Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 14 of 93
Found at i:6719073 original size:18 final size:17
Alignment explanation
Indices: 6719039--6719077 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6719029 GAATAAAGTA
6719039 AGAAAAGAACTAAAGAG
1 AGAAAAGAACTAAAGAG
* *
6719056 TAGAAAAGAATTAGAGAG
1 -AGAAAAGAACTAAAGAG
6719074 AGAA
1 AGAA
6719078 GCTCTCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.62, C:0.03, G:0.26, T:0.10
Consensus pattern (17 bp):
AGAAAAGAACTAAAGAG
Found at i:6719670 original size:35 final size:35
Alignment explanation
Indices: 6719611--6719699 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
6719601 GTTCTGCTTT
* ** * * *
6719611 AAGTAGTACTTCACTCATTTTAGTTGTTTTGAGCG
1 AAGTAGCACTTCACTTGTTCTAGTTATTCTGAGCG
* * * *
6719646 AAGTGGCGCTTCACTTGTTCTAGTTATTCTGCGTG
1 AAGTAGCACTTCACTTGTTCTAGTTATTCTGAGCG
6719681 AAGTAGCACTTCACTTGTT
1 AAGTAGCACTTCACTTGTT
6719700 TTGATTGTTC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (35 bp):
AAGTAGCACTTCACTTGTTCTAGTTATTCTGAGCG
Found at i:6721831 original size:29 final size:29
Alignment explanation
Indices: 6721787--6721843 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
6721777 TGTTGTAAGG
*
6721787 TGTTAAAGACTGATATATATAGTTATGGT
1 TGTTAAAGACTAATATATATAGTTATGGT
*
6721816 TGTTAAAGACTAATATATATTGTTATGG
1 TGTTAAAGACTAATATATATAGTTATGG
6721844 CTTATGTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (29 bp):
TGTTAAAGACTAATATATATAGTTATGGT
Found at i:6721867 original size:16 final size:16
Alignment explanation
Indices: 6721846--6721876 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6721836 TGTTATGGCT
6721846 TATGTAGGTTTAGGGC
1 TATGTAGGTTTAGGGC
6721862 TATGTAGGTTTAGGG
1 TATGTAGGTTTAGGG
6721877 TTGTTGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.39, T:0.39
Consensus pattern (16 bp):
TATGTAGGTTTAGGGC
Found at i:6724901 original size:24 final size:24
Alignment explanation
Indices: 6724873--6724921 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6724863 AAGCATTTAT
6724873 ATGAATATGTTTTGAAATAAAGCC
1 ATGAATATGTTTTGAAATAAAGCC
*
6724897 ATGAATATGTTTTGATATAAAGCC
1 ATGAATATGTTTTGAAATAAAGCC
6724921 A
1 A
6724922 ACAAAAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (24 bp):
ATGAATATGTTTTGAAATAAAGCC
Found at i:6725412 original size:24 final size:24
Alignment explanation
Indices: 6725380--6725428 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6725370 AAGCATTCAT
*
6725380 ATGAATATGTTTTGATATAAAGCC
1 ATGAATATGCTTTGATATAAAGCC
6725404 ATGAATATGCTTTGATATAAAGCC
1 ATGAATATGCTTTGATATAAAGCC
6725428 A
1 A
6725429 AAGAAAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (24 bp):
ATGAATATGCTTTGATATAAAGCC
Found at i:6726447 original size:124 final size:124
Alignment explanation
Indices: 6726309--6726543 Score: 346
Period size: 124 Copynumber: 1.9 Consensus size: 124
6726299 ACAAAAAACG
* *
6726309 CTGAAACCCAAAGATTGAAAAGGTATTTTGTAATGATCCTTAGA-GAACTCATAAACCTACTAGA
1 CTGAAACCCAAAGATTGAAAAGGTATTTTATAATGACCCTTAGATG-ACTCATAAACCTACTAGA
* ** * *
6726373 ATCATGATTACTAACAGTAAGCAAACTAGTAAACAAGTAAATAACCAAAAAAAAAACATA
65 ATAACAATTACTAACAGTAAACAAACTAGTAAACAAGTAAAAAACCAAAAAAAAAACATA
* *
6726433 CTGAATCCCAAAGATTGAAAAGGTATTTTATAATGACCCTTGGATGACTCATAAACCTACTAGAA
