Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 20 of 295
Found at i:6099027 original size:3 final size:3
Alignment explanation
Indices: 6099014--6099055 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
6099004 ACAAACAATG
* *
6099014 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT
6099056 GCAACGTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6099295 original size:16 final size:16
Alignment explanation
Indices: 6099274--6099330 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
6099264 TATAATAACT
*
6099274 ATATATATATAATATA
1 ATATATACATAATATA
6099290 ATATATACATAATATA
1 ATATATACATAATATA
* *
6099306 GTAT-TA-AAAATAT-
1 ATATATACATAATATA
6099319 ATATAATACATA
1 ATAT-ATACATA
6099331 CACATTAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.09
14 6 0.18
15 4 0.12
16 20 0.61
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (16 bp):
ATATATACATAATATA
Found at i:6099402 original size:12 final size:12
Alignment explanation
Indices: 6099382--6099417 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6099372 AATAATACTT
*
6099382 CATAAATATATA
1 CATACATATATA
6099394 CATACATATATA
1 CATACATATATA
*
6099406 TATACATATATA
1 CATACATATATA
6099418 TGTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (12 bp):
CATACATATATA
Found at i:6099406 original size:16 final size:16
Alignment explanation
Indices: 6099382--6099418 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6099372 AATAATACTT
*
6099382 CATAAATATATACATA
1 CATATATATATACATA
6099398 CATATATATATACATA
1 CATATATATATACATA
*
6099414 TATAT
1 CATAT
6099419 GTTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (16 bp):
CATATATATATACATA
Found at i:6099418 original size:12 final size:12
Alignment explanation
Indices: 6099387--6099418 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6099377 TACTTCATAA
*
6099387 ATATATACATAC
1 ATATATATATAC
6099399 ATATATATATAC
1 ATATATATATAC
6099411 ATATATAT
1 ATATATAT
6099419 GTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:6099593 original size:24 final size:24
Alignment explanation
Indices: 6099526--6099582 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
6099516 TAGTAATTAT
* * * *
6099526 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
6099550 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
6099574 AATAATAAT
1 AATAATAAT
6099583 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:6100325 original size:13 final size:13
Alignment explanation
Indices: 6100309--6100333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6100299 CATCCGCCGC
6100309 CGCCGGCCACCGT
1 CGCCGGCCACCGT
6100322 CGCCGGCCACCG
1 CGCCGGCCACCG
6100334 CGCACAGTGT
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:0.08, C:0.56, G:0.32, T:0.04
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:6101167 original size:44 final size:44
Alignment explanation
Indices: 6101104--6101374 Score: 379
Period size: 44 Copynumber: 6.2 Consensus size: 44
6101094 AAGAACACCG
* ** ** *
6101104 ATCTGTTATTTTTTATCTGCTCTCTACCGCTTCAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6101148 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* **
6101192 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGACATCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6101236 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6101280 ATCTGTTATTTTCAATCTGCTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6101324 A--TG--ATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6101364 ATCTGTTATCT
1 ATCTGTTATCT
6101375 GTTTCAAGGA
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 33 0.17
42 4 0.02
44 163 0.81
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:6123121 original size:23 final size:23
Alignment explanation
Indices: 6123103--6123156 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
6123093 TTATTTGTTT
6123103 TTATATTTTTTAAAAATTTATTA
1 TTATATTTTTTAAAAATTTATTA
*
6123126 TTATATTTTTTGAAAATTT-TTA
1 TTATATTTTTTAAAAATTTATTA
6123148 TATATATTT
1 T-TATATTT
6123157 ATATATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATATTTTTTAAAAATTTATTA
Found at i:6123174 original size:53 final size:52
Alignment explanation
Indices: 6123040--6123164 Score: 132
Period size: 52 Copynumber: 2.4 Consensus size: 52
6123030 TAATATAATT
** * **
6123040 ATTTTTATTTATTT-TA-AACTTTT-AAATATATTATTATATTTTTTTGATC
1 ATTTTTATTTATTTATATATTTTTTAAAATTTATTATTATATTTTTTTGAAA
* *
6123089 ATTTTTATTTGTTTTTATATTTTTTAAAAATTTATTATTATA-TTTTTTGAAA
1 ATTTTTATTTATTTATATATTTTTT-AAAATTTATTATTATATTTTTTTGAAA
6123141 ATTTTTATATATATTTATATATTT
1 ATTTTTAT-T-TATTTATATATTT
6123165 ATTTGAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
49 13 0.21
50 2 0.03
51 5 0.08
52 16 0.26
53 15 0.24
54 11 0.18
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (52 bp):
ATTTTTATTTATTTATATATTTTTTAAAATTTATTATTATATTTTTTTGAAA
Found at i:6124404 original size:18 final size:18
Alignment explanation
Indices: 6124357--6124404 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6124347 ATTTGAGTCT
* *
6124357 ATTTATTAATACTATTAA
1 ATTTATTAAAAATATTAA
* *
6124375 ATTTTTTTAAAAATTTTAA
1 A-TTTATTAAAAATATTAA
6124394 ATTTATTAAAA
1 ATTTATTAAAA
6124405 TATCATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTATTAAAAATATTAA
Found at i:6126080 original size:27 final size:27
Alignment explanation
Indices: 6126050--6126105 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6126040 AAAATACGAG
6126050 TTTCAAACTAGCATGAAAAGCAACAAT
1 TTTCAAACTAGCATGAAAAGCAACAAT
*
6126077 TTTCAAACTAGCATGAAATGCAACAAT
1 TTTCAAACTAGCATGAAAAGCAACAAT
6126104 TT
1 TT
6126106 ACTTAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
TTTCAAACTAGCATGAAAAGCAACAAT
Found at i:6128310 original size:24 final size:23
Alignment explanation
Indices: 6128275--6128323 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
6128265 ATATGAAAAT
6128275 ATTTTAT-TTTTTTAATTTATATA
1 ATTTTATATTTTTTAATTT-TATA
6128298 ATTTATATATTTTTTAATTTTATA
1 ATTT-TATATTTTTTAATTTTATA
6128322 AT
1 AT
6128324 AAGAACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 9 0.38
25 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATATTTTTTAATTTTATA
Found at i:6130083 original size:37 final size:37
Alignment explanation
Indices: 6130022--6130167 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6130012 TACGTATGAT
* *
6130022 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6130057 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6130094 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6130131 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6130168 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6130184 original size:46 final size:46
Alignment explanation
Indices: 6130131--6130497 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
6130121 TAAGTGTAGC
* **
6130131 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6130177 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6130223 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6130275 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
6130321 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6130373 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * ** *
6130419 TACTGATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6130471 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6130498 AGTACTCAAA
Statistics
Matches: 279, Mismatches: 24, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
46 151 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 122 0.44
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6130250 original size:52 final size:52
Alignment explanation
Indices: 6130174--6130491 Score: 390
Period size: 52 Copynumber: 6.3 Consensus size: 52
6130164 TAGCTAAAGC
* *
6130174 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6130227 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6130279 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6130325 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6130377 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
6130423 GATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6130475 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6130492 ATCAGAAGTA
Statistics
Matches: 226, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
46 82 0.36
49 1 0.00
52 125 0.55
53 18 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6130296 original size:98 final size:98
Alignment explanation
Indices: 6130142--6130497 Score: 631
Period size: 98 Copynumber: 3.6 Consensus size: 98
6130132 ACTTATCACT
* * *
6130142 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
* *
6130207 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
** *
6130240 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
6130305 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
