Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 55 of 213
Found at i:14835640 original size:32 final size:32
Alignment explanation
Indices: 14835603--14835684 Score: 150
Period size: 31 Copynumber: 2.6 Consensus size: 32
14835593 ACCAAAAATT
14835603 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
14835635 TATTTTAAAAA-TAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
14835666 TATTTT-AAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
14835685 TTTAAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
30 4 0.08
31 34 0.69
32 11 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:14835658 original size:20 final size:19
Alignment explanation
Indices: 14835630--14835667 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
14835620 AAAGTATTTT
14835630 AAAAATATTTTAAAAATAA
1 AAAAATATTTTAAAAATAA
14835649 AAAAAGTATTTTAAAAATA
1 AAAAA-TATTTTAAAAATA
14835668 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAATATTTTAAAAATAA
Found at i:14835681 original size:17 final size:17
Alignment explanation
Indices: 14835659--14835703 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
14835649 AAAAAGTATT
14835659 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
14835676 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
14835692 ATAAATATATTT
1 TTAAAAATATTT
14835704 ATTATATCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:14837411 original size:107 final size:107
Alignment explanation
Indices: 14837224--14837541 Score: 483
Period size: 107 Copynumber: 3.0 Consensus size: 107
14837214 CCATACTTTG
* * *
14837224 AAGTTTTAAAAGGATATTTGGTTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
* * *
14837289 GTTTCCTCAATTTTCCAAACACGAAGTATTGCCTTATTTTAA
66 GTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTTAA
* * * * *
14837331 GAGTTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAGTCGAAAACCAACACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
*
14837396 GTTTCCTCGATTTTCCAAACGCGAAATATTGTCTTATTTTAA
66 GTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTTAA
*
14837438 AAGTTTAAAAAAGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
1 AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
* * * *
14837503 ATTTTCTTGATTTTCCAAACGCAAAATATTGCCTTATTT
66 GTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTT
14837542 AGAAAAACTT
Statistics
Matches: 188, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 188 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (107 bp):
AAGTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCAC
GTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATTTTAA
Found at i:14838333 original size:13 final size:14
Alignment explanation
Indices: 14838315--14838345 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
14838305 TATATGAATT
14838315 TAAACCAAAT-AAA
1 TAAACCAAATAAAA
14838328 TAAACCAAATAAAA
1 TAAACCAAATAAAA
14838342 TAAA
1 TAAA
14838346 AACTTGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCAAATAAAA
Found at i:14842330 original size:2 final size:2
Alignment explanation
Indices: 14842323--14842348 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14842313 ATTGTCAAGG
14842323 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
14842349 GCACTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14844307 original size:20 final size:20
Alignment explanation
Indices: 14844282--14844322 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
14844272 CTTCGGTAGT
*
14844282 ACTTTGGACGACAATAGAAA
1 ACTTTGGACAACAATAGAAA
14844302 ACTTTGGACAACAATAGAAA
1 ACTTTGGACAACAATAGAAA
14844322 A
1 A
14844323 TTTATTCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (20 bp):
ACTTTGGACAACAATAGAAA
Found at i:14845023 original size:65 final size:64
Alignment explanation
Indices: 14844923--14845043 Score: 215
Period size: 65 Copynumber: 1.9 Consensus size: 64
14844913 GACATTAAAT
* *
14844923 GATAGAAAGTAACGTGATCACGAGTCATTTGTCTAGGAAAAATGATTTAATTACTATCATTACAC
1 GATAGAAAGTAACGTGATCACGAGTCATTTATCTAGG-AAAATGATGTAATTACTATCATTACAC
14844988 GATAGAAAGTAACGTGATCACGAGTCATTTATCTAGGAAAATGATGTAATTACTAT
1 GATAGAAAGTAACGTGATCACGAGTCATTTATCTAGGAAAATGATGTAATTACTAT
14845044 TTTTTAGTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
64 18 0.33
65 36 0.67
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (64 bp):
GATAGAAAGTAACGTGATCACGAGTCATTTATCTAGGAAAATGATGTAATTACTATCATTACAC
Found at i:14847312 original size:14 final size:14
Alignment explanation
Indices: 14847295--14847379 Score: 55
Period size: 14 Copynumber: 6.1 Consensus size: 14
14847285 AAATACATAA
14847295 TCATACATGCAGAT
1 TCATACATGCAGAT
* *
14847309 TCATAAATG-TGAAT
1 TCATACATGCAG-AT
*
14847323 TCATACATGCGGAT
1 TCATACATGCAGAT
* **
14847337 TCATAGATATAGAT
1 TCATACATGCAGAT
* * **
14847351 CCATAAATGTGGAT
1 TCATACATGCAGAT
*
14847365 TCATACATACAGAT
1 TCATACATGCAGAT
14847379 T
1 T
14847380 GATAGACACA
Statistics
Matches: 52, Mismatches: 17, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
13 1 0.02
14 50 0.96
15 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (14 bp):
TCATACATGCAGAT
Found at i:14847355 original size:28 final size:28
Alignment explanation
Indices: 14847279--14847378 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 28
14847269 GTTCGTTTAA
*
14847279 ATTCATAAATACATA-AT-CATACATGCAG
1 ATTCATAAAT--ATAGATCCATACATGCGG
* *
14847307 ATTCATAAATGT-GAATTCATACATGCGG
1 ATTCATAAATATAG-ATCCATACATGCGG
* * *
14847335 ATTCATAGATATAGATCCATAAATGTGG
1 ATTCATAAATATAGATCCATACATGCGG
* *
14847363 ATTCATACATACAGAT
1 ATTCATAAATATAGAT
14847379 TGATAGACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 55 0.93
29 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (28 bp):
ATTCATAAATATAGATCCATACATGCGG
Found at i:14847385 original size:42 final size:42
Alignment explanation
Indices: 14847278--14847385 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
14847268 CGTTCGTTTA
* * * * ** *
14847278 AATTCATAAATACATAATCATACATGCAGATTCATAAATGTG
1 AATTCATACATACAGATTCATAGATATAGATCCATAAATGTG
* *
14847320 AATTCATACATGCGGATTCATAGATATAGATCCATAAATGTG
1 AATTCATACATACAGATTCATAGATATAGATCCATAAATGTG
* *
14847362 GATTCATACATACAGATTGATAGA
1 AATTCATACATACAGATTCATAGA
14847386 CACAGATTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (42 bp):
AATTCATACATACAGATTCATAGATATAGATCCATAAATGTG
Found at i:14848081 original size:54 final size:54
Alignment explanation
Indices: 14847960--14848087 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 54
14847950 AGGTTACATG
* ** ** *
14847960 GCCGTGTCGTAGGCCGTGTGCCAGACCGTGTAACTTTCTAACTTGTGACACACG
1 GCCGTGTCGTAGGCCGTGTGCCAAACCGTGTAACTCACTAACTTGACACACACA
* * * *
14848014 GCCGTGTAGTAGGCCGTGTGCTAAACCGTGTAACTCAGTGACTTGACACACACA
1 GCCGTGTCGTAGGCCGTGTGCCAAACCGTGTAACTCACTAACTTGACACACACA
* * *
14848068 GCCGTATCTTAGGCCATGTG
1 GCCGTGTCGTAGGCCGTGTG
14848088 AAAATTACAT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (54 bp):
GCCGTGTCGTAGGCCGTGTGCCAAACCGTGTAACTCACTAACTTGACACACACA
Found at i:14849476 original size:54 final size:54
Alignment explanation
Indices: 14849418--14849538 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
14849408 TCCACACCCG
* *
14849418 TGTAACTCACTGAGATGCCTCACACGCTAGTGTATTAGGCCGTGTGCTAGGCAA
1 TGTAACTCACTGAGATGCCACACACGCTAGTGTACTAGGCCGTGTGCTAGGCAA
* * * * * * ***
14849472 TGTAACTCTCTGAGTTGCCACACATGTTCGTGTGCTAGGCCGTGTGCTAGGTTG
1 TGTAACTCACTGAGATGCCACACACGCTAGTGTACTAGGCCGTGTGCTAGGCAA
14849526 TGTAACTCACTGA
1 TGTAACTCACTGA
14849539 CTTGAAACAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (54 bp):
TGTAACTCACTGAGATGCCACACACGCTAGTGTACTAGGCCGTGTGCTAGGCAA
Found at i:14855004 original size:49 final size:49
Alignment explanation
Indices: 14854945--14855080 Score: 155
Period size: 49 Copynumber: 2.8 Consensus size: 49
14854935 ACCAGTGGCC
* *
14854945 GCCAACCTGGTTAACAACTAACATGTCCTACTAGTGGCCCAACATACAT
1 GCCAATCTGGTTAGCAACTAACATGTCCTACTAGTGGCCCAACATACAT
* * * * **
14854994 GCCAATCTGGTTAGCAACTAGCATGCCCTACTAGTGGTCCATCATATTT
1 GCCAATCTGGTTAGCAACTAACATGTCCTACTAGTGGCCCAACATACAT
* * * * *
14855043 GTCATTCTAGTTTGCAACTAACATGTCCTACCAGTGGC
1 GCCAATCTGGTTAGCAACTAACATGTCCTACTAGTGGC
14855081 TATTTATCTC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
GCCAATCTGGTTAGCAACTAACATGTCCTACTAGTGGCCCAACATACAT
Found at i:14858479 original size:33 final size:33
Alignment explanation
Indices: 14858420--14858502 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
14858410 TACACATATA
* * **
14858420 CATATATATTATAGAAAACATGACCCAAAAACG
1 CATATATATTATATATAACAAAACCCAAAAACG
* *
14858453 CATATATATTATATATAACAAAACCCATATACG
1 CATATATATTATATATAACAAAACCCAAAAACG
14858486 -ATTATATATTATATATA
1 CA-TATATATTATATATA
14858503 TACACATACC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 1 0.02
33 42 0.98