1 CTGAAACCCAAAGATTGAAAAGGTATTTTATAATGACCCTTAGATGACTCATAAACCTACTAGAA
* * *
6726498 TAACAATTCCTAGCAGTAAACTAACTAGTAAACAAGTAAAAAACCA
66 TAACAATTACTAACAGTAAACAAACTAGTAAACAAGTAAAAAACCA
6726544 GCATTGACTG
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
124 97 0.99
125 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.23
Consensus pattern (124 bp):
CTGAAACCCAAAGATTGAAAAGGTATTTTATAATGACCCTTAGATGACTCATAAACCTACTAGAA
TAACAATTACTAACAGTAAACAAACTAGTAAACAAGTAAAAAACCAAAAAAAAAACATA
Found at i:6727240 original size:20 final size:19
Alignment explanation
Indices: 6727199--6727241 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
6727189 ATTTGATTTT
*
6727199 GCTTTATTTATTTAGATGG
1 GCTTTATTTATTTAGATAG
* *
6727218 GCTTTATTTTGTTTATATAG
1 GCTTTA-TTTATTTAGATAG
6727238 GCTT
1 GCTT
6727242 AAATTTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (19 bp):
GCTTTATTTATTTAGATAG
Found at i:6734589 original size:20 final size:20
Alignment explanation
Indices: 6734564--6734605 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6734554 CGCCGGATCT
6734564 GGCGCTCC-TCGGTCAAATCC
1 GGCGCTCCAT-GGTCAAATCC
6734584 GGCGCTCCATGGTCAAATCC
1 GGCGCTCCATGGTCAAATCC
6734604 GG
1 GG
6734606 GAGTGGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (20 bp):
GGCGCTCCATGGTCAAATCC
Found at i:6734839 original size:20 final size:23
Alignment explanation
Indices: 6734804--6734845 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
6734794 TTTAATTCTA
6734804 AATTATAAAAAGTTAAT-ATTTC
1 AATTATAAAAAGTTAATGATTTC
6734826 AATT-TAAAAA-TTAATGATTT
1 AATTATAAAAAGTTAATGATTT
6734846 GGTTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
AATTATAAAAAGTTAATGATTTC
Found at i:6735230 original size:28 final size:27
Alignment explanation
Indices: 6735109--6735244 Score: 103
Period size: 27 Copynumber: 5.0 Consensus size: 27
6735099 GCCATAAAAA
* * * *
6735109 ATTACATTGAAAATATAATTATTATAC
1 ATTATATTAAAAATTTAATTATTACAC
* * *
6735136 ATCATATTAAAAATTAAATAATTACAC
1 ATTATATTAAAAATTTAATTATTACAC
* * ** * *
6735163 ACTATCTTAAAAAACGTAA-TAGTTATAT
1 ATTATATT-AAAAATTTAATTA-TTACAC
*
6735191 ATTATATTAAAAATTTAATTGTTACAC
1 ATTATATTAAAAATTTAATTATTACAC
*
6735218 ATTATATTGAAAAATTTAGTTATTACA
1 ATTATATT-AAAAATTTAATTATTACA
6735245 TGTCATGTTA
Statistics
Matches: 80, Mismatches: 25, Indels: 7
0.71 0.22 0.06
Matches are distributed among these distances:
27 46 0.57
28 34 0.43
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
ATTATATTAAAAATTTAATTATTACAC
Found at i:6735278 original size:28 final size:27
Alignment explanation
Indices: 6735199--6735282 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
6735189 ATATTATATT
* * *
6735199 AAAAATTTAATTGTTACACATTATATTG
1 AAAAATTTAGTTGTTACACATCAT-TTA
* **
6735227 AAAAATTTAGTTATTACATGTCATGTTA
1 AAAAATTTAGTTGTTACACATCAT-TTA
*
6735255 AAAAATATAGTTGTTACACATCATTTA
1 AAAAATTTAGTTGTTACACATCATTTA
6735282 A
1 A
6735283 TTGTTGCATA
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 4 0.09
28 41 0.91
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (27 bp):
AAAAATTTAGTTGTTACACATCATTTA
Found at i:6735688 original size:15 final size:15
Alignment explanation
Indices: 6735656--6735684 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6735646 TAAAAAATAT