6130338 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
*
6130403 GTATAGCCGAAGCTATTACTGATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
6130436 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
6130498 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 248 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:6133679 original size:49 final size:50
Alignment explanation
Indices: 6133624--6133827 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
6133614 TTCGTTTTCT
*
6133624 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
6133673 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
6133722 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
6133780 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
6133828 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:6133794 original size:58 final size:59
Alignment explanation
Indices: 6133708--6133826 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
6133698 TACACGAAAT
6133708 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
6133766 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
6133825 CA
1 CA
6133827 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:6133807 original size:28 final size:28
Alignment explanation
Indices: 6133717--6133807 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
6133707 TCACATATCA
6133717 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
6133745 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
6133775 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
6133803 CTTAC
1 CTTAC
6133808 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:6135140 original size:37 final size:37
Alignment explanation
Indices: 6135079--6135224 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6135069 TACGTATGAT
* *
6135079 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6135114 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6135151 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6135188 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6135225 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6135241 original size:46 final size:46
Alignment explanation
Indices: 6135188--6135554 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
6135178 TAAGTGTAGC
* **
6135188 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6135234 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6135280 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6135332 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
6135378 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6135430 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * ** *
6135476 TACTGATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6135528 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6135555 AGTACTCAAA
Statistics
Matches: 279, Mismatches: 24, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
46 151 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 122 0.44
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6135307 original size:52 final size:52
Alignment explanation
Indices: 6135231--6135548 Score: 390
Period size: 52 Copynumber: 6.3 Consensus size: 52
6135221 TAGCTAAAGC
* *
6135231 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6135284 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6135336 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6135382 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6135434 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
6135480 GATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6135532 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6135549 ATCAGAAGTA
Statistics
Matches: 226, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
46 82 0.36
49 1 0.00
52 125 0.55
53 18 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6135353 original size:98 final size:98
Alignment explanation
Indices: 6135199--6135554 Score: 631
Period size: 98 Copynumber: 3.6 Consensus size: 98
6135189 ACTTATCACT
* * *
6135199 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
* *
6135264 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
** *
6135297 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
6135362 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
6135395 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
*
6135460 GTATAGCCGAAGCTATTACTGATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
6135493 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
6135555 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 248 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:6138949 original size:22 final size:22
Alignment explanation
Indices: 6138906--6138949 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6138896 AATTTTATAA
*
6138906 TTTATATTTTAAAAATTATTTT
1 TTTATATTTTAAAAAATATTTT
*
6138928 TTTATATTTTAAATAA-ATTTT
1 TTTATATTTTAAAAAATATTTT
6138949 T
1 T
6138950 ACTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTTTAAAAAATATTTT
Found at i:6147608 original size:31 final size:31
Alignment explanation
Indices: 6147570--6147639 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
6147560 AAAATTGATG
* *
6147570 ATTGAATTATTTGAAACTTTTTATTT-GAGTC
1 ATTGAATTATTTAAAAATTTTTATTTAG-GTC
6147601 ATTGAATTATTTAAAAATTTTTATTTAGGTC
1 ATTGAATTATTTAAAAATTTTTATTTAGGTC
*
6147632 ATTAAATT
1 ATTGAATT
6147640 GTTAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (31 bp):
ATTGAATTATTTAAAAATTTTTATTTAGGTC
Found at i:6153623 original size:15 final size:17
Alignment explanation
Indices: 6153603--6153647 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
6153593 ATTTTCAACC
6153603 TTTTTCTCTTCCA-T-T
1 TTTTTCTCTTCCACTGT
*
6153618 TTTTTCTCTTCAACTGGT
1 TTTTTCTCTTCCACT-GT
6153636 TTTTTCTCTTCC
1 TTTTTCTCTTCC
6153648 TATATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.07, C:0.27, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTCTCTTCCACTGT
Found at i:6153961 original size:14 final size:14
Alignment explanation
Indices: 6153942--6153968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6153932 CTGTAAAGGT
6153942 CTAATGGAGAAATG
1 CTAATGGAGAAATG
6153956 CTAATGGAGAAAT
1 CTAATGGAGAAAT
6153969 CTTAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
CTAATGGAGAAATG
Found at i:6154694 original size:15 final size:14
Alignment explanation
Indices: 6154647--6154694 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
6154637 AGTCACACTC
6154647 TAAAATTATTTAAA
1 TAAAATTATTTAAA
* **
6154661 TAAAAAATATCCAAA
1 T-AAAATTATTTAAA
6154676 TAAAATTATTTAAA
1 TAAAATTATTTAAA
6154690 CTAAA
1 -TAAA
6154695 TGACAAACTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAATTATTTAAA
Found at i:6165605 original size:21 final size:20
Alignment explanation
Indices: 6165581--6165627 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
6165571 TGTAATAATA
*
6165581 TTTTATTATTTTAAAATTAAC
1 TTTTAATATTTTAAAATT-AC
* *
6165602 TTTTAATGTTTTATAATTAC
1 TTTTAATATTTTAAAATTAC
6165622 TTTTAA
1 TTTTAA
6165628 AATTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAATATTTTAAAATTAC
Found at i:6165625 original size:20 final size:21
Alignment explanation
Indices: 6165589--6165627 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6165579 TATTTTATTA
6165589 TTTTAAAATTAACTTTTAATG
1 TTTTAAAATTAACTTTTAATG
*
6165610 TTTTATAATT-ACTTTTAA
1 TTTTAAAATTAACTTTTAA
6165628 AATTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTAAAATTAACTTTTAATG
Found at i:6169585 original size:26 final size:26
Alignment explanation
Indices: 6169556--6169616 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
6169546 AAATACATTT
6169556 AAAATAAATAATT-TGTATAAGAGT-TG
1 AAAATAAATAATTATGTA-AA-AGTATG
*
6169582 AAAATAGAT-ATTATGTAAAAGTATG
1 AAAATAAATAATTATGTAAAAGTATG
6169607 -AAATAAATAA
1 AAAATAAATAA
6169617 ATAAAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (26 bp):
AAAATAAATAATTATGTAAAAGTATG
Found at i:6169640 original size:22 final size:22
Alignment explanation
Indices: 6169610--6169651 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6169600 AAGTATGAAA
*
6169610 TAAATAAAT-AAAATAGAAATTT
1 TAAAAAAATGAAAATA-AAATTT
6169632 TAAAAAAATGAAAATAAAAT
1 TAAAAAAATGAAAATAAAAT
6169652 GAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
TAAAAAAATGAAAATAAAATTT
Found at i:6169862 original size:17 final size:17
Alignment explanation
Indices: 6169837--6169877 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6169827 TAATATTAGT
6169837 ATATAAATAGAAA-TAGAA
1 ATAT-AATA-AAAGTAGAA
6169855 ATATAATAAAAGTAGAA
1 ATATAATAAAAGTAGAA
6169872 ATATAA
1 ATATAA
6169878 ATTGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
ATATAATAAAAGTAGAA
Found at i:6169901 original size:15 final size:15
Alignment explanation
Indices: 6169870--6169919 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 15
