Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 185 of 204
Found at i:54933532 original size:31 final size:31
Alignment explanation
Indices: 54933497--54933555 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
54933487 ATATGTATGT
54933497 TTAATAATATTAA-AAAATATAATATTTTATA
1 TTAAT-ATATTAATAAAATATAATATTTTATA
* * *
54933528 TTAATATTTTAATAAATTTTAATATTTT
1 TTAATATATTAATAAAATATAATATTTT
54933556 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TTAATATATTAATAAAATATAATATTTTATA
Found at i:54940482 original size:29 final size:28
Alignment explanation
Indices: 54940445--54940500 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
54940435 ATAATAATAT
* * *
54940445 TAAATTATTGAATATTATATTTAAAATTC
1 TAAAATATTGAAT-GTATAATTAAAATTC
*
54940474 TAAAATATTTAATGTATAATTAAAATT
1 TAAAATATTGAATGTATAATTAAAATT
54940501 ACAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (28 bp):
TAAAATATTGAATGTATAATTAAAATTC
Found at i:54965515 original size:17 final size:18
Alignment explanation
Indices: 54965488--54965525 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
54965478 CACACAAGTG
* *
54965488 TTTTGTTTTTTTTTCTTC
1 TTTTGTTTTTTCTACTTC
54965506 TTTT-TTTTTTCTACTTC
1 TTTTGTTTTTTCTACTTC
54965523 TTT
1 TTT
54965526 AAAAGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTGTTTTTTCTACTTC
Found at i:54965677 original size:13 final size:13
Alignment explanation
Indices: 54965659--54965694 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
54965649 AGAGTTCAAT
54965659 AGAAACTGAAAAC
1 AGAAACTGAAAAC
*
54965672 AGAAACCGAAAAC
1 AGAAACTGAAAAC
*
54965685 AAAAACTGAA
1 AGAAACTGAA
54965695 GAAAAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.14, T:0.06
Consensus pattern (13 bp):
AGAAACTGAAAAC
Found at i:54966824 original size:31 final size:31
Alignment explanation
Indices: 54966780--54966843 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
54966770 TTCTAACATA
*
54966780 TTTAAAATTTTAAAATATAATTTTTATAATT
1 TTTAAAATTTTAAAATATAATTGTTATAATT
* *
54966811 TTTATAAA-TTTAAAATTTAATTGTTATACTT
1 TTTA-AAATTTTAAAATATAATTGTTATAATT
54966842 TT
1 TT
54966844 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TTTAAAATTTTAAAATATAATTGTTATAATT
Found at i:54972286 original size:22 final size:21
Alignment explanation
Indices: 54972238--54972286 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
54972228 TTTTAGTGAT
*
54972238 ATTTATAATTAATAAAAAGTA
1 ATTTATAATTAACAAAAAGTA
* *
54972259 AGTTTATTATTAACAAATATGTA
1 A-TTTATAATTAACAAA-AAGTA
54972282 ATTTA
1 ATTTA
54972287 ATCAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTTATAATTAACAAAAAGTA
Found at i:54972384 original size:19 final size:18
Alignment explanation
Indices: 54972360--54972403 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
54972350 TATTATAGGA
54972360 TTAAATTTAAAATAAAATT
1 TTAAATTTAAAATAAAA-T
* *
54972379 TTAAATTTTAAATTAAAT
1 TTAAATTTAAAATAAAAT
54972397 TTAAATT
1 TTAAATT
54972404 GATAGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTTAAAATAAAAT
Found at i:54975908 original size:60 final size:59
Alignment explanation
Indices: 54975832--54975946 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 59
54975822 TGAATACTTA
* * * * *
54975832 GGTGATTATTTTGTAACTTTTTATAGTTTGATGATTAAAAAAGAAATTTACTAATAATTG
1 GGTGATCATTTTGTAACTTTTCATAGTTGGATGACT-AAAAAGAAATTCACTAATAATTG
*
54975892 GGTGATCATTTTGTAACTTTTCATAGTTGGGTGACTAAAAAGAAATTCACTAATA
1 GGTGATCATTTTGTAACTTTTCATAGTTGGATGACTAAAAAGAAATTCACTAATA
54975947 GTGGGGTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 18 0.37
60 31 0.63
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (59 bp):
GGTGATCATTTTGTAACTTTTCATAGTTGGATGACTAAAAAGAAATTCACTAATAATTG
Found at i:54977274 original size:23 final size:23
Alignment explanation
Indices: 54977244--54977296 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
54977234 AGAGCACATG
54977244 ACTGTAATATCC-CGAAAATTACT
1 ACTGTAATA-CCTCGAAAATTACT
54977267 ACTGTAATACCTCGAAAATTACT
1 ACTGTAATACCTCGAAAATTACT
*
54977290 ACAGTAA
1 ACTGTAA
54977297 GAAAGTAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (23 bp):
ACTGTAATACCTCGAAAATTACT
Found at i:54982483 original size:51 final size:51
Alignment explanation
Indices: 54982423--54982537 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
54982413 TCCTCTCTAA
54982423 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
54982474 TCCTCTCAATTTCCTTTCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
54982525 TCCCCTCAATTTC
1 TCCTCTCAATTTC
54982538 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:54982485 original size:22 final size:22
Alignment explanation
Indices: 54982460--54982541 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 22
54982450 TCAAACCCAT
54982460 ATTTAATTTCAATTTCCTCTCA
1 ATTTAATTTCAATTTCCTCTCA
** *
54982482 ATTTCCTTTCAAAATTCTCTCAAATCCA
1 ATTTAATTTC-AATTTC-CTC---T-CA
*
54982510 TATTTAATTTCAATTTCCCCTCA
1 -ATTTAATTTCAATTTCCTCTCA
*
54982533 ATTTCATTT
1 ATTTAATTT
54982542 TTTAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
22 16 0.36
23 7 0.16
24 4 0.09
27 3 0.07
28 7 0.16
29 8 0.18
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAATTTCAATTTCCTCTCA
Found at i:54982595 original size:31 final size:32
Alignment explanation
Indices: 54982539--54982604 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
54982529 CTCAATTTCA
54982539 TTTTTTAAAATAATTTTAAATTTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTTATAT
54982571 TTTTTTAAAATAATTTTAAA-TTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTTATAT
54982602 TTT
1 TTT
54982605 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.41
32 20 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTTTTAAAATAATTTTAAATTTTTTTTATAT
Found at i:54983510 original size:7 final size:7
Alignment explanation
Indices: 54983498--54983522 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54983488 AGTCGATTGA
54983498 TATTTAG
1 TATTTAG
54983505 TATTTAG
1 TATTTAG
54983512 TATTTAG
1 TATTTAG
54983519 TATT
1 TATT
54983523 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:54984200 original size:18 final size:18
Alignment explanation
Indices: 54984174--54984208 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54984164 AGGTGTGTTT
* *
54984174 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
54984192 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
54984209 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:54984698 original size:71 final size:71
Alignment explanation
Indices: 54984610--54984794 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
54984600 TATTTAAATT
*
54984610 TATTATTTTATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
54984675 TTTTGA
66 TTTTGA
* *
54984681 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
54984746 TTTTGA
66 TTTTGA
*
54984752 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
54984795 AAAATCCTAA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:54984850 original size:29 final size:29
Alignment explanation
Indices: 54984815--54985187 Score: 550
Period size: 29 Copynumber: 12.6 Consensus size: 29
54984805 TTTAATTAAA
54984815 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* * *
54984844 ATCCCTAACCTAATTTAATTAAACACCTT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* * *
54984873 AACCTTGACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54984902 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54984931 AACCCTAACCTAACCTAATTTAATTAAAAACCCT
1 AA--C---CCTAACCTAATTTAATTAAAAACCCT
* *
54984965 AA-CCTAACCTGATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
54984993 AACCCTAACCTAATTTGATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54985022 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACC-----TAATTTAATTAAAAACCCT
*
54985056 AACCCTAACCTAATTCAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54985085 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
54985114 AACCCTAACCTAATTTAATTAAAAACTCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54985143 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
54985172 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
54985188 TACATAATTT
Statistics
Matches: 313, Mismatches: 20, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
28 26 0.08
29 230 0.73
31 1 0.00
34 56 0.18
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.29
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:54985251 original size:10 final size:10
Alignment explanation
Indices: 54985236--54985260 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54985226 TTTGGACTTA
54985236 ATAATTTTAC
1 ATAATTTTAC
54985246 ATAATTTTAC
1 ATAATTTTAC
54985256 ATAAT
1 ATAAT
54985261 GTTAGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:54988653 original size:124 final size:124
Alignment explanation
Indices: 54988355--54988706 Score: 623
Period size: 124 Copynumber: 2.8 Consensus size: 124
54988345 CCCAAACTTG
* *
54988355 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATACTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
54988420 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
* * * *