6735656 TATTAAAAATATTAA
1 TATTAAAAATATTAA
6735671 TATT-AAAATATTAA
1 TATTAAAAATATTAA
6735685 ATATATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTAAAAATATTAA
Found at i:6740505 original size:43 final size:42
Alignment explanation
Indices: 6740433--6740516 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 42
6740423 ACCAAATCCA
*
6740433 TCCACAAAGAAGGAAATTAATGGCACTAGCTGTAAGTTGACG
1 TCCACAAAGAAGGAAATTAATGGCACTAGCTATAAGTTGACG
6740475 TCCACAAAGAAGGAATATTAATGGCACTAGCTATAAGTTGAC
1 TCCACAAAGAAGGAA-ATTAATGGCACTAGCTATAAGTTGAC
6740517 ATCGGTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 15 0.38
43 25 0.62
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (42 bp):
TCCACAAAGAAGGAAATTAATGGCACTAGCTATAAGTTGACG
Found at i:6742825 original size:14 final size:14
Alignment explanation
Indices: 6742806--6742832 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6742796 AAACATCCAA
6742806 CACATATTTATAGC
1 CACATATTTATAGC
6742820 CACATATTTATAG
1 CACATATTTATAG
6742833 TAAGCATAAG
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:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (14 bp):
CACATATTTATAGC
Found at i:6743032 original size:24 final size:24
Alignment explanation
Indices: 6742975--6743024 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6742965 ACATCGTAAT
*
6742975 GACATGGGCAGTCTTCACGATGAC
1 GACATGGGCAGTCTTCACGACGAC
*
6742999 GACATGGGCAGTCTTCATGACGAC
1 GACATGGGCAGTCTTCACGACGAC
6743023 GA
1 GA
6743025 TGTGGGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (24 bp):
GACATGGGCAGTCTTCACGACGAC
Found at i:6744065 original size:121 final size:121
Alignment explanation
Indices: 6743851--6744075 Score: 432
Period size: 121 Copynumber: 1.9 Consensus size: 121
6743841 AAAGCTCTTA
*
6743851 TTAATTTGAATTTAAATTTTCTATCAAAATATAAGAAGATTGATCCTAATAATTAGATATTACTA
1 TTAATTTGAATTTAAATTTTCAATCAAAATATAAGAAGATTGATCCTAATAATTAGATATTACTA
6743916 ATTAAGGTAAGTTACCACTTAATATAAGTGTCACAGGTTGGAACCTAAGCCCAACT
66 ATTAAGGTAAGTTACCACTTAATATAAGTGTCACAGGTTGGAACCTAAGCCCAACT
6743972 TTAATTTGAATTTAAATTTTCAATCAAAATATAAGAAGATTGATCCTAATAATTAGATATTACTA
1 TTAATTTGAATTTAAATTTTCAATCAAAATATAAGAAGATTGATCCTAATAATTAGATATTACTA
*
6744037 ATTAAGGTAAGTTACCACTTAGTATAAGTGTCACAGGTT
66 ATTAAGGTAAGTTACCACTTAATATAAGTGTCACAGGTT
6744076 CCACCTAAGT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 102 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (121 bp):
TTAATTTGAATTTAAATTTTCAATCAAAATATAAGAAGATTGATCCTAATAATTAGATATTACTA
ATTAAGGTAAGTTACCACTTAATATAAGTGTCACAGGTTGGAACCTAAGCCCAACT
Found at i:6744094 original size:18 final size:18
Alignment explanation
Indices: 6744071--6744107 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6744061 TAAGTGTCAC
6744071 AGGTTCCACCTAAGTCCA
1 AGGTTCCACCTAAGTCCA
6744089 AGGTTCCACCTAAGTCCA
1 AGGTTCCACCTAAGTCCA
6744107 A
1 A
6744108 CTTCTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (18 bp):
AGGTTCCACCTAAGTCCA
Found at i:6746908 original size:20 final size:21
Alignment explanation
Indices: 6746872--6746914 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6746862 AATTTTTACT
*
6746872 TTTTATATAATTTTTATAGAG
1 TTTTATATAAATTTTATAGAG
*
6746893 TTTTAT-TAAATTTTATATAG