6169860 ATAAAAGTAG
*
6169870 AAATATAAATT-GAT
1 AAATAAAAATTAGAT
6169884 AAATAAAAATTAGAT
1 AAATAAAAATTAGAT
6169899 AAATAATAATATTAGAAT
1 AAATAA-AA-ATTAG-AT
6169917 AAA
1 AAA
6169920 AAATAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 2 0.06
17 5 0.16
18 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AAATAAAAATTAGAT
Found at i:6169918 original size:18 final size:16
Alignment explanation
Indices: 6169870--6169927 Score: 68
Period size: 15 Copynumber: 3.7 Consensus size: 16
6169860 ATAAAAGTAG
6169870 AAAT-ATAAATT-GAT
1 AAATAATAAATTAGAT
6169884 AAATAA-AAATTAGAT
1 AAATAATAAATTAGAT
6169899 AAATAATAATATTAGAAT
1 AAATAATAA-ATTAG-AT
*
6169917 AAAAAATAAAT
1 AAATAATAAAT
6169928 ATAAATAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 9 0.24
15 10 0.26
16 2 0.05
17 7 0.18
18 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AAATAATAAATTAGAT
Found at i:6170486 original size:10 final size:10
Alignment explanation
Indices: 6170469--6170532 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 10
6170459 CTAATTTAAT
6170469 AATAAAATAA
1 AATAAAATAA
*
6170479 AGTAAAATAA
1 AATAAAATAA
6170489 AATAAAATAAA
1 AATAAAAT-AA
* *
6170500 AATAATATCTA
1 AATAAAAT-AA
6170511 AAT-AAATAA
1 AATAAAATAA
*
6170520 AACAAAAATAA
1 AA-TAAAATAA
6170531 AA
1 AA
6170533 ATCATATCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 3 0.07
10 19 0.44
11 21 0.49
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (10 bp):
AATAAAATAA
Found at i:6170503 original size:6 final size:5
Alignment explanation
Indices: 6170469--6170532 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
6170459 CTAATTTAAT
* * *
6170469 AATAA AATAA AGTAA AATAA AATAA AATAAA AATAA TATCTA AAT-A AATAA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AAT-AA AATAA AATAA
*
6170520 AACAAA AATAA AA
1 AA-TAA AATAA AA
6170533 ATCATATCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.08
5 32 0.67
6 12 0.25
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:6170504 original size:26 final size:25
Alignment explanation
Indices: 6170472--6170531 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
6170462 ATTTAATAAT
*
6170472 AAAATAAAGT-AAAATAAAATAAAATA
1 AAAATAAA-TCAAAAT-AAATAAAACA
*
6170498 AAAATAATATCTAAATAAATAAAACA
1 AAAATAA-ATCAAAATAAATAAAACA
6170524 AAAATAAA
1 AAAATAAA
6170532 AATCATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 24 0.80
27 5 0.17
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (25 bp):
AAAATAAATCAAAATAAATAAAACA
Found at i:6171039 original size:88 final size:86
Alignment explanation
Indices: 6170889--6171478 Score: 403
Period size: 84 Copynumber: 6.9 Consensus size: 86
6170879 TTTTCGTTTT
* * * ** *
6170889 GATCTGCTCCACCACTGCTTAGGGAGATATGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCTTTTCC-CTACTGCTTA
* ** * *
6170954 GGAAGATAAGGCTCACCGACTTC
65 GG-GGATAAGGCTTGCTGTCTTC
* * * *
6170977 GATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGCAATCTTTAGTCTATTTCCCTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCT-TTTCCCTACTGCTT-
6171042 AGGGGATAAGGCTTGCTGTCTTC
64 AGGGGATAAGGCTTGCTGTCTTC
* * * * * * *
6171065 AATCTGCTCTACTATTGTTTA-GG-GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCT-TTTCCCTACTGCTTA
* *
6171128 GGGGGTTAAGGCTTGTTGTCTTC
65 -GGGGATAAGGCTTGCTGTCTTC
* * ** *
6171151 GATCTGCTCCACTACTGTTTAGGG-G---AGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCT-TTTCCCTACTGCTTA
*
6171212 GGGGGTTAAGGCTTGCTGTCTTC
65 -GGGGATAAGGCTTGCTGTCTTC
* ** * * ** * *
6171235 GATCTGCTTCACTACTATTTA-TG-G--AAGATCTGTATTCTCCAACCTGTTACCCTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCT-TTTCCCTACTGCTTA
* *
6171296 GGGGGTTAAGGCTTGCTGTCCTC
65 -GGGGATAAGGCTTGCTGTCTTC
* * *
6171319 GATCTGCTCCACTATTGTTTAGGG-G---AGATCTGT-AT-TTTCCAGCCTGTTACCCTACTGCT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTT--AGCCT-TTTCCCTACTGCT
* *
6171378 TAGGGGGTTAAGGCTTGCTGTTTTC
63 TA-GGGGATAAGGCTTGCTGTCTTC
* ** * * *
6171403 GATCTGCTCTACTACTATTTAGGG-G---AGATCTGT-ATTTTCTTGCCTGTTACCCTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-TAGCCT-TTTCCCTACTGCTT
*
6171463 AGGGGGTTAAGGCTTG
64 A-GGGGATAAGGCTTG
6171479 GGAATTCACT
Statistics
Matches: 441, Mismatches: 51, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
82 1 0.00
83 3 0.01
84 267 0.61
85 5 0.01
86 71 0.16
87 5 0.01
88 83 0.19
89 6 0.01
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (86 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAGCCTTTTCCCTACTGCTTAG
GGGATAAGGCTTGCTGTCTTC
Found at i:6171167 original size:44 final size:44
Alignment explanation
Indices: 6171118--6171343 Score: 113
Period size: 44 Copynumber: 5.3 Consensus size: 44
6171108 GCCTGTTACC
6171118 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
* * * * *
6171162 CTACTGTTTA-GGGG---A-GATCTGTAT-TC-TCCAGCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGCT-TGT-TGTCTTCGA-TCTGCT-CCA
* *
6171202 CTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTTCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
** * * * * * *
6171246 CTACTATTTA--TGG--AA-GATCTGTAT-TCTCCAACCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGCT-TGT-TGTCTTCGATCTGCT-CCA
* *
6171286 CTACTGCTTAGGGGGTTAAGGCTTGCTGTCCTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
* *
6171330 CTATTGTTTAGGGG
1 CTACTGCTTAGGGG
6171344 AGATCTGTAT
Statistics
Matches: 126, Mismatches: 34, Indels: 44
0.62 0.17 0.22
Matches are distributed among these distances:
39 7 0.06
40 40 0.32
41 9 0.07
42 4 0.03
43 9 0.07
44 50 0.40
45 7 0.06
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.36
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
Found at i:6171213 original size:84 final size:84
Alignment explanation
Indices: 6171030--6171478 Score: 682
Period size: 84 Copynumber: 5.3 Consensus size: 84
6171020 TAGTCTATTT
* * * * * *
6171030 CCCTACTGCTTAAGGGGATAAGGCTTGCTGTCTTCAATCTGCTCTACTATTGTTTAGGGATAAGA
1 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGG--GAGA
*
6171095 TCTGTATTCTCTAGCCTGTTA
64 TCTGTATTCTCCAGCCTGTTA
*
6171116 CCCTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
1 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
6171181 TGTATTCTCCAGCCTGTTA
66 TGTATTCTCCAGCCTGTTA
* * * *
6171200 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTTCACTACTATTTATGGAAGATC
1 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
*
6171265 TGTATTCTCCAACCTGTTA
66 TGTATTCTCCAGCCTGTTA
* *
6171284 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCCTCGATCTGCTCCACTATTGTTTAGGGGAGATC
1 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
*
6171349 TGTATTTTCCAGCCTGTTA
66 TGTATTCTCCAGCCTGTTA
* * *
6171368 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTTTTCGATCTGCTCTACTACTATTTAGGGGAGATC
1 CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
* **
6171433 TGTATTTTCTTGCCTGTTA
66 TGTATTCTCCAGCCTGTTA
6171452 CCCTACTGCTTAGGGGGTTAAGGCTTG
1 CCCTACTGCTTAGGGGGTTAAGGCTTG
6171479 GGAATTCACT
Statistics
Matches: 334, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
84 281 0.84
86 53 0.16
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (84 bp):
CCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATC
TGTATTCTCCAGCCTGTTA
Found at i:6171649 original size:64 final size:64
Alignment explanation
Indices: 6171547--6171738 Score: 330
Period size: 64 Copynumber: 3.0 Consensus size: 64
6171537 CATGTATCTA
*
6171547 GCTTATGCCAAAATAATTAGGATGCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGAT
1 GCTTATGTC-AAATAATTAGGATGCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGAT
6171612 GCTTATGTCAAATAATTAGGATGCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGAT
1 GCTTATGTCAAATAATTAGGATGCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGAT
* * *
6171676 GCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAAATCAAATGCTCCTAACTAGATGTG
1 GCTTATGTCAAATAATTAGGATGCTATGATCGAGATG-AATCAAATGCTCCTAACTGGATGTG
6171739 TTATTATATA
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
64 90 0.74
65 32 0.26
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (64 bp):
GCTTATGTCAAATAATTAGGATGCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGAT
Found at i:6172848 original size:21 final size:21
Alignment explanation
Indices: 6172815--6172858 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6172805 CCTTGGCCTC
* *
6172815 TTTTGTTTCTTTTTCTTTTCTT
1 TTTTGTGTCTTTTCCTTTT-TT
6172837 TTTTGTGT-TTTTCCTTTTTT
1 TTTTGTGTCTTTTCCTTTTTT
6172857 TT
1 TT
6172859 GAAACTGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTGTGTCTTTTCCTTTTTT
Found at i:6178133 original size:37 final size:39
Alignment explanation
Indices: 6178069--6178147 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 39
6178059 ACAAGAGTTG
* **
6178069 AAAATAGATATTATGTAAAAATCTG-AAAT-AAATAAAT
1 AAAATAGAAATTATGTAAAAAAATGAAAATAAAATAAAT