54988480 CAACTGTAGCAAAATCGCATCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
54988545 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
*
54988604 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
54988669 TAGAAGCGATTTTATACTATTTGCTCAGAAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAG-AAACGTCAA
54988707 CTCGAAATAA
Statistics
Matches: 215, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 112 0.52
125 103 0.48
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:54989978 original size:3 final size:3
Alignment explanation
Indices: 54989970--54989994 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54989960 ACATTAGTGT
54989970 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
54989995 CAATATTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:54993867 original size:183 final size:183
Alignment explanation
Indices: 54993553--54994099 Score: 932
Period size: 183 Copynumber: 3.0 Consensus size: 183
54993543 CTTTAATGGT
* * * * *
54993553 ACAAATGCCGGTAATGAGACGGTTCACGATGATGAGATCTTCGAAGGGAAAGACATAGATACTGA
1 ACAAA-GCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGA
*
54993618 TGTTATAACAGAAGCAGATGTGGGGTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTT
65 TGTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTT
*
54993683 GGAAGGAGTCTTCGACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
130 GGAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
54993737 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
1 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
* *
54993802 GTTATAACAGAATCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACTAAAGCTTG
66 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
*
54993867 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
131 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
*
54993920 ACAACGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
1 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
* * **
54993985 ATTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCAATGAAGGTACCAAAGCTCC
66 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
* *
54994050 GAAGGAGTCTTCAACTGCTGAACTGGTAGAGTTAAATAAGAATTCGACAG
131 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAG
54994100 TGAATAATGC
Statistics
Matches: 344, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
183 339 0.99
184 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (183 bp):
ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAAGCTTG
GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGCGG
Found at i:54999211 original size:21 final size:20
Alignment explanation
Indices: 54999185--54999239 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
54999175 AATAACGGTG
54999185 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAG-TACTGTA
*
54999206 GCGGTGAGATTGAGTATTGTA
1 GCGGTGAGATT-AGTACTGTA
*
54999227 GCAGTGAGATTAG
1 GCGGTGAGATTAG
54999240 AAACAGCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.36, T:0.31
Consensus pattern (20 bp):
GCGGTGAGATTAGTACTGTA
Found at i:54999375 original size:19 final size:18
Alignment explanation
Indices: 54999351--54999406 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
54999341 TAGAAATTTT
54999351 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAACAATTA
*
54999370 TAAAATTAATAA-ATGATTA
1 TAAAATTATTAACA--ATTA
54999389 -AAAATTATT-ACAATTA
1 TAAAATTATTAACAATTA
54999405 TA
1 TA
54999407 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 12 0.39
19 12 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAACAATTA
Found at i:55001161 original size:21 final size:21
Alignment explanation
Indices: 55001135--55001190 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
55001125 AACAGCGGTG
*
55001135 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
55001156 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
55001177 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
55001191 AACAGCGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:55004187 original size:6 final size:6
Alignment explanation
Indices: 55004176--55004219 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
55004166 TTTGCAACCC
*
55004176 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
55004220 GAAGAAGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:55009803 original size:42 final size:43
Alignment explanation
Indices: 55009754--55009837 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
55009744 ATCCATTAAT
55009754 TAAAATGACATG-GTCTTTTTAGTATTATGTGAAAATAGTAAC
1 TAAAATGACATGCGTCTTTTTAGTATTATGTGAAAATAGTAAC
* * *
55009796 TAAAATGACTTGCTTTTTTTTAGTATTATGTGAAAATAGTAA
1 TAAAATGACATGCGTCTTTTTAGTATTATGTGAAAATAGTAA
55009838 ACCGACATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 11 0.29
43 27 0.71
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (43 bp):
TAAAATGACATGCGTCTTTTTAGTATTATGTGAAAATAGTAAC
Found at i:55012877 original size:22 final size:22
Alignment explanation
Indices: 55012849--55012892 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
55012839 AAAGATGTAA
*
55012849 TCATTAACTCCCAAAAAATTAT
1 TCATTAACCCCCAAAAAATTAT
55012871 TCATTAACCCCCAAAAAATTAT
1 TCATTAACCCCCAAAAAATTAT
55012893 CTTTATGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (22 bp):
TCATTAACCCCCAAAAAATTAT
Found at i:55016512 original size:21 final size:22
Alignment explanation
Indices: 55016483--55016530 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
55016473 ACTAATTTAA
55016483 TTAAG-TTAATC-CTTAATTAT-
1 TTAAGTTTAATCAC-TAATTATG
55016503 TTAAGTTTAATCACTAATTATG
1 TTAAGTTTAATCACTAATTATG
55016525 TTAAGT
1 TTAAGT
55016531 AAATGCCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
22 7 0.28
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (22 bp):
TTAAGTTTAATCACTAATTATG
Found at i:55021650 original size:13 final size:13
Alignment explanation
Indices: 55021616--55021661 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
55021606 AAATATGAGA
55021616 ATTATTAATATTT
1 ATTATTAATATTT
*
55021629 ATT-TATAATAGTT
1 ATTAT-TAATATTT
55021642 ATTATTAATATTT
1 ATTATTAATATTT
55021655 AATTATT
1 -ATTATT
55021662 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 1 0.04
13 20 0.71
14 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTATTAATATTT
Found at i:55023199 original size:3 final size:3
Alignment explanation
Indices: 55023191--55023258 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
55023181 ATGAATTAAG
*
55023191 TAT TAT TA- TAT TAT TAT TAT GTAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
55023236 TAT TAT TAT TAT TCA- TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TA
55023259 ATTAATACAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 3 0.05
3 52 0.88
4 4 0.07
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:55023305 original size:16 final size:16
Alignment explanation
Indices: 55023284--55023316 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55023274 AAATAAAGTA
*
55023284 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
55023300 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
55023316 A
1 A
55023317 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:55034764 original size:21 final size:21
Alignment explanation
Indices: 55034716--55034771 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
55034706 CACCATTGTT
*
55034716 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
55034737 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
55034759 T-TAATCTCACCGC
1 TCTAATCTCACCGC
55034772 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:55068378 original size:30 final size:31
Alignment explanation
Indices: 55068328--55068391 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
55068318 ATTTCTTATG
* *
55068328 CCAATATTTCGATACTCATATCTTTGACTTT
1 CCAATATTTCGATACCCATATATTTGACTTT
55068359 CCAATATTT-GATACCCATATATTTGACTTT
1 CCAATATTTCGATACCCATATATTTGACTTT
55068389 CCA
1 CCA
55068392 TAATATGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.42
Consensus pattern (31 bp):
CCAATATTTCGATACCCATATATTTGACTTT
Found at i:55068587 original size:13 final size:13
Alignment explanation
Indices: 55068569--55068594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55068559 TTCCCCTTAT
55068569 TAAGTTCTAACAA
1 TAAGTTCTAACAA
55068582 TAAGTTCTAACAA
1 TAAGTTCTAACAA
55068595 CAACACTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TAAGTTCTAACAA
Found at i:55073029 original size:29 final size:28
Alignment explanation
Indices: 55072992--55073046 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
55072982 AATATTTCGA
55072992 TACCCATATCTTTGACTTTTCAATAATTG
1 TACCCATATCTTTGACTTTTC-ATAATTG
*
55073021 TACCTATATCTTTGACTTTTCATAAT
1 TACCCATATCTTTGACTTTTCATAAT
55073047 ATAGATGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.47
Consensus pattern (28 bp):
TACCCATATCTTTGACTTTTCATAATTG
Found at i:55076088 original size:65 final size:65
Alignment explanation
Indices: 55075894--55076325 Score: 317
Period size: 69 Copynumber: 6.4 Consensus size: 65
55075884 ATATTGAAGC
* * *
55075894 ATTTGAAAAAGTAAAAGAATACATAAATATATAAATTGATAAAATAAATATAAATACTATTGAAT