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.31
Consensus pattern (33 bp):
CATATATATTATATATAACAAAACCCAAAAACG
Found at i:14859648 original size:275 final size:277
Alignment explanation
Indices: 14859145--14859701 Score: 870
Period size: 275 Copynumber: 2.0 Consensus size: 277
14859135 TAGAAAAATG
* * * *
14859145 AATTATATTCTTTCCAAATGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
14859210 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAAACAAATT
66 TATAAATATTTATATGAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAACAAATT
* *
14859275 CATATATATTAATTATATTTTTTCCTAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGA
131 CA-ATATATTAAATATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGA
* *
14859340 AATTAATTAATATAAATGTTTATATTAATAAATTCGGTAAAATATATACGATTAATATTTCGTAT
195 AATTAATTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTCGTAT
14859405 GAATCAAAATCATATATT
260 GAATCAAAATCATATATT
14859423 AATTATATTATTTCCAAAAGAATATTAATTTTAAT-TCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * * * *
14859487 TATAACTGTTTATATGAATAAATTCTATAATATATATAGAATTAATATTTTGTATGAATCAAATT
66 TATAAATATTTATATGAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAACAAATT
*
14859552 C-ATATATTAAATATATTGTTTT-CAAAAGAATATTAATTTCCATGTCTTTTATATTTTTA-CTG
131 CAATATATTAAATATATT-TTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATC-G
* * *
14859614 AAATTAATTAATATCACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTA
194 AAATTAATTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTCGTA
*
14859679 TGAATCAAATTCATATATT
259 TGAATCAAAATCATATATT
14859698 AATT
1 AATT
14859702 TTATCTATGT
Statistics
Matches: 256, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
274 1 0.00
275 133 0.52
276 4 0.02
277 86 0.34
278 32 0.12
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (277 bp):
AATTATATTATTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAAATATTTATATGAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAACAAATT
CAATATATTAAATATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAA
ATTAATTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTCGTATG
AATCAAAATCATATATT
Found at i:14859669 original size:138 final size:137
Alignment explanation
Indices: 14859145--14859701 Score: 810
Period size: 138 Copynumber: 4.0 Consensus size: 137
14859135 TAGAAAAATG
* *
14859145 AATTATATTCTTTCCAAATGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATT-TTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
14859210 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAAACAAATT
65 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
14859275 CATATATATT
130 C--ATATATT
* *
14859285 AATTATATTTTTTCCTAAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATA-TTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
14859350 TATAAATGTTTATATTAATAAATTCGGTAAAATATATACGATTAATATTTCGTATGAATCAAAAT
65 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
14859415 CATATATT
130 CATATATT
** *
14859423 AATTATATTATTTCCAAAAGAATATTAATTTTAAT-TCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATT-TTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * * *
14859487 TATAACTGTTTATATGAATAAATTCTATAATATATATAGAATTAATATTTTGTATGAATCAAATT
65 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
14859552 CATATATT
130 CATATATT
* * * *
14859560 AAATATATTGTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTACTGAAATTAATTAA
1 AATTATATT-TTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
14859625 TATCACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
14859690 CATATATT
130 CATATATT
14859698 AATT
1 AATT
14859702 TTATCTATGT
Statistics
Matches: 373, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
137 123 0.33
138 131 0.35
140 117 0.31
141 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAAT
ATAAATATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:14861608 original size:45 final size:44
Alignment explanation
Indices: 14861549--14861676 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 44
14861539 TGTTTACCAT
* * *
14861549 GATGTCATATCATCTTTCAGCCATGGTCTTACTAATTTATATCAC
1 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTT-TATCAC
* * * *
14861594 GATG-CTATAGCATCTTTTAGCTATGGTCTTACTCATCCTTGTCAT
1 GATGTC-ATAGCATCTTTCAGCTATGGTCTTACTCAT-TTTATCAC
14861639 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTT
14861677 CAAGCGTATA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.03
45 67 0.94
46 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (44 bp):
GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTTTATCAC
Found at i:14863913 original size:20 final size:20
Alignment explanation
Indices: 14863840--14863914 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
14863830 TGTCTTTCTA
*
14863840 TTTAAATCAATT-ATGTTTCTG
1 TTTAAATCGATTCAT-TTT-TG
*
14863861 TTTGAATCGATTCATTTTTG
1 TTTAAATCGATTCATTTTTG
* *
14863881 TTTAAACCAATTC-TTTGTTG
1 TTTAAATCGATTCATTT-TTG
*
14863901 TTTAATTCGATTCA
1 TTTAAATCGATTCA
14863915 AACTCCAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.58
21 13 0.30
22 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTAAATCGATTCATTTTTG
Found at i:14872284 original size:43 final size:44
Alignment explanation
Indices: 14872224--14872310 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
14872214 AATCTGATTG
*
14872224 TTGTTTTATCTATTTTC-TGATTGATGCAAATATTGTTGATGTA
1 TTGTTTTATCTATTTTCTTGATTGATGCAAATATTCTTGATGTA
*
14872267 TTGTTTTATTCTA-TTTCTTGATTGATGCAAATTTTCTTGATGTA
1 TTGTTTTA-TCTATTTTCTTGATTGATGCAAATATTCTTGATGTA
14872311 GACTGATCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 12 0.30
44 28 0.70
ACGTcount: A:0.22, C:0.08, G:0.15, T:0.55
Consensus pattern (44 bp):
TTGTTTTATCTATTTTCTTGATTGATGCAAATATTCTTGATGTA
Found at i:14889957 original size:102 final size:101
Alignment explanation
Indices: 14889776--14889960 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
14889766 AGTTGCTAGG
* * * * * * *
14889776 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACTGGAATGATAGGTCGCATGTGCAGTAC
1 TCACGTATATAGTACTATGTGCAGACTACTACATGTACTCGAATGAAAGGTCACATGTGCAGTAC
14889841 CATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 CATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
14889877 TCACGTATATAGTACTATGTGCAGACTACTACGTTTA-TCGAATGAAAATGGTCACATGTGTAGT
1 TCACGTATATAGTACTATGTGCAGACTACTACATGTACTCGAATG-AAA-GGTCACATGTGCAGT
*
14889941 ACTATGTGCAGGCTACTATG
64 ACCATGTGCAGGCTACTATG
14889961 TGAATTGGGT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 6 0.08
101 33 0.46
102 32 0.45
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTATATAGTACTATGTGCAGACTACTACATGTACTCGAATGAAAGGTCACATGTGCAGTAC
CATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:14906022 original size:19 final size:20
Alignment explanation
Indices: 14905982--14906022 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14905972 TGTAATTATC
*
14905982 CATTATATATATCCCATAAT
1 CATTATATATATCACATAAT
14906002 CATT-TATATAT-ACATATAT
1 CATTATATATATCACATA-AT
14906021 CA
1 CA
14906023 AATGCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (20 bp):
CATTATATATATCACATAAT
Found at i:14906220 original size:82 final size:82
Alignment explanation
Indices: 14906051--14906250 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 82
14906041 ATTTAACATA
* * *
14906051 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCTAATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCTAATCACCGGCACTTAGCCTGCTAGA
*
14906116 TTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
*
14906133 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTC-AGATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCTA-ATCACCGGCACTTAGCCTGCTAG
*
14906197 ACTTA-AAGTCC-GAATT-AT
65 ACTTATAA--CCTG-ATTCAG
*
14906215 TTCACCGAC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
14906251 AAATTTCAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
81 7 0.07
82 92 0.88
83 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCTAATCACCGGCACTTAGCCTGCTAGA
CTTATAACCTGATTCAG
Found at i:14906221 original size:41 final size:41
Alignment explanation
Indices: 14906052--14906201 Score: 248
Period size: 41 Copynumber: 3.7 Consensus size: 41
14906042 TTTAACATAT
*
14906052 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCTA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTC-AGA
*
14906093 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
14906134 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
14906175 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
14906202 AAGTCCGAAT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
40 1 0.01
41 103 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:14911547 original size:6 final size:6
Alignment explanation