*
6178106 AAAATAGAAATT-TGTAAAAAAAATGAAAATAAAATGAAT
1 AAAATAGAAATTATGT-AAAAAAATGAAAATAAAATAAAT
6178145 AAA
1 AAA
6178148 TAAATACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 3 0.09
37 18 0.51
38 4 0.11
39 10 0.29
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.25
Consensus pattern (39 bp):
AAAATAGAAATTATGTAAAAAAATGAAAATAAAATAAAT
Found at i:6178349 original size:17 final size:17
Alignment explanation
Indices: 6178324--6178364 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6178314 TAATATTAGT
6178324 ATATAAATAGAAA-TAGAA
1 ATAT-AATA-AAAGTAGAA
6178342 ATATAATAAAAGTAGAA
1 ATATAATAAAAGTAGAA
6178359 ATATAA
1 ATATAA
6178365 ATTGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
ATATAATAAAAGTAGAA
Found at i:6178389 original size:29 final size:24
Alignment explanation
Indices: 6178357--6178421 Score: 58
Period size: 29 Copynumber: 2.4 Consensus size: 24
6178347 ATAAAAGTAG
6178357 AAATATAAATTGATAAATAAAAACTAGAT
1 AAATATAAATT-A-AAATAAAAA--A-AT
*
6178386 AAATAATAATATTAGAATAAAAAAAT
1 AAAT-ATAA-ATTAAAATAAAAAAAT
6178412 AAATATAAAT
1 AAATATAAAT
6178422 AGCAACATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 6 0.18
27 1 0.03
29 12 0.36
30 5 0.15
31 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (24 bp):
AAATATAAATTAAAATAAAAAAAT
Found at i:6184132 original size:12 final size:11
Alignment explanation
Indices: 6184110--6184134 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6184100 ATTATATATC
6184110 ATCCCAAAAAA
1 ATCCCAAAAAA
6184121 ATCCCAAAAAA
1 ATCCCAAAAAA
6184132 ATC
1 ATC
6184135 AAGCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (11 bp):
ATCCCAAAAAA
Found at i:6188995 original size:14 final size:15
Alignment explanation
Indices: 6188972--6189105 Score: 64
Period size: 14 Copynumber: 8.9 Consensus size: 15
6188962 GTAAAAATAT
*
6188972 ATATACATAATAA-A
1 ATATATATAATAAGA
6188986 ATATATATAA-AAGA
1 ATATATATAATAAGA
6189000 ATATATA-AGA-AA-A
1 ATATATATA-ATAAGA
* *
6189013 ATAAATATTATAAGGA
1 ATATATATAATAA-GA
*
6189029 ATGTTATATAATAAGA
1 AT-ATATATAATAAGA
*
6189045 TATAGTATGTAATAA-A
1 -ATA-TATATAATAAGA
* * *
6189061 ATATAAATAATTATA
1 ATATATATAATAAGA
* * *
6189076 ATGAAATATAATATGGT
1 AT-ATATATAATA-AGA
6189093 ATATATATAATAA
1 ATATATATAATAA
6189106 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 11 0.12
14 29 0.33
15 6 0.07
16 22 0.25
17 21 0.24
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (15 bp):
ATATATATAATAAGA
Found at i:6200030 original size:116 final size:116
Alignment explanation
Indices: 6199796--6200013 Score: 305
Period size: 116 Copynumber: 1.9 Consensus size: 116
6199786 AAGGATATTC
*
6199796 AAATACTTAAATCGAATAAAAAACGAAACCCAGTACGGTAGAGCACGTTTTTTTAAAACGATTAA
1 AAATACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAA
* * * * *
6199861 GTATAGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATA
66 GTATAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
* *
6199912 AAATACTTAAATCGAATAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTAA
1 AAATACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAA
** *
6199975 GTATAGAAAATTGTTTTTTATGTTAAAACAAGTTGAGAA
66 GTATAGAAAATTG-CCTTTAT-TAAAAACAAGTTGAGAA
6200014 TACATTATGG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 30 0.33
115 23 0.25
116 38 0.42
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.29
Consensus pattern (116 bp):
AAATACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAA
GTATAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
Found at i:6200048 original size:116 final size:116
Alignment explanation
Indices: 6199800--6200048 Score: 288
Period size: 116 Copynumber: 2.1 Consensus size: 116
6199790 ATATTCAAAT
*
6199800 ACTTAAATCGAATAAAAAACGAAACCCAGTACGGTAGAGCACGTTTTTTTAAAACGATTAAGTAT
1 ACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAAGTAT
* * * * * *
6199865 AGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATAAAAT
66 AGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
* *
6199916 ACTTAAATCGAATAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTAAGTAT
1 ACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAAGTAT
** * * * **
6199979 AGAAAATTGTTTTTTATGTTAAAACAAGTTGAGAATACATTATGGAATAAAAGA
66 AGAAAATTG-CCTTTAT-TAAAAACAAGTTGAGAACAAAACATGGAATAAAA-A
* *
6200033 AC-TAAAACGATTAAAA
1 ACTTAAATCGAATAAAA
6200049 TTTAGGGAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
114 30 0.27
115 23 0.21
116 57 0.51
117 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (116 bp):
ACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGAGCACGTTTTTTTAAAACGATTAAGTAT
AGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
Found at i:6204224 original size:21 final size:20
Alignment explanation
Indices: 6204193--6204233 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6204183 TTGCCATCTG
*
6204193 AAAATTAAAAAATGTATATA
1 AAAATTAAAAAATATATATA
*
6204213 AAAATCTAAAAACTATATATA
1 AAAAT-TAAAAAATATATATA
6204234 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATTAAAAAATATATATA
Found at i:6205217 original size:10 final size:11
Alignment explanation
Indices: 6205188--6205221 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6205178 TCAATCTTAA
*
6205188 TTCTCTTCTTT
1 TTCTCTTCTCT
6205199 TTCTCTTCTCT
1 TTCTCTTCTCT
6205210 TT-TCTTCTCT
1 TTCTCTTCTCT
6205220 TT
1 TT
6205222 GACTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTCTTCTCT
Found at i:6209066 original size:17 final size:16
Alignment explanation
Indices: 6209019--6209075 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
6209009 CAACTAAAAC
6209019 ATTATTTAATTAT-TAA
1 ATTATTT-ATTATATAA
*
6209035 ATTAATTT-TTTTATAA
1 ATT-ATTTATTATATAA
6209051 ATATATTTATTATATAA
1 AT-TATTTATTATATAA
6209068 ATTTATTT
1 A-TTATTT
6209076 TACTCACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.09
16 12 0.35
17 18 0.53
18 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTTATTATATAA
Found at i:6211463 original size:41 final size:40
Alignment explanation
Indices: 6211387--6211515 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
6211377 GCAAAAATTT
* *
6211387 TAAAATACAGAGCAATAGCGGCGTTTTAAGAAAAACGCCAC
1 TAAAA-ACAGAGCAACAGCGGCGTTTTAACAAAAACGCCAC
* * *
6211428 TAAAAACAGAGCAACAGCGGCGTATTTTACTAAAACGCCTC
1 TAAAAACAGAGCAACAGCGGCGT-TTTAACAAAAACGCCAC
* * ** * *** *
6211469 TAAAAATAGATCATTAGCGGCGCTTTAGGTAAAACGCCGC
1 TAAAAACAGAGCAACAGCGGCGTTTTAACAAAAACGCCAC
6211509 TAAAAAC
1 TAAAAAC
6211516 CCGATCATTA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
40 36 0.50
41 36 0.50
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAACAGCGGCGTTTTAACAAAAACGCCAC
Found at i:6211522 original size:41 final size:41
Alignment explanation
Indices: 6211394--6211759 Score: 398
Period size: 41 Copynumber: 9.0 Consensus size: 41
6211384 TTTTAAAATA
* * * * *
6211394 CAGAGCAATAGCGGCGTTTTAAGAAAAACGCCACTAAAAA-
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
** * * *
6211434 CAGAGCAACAGCGGCGTATTTTA-CTAAAACGCCTCTAAAAA-
1 CAGAGCATTAGCGGCG--CTTTAGGTAAAACGCCGCTAAAAAC
* *
6211475 TAGATCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* * **
6211516 CCGATCATTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* *
6211557 CAGAGCATTAGCGGCGCTTTGGGTAAAACGCCGCTAAAAAA
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* * *** *
6211598 CAGATCATTAGCGGCGTTTTACCCAAAACGCCGCTAAAAAA
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* *
6211639 TAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* * * *
6211680 CGGAGCATTAGCGACG-TTTTGTGTAAAAGGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAG-GTAAAACGCCGCTAAAAAC
*
6211721 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAA
6211760 GTCATAGAAC
Statistics
Matches: 278, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
39 4 0.01
40 35 0.13
41 230 0.83
42 9 0.03
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
Found at i:6215986 original size:133 final size:133
Alignment explanation
Indices: 6215748--6215999 Score: 504
Period size: 133 Copynumber: 1.9 Consensus size: 133
6215738 TGGTGATTCC
6215748 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
6215813 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
6215878 TAT
131 TAT
6215881 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
6215946 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
6216000 TGTTGAATTC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 119 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:6224470 original size:44 final size:43
Alignment explanation
Indices: 6224422--6224839 Score: 191
Period size: 44 Copynumber: 9.6 Consensus size: 43
6224412 CTGGGCAAAT
*
6224422 TAGCGGCGTTTTTTTAAAAAATCGCCGCTAATGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTAAAAAA-CGCCGCTAAAGTTCTTGGTCTA
* *
6224466 TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTA-AAAAACGCCGCTAAAGTTCTTGGTCTA
