indices: 69644755--69644782 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69644745 CCATCTCTAC
69644755 TTAACACTATCCTA
1 TTAACACTATCCTA
69644769 TTAACACTATCCTA
1 TTAACACTATCCTA
69644783 AAATTAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAACACTATCCTA
Found at i:69651366 original size:18 final size:16
Alignment explanation
Indices: 69651335--69651369 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
69651325 TTGGACAAAA
69651335 ATTTTAATATTTTTTT
1 ATTTTAATATTTTTTT
69651351 ATTTTGAATAATTTTTTT
1 ATTTT-AAT-ATTTTTTT
69651369 A
1 A
69651370 AAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 3 0.18
18 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTTAATATTTTTTT
Found at i:69654244 original size:50 final size:50
Alignment explanation
Indices: 69654169--69654271 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
69654159 TGCCATTGAC
*
69654169 ATAATAAAAGGGTTATACAAACTTCGGTTAAGTCAATTGCTGATGTCTGG
1 ATAATAAAAGGGTTATACAAACTTCGGTTAAGTCAATTGCTAATGTCTGG
69654219 ATAATAAAAGGGTTATACAAACTTCGGTTAAGTCAATTGCTAATGTCTGG
1 ATAATAAAAGGGTTATACAAACTTCGGTTAAGTCAATTGCTAATGTCTGG
69654269 ATA
1 ATA
69654272 TTGACTTCAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (50 bp):
ATAATAAAAGGGTTATACAAACTTCGGTTAAGTCAATTGCTAATGTCTGG
Found at i:69656405 original size:12 final size:12
Alignment explanation
Indices: 69656388--69656412 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69656378 TTGTTAAAAG
69656388 TTAACGTGTTAT
1 TTAACGTGTTAT
69656400 TTAACGTGTTAT
1 TTAACGTGTTAT
69656412 T
1 T
69656413 GGAATAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAACGTGTTAT
Found at i:69669444 original size:12 final size:12
Alignment explanation
Indices: 69669427--69669460 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
69669417 CGGCCTGTCC
69669427 ATATTAATTTTT
1 ATATTAATTTTT
*
69669439 ATATTATTTTTT
1 ATATTAATTTTT
69669451 ATA-TAATTTT
1 ATATTAATTTT
69669461 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:69669618 original size:30 final size:31
Alignment explanation
Indices: 69669582--69669644 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
69669572 CAACTTAACA
*
69669582 AACAAA-TGTCTTTAAAATAATAACAAAATT
1 AACAAATTATCTTTAAAATAATAACAAAATT
69669612 AACAAATTATCTTTAAAATAATAACAAAATT
1 AACAAATTATCTTTAAAATAATAACAAAATT
69669643 AA
1 AA
69669645 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.30
Consensus pattern (31 bp):
AACAAATTATCTTTAAAATAATAACAAAATT
Found at i:69670685 original size:14 final size:15
Alignment explanation
Indices: 69670666--69670694 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69670656 TTAGTATAAT
69670666 TAAATA-TTAAAAAA
1 TAAATATTTAAAAAA
69670680 TAAATATTTAAAAAA
1 TAAATATTTAAAAAA
69670695 AAGATACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATATTTAAAAAA
Found at i:69671460 original size:22 final size:23
Alignment explanation
Indices: 69671434--69671487 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
69671424 CTTTTTAAAT
*
69671434 TTTTTATCATTTTTATTTATTTA
1 TTTTTATCATTTATATTTATTTA
*
69671457 TTTTTAT-AATTATATTTATTT-
1 TTTTTATCATTTATATTTATTTA
*
69671478 TTTTTCTCAT
1 TTTTTATCAT
69671488 CAACTTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.23
22 13 0.50
23 7 0.27
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTATCATTTATATTTATTTA
Found at i:69672802 original size:52 final size:52
Alignment explanation
Indices: 69672744--69672852 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
69672734 CCGTTAATCC
*
69672744 CTATTCATTCAAT-TAGAGGTAAATTCAAGAGGGCAAATCATATATGATGAAA
1 CTATTCATTC-ATCTAGAAGTAAATTCAAGAGGGCAAATCATATATGATGAAA
* *
69672796 CTATTCATTCATCTAGAAGTAAATTTAAGAGGGCAAGTCATATATGATGAAA
1 CTATTCATTCATCTAGAAGTAAATTCAAGAGGGCAAATCATATATGATGAAA
69672848 CTATT
1 CTATT
69672853 AGTTAATACA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
51 2 0.04
52 51 0.96
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (52 bp):
CTATTCATTCATCTAGAAGTAAATTCAAGAGGGCAAATCATATATGATGAAA
Found at i:69679939 original size:21 final size:21
Alignment explanation
Indices: 69679900--69679939 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
69679890 GGACTAAACC
* *
69679900 GAAAACTTTGAGAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
69679921 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
69679940 CCATGACACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:69684340 original size:40 final size:39
Alignment explanation
Indices: 69684242--69684504 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