Indices: 14911536--14911564 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14911526 TTGATACAAA
14911536 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
14911565 CTAATATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:14916351 original size:18 final size:19
Alignment explanation
Indices: 14916325--14916367 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14916315 TGAGCAGGAA
14916325 AGTGAGGAACAGGAA-AGG
1 AGTGAGGAACAGGAAGAGG
* *
14916343 AGTGGGGAAGAGGAAGAGG
1 AGTGAGGAACAGGAAGAGG
*
14916362 AATGAG
1 AGTGAG
14916368 AAGAGGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.42, C:0.02, G:0.49, T:0.07
Consensus pattern (19 bp):
AGTGAGGAACAGGAAGAGG
Found at i:14919257 original size:26 final size:26
Alignment explanation
Indices: 14919219--14919269 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
14919209 CTTGTTGCGT
*
14919219 CCTCAGAATGACACCAATATGACTTG
1 CCTCAGAACGACACCAATATGACTTG
* * *
14919245 CCTCGGAACGACACCATTGTGACTT
1 CCTCAGAACGACACCAATATGACTT
14919270 TCCTTGAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (26 bp):
CCTCAGAACGACACCAATATGACTTG
Found at i:14922332 original size:16 final size:17
Alignment explanation
Indices: 14922311--14922342 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14922301 AAATATGCAA
14922311 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
14922327 TCACATAACTTCATAT
1 TCACATAACTTCATAT
14922343 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:14922569 original size:43 final size:42
Alignment explanation
Indices: 14922503--14922673 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 42
14922493 GACTTGTATA
* * *
14922503 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGAAG-GGTCTTACATGAAAACACATATCG
* * * *
14922546 ATGCCACTGTCTCAGATAGGGTCTTACA-CAAATCAAATA-CG
1 ATGCCACTGTCCCAGA-AGGGTCTTACATGAAAACACATATCG
* * * *
14922587 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTGTCCCAGA-AGGGTCTTACATGAAAACACATA-TCG
* *
14922630 ATGACAAC-GTCCCAGACGTGGTCTTACATGAAAACACATATCG
1 ATG-CCACTGTCCCAGAAG-GGTCTTACATGAAAACACATATCG
14922673 A
1 A
14922674 AATCCTATGT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 27 0.27
42 15 0.15
43 55 0.54
44 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCACTGTCCCAGAAGGGTCTTACATGAAAACACATATCG
Found at i:14927835 original size:34 final size:35
Alignment explanation
Indices: 14927787--14927859 Score: 139
Period size: 34 Copynumber: 2.1 Consensus size: 35
14927777 ACAAGGAGAA
14927787 AAAGAAAAAAATTAGGGTTCATGCTATTATTTTGT
1 AAAGAAAAAAATTAGGGTTCATGCTATTATTTTGT
14927822 AAAG-AAAAAATTAGGGTTCATGCTATTATTTTGT
1 AAAGAAAAAAATTAGGGTTCATGCTATTATTTTGT
14927856 AAAG
1 AAAG
14927860 CTTCAATTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (35 bp):
AAAGAAAAAAATTAGGGTTCATGCTATTATTTTGT
Found at i:14928614 original size:22 final size:22
Alignment explanation
Indices: 14928577--14928650 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
14928567 CCTAGCAGGA
* *
14928577 TTAGTGTCGGTTTTATTCAGAC
1 TTAGTGCCGGTATTATTCAGAC
* *
14928599 TTAATGCCGGTATTATTCAGTC
1 TTAGTGCCGGTATTATTCAGAC
* * *
14928621 TTAGTGTCGGTGTTATTCAGGC
1 TTAGTGCCGGTATTATTCAGAC
14928643 TTAGTGCC
1 TTAGTGCC
14928651 TAGCAGGCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (22 bp):
TTAGTGCCGGTATTATTCAGAC
Found at i:14928944 original size:43 final size:43
Alignment explanation
Indices: 14928896--14929058 Score: 195
Period size: 43 Copynumber: 3.8 Consensus size: 43
14928886 TTATGTGAAA
* * *
14928896 AAACGCCGCTATAGAGCATGATCTTTAGCGACGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
*
14928939 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
* * * * *
14928982 AAACGCCGATAAAATAACATGATCTTTGGTGGCGC-TTTACCCAC
1 AAACGCCGCT-AAAGAACATGATCTTTAGCGGCGCTTTTA-TCAC
*
14929026 AAACGCCGCTAAAGATCATG-TCTTTTAGCGGCG
1 AAACGCCGCTAAAGAACATGATC-TTTAGCGGCG
14929059 TTTACAAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 68 0.67
44 32 0.31
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
Found at i:14930315 original size:7 final size:7
Alignment explanation
Indices: 14930303--14930415 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
14930293 ACTAATTAAT
14930303 CTAAACC
1 CTAAACC
14930310 CTAAACCC
1 CTAAA-CC
*
14930318 CTAACCC
1 CTAAACC
14930325 CTAATA-C
1 CTAA-ACC
* *
14930332 TTAACCC
1 CTAAACC
*
14930339 CTAAATC
1 CTAAACC
* *
14930346 TTGAACC
1 CTAAACC
*
14930353 C-CAACC
1 CTAAACC
*
14930359 CTTAAATC
1 C-TAAACC
*
14930367 ATAAACC
1 CTAAACC
14930374 CTAAACC
1 CTAAACC
*
14930381 CATAATCC
1 C-TAAACC
14930389 CTAAACC
1 CTAAACC
*
14930396 CATAATCC
1 C-TAAACC
*
14930404 ATAAACC
1 CTAAACC
*
14930411 TTAAA
1 CTAAA
14930416 ATAGCATCTT
Statistics
Matches: 76, Mismatches: 23, Indels: 14
0.67 0.20 0.12
Matches are distributed among these distances:
6 5 0.07
7 51 0.67
8 20 0.26
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:14930384 original size:15 final size:15
Alignment explanation
Indices: 14930366--14930410 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
14930356 ACCCTTAAAT
*
14930366 CATAAACCCTAAACC
1 CATAATCCCTAAACC
14930381 CATAATCCCTAAACC
1 CATAATCCCTAAACC
*
14930396 CATAATCCATAAACC
1 CATAATCCCTAAACC
14930411 TTAAAATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (15 bp):
CATAATCCCTAAACC
Found at i:14930473 original size:14 final size:14
Alignment explanation
Indices: 14930434--14930478 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
14930424 TTTTAAACTT
*
14930434 TAAACCCTAAAACA
1 TAAACCCTAAACCA
* *
14930448 TATACCCCAAACCA
1 TAAACCCTAAACCA
*
14930462 TAAACCCTAAACTA
1 TAAACCCTAAACCA
14930476 TAA
1 TAA
14930479 TGATAACTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:14930657 original size:15 final size:15
Alignment explanation
Indices: 14930633--14930666 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14930623 CCTAACGTCT
*
14930633 AACCCTTAACCCATA
1 AACCCATAACCCATA
*
14930648 AACCCATAACCCCTA
1 AACCCATAACCCATA
14930663 AACC
1 AACC
14930667 TTAAATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCATAACCCATA
Found at i:14930698 original size:14 final size:14
Alignment explanation
Indices: 14930681--14930715 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14930671 ATCCTAGCCT
14930681 CTAAACCATAATCC
1 CTAAACCATAATCC
* *
14930695 CTAATCCATACTCC
1 CTAAACCATAATCC
14930709 CTAAACC
1 CTAAACC
14930716 TTAAAATAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCATAATCC
Found at i:14931115 original size:41 final size:41
Alignment explanation
Indices: 14931064--14931208 Score: 202
Period size: 41 Copynumber: 3.5 Consensus size: 41
14931054 TTTTAGCGGT
* *
14931064 GCTTTTTCAAAAACGCCGCTAAAGCTC-CCAGCATTAGCGAC
1 GCTTTCTCAAAAACGCCACTAAAGC-CACCAGCATTAGCGAC
* *
14931105 GCTTTCTCAAAAACGCCGCTAAAGCCACCAGCATTAGTGAC
1 GCTTTCTCAAAAACGCCACTAAAGCCACCAGCATTAGCGAC
* **
14931146 GCTTTCTCAAAAATGCCACTAAAGCCACCAGCATTAGCGGT
1 GCTTTCTCAAAAACGCCACTAAAGCCACCAGCATTAGCGAC
*
14931187 GCTTTTTCAAAAACGCCACTAA
1 GCTTTCTCAAAAACGCCACTAA
14931209 TGCTTGGTTC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 93 0.99
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (41 bp):
GCTTTCTCAAAAACGCCACTAAAGCCACCAGCATTAGCGAC
Found at i:14948778 original size:91 final size:91
Alignment explanation
Indices: 14948653--14948860 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
14948643 TTGATTTTAG
*
14948653 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
14948718 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
14948745 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
14948810 TGTAATATTTATTATTTTAAATTATA
66 TGTAATATTAATTATTTTAAATTATA
* * * *
14948836 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
14948861 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:14948780 original size:44 final size:44
Alignment explanation
Indices: 14948653--14948791 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 44
14948643 TTGATTTTAG
*
14948653 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTA-GAAATTA
* * * ** *
14948699 TATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-AATTGTA
1 TAAATTCA-TA-TAAGA--AAATTTATTATTAAGAATTTTAGAAAT-TA
14948745 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTA-GAAATTA
14948790 TA
1 TA
14948792 TATTATTATT
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
44 18 0.25
45 13 0.18
46 17 0.24
47 22 0.31
48 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (44 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTAGAAATTA
Found at i:14948822 original size:27 final size:28
Alignment explanation
Indices: 14948764--14948835 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
14948754 ATAAGAAAAT
*
14948764 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATTATATA
* *
14948794 TTATTATTAAATTATATGTAA-TATTTA
1 TTATTATTAAATTATATGAAATTATATA