1 ATTT-AAAAAGTAAAAGAATA-AT--A-A-ATAAATAGATAAAATAAATATAAATAATATTAAAT
55075959 TTAAAT
60 TTAAAT
* * * * * * * *
55075965 GTTTTAAAAGTAAAACAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATATTAAATG
1 ATTTAAAAAGT--AA-AA-GAATAA-TAAATAAATAGATAAAATAAATATAAATAATATTAAATT
**
55076030 TAAGC
61 TAAAT
* *
55076035 ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAAT
1 ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATAAATAATATTAAATTTAAAT
* * * *
55076100 ATTTTAAAAGTAAAAGAACGATAAATAAATAAATTGATAAAACAAATATAAATAATATTACATTT
1 ATTTAAAAAGTAAAAG-A--AT-AATAAATAAATAGATAAAATAAATATAAATAATATTAAATTT
55076165 AAAT
62 AAAT
* *
55076169 ATTT-AAAAGATAAAAGAATAATGAACAAATAAATAAATAAATATAATAGATACGAATAATATTA
1 ATTTAAAAAG-TAAAAGAATAAT----AAATAAATAGATAAA-ATAA-ATATA--AATAATATTA
**
55076233 AATTTAGGT
57 AATTTAAAT
* * * *
55076242 ATTT--AAA--AAAAGAATGATAAAT--AT--ATAAAACAAATATAAATAATATTAACTTTAGAT
1 ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATAAATAATATTAAATTTAAAT
* *
55076299 ATTTAAAAAAT-GAAGAATAATAAATAA
1 ATTTAAAAAGTAAAAGAATAATAAATAA
55076326 GTTAATATAT
Statistics
Matches: 292, Mismatches: 45, Indels: 57
0.74 0.11 0.14
Matches are distributed among these distances:
57 21 0.07
59 7 0.02
60 15 0.05
61 5 0.02
63 2 0.01
65 57 0.20
66 8 0.03
67 2 0.01
68 10 0.03
69 74 0.25
70 50 0.17
71 8 0.03
72 5 0.02
73 23 0.08
74 5 0.02
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.29
Consensus pattern (65 bp):
ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATAAATAATATTAAATTTAAAT
Found at i:55076187 original size:134 final size:135
Alignment explanation
Indices: 55075893--55076214 Score: 389
Period size: 134 Copynumber: 2.4 Consensus size: 135
55075883 TATATTGAAG
* * *
55075893 CATTTGAAAAAGTAAAAGAATACATAAATATATAAATTGATAAAATAAATATAAATACTATTGAA
1 CATTT-AAAAAGTAAAAGAATA-AT--A-A-ATAAATAGATAAAATAAATATAAATAATATTCAA
* * * *
55075958 TTTAAATGTTTTAAAAGTAAAACAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATA
60 TTTAAATATTTTAAAAGTAAAACAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATA
*
55076023 TTAAATGTAAG
125 TTAAATGTAAA
*
55076034 CATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAA
1 CATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATAAATAATATTCAATTTAAA
* * * * *
55076099 TATTTTAAAAGTAAAAGAAC-GATAAATAAATAAATTGATAAAACAAATATAAATAATATTACAT
66 TATTTTAAAAGTAAAACAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATATTAAAT
*
55076163 TTAAA
131 GTAAA
* * * *
55076168 TATTT-AAAAGATAAAAGAATAATGAACAAATAAAT-AAATAAATATAA
1 CATTTAAAAAG-TAAAAGAATAATAAATAAATAGATAAAATAAATATAA
55076215 TAGATACGAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
133 16 0.10
134 65 0.41
135 54 0.34
136 1 0.01
137 1 0.01
139 2 0.01
140 16 0.10
141 5 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (135 bp):
CATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATAAATAATATTCAATTTAAA
TATTTTAAAAGTAAAACAACAAATAAATAAATAAATAGATAAAACAAATATAAACAATATTAAAT
GTAAA
Found at i:55076262 original size:134 final size:130
Alignment explanation
Indices: 55075894--55076325 Score: 346
Period size: 134 Copynumber: 3.2 Consensus size: 130
55075884 ATATTGAAGC
* * * * *
55075894 ATTTGAAAAAGTAAAAGAATACATAAATATATAAATTGATAAAATAAATATAAATACTATTGAAT
1 ATTT-AAAAA-TAAAAGAATA-ATAAATAAAT-AA---ATAAAATAAAGATACATAATATTAAAT
* * * * * * *
55075959 TTAAATGTTTTAAAAGTAAAACAACAAATAAGTGAATAAATAGATGAAACAAATATAAACAATAT
59 TTAAATATTTTAAAAG-AAAAGAAC--ATAAATAAATAAATTGATAAAACAAATATAAATAATAT
* **
55076024 TAAATGTAAGC
121 T-AATTTAAAT
* * *
55076035 ATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAATAAATATACATAATATTCAATTTAAAT
1 ATTTAAAAA-TAAAAGAATAATAAATAAATAAATAAAATAAAGATACATAATATTAAATTTAAAT
55076100 ATTTTAAAAGTAAAAGAACGATAAATAAATAAATTGATAAAACAAATATAAATAATATTACATTT
65 ATTTTAAAAG-AAAAGAAC-ATAAATAAATAAATTGATAAAACAAATATAAATAATATTA-ATTT
55076165 AAAT
127 AAAT
55076169 ATTTAAAAGATAAAAGAATAATGAACAAATAAATAAATAAATATAATAGATACGAATAATATTAA
1 ATTTAAAA-ATAAAAGAATAAT----AAATAAATAAATAAA-ATAA-AGATAC--ATAATATTAA
** *
55076234 ATTTAGGTA-TTT-AAA-AAAAG-A-AT-GATAAAT--A-T-ATAAAACAAATATAAATAATATT
57 ATTTAAATATTTTAAAAGAAAAGAACATAAATAAATAAATTGATAAAACAAATATAAATAATATT
*
55076289 AACTTTAGAT
122 AA-TTTAAAT
*
55076299 ATTTAAAAA-ATGAAGAATAATAAATAA
1 ATTTAAAAATA-AAAGAATAATAAATAA
55076326 GTTAATATAT
Statistics
Matches: 255, Mismatches: 24, Indels: 40
0.80 0.08 0.13
Matches are distributed among these distances:
125 6 0.02
128 1 0.00
129 11 0.04
130 38 0.15
131 1 0.00
132 1 0.00
133 1 0.00
134 65 0.25
135 50 0.20
137 1 0.00
138 20 0.08
139 13 0.05
140 24 0.09
141 7 0.03
142 16 0.06
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.29
Consensus pattern (130 bp):
ATTTAAAAATAAAAGAATAATAAATAAATAAATAAAATAAAGATACATAATATTAAATTTAAATA
TTTTAAAAGAAAAGAACATAAATAAATAAATTGATAAAACAAATATAAATAATATTAATTTAAAT
Found at i:55076336 original size:57 final size:58
Alignment explanation
Indices: 55076197--55076342 Score: 163
Period size: 57 Copynumber: 2.5 Consensus size: 58
55076187 TAATGAACAA
* *
55076197 ATAAATAAATAAATATAATAGATACGAATAATATTAAATTTAGGTATTTAAAAAAAGAATG
1 ATAAATAAATAAAT-TAATATATA--AATAATATTAAATTTAGATATTTAAAAAAAGAATG
* ** * *
55076258 ATAAATATATAAAACAA-ATATAAATAATATTAACTTTAGATATTTAAAAAATGAA-G
1 ATAAATAAATAAATTAATATATAAATAATATTAAATTTAGATATTTAAAAAAAGAATG
*
55076314 A-ATAATAAATAAGTTAATATATAAATAAT
1 ATA-AATAAATAAATTAATATATAAATAAT
55076343 GAAATTAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.01
56 12 0.17
57 41 0.57
59 4 0.06
60 2 0.03
61 12 0.17
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (58 bp):
ATAAATAAATAAATTAATATATAAATAATATTAAATTTAGATATTTAAAAAAAGAATG
Found at i:55078134 original size:45 final size:45
Alignment explanation
Indices: 55078080--55078179 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
55078070 TAATCTGTTT
* * *
55078080 CACTACAACTCTA-GAAAAATAAGATTTGTTATCTTCAATCTACTA
1 CACTACAACTCCATG-AAAATAAGATTCGCTATCTTCAATCTACTA
* * * *
55078125 CACTGCAACTCCATGGAAATAAGATTCGCTATCTTCAATCTGCTC
1 CACTACAACTCCATGAAAATAAGATTCGCTATCTTCAATCTACTA
*
55078170 CTCTACAACT
1 CACTACAACT
55078180 TTAGGGAGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (45 bp):
CACTACAACTCCATGAAAATAAGATTCGCTATCTTCAATCTACTA
Found at i:55078216 original size:51 final size:51
Alignment explanation
Indices: 55078161--55078489 Score: 261
Period size: 51 Copynumber: 6.7 Consensus size: 51
55078151 CGCTATCTTC
* * * * * * *
55078161 AATCTGCTCCTCTACAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* *
55078212 AATCTTTTCCACTGCAACTTCAGGGAAATAAGATTTATAA----TA--TTC
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * * *
55078257 AATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTTGCAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * *
55078308 AATCTATTCCACTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * ** * *
55078359 AATCTGTTCCACTACAACTTCAAGAAAATAAGA--T-TCGC-TATA--TTC
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
* * * * *
55078404 AAACTGCTCCAATGCAACTTTA-GGAAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTATAACTTGTAGCTTT
** *
55078455 AATCTGTTCCACTATAACTTCAGAGAAATAAGATT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
55078490 CGCATCTTCA
Statistics
Matches: 213, Mismatches: 51, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
44 3 0.01
45 62 0.29
47 7 0.03
48 3 0.01
49 5 0.02
51 130 0.61
52 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (51 bp):
AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTATAACTTGTAGCTTT
Found at i:55078288 original size:141 final size:141
Alignment explanation
Indices: 55078034--55078291 Score: 331
Period size: 141 Copynumber: 1.8 Consensus size: 141
55078024 TGTTCTACTG
55078034 CAACTTCAGAGAGATAAAATTTATAACTCGTAGCTTTAATCTGTTTCACTACAACTCTAGAAAAA
1 CAACTTCAGAGAGATAAAATTTATAACTCGTAGCTTTAATCTGTTTCACTACAACTCTAGAAAAA
* * * *
55078099 TAAGATTTGTTATCTTCAATCTACTACACTGCAACTCCATGGAAATAAGATTCGCTATCTTCAAT
66 TAAGATTTATAATATTCAATCTACTACACTGCAACTCCAGGGAAATAAGATTCGCTATCTTCAAT
55078164 CTGCTCCTCTA
131 CTGCTCCTCTA
* * * * * **
55078175 CAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTTAATCT-TTTCCACTGCAACT-TCAGGGA
1 CAACTTCAGAGAGATAAAATTTATAACTCGTAGCTTTAATCTGTTT-CACTACAACTCT-AGAAA
* * * * * *
55078238 AATAAGATTTATAATATTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATT
64 AATAAGATTTATAATATTCAATCTACTACACTGCAACTCCAGGGAAATAAGATT
55078292 TATAACTTGC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
140 4 0.04
141 94 0.96
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (141 bp):
CAACTTCAGAGAGATAAAATTTATAACTCGTAGCTTTAATCTGTTTCACTACAACTCTAGAAAAA
TAAGATTTATAATATTCAATCTACTACACTGCAACTCCAGGGAAATAAGATTCGCTATCTTCAAT
CTGCTCCTCTA
Found at i:55078343 original size:96 final size:96
Alignment explanation
Indices: 55078116--55078344 Score: 289
Period size: 96 Copynumber: 2.4 Consensus size: 96
55078106 TGTTATCTTC
* * * * ** * *
55078116 AATCTACTACACTGCAACTCCATGGAAATAAGATTCGCT-ATCTTCAATCTGCTCCTCTACAACT
1 AATCTATTCCACTGCAACTTCAGGGAAATAAGATT-TATAATATTCAATCTGCTCCACTACAACT
* * *
55078180 TTAGGGAGATAAAATTTTTAACTTGTAGCTTT
65 TCAGGGAGATAAAATTTATAACTTGCAGCTTT