69684232 TCCTCGTTCA
* * * *
69684242 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
69684281 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
69684320 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
69684360 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
69684400 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
69684440 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
69684481 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69684505 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:69684464 original size:120 final size:119
Alignment explanation
Indices: 69684242--69684504 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
69684232 TCCTCGTTCA
* * *
69684242 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
69684307 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
69684360 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
69684425 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
69684481 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69684505 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:69684513 original size:41 final size:41
Alignment explanation
Indices: 69684436--69684513 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69684426 TTTGTATCTC
* * *
69684436 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69684477 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69684514 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69692270 original size:39 final size:40
Alignment explanation
Indices: 69692225--69692409 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
69692215 GCTCCTCGTT
* * *
69692225 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
69692265 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
69692304 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
69692344 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
69692385 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
69692410 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:69692325 original size:40 final size:39
Alignment explanation
Indices: 69692192--69692409 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
69692182 AAATCACGTA
* * **
69692192 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
69692231 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
69692270 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
69692310 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
69692350 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
69692390 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
69692410 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:69694278 original size:44 final size:43
Alignment explanation
Indices: 69694213--69694302 Score: 162
Period size: 44 Copynumber: 2.1 Consensus size: 43
69694203 ACATGTATTG
*
69694213 CATCCATAATGAACTCGGACCAACTCAACGAGCTCAGATGCTCA
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCAGATGC-CA
69694257 CATCCATAATGAACTCAGACCAACTCAACGAGCTCAGATGCCA
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCAGATGCCA
69694300 CAT
1 CAT
69694303 ATATCATGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 5 0.11
44 40 0.89
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCAACTCAACGAGCTCAGATGCCA
Found at i:69700246 original size:48 final size:48
Alignment explanation
Indices: 69699299--69700199 Score: 1660
Period size: 48 Copynumber: 18.8 Consensus size: 48
69699289 TGATATGTGT
** * ** *
69699299 GCCAGTGTAAGACCATGTCTGGGACATGGTGTCAGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
* * * * * * *
69699347 GCCAGTGTAAGACTATGTTTGGGACATGACATC-GACATTAATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TAACATGAGA
*
69699395 GCGAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699443 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699491 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699539 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699587 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699635 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699683 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699731 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699779 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699827 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699875 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699923 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69699971 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69700019 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69700067 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69700115 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