14948821 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
14948836 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 10 0.26
28 10 0.26
29 1 0.03
30 8 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATTATATA
Found at i:14948827 original size:47 final size:47
Alignment explanation
Indices: 14948685--14948828 Score: 138
Period size: 47 Copynumber: 3.1 Consensus size: 47
14948675 ATTATTAAGA
*
14948685 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * **
14948732 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATTAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
14948776 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATATTTATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
14948823 ATTTTA
1 ATTTTA
14948829 AATTATACAA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.32
45 8 0.11
46 8 0.11
47 28 0.38
48 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:14948835 original size:44 final size:43
Alignment explanation
Indices: 14948693--14948835 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
14948683 GAATTTTATG
*
14948693 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATATTAATTATTTT
* ** * ** *
14948737 AAATTGTATAAATTCATATAAGAAAATT-TATTATTAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATATTAATTATT-TT
*
14948784 AAATTATATATTATTATTAAATTATATGTAATATTTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATATTAATTATTTT
14948828 AAATTATA
1 AAATTATA
14948836 CAAATTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 10 0.14
46 9 0.12
47 15 0.20
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATATTAATTATTTT
Found at i:14948923 original size:54 final size:55
Alignment explanation
Indices: 14948864--14949058 Score: 146
Period size: 59 Copynumber: 3.4 Consensus size: 55
14948854 TTTATTAGTT
14948864 ATAATTATTTTAAATTT-TATTAAATCATATATTTTAATTTAAATATATTTAATA
1 ATAATTATTTTAAATTTATATTAAATCATATATTTTAATTTAAATATATTTAATA
* * * * * * * * *
14948918 TTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGA
1 ATAATTATTTTAAA-TTTATATTA-A--ATCATATATTTTAATTT-AA-ATA-T-ATTTAATA
* *
14948981 ATAATAATTATTAAGAATTT-TATTAAATTATATATTTTAA-TTATAATATATTTAATA
1 ATAATTATT-TT-A-AATTTATATTAAATCATATATTTTAATTTA-AATATATTTAATA
*
14949038 ATAATTATGTT-AATTTATATT
1 ATAATTATTTTAAATTTATATT
14949059 TTACAGTATC
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
53 5 0.05
54 16 0.15
55 3 0.03
56 6 0.06
57 14 0.13
58 1 0.01
59 18 0.17
60 5 0.05
61 13 0.12
62 1 0.01
63 14 0.13
64 5 0.05
65 4 0.04
66 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (55 bp):
ATAATTATTTTAAATTTATATTAAATCATATATTTTAATTTAAATATATTTAATA
Found at i:14949004 original size:120 final size:120
Alignment explanation
Indices: 14948876--14949168 Score: 448
Period size: 120 Copynumber: 2.4 Consensus size: 120
14948866 AATTATTTTA
* * *
14948876 AATTTTATTAAATCATATATTTTAATT-TAAATATATTTAATATTAATTAT-TTCAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTAT-AATATATTTAATAATAATTATGTT--AATTTATAT
* *
14948938 TTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
63 TTTACAGTATCATATATTATGACTTGAATAAATTCATATAAGAATAATAATTATTAAG
14948996 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
14949061 ACAGTATCATATATTATGACTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGACTTGAATAAATTCATATAAGAATAATAATTATTAAG
* *
14949116 AATTTTATTAAATTATATAATTTAATTATAATATGTTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
14949169 TAAATATGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 5 0.03
120 152 0.95
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGACTTGAATAAATTCATATAAGAATAATAATTATTAAG
Found at i:14949036 original size:15 final size:15
Alignment explanation
Indices: 14949001--14949052 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14948991 TTAAGAATTT
*
14949001 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14949015 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14949029 TATTTAATAATAAT-
1 TATTTAATTATAATA
14949043 TATGTTAATT
1 TAT-TTAATT
14949053 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14949180 original size:16 final size:16
Alignment explanation
Indices: 14949136--14949171 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
14949126 AATTATATAA
*
14949136 TTTAATTATAA-TATG
1 TTTAATAATAATTATG
14949151 TTTAATAATAATTATG
1 TTTAATAATAATTATG
14949167 TTTAA
1 TTTAA
14949172 ATATGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAATAATAATTATG
Found at i:14949275 original size:155 final size:157
Alignment explanation
Indices: 14949105--14949419 Score: 535
Period size: 155 Copynumber: 2.0 Consensus size: 157
14949095 GTAAGAATAT
* *
14949105 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTATAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
14949170 AAATATGATTAACTTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
14949234 -AATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
14949260 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
*
14949325 AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAATAATAACAA
66 AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
14949390 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
14949417 TAA
1 TAA
14949420 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 121 0.81
156 1 0.01
157 27 0.18
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:14949300 original size:18 final size:17
Alignment explanation
Indices: 14949272--14949306 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14949262 ATTATTAAGA
*
14949272 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14949289 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14949307 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14949557 original size:45 final size:44
Alignment explanation
Indices: 14949468--14949562 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
14949458 TTACACCTCT
*
14949468 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
14949512 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
14949557 ATTACA
1 ATTACA
14949563 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:14949562 original size:16 final size:16
Alignment explanation
Indices: 14949541--14949578 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14949531 TTGATTTGCT
*
14949541 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14949557 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
14949573 AATACA
1 ATTACA
14949579 GCGAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14952887 original size:6 final size:6
Alignment explanation
Indices: 14952870--14952906 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
14952860 GAGTGATGGT
*
14952870 TTTA-G TTT-TG TTTATG TTTTTG TTTATG TTTATG TTT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTT
14952907 TGGTGTTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 7 0.25
6 21 0.75
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.73
Consensus pattern (6 bp):
TTTATG
Found at i:14952899 original size:18 final size:17
Alignment explanation
Indices: 14952868--14952907 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
14952858 AGGAGTGATG
14952868 GTTTTAGTTTTGTTTAT
1 GTTTTAGTTTTGTTTAT
*
14952885 GTTTTTGTTTATGTTTAT
1 GTTTTAGTTT-TGTTTAT
14952903 GTTTT
1 GTTTT
14952908 GGTGTTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.72
Consensus pattern (17 bp):
GTTTTAGTTTTGTTTAT
Found at i:14962164 original size:20 final size:19
Alignment explanation
Indices: 14962119--14962167 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
14962109 TAATATAAGT
14962119 TTAAAAT-ATTAAAAGAAA
1 TTAAAATAATTAAAAGAAA
*
14962137 TAAAAATAATTAATAA-ATAA
1 TTAAAATAATTAA-AAGA-AA
14962157 TTAAAATAATT
1 TTAAAATAATT
14962168 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 6 0.23
20 14 0.54
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAATAATTAAAAGAAA
Found at i:14967104 original size:45 final size:47
Alignment explanation
Indices: 14967053--14967148 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 47
14967043 CATATAGAAC
* * * *
14967053 TATACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAATCTTAT
1 TATACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTTAT
14967098 TATACTTCATCTATTTGATATTGATTAGAATAAGGTGTTTCAACCTTAT
1 TATACTTCATCTATTT-ATATT-ATTAGAATAAGGTGTTTCAACCTTAT
14967147 TA
1 TA
14967149 CACTCCTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 14 0.33
47 4 0.09
49 25 0.58
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (47 bp):
TATACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTTAT
Found at i:14973654 original size:13 final size:13
Alignment explanation
Indices: 14973638--14973703 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
14973628 TTTAAACCAA
14973638 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