* * **
55078212 AATCTTTTCCACTGCAACTTCAGGGAAATAAGATTTATAATATTCAATTTGCTCCACTGTAACTT
1 AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTATAATATTCAATCTGCTCCACTACAACTT
*
55078277 CAGGGAGATAAGATTTATAACTTGCAGCTTT
66 CAGGGAGATAAAATTTATAACTTGCAGCTTT
*
55078308 AATCTATTCCACTGCAACTTGAGGGAAATAAGATTTA
1 AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTA
55078345 AAACTTATAG
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
95 1 0.01
96 113 0.99
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (96 bp):
AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTATAATATTCAATCTGCTCCACTACAACTT
CAGGGAGATAAAATTTATAACTTGCAGCTTT
Found at i:55078369 original size:147 final size:147
Alignment explanation
Indices: 55078015--55078489 Score: 403
Period size: 147 Copynumber: 3.3 Consensus size: 147
55078005 AGGAATTGTC
* * * * * * * ** *
55078015 GCTTTAATCTGTTCTACTGCAACTTCAGAGAGATAAAATTTATAACTCGTAGCTTTAATCTGTTT
1 GCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTC
* * * * * * * * *
55078080 CACTACAAC-TCTAGAAAAATAAGATTTGTTATCTTCAATCTACTACACTGCAACTCCATGGAA-
66 CACTACAACTTCAAG-AAAATAAGATTCGATATATTCAAACTGCTCCAATGCAACTTCA-GGAAG
55078143 ATAAGA--T-T--C--GCTA
129 ATAAGATTTATAACTTGC-A
* * ** * * * * ** * *
55078156 TCTTCAATCTGCTCCTCTACAACTTTAGGGAGATAAAATTTTTAACTTGTAGCTTTAATCTTTTC
1 GCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTC
* * * * ** * * *
55078221 CACTGCAACTTCAGGGAAATAAGATT-TATAATATTCAATTTGCTCCACTGTAACTTCAGGGAGA
66 CACTACAACTTCAAGAAAATAAGATTCGAT-ATATTCAAACTGCTCCAATGCAACTTCAGGAAGA
55078285 TAAGATTTATAACTTGCA
130 TAAGATTTATAACTTGCA
* *
55078303 GCTTTAATCTATTCCACTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTC
1 GCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTC
* *
55078368 CACTACAACTTCAAGAAAATAAGATTCGCTATATTCAAACTGCTCCAATGCAACTTTAGGAAGAT
66 CACTACAACTTCAAGAAAATAAGATTCGATATATTCAAACTGCTCCAATGCAACTTCAGGAAGAT
* *
55078433 AAGATTTGTAACTTGTA
131 AAGATTTATAACTTGCA
* * *
55078450 GCTTTAATCTGTTCCACTATAACTTCAGAGAAATAAGATT
1 GCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATT
55078490 CGCATCTTCA
Statistics
Matches: 267, Mismatches: 56, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
140 4 0.01
141 99 0.37
142 3 0.01
143 1 0.00
144 1 0.00
146 1 0.00
147 155 0.58
148 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.35
Consensus pattern (147 bp):
GCTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTC
CACTACAACTTCAAGAAAATAAGATTCGATATATTCAAACTGCTCCAATGCAACTTCAGGAAGAT
AAGATTTATAACTTGCA
Found at i:55078420 original size:96 final size:95
Alignment explanation
Indices: 55078315--55078534 Score: 309
Period size: 96 Copynumber: 2.3 Consensus size: 95
55078305 TTTAATCTAT
*
55078315 TCCACTGCAACTTGAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
1 TCCACTGCAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
55078380 A-AGAAAATAAGATTCGCTATATTCAAACTGC
66 AGAG-AAATAAGATTCGC-ATATTCAAACTGC
* * ** * *
55078411 TCCAATGCAACTTTA-GGAAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTATAACTT
1 TCCACTGCAACTTCAGGGAA-ATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTT
* *
55078475 CAGAGAAATAAGATTCGCATCTTCAATCTGC
65 CAGAGAAATAAGATTCGCATATTCAAACTGC
*
55078506 TCCACTGCAACTTCAGGGAGATAAGATTT
1 TCCACTGCAACTTCAGGGAAATAAGATTT
55078535 GTATATGTTA
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
95 37 0.34
96 71 0.65
97 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (95 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTAAAACTTATAGCTTTAATCTGTTCCACTACAACTTC
AGAGAAATAAGATTCGCATATTCAAACTGC
Found at i:55080586 original size:19 final size:19
Alignment explanation
Indices: 55080562--55080634 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
55080552 AATTTTTGAG
55080562 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55080581 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
55080600 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55080619 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
55080635 AGATGTGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:55081249 original size:16 final size:17
Alignment explanation
Indices: 55081218--55081272 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
55081208 ATGTAATTAT
*
55081218 TATATTTATG-A-TTTA
1 TATATTTATGTACCTTA
55081233 TATATTTAT-TACCTTA
1 TATATTTATGTACCTTA
* *
55081249 TATATATATGTACGTATA
1 TATATTTATGTACCT-TA
55081267 TATATT
1 TATATT
55081273 ATACTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 10 0.31
16 11 0.34
17 4 0.12
18 7 0.22
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
TATATTTATGTACCTTA
Found at i:55081258 original size:48 final size:48
Alignment explanation
Indices: 55081203--55081373 Score: 141
Period size: 48 Copynumber: 3.4 Consensus size: 48
55081193 TTTTTTAGTT
*
55081203 TATATATGTAATTATTATATTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATATTTATGATTTATATATTTATTAACTTATA
** * *
55081251 TATATATGTACGTA-TATATATTAT-ACTTTCTATACATATTT-TATAATTTCTA
1 TATATATGTAATTATTATAT-TTATGA--TT-TAT--ATATTTAT-TAACTTATA
* * * *
55081303 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATATTTATGATTTATATATTTATTAACTTATA
55081351 TATATGTATGTATATATATTATA
1 TATA--TATGTA-AT-TATTATA
55081374 CTTTCTATCC
Statistics
Matches: 93, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
47 6 0.06
48 33 0.35
49 3 0.03
50 11 0.12
51 4 0.04
52 31 0.33
53 5 0.05
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATATGTAATTATTATATTTATGATTTATATATTTATTAACTTATA
Found at i:55081284 original size:18 final size:18
Alignment explanation
Indices: 55081263--55081314 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
55081253 TATATGTACG
*
55081263 TATATATATTATACTTTC
1 TATATATATTATAATTTC
*
55081281 TATACATATTTTATAATTTC
1 TAT--ATATATTATAATTTC
55081301 TATATATA-TATAAT
1 TATATATATTATAAT
55081315 CATTATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
20 16 0.55
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:55081289 original size:20 final size:20
Alignment explanation
Indices: 55081266--55081311 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
55081256 ATGTACGTAT
*
55081266 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
55081286 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
55081306 ATATAT
1 ATATAT
55081312 AATCATTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:55081373 original size:98 final size:100
Alignment explanation
Indices: 55081203--55081409 Score: 328
Period size: 98 Copynumber: 2.1 Consensus size: 100
55081193 TTTTTTAGTT
* * * *
55081203 TATATATGTAATTATTATATTTATGATTTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATATAATCATTATATTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
55081268 ATATTATACTTTCTATACATATTTTATAATTTCTA
66 ATATTATACTTTCTATACATATTTTATAATTTCTA
* *
55081303 TATATATATAATCATTATCTTTATGATCTATATATTTATTAAC-T-TATATATATGTATGTATAT
1 TATATATATAATCATTATATTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
*
55081366 ATATTATACTTTCTATCCATATTTTATAATTTCTA
66 ATATTATACTTTCTATACATATTTTATAATTTCTA
*
55081401 TATGTATAT
1 TATATATAT
55081410 TTTTCTTTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 60 0.61
99 1 0.01
100 38 0.38
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (100 bp):
TATATATATAATCATTATATTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
ATATTATACTTTCTATACATATTTTATAATTTCTA
Found at i:55081392 original size:20 final size:20
Alignment explanation
Indices: 55081364--55081401 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55081354 ATGTATGTAT
*
55081364 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
55081384 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
55081402 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:55081405 original size:48 final size:48
Alignment explanation
Indices: 55081253--55081407 Score: 174
Period size: 52 Copynumber: 3.2 Consensus size: 48
55081243 ACCTTATATA
* *
55081253 TATATGTACGTATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTATGTATATATATTATACTTTCTATCCATATTTTATAATTTC
* * * *
55081301 TATA--TATATATA-ATCATTAT-CTTTATGATCTATATATTTATTAACTTATA
1 TATATGTATGTATATAT-ATTATACTTTCT-ATCCATAT-TTTA-TAA-TT-TC
55081351 TATATGTATGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATGTATGTATATATATTATACTTTCTATCCATATTTTATAATTTC
55081399 TATATGTAT
1 TATATGTAT
55081408 ATTTTTCTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
45 7 0.08
46 17 0.20
47 4 0.05
48 17 0.20
49 4 0.05
50 8 0.09
51 4 0.05
52 19 0.22
53 7 0.08
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATGTATGTATATATATTATACTTTCTATCCATATTTTATAATTTC
Found at i:55088620 original size:132 final size:132
Alignment explanation
Indices: 55088250--55088787 Score: 816
Period size: 132 Copynumber: 4.1 Consensus size: 132
55088240 GGTTAAAACC
* * *
55088250 GATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTG-AGGTT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTA-GTT
*
55088314 ATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATT
65 ACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATT
55088379 TCA
130 TCA
* * *