* * * * ** * *
6224510 TAGCGGCGCTTTTGTAAAAAACGCCGCCAAAG-ACCAGGACCTG
1 TAGCGGCGTTTTTTTAAAAAACGCCGCTAAAGTTCTTGG-TCTA
* * * * *
6224553 TAGCGGCG-TTTTTTATAAAAGCGCCACTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTTA-AAAAACGCCGCTAAAGTTCTTGGTCTA
* * * * * *
6224596 TGGCGGCGTTTTTTACAATAAAAACGCCGCTACAGGTCCTGGTCTT
1 TAGCGGCGTTTTTT--TA-AAAAACGCCGCTAAAGTTCTTGGTCTA
* * * ** ** ** *
6224642 TGGCGGCG-TTTTTTACAAAAGCGCCGCTATAGACCAAGAACTT
1 TAGCGGCGTTTTTTTA-AAAAACGCCGCTAAAGTTCTTGGTCTA
** * ** * ** ** **
6224685 TAATGGCGCTTTAGTAGAAAAACGCCGCTATAGACCAAGAAC-A
1 TAGCGGCGTTTTTTTA-AAAAACGCCGCTAAAGTTCTTGGTCTA
* * * *
6224728 TTAGCGGCGCTTTTTTAAAAAAACGCCGCTAAAGGTCCTGGTCTT
1 -TAGCGGCG-TTTTTTTAAAAAACGCCGCTAAAGTTCTTGGTCTA
* * * * * *
6224773 TGGCGGCG-TTTTTT-AAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTTAAAAAACGCCGCTAAAGTTCTTGGTCTA
* *
6224814 TAGCGGCGCTTTTATAAAAAACGCCG
1 TAGCGGCGTTTTTTTAAAAAACGCCG
6224840 TCAACTTTTG
Statistics
Matches: 295, Mismatches: 66, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
41 32 0.11
42 19 0.06
43 78 0.26
44 120 0.41
45 12 0.04
46 34 0.12
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTTTAAAAAACGCCGCTAAAGTTCTTGGTCTA
Found at i:6224635 original size:46 final size:46
Alignment explanation
Indices: 6224555--6224659 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
6224545 AGGACCTGTA
*
6224555 GCGGCGTTTTTT---ATAAAAGCGCCACTAAAGGTCCTGGTCTTTG
1 GCGGCGTTTTTTACAATAAAAACGCCACTAAAGGTCCTGGTCTTTG
* *
6224598 GCGGCGTTTTTTACAATAAAAACGCCGCTACAGGTCCTGGTCTTTG
1 GCGGCGTTTTTTACAATAAAAACGCCACTAAAGGTCCTGGTCTTTG
6224644 GCGGCGTTTTTTACAA
1 GCGGCGTTTTTTACAA
6224660 AAGCGCCGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
46 44 0.79
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (46 bp):
GCGGCGTTTTTTACAATAAAAACGCCACTAAAGGTCCTGGTCTTTG
Found at i:6225726 original size:29 final size:28
Alignment explanation
Indices: 6225666--6225754 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
6225656 ATTTTGTTAG
*
6225666 ATAAGTCCTTATACTTTTA-TTAACCCAA
1 ATAAG-CCTTAAACTTTTATTTAACCCAA
*
6225694 ATAAGCCTTAAACTTTAATTTATACCCAA
1 ATAAGCCTTAAACTTTTATTTA-ACCCAA
* * *
6225723 ATAAATCTTTTAACTTTTATTTAACCCAA
1 AT-AAGCCTTAAACTTTTATTTAACCCAA
6225752 ATA
1 ATA
6225755 GGGCTTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
27 11 0.21
28 9 0.17
29 16 0.31
30 16 0.31
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAAGCCTTAAACTTTTATTTAACCCAA
Found at i:6228478 original size:25 final size:25
Alignment explanation
Indices: 6228434--6228482 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6228424 ATAATAGCGT
*
6228434 ATATATTTCATGTACATATATGTAG
1 ATATATTTCATATACATATATGTAG
**
6228459 ATATATTTCATATATTTATATGTA
1 ATATATTTCATATACATATATGTA
6228483 TATTATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (25 bp):
ATATATTTCATATACATATATGTAG
Found at i:6228731 original size:22 final size:22
Alignment explanation
Indices: 6228706--6228748 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6228696 TATATTTTAA
6228706 TATTACGCTATATAT-GTTTTTG
1 TATTACG-TATATATAGTTTTTG
*
6228728 TATTATGTATATATAGTTTTT
1 TATTACGTATATATAGTTTTT
6228749 AAATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (22 bp):
TATTACGTATATATAGTTTTTG
Found at i:6228839 original size:25 final size:25
Alignment explanation
Indices: 6228810--6228859 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6228800 TTTTTATCGC
6228810 ATAAACATTTTATTTATATATATAT
1 ATAAACATTTTATTTATATATATAT
6228835 ATAAACATTTTATTTATATATATAT
1 ATAAACATTTTATTTATATATATAT
6228860 CGCACATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAAACATTTTATTTATATATATAT
Found at i:6240665 original size:73 final size:73
Alignment explanation
Indices: 6240523--6240689 Score: 228
Period size: 73 Copynumber: 2.3 Consensus size: 73
6240513 TATTTTGATG
* * *
6240523 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGACATA
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACA
*
6240587 TTGAGGTA
66 CTGAGGTA
* * * * * *
6240595 TTTTCAGTTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAATACACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACA
6240660 CTGAGGTA
66 CTGAGGTA
*
6240668 TTTTCAATTTCTGTTTTTCAAA
1 TTTTCAATTTCTATTTTTCAAA
6240690 TTTCTGTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
72 4 0.05
73 77 0.95
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (73 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACA
CTGAGGTA
Found at i:6240687 original size:14 final size:15
Alignment explanation
Indices: 6240668--6240703 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
6240658 CGCTGAGGTA
6240668 TTTTC-AATTTCTGT
1 TTTTCAAATTTCTGT
6240682 TTTTCAAATTTCTG-
1 TTTTCAAATTTCTGT
6240696 TTTTCAAA
1 TTTTCAAA
6240704 AATCGACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTCAAATTTCTGT
Found at i:6240746 original size:87 final size:89
Alignment explanation
Indices: 6240609--6240825 Score: 312
Period size: 87 Copynumber: 2.4 Consensus size: 89
6240599 CAGTTTTTAT
* * *
6240609 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAATACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
6240674 ATTTCTGTTTTTCAAATT-T-CTG
66 ATTTCTGTTTTTCAAATTCTACTG
* *
6240696 TTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* *
6240761 ATTTCTGTTTTTCAAATTCTATTT
66 ATTTCTGTTTTTCAAATTCTACTG
* *
6240785 TTATTCTTCAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
6240826 TCCTTTTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
87 78 0.68
88 1 0.01
89 3 0.03
90 3 0.03
92 30 0.26
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (89 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTCTGTTTTTCAAATTCTACTG
Found at i:6240885 original size:147 final size:141
Alignment explanation
Indices: 6240688--6241120 Score: 522
Period size: 147 Copynumber: 3.1 Consensus size: 141
6240678 CTGTTTTTCA
* *
6240688 AATTTCTGTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
6240753 TAATTTCAATTTCTGTTTTTCAAATTCTATTTTTATTCTTCAAAATCAACTCATATTACGAGAGG
66 TAATTTCAATTTCTGTTTTTCAAATT-TATGTTT-TTC--AAAAATCAACTCATATTACGAGAGG
*
6240818 TGAGTTGATCCTTTTT
127 TGAGTTGAGCC-TTTT
* ** *
6240834 AATTTCTGTTTGTTAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAATATACGCTGAG
1 AATTTCTGTTT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * *
6240899 GTAATTTCAATTTCTGTCTTT--AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
65 GTAATTTCAATTTCTGTTTTTCAAATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGA
6240962 GTTGAGCCTTTT
130 GTTGAGCCTTTT
* * *
6240974 AATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
1 AATTTCTGTTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
6241039 GT-A--T---TTTCAG--TTTC-------TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
65 GTAATTTCAATTTCTGTTTTTCAAATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGA
6241089 GTTGAGCCTTTT
130 GTTGAGCCTTTT
*
6241101 AATTTCTGTTTTTCAAAATC
1 AATTTCTGTTTTTAAAAATC
6241121 TACTTTTCAA
Statistics
Matches: 263, Mismatches: 21, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
126 6 0.02
127 61 0.23
132 3 0.01
134 5 0.02
137 1 0.00
139 3 0.01
140 61 0.23
141 33 0.13
143 3 0.01
144 5 0.02
145 4 0.02
146 11 0.04
147 67 0.25
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (141 bp):
AATTTCTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTTTTCAAATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAG
TTGAGCCTTTT
Found at i:6240983 original size:54 final size:54
Alignment explanation
Indices: 6240917--6241024 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
6240907 AATTTCTGTC
6240917 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
6240971 TTTAATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
6241025 CGGGGCACGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (54 bp):
TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
Found at i:6241013 original size:140 final size:140
Alignment explanation
Indices: 6240688--6241118 Score: 550
Period size: 127 Copynumber: 3.1 Consensus size: 140
6240678 CTGTTTTTCA
*
6240688 AATTTCTG-TTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * * * *
6240752 GTAATTTCAATTTCTGTTTTTCAAATTCTATTTTTATTCTTCAAAATCAACTCATATTACGAGAG
66 GTAATTTCAATTTCTGTCTTT--AATT-TCTGTTT-TTC--AAAAATCAACTCATATTGCGAGAG
*
6240817 GTGAGTTGATCCTTTTT
125 GTGAGTTGAGCC-TTTT
* ** *
6240834 AATTTCTGTTTGTT-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAATATACGCTGA
1 AATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
6240898 GGTAATTTCAATTTCTGTCTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
65 GGTAATTTCAATTTCTGTCTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
6240963 TTGAGCCTTTT
130 TTGAGCCTTTT
* * *
6240974 AATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