14973651 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
14973664 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
14973677 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
14973690 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
14973703 A
1 A
14973704 TTGCCAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.09
13 39 0.83
14 4 0.09
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.27
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:14974668 original size:25 final size:25
Alignment explanation
Indices: 14974634--14974685 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
14974624 CTTGATGATG
*
14974634 GAAGATTCCACTTATAATTTTTAAT
1 GAAGATTCCACTTATAATTGTTAAT
14974659 GAAGATTCCACTTATAATTGTTAAT
1 GAAGATTCCACTTATAATTGTTAAT
14974684 GA
1 GA
14974686 TGGATTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (25 bp):
GAAGATTCCACTTATAATTGTTAAT
Found at i:14975879 original size:30 final size:30
Alignment explanation
Indices: 14975837--14975954 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
14975827 ACGGACGGGT
* *
14975837 AACCTCGATATAATGTCATCTTGTGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
*
14975867 AACCTGGTTATAATGTCAGCTTGTGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
* * * * *
14975897 AACATTGAAATATTGTCAGCTTATGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
* * * *
14975927 AACCTTGAAATATTGTCAGCTTATGTGA
1 AACCTGGATATAATGTCAGCTTGTGTGA
14975955 ACATTTCATT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (30 bp):
AACCTGGATATAATGTCAGCTTGTGTGAGC
Found at i:14988047 original size:28 final size:28
Alignment explanation
Indices: 14988015--14988069 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
14988005 ATGGTTTGAA
*
14988015 TTATTTTTA-ACTAAGTTTTCTGGATTTT
1 TTATTTTTAGACTAAGCTTT-TGGATTTT
14988043 TTATTTTTAGACTAAGCTTTTGGATTT
1 TTATTTTTAGACTAAGCTTTTGGATTT
14988070 GATTTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.58
Consensus pattern (28 bp):
TTATTTTTAGACTAAGCTTTTGGATTTT
Found at i:14994470 original size:28 final size:28
Alignment explanation
Indices: 14994430--14994502 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
14994420 AACACACTAG
* *
14994430 GGTCTTCGTAGAGATAA-TCAGTAATAAT
1 GGTCTCCGTAGAGACAACT-AGTAATAAT
*
14994458 GGTCTCCGTAGAGACAACTAGTAATAGT
1 GGTCTCCGTAGAGACAACTAGTAATAAT
*
14994486 GGTCTCCATAGAGACAA
1 GGTCTCCGTAGAGACAA
14994503 ACCTCGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (28 bp):
GGTCTCCGTAGAGACAACTAGTAATAAT
Found at i:15001545 original size:11 final size:11
Alignment explanation
Indices: 15001515--15001589 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
15001505 AAACTAATCC
15001515 TCTCTCAATTAT
1 TCTCTCAATT-T
*
15001527 TTTCTCAATTT
1 TCTCTCAATTT
15001538 TCTCTCAATTT
1 TCTCTCAATTT
* * *
15001549 GCTTTCAAGTT
1 TCTCTCAATTT
*
15001560 GCTCTCAATTT
1 TCTCTCAATTT
* *
15001571 CCT-TCCAAATT
1 TCTCT-CAATTT
15001582 TCTCTCAA
1 TCTCTCAA
15001590 ATCCATATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
10 1 0.02
11 40 0.78
12 10 0.20
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:15001692 original size:19 final size:19
Alignment explanation
Indices: 15001647--15001683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15001637 TTAAATCCCT
15001647 ATTTTTAATTATTTTAAAA
1 ATTTTTAATTATTTTAAAA
**
15001666 AAATTTAATTATTTTAAA
1 ATTTTTAATTATTTTAAA
15001684 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTAATTATTTTAAAA
Found at i:15002814 original size:7 final size:7
Alignment explanation
Indices: 15002802--15002827 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15002792 TAGTCGATTG
15002802 GTATTTA
1 GTATTTA
15002809 GTATTTA
1 GTATTTA
15002816 GTATTTA
1 GTATTTA
15002823 GTATT
1 GTATT
15002828 ACGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:15004080 original size:8 final size:8
Alignment explanation
Indices: 15004067--15004110 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
15004057 AATTTATTAA
15004067 AAATTTAT
1 AAATTTAT
15004075 AAATTTAT
1 AAATTTAT
15004083 AAATTATAATT
1 AAATT-T-A-T
15004094 AAATTTAT
1 AAATTTAT
15004102 -AATTTAT
1 AAATTTAT
15004109 AA
1 AA
15004111 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 15 0.47
9 2 0.06
10 2 0.06
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTAT
Found at i:15004096 original size:19 final size:19
Alignment explanation
Indices: 15004074--15004127 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
15004064 TAAAAATTTA
*
15004074 TAAATTTATAAATTATAAT
1 TAAATTTATAATTTATAAT
15004093 TAAATTTATAATTTATAAT
1 TAAATTTATAATTTATAAT
15004112 TAAATTTATAATTTAT
1 TAAATTTATAATTTAT
15004128 TTGACAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTTATAATTTATAAT
Found at i:15004103 original size:12 final size:13
Alignment explanation
Indices: 15004071--15004124 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
15004061 TATTAAAAAT
15004071 TTATAAATTTATAAA
1 TTAT-AATTTAT-AA
15004086 TTATAA-TTA-AA
1 TTATAATTTATAA
15004097 TTTATAATTTATAA
1 -TTATAATTTATAA
15004111 TTA-AATTTATAA
1 TTATAATTTATAA
15004123 TT
1 TT
15004125 TATTTGACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.06
12 17 0.47
13 9 0.25
14 4 0.11
15 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATAATTTATAA
Found at i:15004192 original size:22 final size:21
Alignment explanation
Indices: 15004158--15004243 Score: 120
Period size: 22 Copynumber: 4.0 Consensus size: 21
15004148 CCCTAACCTT
15004158 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
15004179 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
15004201 AACCCTAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
15004222 AACCCCATAA-CCTTAATCTTAA
1 AA-CCC-TAACCCTTAA-CTTAA
15004244 CAAAAACTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
21 22 0.37
22 30 0.51
23 7 0.12
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:15004212 original size:43 final size:44
Alignment explanation
Indices: 15004158--15004243 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
15004148 CCCTAACCTT
* *
15004158 AACCCTAACCCTTAACTTAAAAACCCTA-AACCCTTAA-CTTAAA
1 AACCCTAACCCTTAACATAAAAACCCCATAA-CCTTAATCTTAAA
15004201 AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAA
1 AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAA
15004244 CAAAAACTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (44 bp):
AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAAA
Found at i:15007623 original size:125 final size:124
Alignment explanation
Indices: 15007341--15007773 Score: 688
Period size: 124 Copynumber: 3.5 Consensus size: 124
15007331 TAAACATGCT
* * * * *
15007341 ACTGTAGGAAAAGCGCGTCCATGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCATACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
* * * *
15007406 GAAGCGTTTTTATATTATTCGCTCAGAAACGTAAACTCGAAATTA-TTTTTCAGGACCT
66 GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
* *
15007464 ACTGTAGCAAAAGCGCGTCCACGTAGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
*
15007529 GAAGCGTTTTTTATACTATTCGCTCAGAAATGTCAACTCAAAATTATTTTTTCAGGACCA
66 GAAGCG-TTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
*
15007589 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
* **
15007654 GAAGCCTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
* *
15007713 ACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTGATAAAGCATCCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
15007774 GCTTTGATTT
Statistics
Matches: 286, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
123 64 0.22
124 143 0.50
125 79 0.28
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
Found at i:15007936 original size:22 final size:22
Alignment explanation
Indices: 15007896--15007938 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15007886 TTTTATCTAA
**
15007896 AACCCTAAAAACCTTAAACCTT
1 AACCCTAAAAACCCAAAACCTT
15007918 AACCCTAAAAACCCAAAACCT
1 AACCCTAAAAACCCAAAACCT
15007939 AATGGCGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (22 bp):
AACCCTAAAAACCCAAAACCTT
Found at i:15010948 original size:6 final size:6
Alignment explanation
Indices: 15010937--15010992 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
15010927 TTTGGTACAC
* *
15010937 AGATGT AGATGT AGATGT AGATGT AAATGT AAATGT -GATTCGT AGATGT
1 AGATGT AGATGT AGATGT AGATGT AGATGT AGATGT AGA-T-GT AGATGT
15010986 A-ATGT AG
1 AGATGT AG
15010993 GGGATGGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 6 0.14
6 33 0.75
7 3 0.07
8 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (6 bp):
AGATGT
Found at i:15011085 original size:10 final size:10
Alignment explanation
Indices: 15011070--15011095 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15011060 ATATTGTTAT
15011070 CATTTTATAC
1 CATTTTATAC
15011080 CATTTTATAC