55088382 GATCTTATCTCCCTAAGCAGTA-TAGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTA
* * *
55088446 TAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTT
55088511 CA
131 CA
* *
55088513 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTGTAGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTA
* *
55088578 CAGTGGAGTATATTGGAGCCAGTAATTCTACTTCCCTAGG-CAACAGTGGAATAGATTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATT
55088642 TCA
130 TCA
* * *
55088645 GATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTA
* * *
55088710 CAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
*
55088774 GTAA
130 -TCA
55088778 G-TCTTATCTC
1 GATCTTATCTC
55088788 TCTGCAGTTG
Statistics
Matches: 373, Mismatches: 27, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
131 126 0.34
132 242 0.65
133 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTA
CAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTT
CA
Found at i:55089043 original size:19 final size:19
Alignment explanation
Indices: 55089019--55089131 Score: 183
Period size: 19 Copynumber: 5.8 Consensus size: 19
55089009 AATTTTTGAG
55089019 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
55089038 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
55089057 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55089076 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
55089097 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55089116 GATCA-GCAATCTTAGA
1 GAT-ATGCAATCTTAGA
55089132 AGATGTGATT
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
19 69 0.78
20 1 0.01
21 19 0.21
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:55089086 original size:59 final size:59
Alignment explanation
Indices: 55089020--55089131 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
55089010 ATTTTTGAGG
55089020 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT-ATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATCA-GCAATCTTAGATATGAT
*
55089079 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATCAGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATCAGCAATCTTAGA
55089132 AGATGTGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
59 50 0.98
60 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATCAGCAATCTTAGATATGAT
Found at i:55089094 original size:40 final size:40
Alignment explanation
Indices: 55089019--55089131 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 40
55089009 AATTTTTGAG
*
55089019 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
55089057 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
*
55089097 GATATGCAATCTTAGATATGAT-CA-GCAATCTTAGA
1 GATATGCAATCTTAGATATGATATATGCAATCTTAGA
55089132 AGATGTGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 31 0.44
39 1 0.01
40 39 0.55
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (40 bp):
GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
Found at i:55089748 original size:16 final size:17
Alignment explanation
Indices: 55089729--55089771 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
55089719 TTTTTATGAT
55089729 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
55089745 TTATATATATATGTACG
1 TTATATATTTATGTACC
55089762 TATATATATT
1 T-TATATATT
55089772 ATACTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:55089844 original size:44 final size:43
Alignment explanation
Indices: 55089785--55089874 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 43
55089775 CTTTTTATAC
*
55089785 ATATTTTATAATTTCTA-CATA-TTTATTAACTTATATATATGTAT
1 ATATATTATAATTTCTACCATATTTTA-TAA-TT-TATATATGTAT
* *
55089829 ATATATTATACTTTCTATCCATATTTTATAATTTCTATATGTAT
1 ATATATTATAATTTCTA-CCATATTTTATAATTTATATATGTAT
55089873 AT
1 AT
55089875 TTTTCTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 27 0.68
45 2 0.05
46 7 0.17
47 4 0.10
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.54
Consensus pattern (43 bp):
ATATATTATAATTTCTACCATATTTTATAATTTATATATGTAT
Found at i:55089857 original size:20 final size:20
Alignment explanation
Indices: 55089829--55089866 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55089819 ATATATGTAT
*
55089829 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
55089849 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
55089867 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:55089950 original size:21 final size:20
Alignment explanation
Indices: 55089903--55089942 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
55089893 ATGTATTATA
55089903 TATATAAATTTTATATTTTT
1 TATATAAATTTTATATTTTT
55089923 TATATAAATTTTAT-TTTTT
1 TATATAAATTTTATATTTTT
55089942 T
1 T
55089943 TTCCATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATAAATTTTATATTTTT
Found at i:55094999 original size:29 final size:29
Alignment explanation
Indices: 55094936--55095002 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
55094926 GTTTGACCTT
*
55094936 ATTTGATTCATTTTAATAGTACAAGGACTA
1 ATTTGA-TCAATTTAATAGTACAAGGACTA
* *
55094966 A-TTGATCAATTTAATAGTAGAGGGACTA
1 ATTTGATCAATTTAATAGTACAAGGACTA
55094994 ATTTGATCA
1 ATTTGATCA
55095003 TGTATCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 21 0.64
29 11 0.33
30 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (29 bp):
ATTTGATCAATTTAATAGTACAAGGACTA
Found at i:55102250 original size:15 final size:15
Alignment explanation
Indices: 55102230--55102258 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55102220 AATGTGTGGC
55102230 GAGTTGTATTTGGTT
1 GAGTTGTATTTGGTT
55102245 GAGTTGTATTTGGT
1 GAGTTGTATTTGGT
55102259 GAAGGTGATC
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:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (15 bp):
GAGTTGTATTTGGTT
Found at i:55105617 original size:25 final size:25
Alignment explanation
Indices: 55105583--55105630 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
55105573 TTCAATGGGC
*
55105583 CTGCTAAACACAGTCTGCACAAAGT
1 CTGCCAAACACAGTCTGCACAAAGT
55105608 CTGCCAAACACAGTCTGCACAAA
1 CTGCCAAACACAGTCTGCACAAA
55105631 TGTCAACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.17
Consensus pattern (25 bp):
CTGCCAAACACAGTCTGCACAAAGT
Found at i:55108443 original size:19 final size:20
Alignment explanation
Indices: 55108421--55108458 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55108411 AAGAAGAAGC
*
55108421 AGAA-GATAATGAAAAAAAA
1 AGAATGATAAAGAAAAAAAA
*
55108440 AGAATGTTAAAGAAAAAAA
1 AGAATGATAAAGAAAAAAA
55108459 TTAAATTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (20 bp):
AGAATGATAAAGAAAAAAAA
Found at i:55109569 original size:22 final size:22
Alignment explanation
Indices: 55109544--55109599 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
55109534 AAGCTCACTC
55109544 ATATTATTTTTTAAAAATATTT
1 ATATTATTTTTTAAAAATATTT
* * **
55109566 ATATTATATTATATTAATATTT
1 ATATTATTTTTTAAAAATATTT
*
55109588 A-ATAATTTTTTA
1 ATATTATTTTTTA
55109600 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTATTTTTTAAAAATATTT
Found at i:55109580 original size:32 final size:30
Alignment explanation
Indices: 55109544--55109606 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
55109534 AAGCTCACTC
* *
55109544 ATATTATTTTTTAAAAATATTTATATTATATT
1 ATATTAATATTTAAAAAT-TTTATATT-TATT
* *
55109576 ATATTAATATTTAATAATTTTTTATTTATT
1 ATATTAATATTTAAAAATTTTATATTTATT
55109606 A
1 A
55109607 AAATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 7 0.26
32 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
ATATTAATATTTAAAAATTTTATATTTATT
Found at i:55111237 original size:30 final size:30
Alignment explanation
Indices: 55111201--55111287 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 30
55111191 CGGACCTATT
55111201 TTTTTTTCAATTCGGTACTTAAACTTGACA-
1 TTTTTTTCAATT-GGTACTTAAACTTGACAG
* * *
55111231 TTTTTTTCTAATTTGGTACCTAAACCTGATAG
1 TTTTTTTC-AA-TTGGTACTTAAACTTGACAG
*
55111263 TTTTCTT-AAGTTGGTACTTAAACTT
1 TTTTTTTCAA-TTGGTACTTAAACTT
55111288 TTGGGAATCC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 23 0.49
31 16 0.34
32 8 0.17
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.48
Consensus pattern (30 bp):
TTTTTTTCAATTGGTACTTAAACTTGACAG
Found at i:55115357 original size:33 final size:35
Alignment explanation
Indices: 55115292--55115357 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
55115282 ATGTGAAATT
* * *
55115292 ATATATTTGTTTTATAATTTTGTAATATTATAATA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAATA
*
55115327 ATAT-TTTGTTTTAAAAATTT-TATTACTATAA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAA
55115358 CTTAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 9 0.33
34 14 0.52
35 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (35 bp):
ATATATTTGTTTTAAAAATTTGTAATACTATAATA
Found at i:55118378 original size:40 final size:40
Alignment explanation
Indices: 55118307--55118383 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
55118297 TCCACAGCAT
* *
55118307 CTCTATACTTATGCTTAGCTAAAAATGTATGTTTGTACAC
1 CTCTATACTTATGCTTAGCTAAAAATATATGTATGTACAC
*
55118347 CTCTGTACTTATGCTTAGCTAAAGAA-ATATGTATGTA
1 CTCTATACTTATGCTTAGCTAAA-AATATATGTATGTA
55118384 TTGTATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (40 bp):