6241039 G-----T--A-TT-T-TC---AGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
66 GTAATTTCAATTTCTGTCTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
6241091 TGAGCCTTTT
131 TGAGCCTTTT
6241101 AATTTCTGTTTTTCAAAA
1 AATTTCTGTTTTTCAAAA
6241119 TCTACTTTTC
Statistics
Matches: 263, Mismatches: 19, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
127 71 0.27
130 2 0.01
131 1 0.00
132 2 0.01
133 1 0.00
135 1 0.00
139 2 0.01
140 60 0.23
141 33 0.13
143 3 0.01
144 5 0.02
145 4 0.02
146 8 0.03
147 68 0.26
148 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (140 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCAATTTCTGTCTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTTT
Found at i:6241373 original size:55 final size:55
Alignment explanation
Indices: 6241227--6241401 Score: 271
Period size: 58 Copynumber: 3.1 Consensus size: 55
6241217 AATTTCTACC
* *
6241227 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTCAATTTATGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
* *
6241282 TTTCAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCATGTT
1 TTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
*
6241340 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAATTTC-TGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
6241394 TTTCAAAA
1 TTTCAAAA
6241402 TCTGCTTTTA
Statistics
Matches: 110, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
54 12 0.11
55 47 0.43
58 51 0.46
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (55 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
Found at i:6243018 original size:47 final size:47
Alignment explanation
Indices: 6242948--6243398 Score: 776
Period size: 47 Copynumber: 9.6 Consensus size: 47
6242938 CCTTCGGGAA
* * * * * *
6242948 TTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6242995 CTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6243042 TTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6243089 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
6243136 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6243183 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
6243230 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6243277 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
6243326 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
6243373 TTATCACATATATACACTTTCACATT
1 TTATCACATATATACACTTTCACATT
6243399 TATTCAAATA
Statistics
Matches: 385, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 339 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:6247444 original size:25 final size:25
Alignment explanation
Indices: 6247400--6247448 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6247390 ATAATAGCGT
*
6247400 ATATATTTCATGTACATATATGTAG
1 ATATATTTCATATACATATATGTAG
**
6247425 ATATATTTCATATATTTATATGTA
1 ATATATTTCATATACATATATGTA
6247449 TATTATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (25 bp):
ATATATTTCATATACATATATGTAG
Found at i:6247694 original size:22 final size:22
Alignment explanation
Indices: 6247669--6247711 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6247659 TATATTTTAA
6247669 TATTACGCTATATAT-GTTTTTG
1 TATTACG-TATATATAGTTTTTG
*
6247691 TATTATGTATATATAGTTTTT
1 TATTACGTATATATAGTTTTT
6247712 AAATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (22 bp):
TATTACGTATATATAGTTTTTG
Found at i:6247803 original size:26 final size:26
Alignment explanation
Indices: 6247773--6247824 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6247763 TTTTTATCGC
6247773 ATAAACATTTTTATTTATATATATAT
1 ATAAACATTTTTATTTATATATATAT
6247799 ATAAACATTTTTATTTATATATATAT
1 ATAAACATTTTTATTTATATATATAT
6247825 CGCACATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAAACATTTTTATTTATATATATAT
Found at i:6248973 original size:28 final size:29
Alignment explanation
Indices: 6248914--6248978 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
6248904 TCCTGGTTTA
6248914 TTTTA-AAATCAAATTTCAATTTCTAAGT
1 TTTTATAAATCAAATTTCAATTTCTAAGT
6248942 TTTTATAAATCAAATTTCAATTTCTAAGT
1 TTTTATAAATCAAATTTCAATTTCTAAGT
6248971 TTTTATAA
1 TTTTATAA
6248979 GTCGCCACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTTATAAATCAAATTTCAATTTCTAAGT
Found at i:6259849 original size:25 final size:25
Alignment explanation
Indices: 6259814--6259870 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
6259804 CCAAATGTTT
*
6259814 AAAAG-CATTTAAGTGGGTGTCGCC
1 AAAAGCCATTTAAGTCGGTGTCGCC
6259838 AAAAGCCATTTAAGTCGGTGTCGCC
1 AAAAGCCATTTAAGTCGGTGTCGCC
6259863 AAAAGCCA
1 AAAAGCCA
6259871 CCGGGCCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
AAAAGCCATTTAAGTCGGTGTCGCC
Found at i:6261413 original size:19 final size:19
Alignment explanation
Indices: 6261399--6261446 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6261389 GATTTAATTA
6261399 TTTTT-AGTTTTTTTATAT
1 TTTTTAAGTTTTTTTATAT
* *
6261417 TTTTTAAGTTTCTGTTAAAT
1 TTTTTAAGTTT-TTTTATAT
*
6261437 TTATTAAGTT
1 TTTTTAAGTT
6261447 AAGTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.20
19 5 0.20
20 15 0.60
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTTTAAGTTTTTTTATAT
Found at i:6262614 original size:21 final size:21
Alignment explanation
Indices: 6262588--6262629 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6262578 TTTTTGTTAG
6262588 TAACTTAACTGTTAGTGACCA
1 TAACTTAACTGTTAGTGACCA
6262609 TAACTTAACTGTTAGTGACCA
1 TAACTTAACTGTTAGTGACCA
6262630 AAAAAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
TAACTTAACTGTTAGTGACCA
Found at i:6265319 original size:53 final size:51
Alignment explanation
Indices: 6265253--6265351 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 51
6265243 TTTTTCATAT
6265253 TTTAAATAAAAAAACATA-AAAATTAAAAATATTATTTTAAAAA-ATAAAAACTC
1 TTTAAATAAAAAAA-ATACAAAA-TAAAAATA--ATTTTAAAAATATAAAAACTC
**
6265306 TTTAAATTCAAAAAATACAAAATAAAAATAATTTTAAAAATATAAA
1 TTTAAATAAAAAAAATACAAAATAAAAATAATTTTAAAAATATAAA
6265352 TAAAAATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 10 0.24
51 5 0.12
52 11 0.26
53 16 0.38
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (51 bp):
TTTAAATAAAAAAAATACAAAATAAAAATAATTTTAAAAATATAAAAACTC
Found at i:6265338 original size:25 final size:24
Alignment explanation
Indices: 6265310--6265358 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
6265300 AAACTCTTTA
6265310 AATTCAAAAAATACAAAATAAAAAT
1 AATTCAAAAAATA-AAAATAAAAAT
** *
6265335 AATTTTAAAAATATAAATAAAAAT
1 AATTCAAAAAATAAAAATAAAAAT
6265359 TTTAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AATTCAAAAAATAAAAATAAAAAT
Found at i:6265361 original size:21 final size:20
Alignment explanation
Indices: 6265327--6265365 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6265317 AAAATACAAA
*
6265327 ATAAAAATAATTTTAAAAAT
1 ATAAAAAAAATTTTAAAAAT
6265347 ATAAATAAAAATTTTAAAA
1 ATAAA-AAAAATTTTAAAA
6265366 TTCAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAAATTTTAAAAAT
Found at i:6267192 original size:37 final size:37
Alignment explanation
Indices: 6267133--6267250 Score: 119
Period size: 37 Copynumber: 3.2 Consensus size: 37
6267123 ATAATCACAT
* ** * * *
6267133 ATTTACATGTCACTTTTTAATATATTAAATAAATACC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
* **
6267170 ATTTCCATGTCAAGTTTCAATATGTCATGTAAATATC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
* * * *
6267207 ATTTCCAAGACATGTTTCAATATATCAATTAAATATC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
6267244 ATTTCCA
1 ATTTCCA
6267251 AGTATTTCAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (37 bp):
ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
Found at i:6267251 original size:37 final size:37
Alignment explanation
Indices: 6267151--6267252 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
6267141 GTCACTTTTT
* * * * *
6267151 AATATATTAAATAAATACCATTTCCATGTCAAGTTTC
1 AATATATCAATTAAATATCATTTCCAAGACAAGTTTC
* *
6267188 AATATGTC-ATGTAAATATCATTTCCAAGACATGTTTC
1 AATATATCAAT-TAAATATCATTTCCAAGACAAGTTTC
6267225 AATATATCAATTAAATATCATTTCCAAG
1 AATATATCAATTAAATATCATTTCCAAG
6267253 TATTTCAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
36 1 0.02
37 52 0.95
38 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (37 bp):
AATATATCAATTAAATATCATTTCCAAGACAAGTTTC
Found at i:6270210 original size:27 final size:27
Alignment explanation
Indices: 6270147--6270210 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
6270137 TTAGAATTTA
* *
6270147 TTTTATATTTTAAAACTTCTTTTATTT
1 TTTTATATTTTAAAACTGCTTTTATAT
*
6270174 TTTTA-ATTTT-AAAGTGGCTTTTATAT
1 TTTTATATTTTAAAACT-GCTTTTATAT
6270200 TTTTATATTTT
1 TTTTATATTTT
6270211 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 18 0.56
27 10 0.31
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTATATTTTAAAACTGCTTTTATAT
Found at i:6275264 original size:33 final size:33
Alignment explanation
Indices: 6275185--6275275 Score: 111