1 CATTTTATAC
15011090 CATTTT
1 CATTTT
15011096 GTTAGTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (10 bp):
CATTTTATAC
Found at i:15020802 original size:30 final size:30
Alignment explanation
Indices: 15020730--15020803 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
15020720 TTAAAAATAT
15020730 AAAAAAATTAA-TAA--TTTTAAAATTTTA
1 AAAAAAATTAATTAATTTTTTAAAATTTTA
* * **
15020757 AAATATATTTTTTAATTTTTTAAAATTTTA
1 AAAAAAATTAATTAATTTTTTAAAATTTTA
15020787 AAAAAAATTAATTAATT
1 AAAAAAATTAATTAATT
15020804 CATGGCGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 7 0.19
28 3 0.08
30 26 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAAAAATTAATTAATTTTTTAAAATTTTA
Found at i:15033104 original size:49 final size:49
Alignment explanation
Indices: 15033047--15033150 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
15033037 TCATGTGTTA
* * * *
15033047 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
15033096 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATGTTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
15033145 TAATTT
1 TAATTT
15033151 GTTTCTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:15034559 original size:26 final size:26
Alignment explanation
Indices: 15034529--15034581 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15034519 AGTTTAAAAA
15034529 TAATAA-AATAGATTATAAATTATATT
1 TAATAATAAT-GATTATAAATTATATT
* *
15034555 TAATAATAATTATTTTAAATTATATT
1 TAATAATAATGATTATAAATTATATT
15034581 T
1 T
15034582 TATAGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TAATAATAATGATTATAAATTATATT
Found at i:15034653 original size:61 final size:61
Alignment explanation
Indices: 15034588--15034778 Score: 212
Period size: 61 Copynumber: 3.2 Consensus size: 61
15034578 ATTTTATAGT
*
15034588 ATTATATAATATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * * *
15034649 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
*
15034708 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
15034769 ATTATATATT
1 ATTATATATT
15034779 TTTATTAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 31 0.31
60 14 0.14
61 41 0.41
62 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:15034681 original size:120 final size:120
Alignment explanation
Indices: 15034544--15034813 Score: 513
Period size: 120 Copynumber: 2.2 Consensus size: 120
15034534 AAATAGATTA
15034544 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
*
15034609 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
15034664 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
15034729 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
15034784 TAAATTATATTTAATAATAATTATGTTAAA
1 TAAATTATATTTAATAATAATTATTTTAAA
15034814 ATATGATTAA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 147 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:15035012 original size:44 final size:46
Alignment explanation
Indices: 15034958--15035051 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
15034948 ATTACAACAT
* *
15034958 CATTCTATTCAACCAAACACAA-GAATA-CTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
*
15035002 CATTCCATTCAACCAAACAAAAGGATTACCTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
15035048 CATT
1 CATT
15035052 ACACCTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 20 0.44
45 4 0.09
46 21 0.47
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
Found at i:15035062 original size:16 final size:16
Alignment explanation
Indices: 15035033--15035070 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15035023 AGGATTACCT
*
15035033 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
15035049 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
15035065 ATTACA
1 ATTACA
15035071 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:15035595 original size:27 final size:26
Alignment explanation
Indices: 15035528--15035619 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 26
15035518 GTATCAGTAT
15035528 ATTAATGTTT-TAAATATAATTTATTATTAG
1 ATTAAT-TTTATAAATAT--TTTA-TATT-G
*
15035558 ATTTAAGTTTTA-AAATTTTTTTATATATG
1 A-TTAA-TTTTATAAA-TATTTTATAT-TG
15035587 ATTAATTTTATAAATATTTTATATTG
1 ATTAATTTTATAAATATTTTATATTG
15035613 ATTAATT
1 ATTAATT
15035620 AAAAGGTATG
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
26 9 0.17
27 14 0.26
28 7 0.13
29 5 0.09
30 6 0.11
31 10 0.19
32 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTAATTTTATAAATATTTTATATTG
Found at i:15036909 original size:8 final size:8
Alignment explanation
Indices: 15036892--15036920 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15036882 ATAGTTCTTG
15036892 TAAA-ATA
1 TAAATATA
15036899 TAAATATA
1 TAAATATA
15036907 TAAATATA
1 TAAATATA
15036915 TAAATA
1 TAAATA
15036921 AAATTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TAAATATA
Found at i:15037388 original size:31 final size:30
Alignment explanation
Indices: 15037322--15037388 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
15037312 AGTTTATTTT
15037322 TTTTTATAATTTTTAAGAAGTTAGATTAAA
1 TTTTTATAATTTTTAAGAAGTTAGATTAAA
* *
15037352 ATTTTATCATTTTTAATGTAA-TTA-ATTTAAA
1 TTTTTATAATTTTTAA-G-AAGTTAGA-TTAAA
15037383 TTTTTA
1 TTTTTA
15037389 AATGACCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 15 0.48
31 14 0.45
32 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (30 bp):
TTTTTATAATTTTTAAGAAGTTAGATTAAA
Found at i:15069208 original size:16 final size:16
Alignment explanation
Indices: 15069130--15069196 Score: 98
Period size: 16 Copynumber: 4.2 Consensus size: 16
15069120 AAAAACAGGA
15069130 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
* * * *
15069146 AGATATATATCTATAT
1 AGAAAAAAATGTATAT
15069162 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
15069178 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
15069194 AGA
1 AGA
15069197 TATATATGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.58, C:0.01, G:0.12, T:0.28
Consensus pattern (16 bp):
AGAAAAAAATGTATAT
Found at i:15069361 original size:17 final size:17
Alignment explanation
Indices: 15069339--15069371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15069329 GAGTTTATAC
15069339 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
15069356 ATATAATATATTAAAA
1 ATATAATATATTAAAA
15069372 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:15071755 original size:20 final size:19
Alignment explanation
Indices: 15071727--15071801 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
15071717 TTTTAAAATT
*
15071727 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTTAA-C
* *
15071747 AAGTCAAAATGATTTCCATC
1 AAGTCAAAATGATTT-TAAC
* *
15071767 AAGTTAAAATCATTTTAAC
1 AAGTCAAAATGATTTTAAC
15071786 ACA-TCAAAATGATTTT
1 A-AGTCAAAATGATTTT
15071802 CAAACAAGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
19 14 0.32
20 29 0.66
21 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (19 bp):
AAGTCAAAATGATTTTAAC
Found at i:15075319 original size:16 final size:16
Alignment explanation
Indices: 15075298--15075333 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
15075288 TTTGGTTCGC
15075298 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15075314 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15075330 TGTA
1 TGTA
15075334 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15075578 original size:25 final size:25
Alignment explanation
Indices: 15075546--15075600 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
15075536 TAATTTAATC
*
15075546 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
15075570 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
15075595 ATATAT
1 ATATAT
15075601 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:15075782 original size:47 final size:46
Alignment explanation
Indices: 15075731--15075891 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
15075721 GATTTAATAA
15075731 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
15075778 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
15075819 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
15075866 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
15075892 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:15077723 original size:22 final size:22
Alignment explanation
Indices: 15077695--15077750 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
15077685 GATCAATAAA
15077695 AGTAAATGCATTGAATTTCTCC
1 AGTAAATGCATTGAATTTCTCC
15077717 AGTAAATGCATTGAATTTCTCC
1 AGTAAATGCATTGAATTTCTCC
*
15077739 AATAAACTGCAT
1 AGTAAA-TGCAT
15077751 CATCATCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (22 bp):
AGTAAATGCATTGAATTTCTCC
Found at i:15102817 original size:355 final size:355
Alignment explanation
Indices: 15102166--15102870 Score: 1187
Period size: 355 Copynumber: 2.0 Consensus size: 355
15102156 GTTCAGCAAA