CTCTATACTTATGCTTAGCTAAAAATATATGTATGTACAC
Found at i:55124940 original size:24 final size:24
Alignment explanation
Indices: 55124913--55124969 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
55124903 AAACCTAATT
55124913 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* * *
55124937 CTAATAAATGTTAAATTTATTATA
1 CTAATAAATGTCAAATATATTATG
*
55124961 CTCATAAAT
1 CTAATAAAT
55124970 ACTAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.39
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:55124975 original size:24 final size:24
Alignment explanation
Indices: 55124925--55124978 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
55124915 AATCAAAGTC
* **
55124925 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
* *
55124949 AAATTTATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
55124973 AAATAT
1 AAATAT
55124979 TCTAGAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:55128766 original size:28 final size:29
Alignment explanation
Indices: 55128735--55128812 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
55128725 TATTATTATT
*
55128735 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
55128763 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
55128791 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
55128813 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:55128812 original size:31 final size:28
Alignment explanation
Indices: 55128746--55128813 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
55128736 ATATAAATAT
**
55128746 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
55128774 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
55128805 ATAAATTAA
1 ATAAATTAA
55128814 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:55129718 original size:3 final size:3
Alignment explanation
Indices: 55129691--55129737 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
55129681 GTGAGGTAAG
* * * *
55129691 TAT TAA TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55129738 GAGTGGGAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:55129737 original size:12 final size:12
Alignment explanation
Indices: 55129691--55129737 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
55129681 GTGAGGTAAG
*
55129691 TATTAATATTAG
1 TATTAATATTAT
55129703 TATTAAT-TTAT
1 TATTAATATTAT
*
55129714 TATTAGTATTAT
1 TATTAATATTAT
*
55129726 TATTATTATTAT
1 TATTAATATTAT
55129738 GAGTGGGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (12 bp):
TATTAATATTAT
Found at i:55130151 original size:37 final size:39
Alignment explanation
Indices: 55130092--55130187 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
55130082 TGGATAGATT
* * * *
55130092 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
55130129 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
55130168 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
55130188 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:55132025 original size:24 final size:24
Alignment explanation
Indices: 55131998--55132049 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
55131988 AATCAAAGTC
* *
55131998 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
55132022 AAATATGTTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
55132046 AAAT
1 AAAT
55132050 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:55134837 original size:2 final size:2
Alignment explanation
Indices: 55134832--55134856 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55134822 TTAACAAAAA
55134832 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55134857 AAATTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55141585 original size:118 final size:118
Alignment explanation
Indices: 55141368--55141605 Score: 440
Period size: 118 Copynumber: 2.0 Consensus size: 118
55141358 CAACACTCTT
55141368 AGGCACAAGCTTAAACTTTTCATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTAATC
1 AGGCACAAGCTTAAACTTTTCATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTAATC
* *
55141433 CAAAATATGATGCTTTTAAGCACGAGCATGATTTGTTCGCCCCAAAATGCAAA
66 CAAAATATGATGCTTCTAAGCACGAGCATAATTTGTTCGCCCCAAAATGCAAA
55141486 AGGCACAAGCTTAAACTTTTCATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTAATC
1 AGGCACAAGCTTAAACTTTTCATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTAATC
* *
55141551 CAAAATATGATGCTTCTAAGCATGAGGATAATTTGTTCGCCCCAAAATGCAAA
66 CAAAATATGATGCTTCTAAGCACGAGCATAATTTGTTCGCCCCAAAATGCAAA
55141604 AG
1 AG
55141606 TGCATGAGCG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (118 bp):
AGGCACAAGCTTAAACTTTTCATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTAATC
CAAAATATGATGCTTCTAAGCACGAGCATAATTTGTTCGCCCCAAAATGCAAA
Found at i:55141587 original size:41 final size:41
Alignment explanation
Indices: 55141507--55141587 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
55141497 TAAACTTTTC
* * **
55141507 ATCCAAAGTATGATGCTTCTAAGTATAAGTTTAAATTGTTA
1 ATCCAAAATATGATGCTTCTAAGCATAAGGATAAATTGTTA
* *
55141548 ATCCAAAATATGATGCTTCTAAGCATGAGGATAATTTGTT
1 ATCCAAAATATGATGCTTCTAAGCATAAGGATAAATTGTT
55141588 CGCCCCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (41 bp):
ATCCAAAATATGATGCTTCTAAGCATAAGGATAAATTGTTA
Found at i:55145752 original size:17 final size:17
Alignment explanation
Indices: 55145730--55145762 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55145720 TCCCAGATTT
*
55145730 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
55145747 TGATACCCATATCTTT
1 TGATACCCATATCTTT
55145763 GACTATCTAT
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:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:55150173 original size:19 final size:20
Alignment explanation
Indices: 55150153--55150222 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
55150143 ATTATTTTTA
55150153 TTATTTTAAATATAAAATAT
1 TTATTTTAAATATAAAATAT
*
55150173 TTATTTT-TATATCATAAA-AT
1 TTATTTTAAATAT-A-AAATAT
* **
55150193 TAAAATTAAAT-TAAAATAT
1 TTATTTTAAATATAAAATAT
55150212 TTATTTTAAAT
1 TTATTTTAAAT
55150223 TCGGTTCGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
18 3 0.08
19 15 0.39
20 15 0.39
21 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTTTAAATATAAAATAT
Found at i:55163792 original size:11 final size:11
Alignment explanation
Indices: 55163778--55163813 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
55163768 ATATTCAAAT
*
55163778 AATAATAATAA
1 AATAATAGTAA
55163789 AATAATAGTAA
1 AATAATAGTAA
*
55163800 TATAATAGTAA
1 AATAATAGTAA
55163811 AAT
1 AAT
55163814 GGTAGCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:55177439 original size:43 final size:43
Alignment explanation
Indices: 55177383--55177528 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
55177373 GTTTATATGG
* *
55177383 AGAAGCGCTGCTAAAGATCATGTTCTTTAATAGCGTTTTTAGT
1 AGAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTTTAGT
* * * * *
55177426 AGAAGTGCCGCTAAAGATCATTTTATTTAGCAACGTTTTTACG-
1 AGAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTTTA-GT
* * * *
55177469 AGACGCGCCGCTAAAAATCATGTTCTATAGTGGCGTTTTTAGT
1 AGAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTTTAGT
*
55177512 AGAAGCGTCGCTAAAGA
1 AGAAGCGCCGCTAAAGA
55177529 CCATATCAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.98
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (43 bp):
AGAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTTTAGT
Found at i:55180631 original size:23 final size:23
Alignment explanation
Indices: 55180573--55180640 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
55180563 TGTGTATCCT
* * *
55180573 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTA
*
55180596 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTA
*
55180619 TTCATATTCAAGTTTCTTCACT
1 TTCATATTCAAGTCTCTTCACT
55180641 CTTCTAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTA
Found at i:55185115 original size:23 final size:23
Alignment explanation
Indices: 55185051--55185118 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
55185041 TGTGTATCCT
* * *
55185051 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTA
*
55185074 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTA
*
55185097 TTCATATCCAAGTCTCTTCACT
1 TTCATATTCAAGTCTCTTCACT
55185119 CTTCTAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTA
Found at i:55187276 original size:24 final size:24
Alignment explanation
Indices: 55187249--55187313 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
55187239 TCGTATGAGT
*
55187249 TTCCTGTTAATGGCTCCCCGAAGC
1 TTCCCGTTAATGGCTCCCCGAAGC
*
55187273 TTCCCGTTAATGGCTCCCCGGAGC
1 TTCCCGTTAATGGCTCCCCGAAGC
55187297 TTCCCGTTATATGGCTC
1 TTCCCGTTA-ATGGCTC
55187314 AAAAGAGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 31 0.82
25 7 0.18
ACGTcount: A:0.14, C:0.34, G:0.22, T:0.31
Consensus pattern (24 bp):
TTCCCGTTAATGGCTCCCCGAAGC
Found at i:55187321 original size:25 final size:24
Alignment explanation
Indices: 55187270--55187325 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
55187260 GGCTCCCCGA
****
55187270 AGCTTCCCGTTAATGGCTCCCCGG
1 AGCTTCCCGTTAATGGCTCAAAAG
55187294 AGCTTCCCGTTATATGGCTCAAAAG
1 AGCTTCCCGTTA-ATGGCTCAAAAG