1 TTTTATATAAATTTTATAGAG
6746913 TT
1 TT
6746915 AATAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATATAAATTTTATAGAG
Found at i:6747311 original size:13 final size:13
Alignment explanation
Indices: 6747293--6747317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6747283 TTTTCAAAAT
6747293 ATAAAAAATTATC
1 ATAAAAAATTATC
6747306 ATAAAAAATTAT
1 ATAAAAAATTAT
6747318 AATTAGTTTC
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAAAATTATC
Found at i:6747410 original size:14 final size:15
Alignment explanation
Indices: 6747377--6747413 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
6747367 TACTCTTTAA
6747377 TTTAATATTAAAACT
1 TTTAATATTAAAACT
6747392 TTTAAT-TTATAAA-T
1 TTTAATATTA-AAACT
6747406 TTTAATAT
1 TTTAATAT
6747414 ATTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAATATTAAAACT
Found at i:6747426 original size:18 final size:19
Alignment explanation
Indices: 6747404--6747451 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6747394 TAATTTATAA
6747404 ATTTTAATATATT-TATATTT
1 ATTTTAAT-TATTAT-TATTT
6747424 -TTTTAATTATTATTA-TT
1 ATTTTAATTATTATTATTT
6747441 ATTTTAATTAT
1 ATTTTAATTAT
6747452 AACACTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 16 0.62
19 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTATTATTATTT
Found at i:6753397 original size:37 final size:38
Alignment explanation
Indices: 6753297--6753409 Score: 144
Period size: 37 Copynumber: 3.0 Consensus size: 38
6753287 CCCGCCAGCT
* *
6753297 CTCTCTCTCCCTTCTCTCTATTCAC-CCTGACGTCG-C-T
1 CTCTCTCTCCC-TCTCTCTATACACTCC-GACGTCGCCGG
*
6753334 CTCTCTCTCTCTCTCTCTATACACTCCGACGTCGCCGG
1 CTCTCTCTCCCTCTCTCTATACACTCCGACGTCGCCGG
*
6753372 CTCTCTCTCCCT-TCTCTATCCACTCCGACGTCGCCGG
1 CTCTCTCTCCCTCTCTCTATACACTCCGACGTCGCCGG
6753409 C
1 C
6753410 GTCGCACCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
36 19 0.28
37 38 0.56
38 11 0.16
ACGTcount: A:0.09, C:0.47, G:0.12, T:0.33
Consensus pattern (38 bp):
CTCTCTCTCCCTCTCTCTATACACTCCGACGTCGCCGG
Found at i:6760781 original size:11 final size:11
Alignment explanation
Indices: 6760767--6760832 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
6760757 ATTTTTTAAA
6760767 TATTAATAATT
1 TATTAATAATT
*
6760778 TATTTATAATT
1 TATTAATAATT
*
6760789 TAATAATTAATAT
1 TATTAA-TAAT-T
6760802 TA-TAA-AA--
1 TATTAATAATT
*
6760809 TATTAATATTT
1 TATTAATAATT
*
6760820 TATTTATAATT
1 TATTAATAATT
6760831 TA
1 TA
6760833 AATGTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
7 2 0.05
8 3 0.07
9 1 0.02
10 2 0.05
11 25 0.58
12 7 0.16
13 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATAATT
Found at i:6760828 original size:22 final size:22
Alignment explanation
Indices: 6760754--6760828 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
6760744 TTAATTTAAT
* *
6760754 TTTATTTTTTAAATATTAATAA
1 TTTATTTATAAAATATTAATAA
6760776 TTTATTTAT--AAT-TTAATAA
1 TTTATTTATAAAATATTAATAA
* *
6760795 TTAATATTATAAAATATTAATAT
1 TTTAT-TTATAAAATATTAATAA
6760818 TTTATTTATAA
1 TTTATTTATAA
6760829 TTTAAATGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.24
20 7 0.16
22 17 0.38
23 10 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATTTATAAAATATTAATAA
Found at i:6761021 original size:22 final size:22