* * *
15102166 TCACAATACAAAAGGGATTCTGGACTACGTTCACAGTGATGTGTGAGGACCTACTAAAGTGGCTT
1 TCACAATACAAAAGGAATTCTGGACTACATTCAAAGTGATGTGTGAGGACCTACTAAAGTGGCTT
* *
15102231 CTTTGGGAGGTATGCACTGTTTTGTTACTTTTGTTGATGATTATTCAAGAAAAGTATGGATGTAT
66 CTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTAT
* *
15102296 CTAATGAAAAGAAAAAATGAAGTTTTGGATGCATTTTTGAAATGGAAAAAGATAGTGGAGACCCA
131 CTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCCA
* * * * * *
15102361 TATTGGTCGAAAGGTTAAACGACTTCGATCAGACAATGGTATTGAGTACCAGAATGATCCATTTC
196 AACTGGTCAAAAAGTCAAACGACTTCGATCAGACAATGGTATTGAGTACAAGAATGATCCATTTC
* *
15102426 TACAAGTATGTCAAGATGAGGGCATTGTGTGACACTTCACTGTTCGAGATACACCACAATAAAAT
261 TACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAAT
* *
15102491 GGGGTGGCAGAACGTATGAATCGGAGTAAT
326 AGGGTGGCAGAACATATGAATCGGAGTAAT
*
15102521 TCACAATACAAAAGGAATTCTGGACTACATTCAAAGTGATGTGTG-GAGACCTATTAAAGTGGCT
1 TCACAATACAAAAGGAATTCTGGACTACATTCAAAGTGATGTGTGAG-GACCTACTAAAGTGGCT
* *
15102585 TCTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAATAAAAATATGGGTGTA
65 TCTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTA
* *
15102650 TCTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAGAAGATGGTGGAGACCC
130 TCTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCC
*
15102715 AAACTGGTCAAAAAGTCAAGCGACTTCGATCAGACAATGGTATTGAGTACAAGAATGATCCATTT
195 AAACTGGTCAAAAAGTCAAACGACTTCGATCAGACAATGGTATTGAGTACAAGAATGATCCATTT
15102780 CTACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAA
260 CTACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAA
15102845 TAGGGTGGCAGAACATATGAATCGGA
325 TAGGGTGGCAGAACATATGAATCGGA
15102871 CTATACTGGA
Statistics
Matches: 326, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
354 1 0.00
355 325 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (355 bp):
TCACAATACAAAAGGAATTCTGGACTACATTCAAAGTGATGTGTGAGGACCTACTAAAGTGGCTT
CTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTAT
CTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCCA
AACTGGTCAAAAAGTCAAACGACTTCGATCAGACAATGGTATTGAGTACAAGAATGATCCATTTC
TACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAAT
AGGGTGGCAGAACATATGAATCGGAGTAAT
Found at i:15104129 original size:17 final size:17
Alignment explanation
Indices: 15104107--15104139 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15104097 ATAGAAAGTC
*
15104107 AAAGATATGGGTATCAT
1 AAAGATACGGGTATCAT
15104124 AAAGATACGGGTATCA
1 AAAGATACGGGTATCA
15104140 AAATCTGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
AAAGATACGGGTATCAT
Found at i:15121858 original size:22 final size:24
Alignment explanation
Indices: 15121833--15121877 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
15121823 ATATGACAAA
15121833 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
15121855 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
15121878 AACTTAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:15131296 original size:15 final size:17
Alignment explanation
Indices: 15131266--15131297 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15131256 CAACAATTAA
15131266 TTAACTTTTTATAATTT
1 TTAACTTTTTATAATTT
15131283 TTAA-TTTTTA-AATTT
1 TTAACTTTTTATAATTT
15131298 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 6 0.40
17 4 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTAACTTTTTATAATTT
Found at i:15141480 original size:4 final size:4
Alignment explanation
Indices: 15141471--15141516 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
15141461 CCTACTTTCT
15141471 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
15141517 CTTCAGCTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:15145408 original size:25 final size:24
Alignment explanation
Indices: 15145377--15145449 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
15145367 CCACAGCTTG
15145377 TATGAGCTTACCGATTTGCAGCTCA
1 TATGAGCTTACCGATTT-CAGCTCA
* *
15145402 TGA-GAGCTTATCGATTCTCAGCTCG
1 T-ATGAGCTTACCGATT-TCAGCTCA
*
15145427 TATGAGCTTACCGTATTTTAGCT
1 TATGAGCTTACCG-ATTTCAGCT
15145450 TTGAAGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.03
25 34 0.85
26 5 0.12
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (24 bp):
TATGAGCTTACCGATTTCAGCTCA
Found at i:15147507 original size:24 final size:24
Alignment explanation
Indices: 15147475--15147529 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
15147465 TCTTCCAGTT
15147475 AAACTCTGTTTATTTATTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
* *
15147499 AAACTCTGTTTATTTGTTTTAATC
1 AAACTCTGTTTATTTATTTCAATC
15147523 AAACTCT
1 AAACTCT
15147530 AATTAGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:15169009 original size:3 final size:3
Alignment explanation
Indices: 15169001--15169027 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15168991 TTTCTCTTGG
15169001 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
15169028 TTACAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:15169846 original size:15 final size:15
Alignment explanation
Indices: 15169826--15169854 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15169816 GTACCAGACA
15169826 TGGATAATGAAAAAT
1 TGGATAATGAAAAAT
15169841 TGGATAATGAAAAA
1 TGGATAATGAAAAA
15169855 CAAGTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (15 bp):
TGGATAATGAAAAAT
Found at i:15172949 original size:50 final size:50
Alignment explanation
Indices: 15172886--15172981 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
15172876 CAGCAAATAC
* * *
15172886 ATGGTCCAAAGAGCGAAACTTGGTTTCAAGTTACGGAAATAAGTCTCAAT
1 ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCTCAAT
* * *
15172936 ATGGTCCATAGAGCAAAATTTTGTTTCAAGTTACAGAAAGAAGTCT
1 ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCT
15172982 AAATTAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCTCAAT
Found at i:15178008 original size:19 final size:19
Alignment explanation
Indices: 15177977--15178020 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
15177967 CAAGCTTAAT
15177977 ATTAAATTAATTAAGATTTA
1 ATTAAATTAATTAAG-TTTA
*
15177997 GTTAAA-TAATTAAGTTTA
1 ATTAAATTAATTAAGTTTA
15178015 ATTAAA
1 ATTAAA
15178021 CGTTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (19 bp):
ATTAAATTAATTAAGTTTA
Found at i:15179333 original size:16 final size:17
Alignment explanation
Indices: 15179290--15179335 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
15179280 GAGTATAGTT
15179290 TAATA-GTATATG-TTA
1 TAATATGTATATGATTA
*
15179305 TAATATG-AAATGATTA
1 TAATATGTATATGATTA
15179321 T-ATATGTATATGATT
1 TAATATGTATATGATT
15179336 TTGGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (17 bp):
TAATATGTATATGATTA
Found at i:15189009 original size:6 final size:6
Alignment explanation
Indices: 15188963--15188996 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
15188953 AGCAGTGGAG
15188963 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
15188997 AATAAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:15193756 original size:17 final size:17
Alignment explanation
Indices: 15193708--15193772 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
15193698 AAATTTTAGG
*
15193708 CTTAAGTGAATTTTTGAA
1 CTTAAGT-AAATTTTGAA
**
15193726 CTTAAGTATGTTTTGAA
1 CTTAAGTAAATTTTGAA
*
15193743 CTTAAGTAAATTTTTAA
1 CTTAAGTAAATTTTGAA
* *
15193760 TTTGAGTAAATTT
1 CTTAAGTAAATTT
15193773 CAAACTGCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 33 0.82
18 7 0.17
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (17 bp):
CTTAAGTAAATTTTGAA
Found at i:15194208 original size:124 final size:126
Alignment explanation
Indices: 15193938--15194225 Score: 321
Period size: 124 Copynumber: 2.3 Consensus size: 126
15193928 TTTAGAGTTG
* * * * **
15193938 TTTTTAGAGGTTGCAATCATAAACCGACAAATCTTTATAACATTAGCTGGGAGCGTAGGTCTGCT
1 TTTTTAGAGGTTGCGATCATAAA-CGAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCACT
* * * * ** * *
15194003 AGTTTTGTTGGAGATGCGAGCAAGCTCTTAGAATATCATCTGGGAACATAGGTTTGCTAGTTG
65 AGCTGTGTT-GAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
* *
15194066 TTTTTAGAGGTTGCGATCATAAATCGAAAAACCTTTATTACATTAGTTGAGAGCGTAGGTCCACT
1 TTTTTAGAGGTTGCGATCATAAA-CGAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCACT
* * * *
15194131 AGCTGTGTT-AGA-GC-TGCGAGTTCTTAGAATATCAGCTGAGAATATAGGTCCGCTAGCTA
65 AGCTGTGTTGAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
* *
15194190 TTTTTGGAGGTTGTGATCATAAACTGAAAAACCTTT
1 TTTTTAGAGGTTGCGATCATAAAC-GAAAAACCTTT
15194226 GAATAATACT
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
123 1 0.01
124 67 0.49
125 2 0.01
126 3 0.02
128 63 0.46
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (126 bp):
TTTTTAGAGGTTGCGATCATAAACGAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCACTA
GCTGTGTTGAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