Period size: 30 Copynumber: 2.8 Consensus size: 33
6275175 CAAAACTTAT
* *
6275185 TTTATTGTTAATTTTGTTATTATTTTAAAGACA
1 TTTATTGTTAATGTTGTTATTATTTTAGAGACA
6275218 --T-TTGTTAATGTTGTTATTATTTTAGAGACA
1 TTTATTGTTAATGTTGTTATTATTTTAGAGACA
6275248 TTTACTTGTTAA-GTTG-TATCTATTTTAG
1 TTTA-TTGTTAATGTTGTTAT-TATTTTAG
6275276 TGTTATTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
30 27 0.53
31 1 0.02
32 4 0.08
33 12 0.24
34 7 0.14
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.56
Consensus pattern (33 bp):
TTTATTGTTAATGTTGTTATTATTTTAGAGACA
Found at i:6275355 original size:18 final size:18
Alignment explanation
Indices: 6275334--6275373 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6275324 GAAATATTTA
*
6275334 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
6275352 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
6275370 TTTT
1 TTTT
6275374 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:6279964 original size:14 final size:13
Alignment explanation
Indices: 6279945--6279979 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
6279935 CCGACGACGA
6279945 TTTTCCTTTCTTTT
1 TTTTCCTTT-TTTT
6279959 TTTTCCTTTTTTT
1 TTTTCCTTTTTTT
6279972 TTCTTCCT
1 TT-TTCCT
6279980 GAATCTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCCTTTTTTT
Found at i:6283357 original size:19 final size:19
Alignment explanation
Indices: 6283330--6283376 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
6283320 ATGTTGATGT
*
6283330 TGCTCTGTTTATATAGTTG
1 TGCTTTGTTTATATAGTTG
6283349 TGCTTTGTTTATATAGTTG
1 TGCTTTGTTTATATAGTTG
6283368 TGCTTTGTT
1 TGCTTTGTT
6283377 CCATTACTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.09, G:0.21, T:0.57
Consensus pattern (19 bp):
TGCTTTGTTTATATAGTTG
Found at i:6288617 original size:22 final size:20
Alignment explanation
Indices: 6288579--6288639 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
6288569 AAGCGTGTAT
6288579 ATATATATTTAAAATTTGATTC
1 ATATATATTTAAAATTT--TTC
6288601 ATATAT-TTTAAATATTTTTC
1 ATATATATTTAAA-ATTTTTC
*
6288621 ATATTAAATTT-AAATTTTT
1 ATA-TATATTTAAAATTTTT
6288640 TTTAACTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 12 0.34
21 10 0.29
22 13 0.37
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATATATTTAAAATTTTTC
Found at i:6295694 original size:13 final size:13
Alignment explanation
Indices: 6295676--6295703 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6295666 AGGTATTTCA
6295676 TATAAAAGTTTAT
1 TATAAAAGTTTAT
6295689 TATAAAAGTTTAT
1 TATAAAAGTTTAT
6295702 TA
1 TA
6295704 AGAGTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
TATAAAAGTTTAT
Found at i:6309376 original size:58 final size:58
Alignment explanation
Indices: 6309261--6309390 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 58
6309251 TATACTAGTA
** * * *
6309261 GTCACTCAACTATTAATAAATTTTTTTTTAGCTACTCAACTATGAAAATTTATAAAATG
1 GTCACTCAACTATTAATAAACCTTTTTTGAGCTAC-CAACTATGAAAAGTTACAAAATG
* *
6309320 GTCACTTAACTATTAATAAACCTTTTTTGATCATA-CAACTATGAAAAGTTACAAAATG
1 GTCACTCAACTATTAATAAACCTTTTTTGAGC-TACCAACTATGAAAAGTTACAAAATG
6309378 GTCAC-CAAACTAT
1 GTCACTC-AACTAT
6309391 ACAATTTTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 32 0.52
59 27 0.44
60 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (58 bp):
GTCACTCAACTATTAATAAACCTTTTTTGAGCTACCAACTATGAAAAGTTACAAAATG
Found at i:6312862 original size:33 final size:34
Alignment explanation
Indices: 6312798--6312862 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
6312788 ACCTTGAATC
* *
6312798 AGTTTAGGATTCAAGGTTCAAGCTTCAAAATTCA
1 AGTTTAGGAGTCAAGGTTCAAGATTCAAAATTCA
* * *
6312832 AGTTTAGG-GTCAAGGTTTAGGATTCTAAATT
1 AGTTTAGGAGTCAAGGTTCAAGATTCAAAATT
6312863 TGGGGTTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 18 0.69
34 8 0.31
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (34 bp):
AGTTTAGGAGTCAAGGTTCAAGATTCAAAATTCA
Found at i:6313735 original size:13 final size:14
Alignment explanation
Indices: 6313717--6313746 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6313707 TTTCTCTCTA
6313717 TAAAATATA-ATTT
1 TAAAATATATATTT
6313730 TAAAATATATATTT
1 TAAAATATATATTT
6313744 TAA
1 TAA
6313747 GTTTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATATATATTT
Found at i:6324119 original size:17 final size:20
Alignment explanation
Indices: 6324097--6324137 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6324087 AAGCCCTAAT
6324097 TTTCCC-TTTT-CTT-TTTC
1 TTTCCCTTTTTCCTTCTTTC
6324114 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTTCCTTCTTTC
6324134 TTTC
1 TTTC
6324138 GCTCAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 3 0.14
20 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCCCTTTTTCCTTCTTTC
Found at i:6324227 original size:28 final size:27
Alignment explanation
Indices: 6324189--6324264 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 27
6324179 TTTCTTTATT
* *
6324189 CTTTTTATTATTTCTTTTATTTATTTTA
1 CTTTATATTATTTCTTATATTT-TTTTA
*
6324217 CTTTATATTATTATATTATATTTTTTTA
1 CTTTATATTATT-TCTTATATTTTTTTA
*
6324245 ATTATAATTATTATTTCTTA
1 CTT-T-A-TATTATTTCTTA
6324265 AATAATAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 18 0.46
29 9 0.23
30 5 0.13
31 7 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (27 bp):
CTTTATATTATTTCTTATATTTTTTTA
Found at i:6328471 original size:23 final size:23
Alignment explanation
Indices: 6328445--6328489 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6328435 TATATAATAA
* *
6328445 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTAATTTTAATC
*
6328468 ATATTTATATTTTAATTTTAAT
1 ATATATATATTTTAATTTTAAT
6328490 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATC
Found at i:6328560 original size:40 final size:41
Alignment explanation
Indices: 6328505--6328591 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
6328495 TATAATAAAT
*
6328505 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
* * * *
6328546 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
6328586 TTTTAA
1 TTTTAA
6328592 ATGTATTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 26 0.63
41 15 0.37
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.67
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:6328895 original size:24 final size:24
Alignment explanation
Indices: 6328836--6328891 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
6328826 TGATTTAAAC
* *
6328836 AAATATTCATA-TTTATATTATTA
1 AAATATTTATATTTTATACTATTA
*
6328859 AAATGTTTATATTTTATACTA-TA
1 AAATATTTATATTTTATACTATTA
6328882 AAATATTTAT
1 AAATATTTAT
6328892 TATTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATATTTATATTTTATACTATTA
Found at i:6329716 original size:13 final size:13
Alignment explanation
Indices: 6329698--6329722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6329688 GTCCAATTAA
6329698 CACCCCATTAAAC
1 CACCCCATTAAAC
6329711 CACCCCATTAAA
1 CACCCCATTAAA
6329723 TCACTCCACT
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:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
CACCCCATTAAAC
Found at i:6330243 original size:20 final size:22
Alignment explanation
Indices: 6330218--6330259 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
6330208 CATAATAGTG
6330218 TTTTTA-TTATT-TTATTATTA
1 TTTTTACTTATTATTATTATTA
6330238 TTTTTACCTTATTATTATTATT
1 TTTTTA-CTTATTATTATTATT
6330260 TTAAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTACTTATTATTATTATTA
Found at i:6330622 original size:38 final size:38
Alignment explanation
Indices: 6330576--6330673 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
6330566 CTTTTAACCT
6330576 CTAGATTACTTATTATT-TATATTAATATTATCATTATC
1 CTAGATTACTTATTATTAT-TATTAATATTATCATTATC
* *
6330614 CTAGATTACTTATTATTATTATTACTATTATTATTAT-
1 CTAGATTACTTATTATTATTATTAATATTATCATTATC
*
6330651 -TATTATTA-TTATTATTATTATTA
1 CTA-GATTACTTATTATTATTATTA
6330674 TTTAGGCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
36 17 0.31
37 4 0.07
38 33 0.60
39 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (38 bp):
CTAGATTACTTATTATTATTATTAATATTATCATTATC
Found at i:6330631 original size:3 final size:3
Alignment explanation
Indices: 6330618--6330675 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
6330608 ATTATCCTAG
*
6330618 ATT ACTT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6330664 ATT ATT ATT ATT
1 ATT ATT ATT ATT
6330676 TAGGCTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6335059 original size:11 final size:11
Alignment explanation
Indices: 6335043--6335086 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6335033 ACTCTAGTCG
6335043 AAAAATAAAAT
1 AAAAATAAAAT
*
6335054 AAAAATAAATT
1 AAAAATAAAAT
**
6335065 AAAAAGGAAAT
1 AAAAATAAAAT
6335076 AAAAAATAAAA
1 -AAAAATAAAA
6335087 GCAACAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6341381 original size:16 final size:16
Alignment explanation