Alignment explanation
Indices: 6760990--6761065 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
6760980 TTTATTTTAT
*
6760990 TTTATTTTTTAAATATTAATAA
1 TTTATATTTTAAATATTAATAA
6761012 TTTATATTTTATTTATAATATTAATAA
1 TTTATA---T-TTTA-AATATTAATAA
* *
6761039 TATATCA-TTTAAATATTAATAT
1 TTTAT-ATTTTAAATATTAATAA
6761061 TTTAT
1 TTTAT
6761066 TTANCACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 19 0.43
23 4 0.09
25 1 0.02
26 4 0.09
27 15 0.34
28 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATATTTTAAATATTAATAA
Found at i:6761031 original size:27 final size:29
Alignment explanation
Indices: 6760983--6761048 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
6760973 ATGATTATTT
*
6760983 ATTT-TATTTTATTTTTTAAATATTAATA
1 ATTTATATTTTATTTTATAAATATTAATA
6761011 ATTTATATTTTA-TTTAT-AATATTAATA
1 ATTTATATTTTATTTTATAAATATTAATA
*
6761038 ATATATCATTT
1 ATTTAT-ATTT
6761049 AAATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 15 0.44
28 12 0.35
29 7 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTATATTTTATTTTATAAATATTAATA
Found at i:6761032 original size:125 final size:119
Alignment explanation
Indices: 6760735--6761068 Score: 357
Period size: 125 Copynumber: 2.8 Consensus size: 119
6760725 TTATTATATA
* * *
6760735 TATGATTATTTAATTTAATTTTATTTTTTAAATATTAATAATTTAT-TTATAATT-TAATAATT-
1 TATGATTATTT-ATTTTATTTTATTTTTTAAATATTAATAATTTATATTTTATTTATAAT-ATTA
*
6760797 AATATTATA---AAATATTAATATTTTATTTATAATTTAAATGTTATTATGATTAT
64 AAAATTATATTTAAATATTAATATTTTATTTATAATTTAAATGTTATTATGATTAT
** * * * *
6760850 T-T-ATT-TTTAAATTATTTTATTTTTTAAACATTAATAATGTATAATTTATTTAAAATATTAAA
1 TATGATTATTTATTTTATTTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAAA
* * *
6760912 AATTGATAGTTTAAATAGTAATATTTTATTTATACTTTACTCAT-TAATATTAAATG-TTAT
66 AATT-ATA-TTTAAATATTAATATTTTATTTATAATTTA--AATGT--TATT--ATGATTAT
*
6760972 TATGATTATTTATTTTATTTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAAT
1 TATGATTATTTATTTTATTTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAAA
6761037 AATATATCATTTAAATATTAATATTTTATTTA
66 AAT-TAT-ATTTAAATATTAATATTTTATTTA
6761069 NCACAATGAT
Statistics
Matches: 179, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
111 29 0.16
112 11 0.06
113 11 0.06
114 4 0.02
115 1 0.01
118 25 0.14
119 1 0.01
120 2 0.01
121 4 0.02
122 5 0.03
123 4 0.02
124 3 0.02
125 77 0.43
126 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (119 bp):
TATGATTATTTATTTTATTTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAAA
AATTATATTTAAATATTAATATTTTATTTATAATTTAAATGTTATTATGATTAT
Found at i:6764201 original size:20 final size:22
Alignment explanation
Indices: 6764165--6764216 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6764155 GGGCATAGGA
*
6764165 AAAAAGAGA-AAAAAAAAAGAT
1 AAAAAGAGAGAAAAAAATAGAT
*
6764186 AGAAAGAGAGAAAAAAATAGAT
1 AAAAAGAGAGAAAAAAATAGAT
6764208 AAAAAGAGA
1 AAAAAGAGA
6764217 TCCGTGTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (22 bp):
AAAAAGAGAGAAAAAAATAGAT
Found at i:6788015 original size:30 final size:30
Alignment explanation
Indices: 6787980--6788042 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6787970 TACTTTTAAT
*
6787980 TAAATTCTTATATTTTTATTTTGAGTCAAA
1 TAAATTCTTATATTTTTATTTTAAGTCAAA