Found at i:15198208 original size:10 final size:10
Alignment explanation
Indices: 15198181--15198225 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15198171 GACACACATC
15198181 AATCACATAT
1 AATCACATAT
*
15198191 AAGCACATAT
1 AATCACATAT
* *
15198201 AATTACATAC
1 AATCACATAT
*
15198211 AATCACATTT
1 AATCACATAT
15198221 AATCA
1 AATCA
15198226 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (10 bp):
AATCACATAT
Found at i:15206525 original size:196 final size:196
Alignment explanation
Indices: 15206191--15206562 Score: 591
Period size: 196 Copynumber: 1.9 Consensus size: 196
15206181 TTCCACAAGC
15206191 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
1 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
* ** * *
15206256 GAACCTTTTACAATGATACTTCTAAGTCAAAACCATCTCAGGAGCATACCGACAAAGGTGCACAA
66 GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
* *
15206321 GCTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAGGATCTAAAAATTACCACCATAAG
131 ACTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCTAAAAATTACCACCATAAG
15206386 T
196 T
*
15206387 TCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
1 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
* * * * * * *
15206452 GAACCTCTTACAATGATCCTTCTCAGTCAAAACTATCTTAAAAGAATACTGACTAAGGCGCATAA
66 GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
* *
15206517 ACTCTGCCTCATAGTTAGCCATAGACAAGCTACCTTGCACAAGATC
131 ACTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATC
15206563 CATATACTGC
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
196 159 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (196 bp):
TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
ACTCTGCCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCTAAAAATTACCACCATAAG
T
Found at i:15207548 original size:20 final size:22
Alignment explanation
Indices: 15207523--15207575 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
15207513 GTGTTATGCA
15207523 GGTATCGATACTGCCTTT-A-T
1 GGTATCGATACTGCCTTTAAGT
* *
15207543 GGTATCGATATTTCCTTTAAGT
1 GGTATCGATACTGCCTTTAAGT
*
15207565 GGTATCTATAC
1 GGTATCGATAC
15207576 CATTTGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (22 bp):
GGTATCGATACTGCCTTTAAGT
Found at i:15208360 original size:10 final size:10
Alignment explanation
Indices: 15208333--15208377 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15208323 GACACACATC
15208333 AATCACATAT
1 AATCACATAT
*
15208343 AAGCACATAT
1 AATCACATAT
* *
15208353 AATTACATAC
1 AATCACATAT
*
15208363 AATCACATTT
1 AATCACATAT
15208373 AATCA
1 AATCA
15208378 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (10 bp):
AATCACATAT
Found at i:15208857 original size:8 final size:8
Alignment explanation
Indices: 15208846--15208870 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15208836 TGTTCATGAT
15208846 TTCACAAA
1 TTCACAAA
15208854 TTCACAAA
1 TTCACAAA
15208862 TTCACAAA
1 TTCACAAA
15208870 T
1 T
15208871 AAACTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (8 bp):
TTCACAAA
Found at i:15213199 original size:15 final size:15
Alignment explanation
Indices: 15213179--15213227 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
15213169 TGTATATTAT
15213179 AATATTAATTAATAA
1 AATATTAATTAATAA
*
15213194 AATATTATTACTTATTAA
1 AATATTA--A-TTAATAA
15213212 AATATT-ATTAATAA
1 AATATTAATTAATAA
15213226 AA
1 AA
15213228 ATATCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
17 1 0.03
18 12 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTAATTAATAA
Found at i:15213212 original size:18 final size:18
Alignment explanation
Indices: 15213181--15213223 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
15213171 TATATTATAA
15213181 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
15213199 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
15213217 TATTAAT
1 TATTAAT
15213224 AAAAATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:15213799 original size:20 final size:20
Alignment explanation
Indices: 15213763--15213800 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15213753 ATGAAAACAA
*
15213763 TTAGAATTAAATCTTAAGGT
1 TTAGAATTAAATATTAAGGT
15213783 TTAGAAATTAAA-ATTAAG
1 TTAG-AATTAAATATTAAG
15213801 TGCATGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (20 bp):
TTAGAATTAAATATTAAGGT
Found at i:15222752 original size:41 final size:40
Alignment explanation
Indices: 15222707--15222851 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 40
15222697 GACTTTAAGT
*
15222707 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
*
15222748 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
* * * *
15222789 CTAGCAAGCTACGTGCCGGTGATTTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA-C
*
15222830 CTAGCAGGCTAAGTGTCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
15222852 ATATGTTAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 2 0.02
41 90 0.98
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAC
Found at i:15223687 original size:39 final size:39
Alignment explanation
Indices: 15223633--15223732 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
15223623 CATGTTTTTA
* *
15223633 AGTATTGTGATATATGCTTGAATATTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
*
15223672 AGTATTGTGATATATGCTTAAATGTTAAGTGATTATATG
1 AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
* * *
15223711 TGAAATGTGATATATGCTTAAA
1 AGTATTGTGATATATGCTTAAA
15223733 AGTGAATATG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
Found at i:15223737 original size:17 final size:17
Alignment explanation
Indices: 15223698--15223746 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
15223688 CTTAAATGTT
*
15223698 AAGTGATTATATG-TGAA
1 AAGTGA-TATATGCTTAA
*
15223715 ATGTGATATATGCTTAA
1 AAGTGATATATGCTTAA
15223732 AAGTGA-ATATGCTTA
1 AAGTGATATATGCTTA
15223747 CCTTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (17 bp):
AAGTGATATATGCTTAA
Found at i:15225996 original size:22 final size:22
Alignment explanation
Indices: 15225955--15226004 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15225945 CTCATCTTTA
*
15225955 GTGTTATTGTTTCTTTATTTTT
1 GTGTTATTGTTTCTTAATTTTT
*
15225977 GTGTTAGTTGTTT-TTAATTTAT
1 GTGTTA-TTGTTTCTTAATTTTT
15225999 GT-TTAT
1 GTGTTAT
15226005 CAAGTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 15 0.60
23 6 0.24
ACGTcount: A:0.14, C:0.02, G:0.16, T:0.68
Consensus pattern (22 bp):
GTGTTATTGTTTCTTAATTTTT
Found at i:15229247 original size:28 final size:28
Alignment explanation
Indices: 15229116--15229280 Score: 181
Period size: 28 Copynumber: 5.9 Consensus size: 28
15229106 CCATGGCATA
* * *
15229116 TTCAAGTAAGAGTCTGCATGGATTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* * *
15229144 ATCAAGTAAGAGTCAGCATGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* *
15229172 ATCAAGTAAGAGTCCGCATGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* *
15229200 TTCAAGAAAGAGTTCGCAAGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* * *
15229228 TTCAAGTAAGAGTCCACAAGGATTGT-T
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
15229255 CTTCAAG-AAGGAGTCCGCAAGGACTA
1 -TTCAAGTAA-GAGTCCGCAAGGACTA
15229281 ACTAATGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
27 3 0.03
28 116 0.97
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (28 bp):
TTCAAGTAAGAGTCCGCAAGGACTATCT
Found at i:15231000 original size:20 final size:20
Alignment explanation
Indices: 15230975--15231044 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 20
15230965 AAAGCCTACT
15230975 GATCATCGTAACTACCATTG
1 GATCATCGTAACTACCATTG
* *
15230995 GATCATTTCCTTAAAT-CCATTG
1 GATCA--T-CGTAACTACCATTG
15231017 ATGATCATCGTAACTACCATTG
1 --GATCATCGTAACTACCATTG
15231039 GATCAT
1 GATCAT
15231045 TTCCTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 11 0.28
21 5 0.12
22 14 0.35
23 5 0.12
24 5 0.12
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (20 bp):
GATCATCGTAACTACCATTG
Found at i:15231016 original size:22 final size:23
Alignment explanation
Indices: 15230987--15231051 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
15230977 TCATCGTAAC
15230987 TACCATTGGATCATTTCCTTAAA
1 TACCATTGGATCATTTCCTTAAA
* *
15231010 T-CCATTGATGATCA--T-CGTAAC
1 TACCATTG--GATCATTTCCTTAAA
15231031 TACCATTGGATCATTTCCTTA
1 TACCATTGGATCATTTCCTTA
15231052 TTTTCCAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 14 0.42
23 4 0.12
24 5 0.15
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (23 bp):
TACCATTGGATCATTTCCTTAAA
Found at i:15238900 original size:3 final size:3
Alignment explanation
Indices: 15238892--15238918 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15238882 TTAGTTTCCG
15238892 GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA
15238919 TATCAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Done.