Indices: 6341348--6341392 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
6341338 AAAAAATCGG
*
6341348 TTTAAGATTG-AAATTT
1 TTTAA-ATTGCAAAATT
6341364 TTTAAATTGCAAAATT
1 TTTAAATTGCAAAATT
*
6341380 TTAAAATTGCAAA
1 TTTAAATTGCAAA
6341393 TCGGTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (16 bp):
TTTAAATTGCAAAATT
Found at i:6344841 original size:43 final size:42
Alignment explanation
Indices: 6344780--6344862 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
6344770 TGTAAATGTT
* *
6344780 AAAATTAGAAATTAATATATGGTAAAATTATATTTTGAACCAA
1 AAAATTAGAAATTAATATATGATAAAATTACATTTT-AACCAA
* * *
6344823 AAAATTATAAGTTCATATATGATAAAATTACATTTTAACC
1 AAAATTAGAAATTAATATATGATAAAATTACATTTTAACC
6344863 TCTTAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (42 bp):
AAAATTAGAAATTAATATATGATAAAATTACATTTTAACCAA
Found at i:6351516 original size:18 final size:20
Alignment explanation
Indices: 6351485--6351521 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6351475 TTCATGATTT
6351485 TGTTAATATAATAAATTTAA
1 TGTTAATATAATAAATTTAA
6351505 TGTTAAT-T-ATAAATTTA
1 TGTTAATATAATAAATTTA
6351522 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TGTTAATATAATAAATTTAA
Found at i:6351537 original size:16 final size:16
Alignment explanation
Indices: 6351495--6351528 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
6351485 TGTTAATATA
6351495 ATAAATTTAATGTTAATT
1 ATAAATTT-AT-TTAATT
6351513 ATAAATTTATTTAATT
1 ATAAATTTATTTAATT
6351529 TTATATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAAATTTATTTAATT
Found at i:6353625 original size:16 final size:16
Alignment explanation
Indices: 6353604--6353639 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6353594 ATTTTGTGAA
*
6353604 AAATATTTAATATATT
1 AAATATTAAATATATT
6353620 AAATATTAAATATATT
1 AAATATTAAATATATT
6353636 AAAT
1 AAAT
6353640 GAATTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATTAAATATATT
Found at i:6358890 original size:4 final size:4
Alignment explanation
Indices: 6358881--6358923 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
6358871 AAACTTGTGT
6358881 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6358924 TTGGGGGGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6360768 original size:11 final size:11
Alignment explanation
Indices: 6360752--6360776 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6360742 CTCGACAGAC
6360752 GACACTTCGAA
1 GACACTTCGAA
6360763 GACACTTCGAA
1 GACACTTCGAA
6360774 GAC
1 GAC
6360777 TTCTTCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (11 bp):
GACACTTCGAA
Found at i:6367725 original size:18 final size:17
Alignment explanation
Indices: 6367702--6367735 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6367692 TTTATTATCT
6367702 AAATTAACAAATTTAATG
1 AAATTAAC-AATTTAATG
*
6367720 AAATTATCAATTTAAT
1 AAATTAACAATTTAAT
6367736 ATTGGGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTAACAATTTAATG
Found at i:6369068 original size:16 final size:16
Alignment explanation
Indices: 6369047--6369089 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
6369037 ACTTTGATCG
6369047 GGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
6369063 GGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
*
6369079 GGCTTGGTGCC
1 GGCTTTGTGCC
6369090 AGTGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.26, G:0.35, T:0.30
Consensus pattern (16 bp):
GGCTTTGTGCCTAGCA
Found at i:6372584 original size:13 final size:13
Alignment explanation
Indices: 6372562--6372602 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
6372552 AATAATTTTA
6372562 ATTT-ATTAAAAT
1 ATTTGATTAAAAT
*
6372574 ATTTGATTAAAAA
1 ATTTGATTAAAAT
*
6372587 ATTAGA-TAAAAT
1 ATTTGATTAAAAT
6372599 ATTT
1 ATTT
6372603 TTCATACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (13 bp):
ATTTGATTAAAAT
Found at i:6379787 original size:52 final size:51
Alignment explanation
Indices: 6379716--6379918 Score: 290
Period size: 52 Copynumber: 4.0 Consensus size: 51
6379706 ATCAAGTGAC
* **
6379716 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
6379768 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
6379814 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
6379865 AAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGTGATAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC-AAGTGACAAGTG
6379918 A
1 A
6379919 TAGCTTCGGC
Statistics
Matches: 136, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
46 44 0.32
52 81 0.60
53 11 0.08
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:6379822 original size:98 final size:98
Alignment explanation
Indices: 6379702--6380061 Score: 563
Period size: 98 Copynumber: 3.7 Consensus size: 98
6379692 TTTGAGTACT
* *
6379702 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
6379767 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
6379800 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
6379865 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
6379898 TCTG----A-T--CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
6379956 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
6379989 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
*
6380054 GATAAGTG
65 GAAAAGTG
6380062 GCTACACTTA
Statistics
Matches: 242, Mismatches: 12, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
91 88 0.36
93 1 0.00
94 1 0.00
95 1 0.00
98 140 0.58
99 11 0.05
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:6379920 original size:39 final size:39
Alignment explanation
Indices: 6379866--6379956 Score: 166
Period size: 39 Copynumber: 2.4 Consensus size: 39
6379856 TGACAAGTGA
6379866 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
6379905 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
*
6379944 -AAGTGACAAGTGA
1 AAAGTGATAAGTGA
6379957 AAAGTGATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 12 0.24
39 39 0.76
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (39 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC
Found at i:6379966 original size:52 final size:52
Alignment explanation
Indices: 6379905--6380061 Score: 218
Period size: 52 Copynumber: 3.1 Consensus size: 52
6379895 TTATCTGATC
*
6379905 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
*
6379957 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
**
6380003 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC-AAGTGA
*
6380056 TAAGTG
1 AAAGTG
6380062 GCTACACTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
46 43 0.47
52 44 0.48
53 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGA
Found at i:6380031 original size:189 final size:190
Alignment explanation
Indices: 6379715--6380061 Score: 597
Period size: 189 Copynumber: 1.8 Consensus size: 190
6379705 GATCAAGTGA
* * *
6379715 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
* *
6379780 AATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTT
66 AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
*
6379845 ATCTGATCAAGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
131 ATCTGATCAAGAGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
*
6379904 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
* *
6379969 GATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTT
66 AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
*
6380034 ATCTGATCAAGAGACAAAGTGATAAGTG
131 ATCTGATCAAGAGACAAAGTGAAAAGTG
6380062 GCTACACTTA
Statistics
Matches: 147, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
189 136 0.93
190 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (190 bp):
CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
AATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTT
ATCTGATCAAGAGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
Found at i:6380051 original size:46 final size:44
Alignment explanation
Indices: 6379957--6380172 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
6379947 TGACAAGTGA
*
6379957 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
6380003 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
6380049 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6380086 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6380123 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
6380159 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
6380173 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:6380069 original size:37 final size:37
Alignment explanation
Indices: 6380025--6380170 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6380015 GATAGCTTTA
*
6380025 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6380062 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6380099 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6380136 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6380171 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Done.