55187319 AGCTTCC
1 AGCTTCC
55187326 TATTTATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (24 bp):
AGCTTCCCGTTAATGGCTCAAAAG
Found at i:55187474 original size:21 final size:22
Alignment explanation
Indices: 55187450--55187494 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
55187440 GTTCATATAT
55187450 GTTTATGTACAT-GAAATTAAA
1 GTTTATGTACATGGAAATTAAA
*
55187471 GTTTATGTACATGGAAGTTAAA
1 GTTTATGTACATGGAAATTAAA
55187493 GT
1 GT
55187495 GAACCATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (22 bp):
GTTTATGTACATGGAAATTAAA
Found at i:55199797 original size:18 final size:18
Alignment explanation
Indices: 55199776--55199814 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
55199766 TTTCTTCAAC
* *
55199776 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
55199794 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
55199812 TTC
1 TTC
55199815 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:55209013 original size:79 final size:79
Alignment explanation
Indices: 55208882--55209044 Score: 308
Period size: 79 Copynumber: 2.1 Consensus size: 79
55208872 AGTTATTCAA
*
55208882 TTCATGTAAATATCAATAACAAAGATGAGCTCATCAAATACCAAGTTCCATGCATTTCATGTATT
1 TTCATGTAAATATCAATAACAAAGATAAGCTCATCAAATACCAAGTTCCATGCATTTCATGTATT
*
55208947 TTTTAGATATTGAT
66 TTTCAGATATTGAT
55208961 TTCATGTAAATATCAATAACAAAGATAAGCTCATCAAATACCAAGTTCCATGCATTTCATGTATT
1 TTCATGTAAATATCAATAACAAAGATAAGCTCATCAAATACCAAGTTCCATGCATTTCATGTATT
55209026 TTTCAGATATTGAT
66 TTTCAGATATTGAT
55209040 TTCAT
1 TTCAT
55209045 TTTGATTTTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (79 bp):
TTCATGTAAATATCAATAACAAAGATAAGCTCATCAAATACCAAGTTCCATGCATTTCATGTATT
TTTCAGATATTGAT
Found at i:55212763 original size:18 final size:18
Alignment explanation
Indices: 55212735--55212789 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
55212725 GATGTGAAAA
55212735 ATTTT-TATTTTTATTA-
1 ATTTTATATTTTTATTAG
55212751 A-TTTATATATTTTA-TAG
1 ATTTTATAT-TTTTATTAG
* *
55212768 ATTTTAAATTTTTATTAT
1 ATTTTATATTTTTATTAG
55212786 ATTT
1 ATTT
55212790 GTCGCATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 11 0.34
18 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATATTTTTATTAG
Found at i:55212881 original size:17 final size:18
Alignment explanation
Indices: 55212859--55212892 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
55212849 TCTTTTAAGA
55212859 ATTAAAAAA-AAAATATC
1 ATTAAAAAATAAAATATC
55212876 ATTAAAAAATAAAATAT
1 ATTAAAAAATAAAATAT
55212893 AAGAATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATTAAAAAATAAAATATC
Found at i:55228056 original size:20 final size:20
Alignment explanation
Indices: 55228031--55228086 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 20
55228021 ATACTATTTA
55228031 TATATATCTTTATATCTTAG
1 TATATATCTTTATATCTTAG
*
55228051 TATATA--TTTATATCTTAT
1 TATATATCTTTATATCTTAG
*
55228069 TATATATCTATATATCTT
1 TATATATCTTTATATCTT
55228087 TTTATAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (20 bp):
TATATATCTTTATATCTTAG
Found at i:55228091 original size:20 final size:19
Alignment explanation
Indices: 55228031--55228092 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
55228021 ATACTATTTA
*
55228031 TATATATCTTTATATCTTAG
1 TATATATC-TTATATCTTAT
55228051 TATATAT-TTATATCTTAT
1 TATATATCTTATATCTTAT
*
55228069 TATATATCTATATATCTTTT
1 TATATATCT-TATATCTTAT
55228089 TATA
1 TATA
55228093 AACATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.45
19 1 0.03
20 20 0.53
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATCTTATATCTTAT
Found at i:55228273 original size:30 final size:30
Alignment explanation
Indices: 55228216--55228271 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
55228206 TTTTATATAT
* *
55228216 ATATATATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
55228246 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
55228272 TATGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:55230229 original size:19 final size:20
Alignment explanation
Indices: 55230189--55230232 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
55230179 GTCTCTTTAG
* *
55230189 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
55230208 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
55230227 GCATTA
1 GCATTA
55230233 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:55235216 original size:43 final size:43
Alignment explanation
Indices: 55235080--55235216 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
55235070 GATAGCAGAT
* *
55235080 CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACGAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATGAAGC
* * * * * * *
55235123 CTTGCC-TCCAT-CGGTT-GCAGCGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGATCGAAA-AT-GAAG-C
*
55235167 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATGAAGC
55235210 CTTGCCT
1 CTTGCCT
55235217 CCATCGGTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
41 3 0.04
42 14 0.21
43 20 0.29
44 12 0.18
45 16 0.24
46 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATGAAGC
Found at i:55235601 original size:87 final size:87
Alignment explanation
Indices: 55234935--55235582 Score: 1019
Period size: 87 Copynumber: 7.4 Consensus size: 87
55234925 ATCAGTGAAT
* * *
55234935 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGTAAATTTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
55235000 TCCTGCATTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* *
55235022 ATCGAAAACGAAGCCTTACCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
55235087 TCCTGCGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* *
55235109 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGCAGCGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
55235174 TCCTGCATTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
*
55235196 ATCGAAAATGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
55235261 TCCTGCGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * * *
55235283 ATCAAAAACGAAGCCTTACCTCCATCGGTTGCAGCGGAGTTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
**
55235348 TCCTGAATTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
*
55235370 ATCGAAAATGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
55235435 TCCTACGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * * *
55235457 ATCAAAAACGAAGCCTTACCTCCATCGGTTGCAGCGGAGTTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
55235522 TCCTGCGTTAACAGCGAAACAG
66 TCCTGCGTTAACAGCGAAGCAG
*
55235544 ATCGAAAAC-AAGGCCTTGCCTTCATCGGTTGTAGTGGAG
1 ATCGAAAACGAA-GCCTTGCCTCCATCGGTTGTAGTGGAG
55235583 TAGGTGGAAG
Statistics
Matches: 509, Mismatches: 51, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
86 2 0.00
87 507 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
TCCTGCGTTAACAGCGAAGCAG
Found at i:55237215 original size:18 final size:18
Alignment explanation
Indices: 55237183--55237247 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
55237173 TTATAACTAT
*
55237183 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
55237202 TTATTATATATTTATATC
1 TTATTATATATTTATATC
55237220 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
55237240 TTTTTATA
1 TTATTATA
55237248 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:55237428 original size:30 final size:30
Alignment explanation
Indices: 55237371--55237426 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
55237361 TTTTATATAT
* *
55237371 ATATATATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
55237401 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
55237427 TATGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:55245409 original size:23 final size:25
Alignment explanation
Indices: 55245379--55245429 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
55245369 AGAATTTTTT
*
55245379 TTATATTA-TAAA-GTTAAAAAAAA
1 TTATATTACTAAATCTTAAAAAAAA
55245402 TTATATTATCTAAATCTTAAAAAAAA
1 TTATATTA-CTAAATCTTAAAAAAAA
55245428 TT
1 TT
55245430 CTGAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
25 4 0.17
26 12 0.50
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
TTATATTACTAAATCTTAAAAAAAA
Found at i:55249326 original size:33 final size:31
Alignment explanation
Indices: 55249266--55249333 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 31
55249256 GGATAAATTT
*
55249266 TTAA-AAAATTAATAATTTATATGTAATAAA
1 TTAATAAAATAAATAATTTATATGTAATAAA
* *
55249296 TTAATAAAATAAATAATTTAAATATTTAATACA
1 TTAATAAAATAAATAATTT--ATATGTAATAAA
55249329 TTAAT
1 TTAAT
55249334 GGTAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.12
31 13 0.41
33 15 0.47
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
TTAATAAAATAAATAATTTATATGTAATAAA
Found at i:55262597 original size:48 final size:48
Alignment explanation
Indices: 55262526--55262619 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
55262516 CAGAGGATAG
55262526 CTGAGATTCCTTCTCCGACTAACGAC-TCTTCAAGGACAGCATATGGAA
1 CTGAGATTCCTTCTCCGACTAACG-CTTCTTCAAGGACAGCATATGGAA
*
55262574 CTGAGATTCCTTCTCCGGCTAACGCTTCTTCAAGGACAGCATATGG
1 CTGAGATTCCTTCTCCGACTAACGCTTCTTCAAGGACAGCATATGG
55262620 TTTCAGCTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