69700163 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
69700200 TCGGCATGTA
Statistics
Matches: 832, Mismatches: 19, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
47 3 0.00
48 826 0.99
49 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGA
Found at i:69701559 original size:19 final size:19
Alignment explanation
Indices: 69701527--69701563 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
69701517 AGGTATTGTG
69701527 GAAAGTTTCAAACTAGGAT
1 GAAAGTTTCAAACTAGGAT
69701546 GAAA-TTTCATAACTAGGA
1 GAAAGTTTCA-AACTAGGA
69701564 AATGTATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (19 bp):
GAAAGTTTCAAACTAGGAT
Found at i:69701763 original size:46 final size:46
Alignment explanation
Indices: 69701696--69701793 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
69701686 ATGGTAGAAA
** *
69701696 ATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTTT
1 ATGAAAGGTTCATGATAGATAAACAACTTTTACAAAGAGAATTTTG
69701742 ATGAAAGGTTCATGATAGATAAACAACTTTTACAAAGAGAATTTTG
1 ATGAAAGGTTCATGATAGATAAACAACTTTTACAAAGAGAATTTTG
69701788 ATGAAA
1 ATGAAA
69701794 TCATGATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (46 bp):
ATGAAAGGTTCATGATAGATAAACAACTTTTACAAAGAGAATTTTG
Found at i:69711650 original size:45 final size:45
Alignment explanation
Indices: 69711600--69711688 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
69711590 TGCAGTATGG
69711600 GTTGTGATTGATAAGTTAACGAAGTCGGCTCATTTTATCCCAGTC
1 GTTGTGATTGATAAGTTAACGAAGTCGGCTCATTTTATCCCAGTC
69711645 GTTGTGATTGATAAGTTAACGAAGTCGGCTCATTTTATCCCAGT
1 GTTGTGATTGATAAGTTAACGAAGTCGGCTCATTTTATCCCAGT
69711689 TCGTATGGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (45 bp):
GTTGTGATTGATAAGTTAACGAAGTCGGCTCATTTTATCCCAGTC
Found at i:69717215 original size:15 final size:15
Alignment explanation
Indices: 69717152--69717215 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
69717142 GTATCGTATA
* *
69717152 TTGGATTTCTATATA
1 TTGGATTTCTTTATC
*
69717167 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
*
69717182 TTGGATTT-TTCTGTC
1 TTGGATTTCTT-TATC
*
69717197 TTGGATTTCTTTATG
1 TTGGATTTCTTTATC
69717212 TTGG
1 TTGG
69717216 TCTTCTTGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 2 0.05
15 36 0.90
16 2 0.05
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:69719543 original size:30 final size:29
Alignment explanation
Indices: 69719507--69719563 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
69719497 TTACGAGCCT
* *
69719507 AGGGGTAAAAGTGTAAATATGATAAAGTTA
1 AGGGGTAAAAATGCAAATATGA-AAAGTTA
*
69719537 AGGGGTAAAAATGCAAATTTGAAAAGT
1 AGGGGTAAAAATGCAAATATGAAAAGT
69719564 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.25
Consensus pattern (29 bp):
AGGGGTAAAAATGCAAATATGAAAAGTTA
Found at i:69720149 original size:44 final size:44
Alignment explanation
Indices: 69720094--69720177 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
69720084 TATGTATAAG
* *
69720094 GCATCTGAGCTCGTTGAGTTGGTCTAAGTTCATTATGGATATGA
1 GCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATATGA
69720138 GCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATTATGGAT
1 GCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATTATGGAT
69720178 GCGATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (44 bp):
GCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATATGA
Found at i:69729841 original size:41 final size:41
Alignment explanation
Indices: 69729779--69729867 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
69729769 AATTTTTTGT
* *
69729779 ACACGGG-CTAAGACACGGGCGTGTCCTGGTCATGTGAAGG
1 ACACGGGCCTAAGACACAGGCGTGTCCTGGCCATGTGAAGG
*
69729819 ACACGGGCCTGAGACACAGGCGTGTCCTGGCCATGTGAAGG
1 ACACGGGCCTAAGACACAGGCGTGTCCTGGCCATGTGAAGG
69729860 ACACGGGC
1 ACACGGGC
69729868 GTGTTTCAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 7 0.16
41 38 0.84
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (41 bp):
ACACGGGCCTAAGACACAGGCGTGTCCTGGCCATGTGAAGG
Found at i:69731205 original size:21 final size:21
Alignment explanation
Indices: 69731153--69731210 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
69731143 TAACCTACAG
69731153 CACGAGTGTGTCCCTTGACCA
1 CACGAGTGTGTCCCTTGACCA
* * *
69731174 CACGGGCGTGTCCTTTGACCA
1 CACGAGTGTGTCCCTTGACCA
69731195 CACGAGTGTGTACCCT
1 CACGAGTGTGT-CCCT
69731211 GCATCTGGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (21 bp):
CACGAGTGTGTCCCTTGACCA
Found at i:69736182 original size:20 final size:19
Alignment explanation
Indices: 69736146--69736196 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
69736136 AAGGGGTTTT
*
69736146 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
69736165 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
69736185 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
69736197 GTTACTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:69737989 original size:26 final size:26
Alignment explanation
Indices: 69737960--69738013 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
69737950 ATTCCGCACA
69737960 CTTAGTGCTATCTCAATTAACCGAAG
1 CTTAGTGCTATCTCAATTAACCGAAG
69737986 CTTAGTGCTATCTCAATTAACCGAAG
1 CTTAGTGCTATCTCAATTAACCGAAG
69738012 CT
1 CT
69738014 ATCTCGGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (26 bp):
CTTAGTGCTATCTCAATTAACCGAAG
Found at i:69742824 original size:29 final size:29
Alignment explanation
Indices: 69742789--69742862 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
69742779 GTTGTGAGAT
* *
69742789 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
69742818 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
69742847 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69742863 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:69748304 original size:79 final size:80
Alignment explanation
Indices: 69748206--69748388 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
69748196 TCCTCGTTCA
* *
69748206 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
69748269 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
69748286 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
69748350 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
69748365 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69748389 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:69748388 original size:40 final size:40
Alignment explanation
Indices: 69748204--69748388 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
69748194 GCTCCTCGTT
* *
69748204 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69748244 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69748284 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
69748323 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
69748364 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69748389 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:69750733 original size:44 final size:44
Alignment explanation
Indices: 69750670--69750756 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
69750660 TAAAGTTTGC
* *
69750670 AAGAATTGCCCGTTAATGATTTGAGATATCTGTTTTCCTGCTGT
1 AAGAATTGCCCGTTAATGATTCGAGATATCTATTTTCCTGCTGT
* * *
69750714 AAGAATTGCCTGTTAATGATTCGAGATGTTTATTTTCCTGCTG
1 AAGAATTGCCCGTTAATGATTCGAGATATCTATTTTCCTGCTG
69750757 ATCTGATGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (44 bp):
AAGAATTGCCCGTTAATGATTCGAGATATCTATTTTCCTGCTGT
Found at i:69757766 original size:43 final size:44
Alignment explanation
Indices: 69757704--69757851 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 44
69757694 TGTGAGATCG
* * *
69757704 TGTACGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAGATTTACA
* * *
69757747 TGTAAGACCATGTTTGGGACATCA-GCATCGTATT-TGATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTATTGAGATTTACA
* * *
69757789 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGA-A-TTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAGATTTACA
* *
69757832 TGTAAGACCACGTTTGGGAC
1 TGTAAGACCATGTCTGGGAC
69757852 GTCGGCATTA
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.33
43 50 0.60
44 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAGATTTACA
Found at i:69757859 original size:43 final size:42
Alignment explanation
Indices: 69757742--69757859 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
69757732 CGATTGAGAT
* * *
69757742 TTACATGTAAGACCATGTTTGGGACATCAGCATCGTATTTGA
1 TTACATGTAAGACCACGTTTGGGACGTCGGCATCGTATTTGA
* * * * *
69757784 TTTCGTGTAAGACC-CTGTCTGGGATAG-AGGCATCG-ATATTGAA
1 TTACATGTAAGACCAC-GTTTGGGA-CGTCGGCATCGTAT-TTG-A
69757827 TTACATGTAAGACCACGTTTGGGACGTCGGCAT
1 TTACATGTAAGACCACGTTTGGGACGTCGGCAT
69757860 TATACTTGAT
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
41 2 0.04
42 29 0.51
43 25 0.44
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACGTCGGCATCGTATTTGA
Done.