CTGAGATTCCTTCTCCGACTAACGCTTCTTCAAGGACAGCATATGGAA
Found at i:55263435 original size:24 final size:24
Alignment explanation
Indices: 55263388--55263435 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55263378 GATGACTGTG
* *
55263388 ATTAAACCTTAACTGCCAACTACA
1 ATTAAACATTAACAGCCAACTACA
55263412 ATTAAACATTAACCAGCCAA-TACA
1 ATTAAACATTAA-CAGCCAACTACA
55263436 TGGACCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (24 bp):
ATTAAACATTAACAGCCAACTACA
Found at i:55267243 original size:25 final size:25
Alignment explanation
Indices: 55267209--55267258 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
55267199 TGGCTGGTGG
*
55267209 TGCAGCATGCTGGCTC-ACTTCATCA
1 TGCAGCATGCTAGC-CAACTTCATCA
55267234 TGCAGCATGCTAGCCAACTTCATCA
1 TGCAGCATGCTAGCCAACTTCATCA
55267259 CTCCTCCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (25 bp):
TGCAGCATGCTAGCCAACTTCATCA
Found at i:55269311 original size:13 final size:13
Alignment explanation
Indices: 55269293--55269317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55269283 AAATTTATAT
55269293 GTGTGAAAATTTC
1 GTGTGAAAATTTC
55269306 GTGTGAAAATTT
1 GTGTGAAAATTT
55269318 TATCGTTGGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:55271250 original size:41 final size:41
Alignment explanation
Indices: 55271099--55271241 Score: 205
Period size: 41 Copynumber: 3.5 Consensus size: 41
55271089 GTGAAATTGT
* * * *
55271099 TCAGGCTATATGTCTAGCAGGCTAAGTGCCGGTGAACCGAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAA
*
55271140 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAA
55271181 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAA
* * * *
55271222 TTAGACTTTAAACCTAGCAG
1 TCAGGCTATAAGCCTAGCAG
55271242 ATGAAGTGCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (41 bp):
TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAA
Found at i:55271256 original size:41 final size:41
Alignment explanation
Indices: 55271112--55271257 Score: 159
Period size: 41 Copynumber: 3.6 Consensus size: 41
55271102 GGCTATATGT
* * * * *
55271112 CTAGCAGGCTAAGTGCCGGTGAACCGAATCAGGCTATAAGC
1 CTAGCAGGATAAGTGCCAGTGAACTGAATCAGACTATAAAC
* * * *
55271153 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGATAAGTGCCAGTGAACTGAATCAGACTATAAAC
* * *
55271194 CTAGCAGGCTAAGTGCCAGTGAACTGAATTAGACTTTAAAC
1 CTAGCAGGATAAGTGCCAGTGAACTGAATCAGACTATAAAC
*
55271235 CTAGCA-GATGAAGTGCTAGTGAA
1 CTAGCAGGAT-AAGTGCCAGTGAA
55271258 TCTGTTTAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 94 0.98
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (41 bp):
CTAGCAGGATAAGTGCCAGTGAACTGAATCAGACTATAAAC
Found at i:55271257 original size:82 final size:82
Alignment explanation
Indices: 55271099--55271257 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 82
55271089 GTGAAATTGT
* * * * * *
55271099 TCAGGCTATATGTCTAGCAGGCTAAGTGCCGGTGAACCGAATCAGGCTATAAGCCTAGCAGGCTA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACCGAATCAGACTATAAACCTAGCAGGATA
*
55271164 AGTGCCGGTGAACTGAA
66 AGTGCCAGTGAACTGAA
* * *
55271181 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACTGAATTAGACTTTAAACCTAGCA-GATG
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACCGAATCAGACTATAAACCTAGCAGGAT-
*
55271245 AAGTGCTAGTGAA
65 AAGTGCCAGTGAA
55271258 TCTGTTTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 2 0.03
82 63 0.97
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (82 bp):
TCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAACCGAATCAGACTATAAACCTAGCAGGATA
AGTGCCAGTGAACTGAA
Found at i:55274612 original size:25 final size:25
Alignment explanation
Indices: 55274578--55274627 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
55274568 TGGCTGGTGG
* **
55274578 TGCAGCATGCTGGCTCACTTCATCA
1 TGCAGCATGCTAGCGAACTTCATCA
55274603 TGCAGCATGCTAGCGAACTTCATCA
1 TGCAGCATGCTAGCGAACTTCATCA
55274628 GGATCCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (25 bp):
TGCAGCATGCTAGCGAACTTCATCA
Found at i:55276515 original size:22 final size:22
Alignment explanation
Indices: 55276463--55276515 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
55276453 CTTTATCTGT
**
55276463 GGTTTTTTATCCTCTTCGGAGA
1 GGTTTTTCCTCCTCTTCGGAGA
55276485 GGTTTTTCCTCCTCTTCGGAGA
1 GGTTTTTCCTCCTCTTCGGAGA
55276507 GGTTTTTCC
1 GGTTTTTCC
55276516 ATGTAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (22 bp):
GGTTTTTCCTCCTCTTCGGAGA
Found at i:55278535 original size:11 final size:11
Alignment explanation
Indices: 55278521--55278565 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
55278511 AGATAAATAT
55278521 TATTTTATTAA
1 TATTTTATTAA
*
55278532 TATTTTCTTGAGA
1 TATTTTATT-A-A
*
55278545 TATTTTACTAA
1 TATTTTATTAA
55278556 TATTTTATTA
1 TATTTTATTA
55278566 TAAATAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:55280325 original size:26 final size:26
Alignment explanation
Indices: 55280140--55280327 Score: 135
Period size: 26 Copynumber: 7.5 Consensus size: 26
55280130 CCGGAGCTCT
* **
55280140 TGATTAAAGGCTCTTCATGAGCTTCC
1 TGATTAATGGCTCTTTGTGAGCTTCC
** * *
55280166 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAATGGCTCTTTGTGAGCTTCC
* *
55280192 TAATT-ATGGCTCTTT-TAAGCTTCC
1 TGATTAATGGCTCTTTGTGAGCTTCC
* ** * *
55280216 TG-TTATATAGC-C-CAGATAAGCTTCT
1 TGATTA-ATGGCTCTTTG-TGAGCTTCC
55280241 TGA-T-A-GGCTCTTTGTGAGCTT-C
1 TGATTAATGGCTCTTTGTGAGCTTCC
55280263 TCGATTAATGGCTCTTTGTGAGCTTCC
1 T-GATTAATGGCTCTTTGTGAGCTTCC
*
55280290 CGATTAATGGCTCTTTGTGAGCTTCC
1 TGATTAATGGCTCTTTGTGAGCTTCC
55280316 TG-TTATATGGCT
1 TGATTA-ATGGCT
55280328 TGAGAAATGA
Statistics
Matches: 126, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
22 3 0.02
23 12 0.10
24 11 0.09
25 26 0.21
26 73 0.58
27 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
TGATTAATGGCTCTTTGTGAGCTTCC
Found at i:55288462 original size:13 final size:15
Alignment explanation
Indices: 55288433--55288461 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55288423 TTTAGTAGTC
55288433 ATATAATTTAAAAAA
1 ATATAATTTAAAAAA
55288448 ATATAA-TTAAAAAA
1 ATATAATTTAAAAAA
55288462 TTATCAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAATTTAAAAAA
Found at i:55288535 original size:31 final size:31
Alignment explanation
Indices: 55288500--55288562 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
55288490 TACTGGAAAC
55288500 ACAAATATAAGAATTGAATTCTTAATTATCG
1 ACAAATATAAGAATTGAATTCTTAATTATCG
*
55288531 ACAAATATAAGGATTGAATTCTTAATTATCG
1 ACAAATATAAGAATTGAATTCTTAATTATCG
55288562 A
1 A
55288563 AAAGTGTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (31 bp):
ACAAATATAAGAATTGAATTCTTAATTATCG
Found at i:55306441 original size:132 final size:132
Alignment explanation
Indices: 55306204--55306467 Score: 501
Period size: 132 Copynumber: 2.0 Consensus size: 132
55306194 GAGTTGACGG
*
55306204 AATTTTAGCAAATAAACACTGGATTCTGCGTATTGTGGATTATTCTCAACATACCTACAAGGGAA
1 AATTTTAGCAAATAAACACTGGATTCTGCATATTGTGGATTATTCTCAACATACCTACAAGGGAA
* *
55306269 ATTTTTTATTAAAATATTTTGATGATATGTGCTCATATGGACAGTTATTACACGATTGTCAAACA
66 AATTTTGATTAAAATATTTTGATGATATGTGCTCATATGGACAGTTATTACACGATTGTCAAACA
55306334 GT
131 GT
55306336 AATTTTAGCAAATAAACACTGGATTCTGCATATTGTGGATTATTCTCAACATACCTACAAGGGAA
1 AATTTTAGCAAATAAACACTGGATTCTGCATATTGTGGATTATTCTCAACATACCTACAAGGGAA
55306401 AATTTTGATTAAAATATTTTGATGATATGTGCTCATATGGACAGTTATTACACGATTGTCAAACA
66 AATTTTGATTAAAATATTTTGATGATATGTGCTCATATGGACAGTTATTACACGATTGTCAAACA
55306466 GT
131 GT
55306468 TTGCACATGC
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 129 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (132 bp):
AATTTTAGCAAATAAACACTGGATTCTGCATATTGTGGATTATTCTCAACATACCTACAAGGGAA
AATTTTGATTAAAATATTTTGATGATATGTGCTCATATGGACAGTTATTACACGATTGTCAAACA
GT
Found at i:55311386 original size:31 final size:31
Alignment explanation
Indices: 55311348--55311418 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
55311338 TTGAAGGAGG
55311348 AAAATAAAAATAGAAATTGAGATTAAAAATA
1 AAAATAAAAATAGAAATTGAGATTAAAAATA
55311379 AAAATAAAAATAGAAATTGAGATTAAAAATA
1 AAAATAAAAATAGAAATTGAGATTAAAAATA
55311410 AAAATAAAA
1 AAAATAAAA
55311419 TTCGTACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.21
Consensus pattern (31 bp):
AAAATAAAAATAGAAATTGAGATTAAAAATA
Found at i:55311419 original size:5 final size:6
Alignment explanation
Indices: 55311348--55311418 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
55311338 TTGAAGGAGG
* * * * * *
55311348 AAAATA AAAATA GAAATTG AGATTA AAAATA AAAATA AAAATA GAAATTG
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA
* *
55311398 AGATTA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
55311419 TTCGTACCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 43 0.84
7 8 0.16
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:55313493 original size:19 final size:18
Alignment explanation
Indices: 55313453--55313493 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
55313443 AAATCTCTAA
55313453 AATAATAACAAAATTAAC
1 AATAATAACAAAATTAAC
55313471 AATAA-AACAAAAGTTATAC
1 AATAATAACAAAA-TTA-AC
55313490 AATA
1 AATA
55313494 CCAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAATAACAAAATTAAC
Done.