*
6788010 TAAATTTTTATATTTTTATTTTAAGTCAAA
1 TAAATTCTTATATTTTTATTTTAAGTCAAA
6788040 TAA
1 TAA
6788043 GTACTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (30 bp):
TAAATTCTTATATTTTTATTTTAAGTCAAA
Found at i:6791780 original size:74 final size:74
Alignment explanation
Indices: 6791699--6791840 Score: 239
Period size: 74 Copynumber: 1.9 Consensus size: 74
6791689 AAACCTATAC
*
6791699 TTATAAATATGTATTCATTAAATAACAATTATTGAAATATTTTTTATTATAATTATTAATAAGAT
1 TTATAAATATGTATTCATCAAATAACAATTATTGAAATATTTTTTATTATAATTATTAATAAGAT
6791764 TTAAACCTA
66 TTAAACCTA
* * **
6791773 TTATAAATGTGTATTCATCAAATGATGATTATTGAAATATTTTTTATTATAATTATTAATAAGAT
1 TTATAAATATGTATTCATCAAATAACAATTATTGAAATATTTTTTATTATAATTATTAATAAGAT
6791838 TTA
66 TTA
6791841 TTCNNNNNNN
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (74 bp):
TTATAAATATGTATTCATCAAATAACAATTATTGAAATATTTTTTATTATAATTATTAATAAGAT
TTAAACCTA
Found at i:6792828 original size:2 final size:2
Alignment explanation
Indices: 6792821--6792851 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6792811 NNNNNNNNNN
6792821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6792852 GTTTTTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6796361 original size:122 final size:122
Alignment explanation
Indices: 6796147--6796386 Score: 345
Period size: 122 Copynumber: 2.0 Consensus size: 122
6796137 TATAAAAGGA
* * * *
6796147 AGTCTTGTTGGAGTTTTCAAATAGAGTCACATGGGTACATGTGCAAAGAAGTGCTGCAGGACAAA
1 AGTCTTGATGGAGTTTCCAAATAGAGTCACATGGGTACATATGCAAAGAAGTGCTGCAAGACAAA
* * **
6796212 AGAAGTAGTCAAGTTTTTTACACGAATTTAACATAAATCTTGAACTGTAAAAAAGAG
66 AGAAGTAGCCAAATTTTCAACACGAATTTAACATAAATCTTGAACTGTAAAAAAGAG
* **
6796269 AGTCTTGATGGAGTTTCCAAATAGAGTCACATGGGTACATATGCAAAGGAGTGCTGCAAGTTAAA
1 AGTCTTGATGGAGTTTCCAAATAGAGTCACATGGGTACATATGCAAAGAAGTGCTGCAAGACAAA
* * * *
6796334 AGAAGTGGCCAAATTTTCAACATGAATTTAATATAAATCTTGAATTGTAAAAA
66 AGAAGTAGCCAAATTTTCAACACGAATTTAACATAAATCTTGAACTGTAAAAA
6796387 TTAAAAAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
122 103 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (122 bp):
AGTCTTGATGGAGTTTCCAAATAGAGTCACATGGGTACATATGCAAAGAAGTGCTGCAAGACAAA
AGAAGTAGCCAAATTTTCAACACGAATTTAACATAAATCTTGAACTGTAAAAAAGAG
Found at i:6798192 original size:73 final size:73
Alignment explanation
Indices: 6798073--6798209 Score: 229
Period size: 73 Copynumber: 1.9 Consensus size: 73
6798063 TATCCACCAT
*
6798073 ATTAAATGTCTTGAAAATTCCCATTATGTCTGACAGATCCATAACATATGTATTGTCATTAATCA
1 ATTAAATGTCTTGAAAATTCCCATTATGTCTGACAGATCCACAACATATGTATTGTCATTAATCA
6798138 TCTGCCAC
66 TCTGCCAC
* * * *
6798146 ATTAAATGTCTTGAAAATTCTCATTGTGTTTGATAGATCCACAACATATGTATTGTCATTAATC
1 ATTAAATGTCTTGAAAATTCCCATTATGTCTGACAGATCCACAACATATGTATTGTCATTAATC
6798210 TTCTTCAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (73 bp):
ATTAAATGTCTTGAAAATTCCCATTATGTCTGACAGATCCACAACATATGTATTGTCATTAATCA
TCTGCCAC
Found at i:6800984 original size:18 final size:18
Alignment explanation
Indices: 6800961--6801015 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
6800951 AAAAGCCATT
6800961 GCCTACCATAATTGGGTC
1 GCCTACCATAATTGGGTC
6800979 GCCTACCATAATTGGGTC
1 GCCTACCATAATTGGGTC
* *
6800997 ACCTGCCATTAGATTGGGT
1 GCCTACCA-TA-ATTGGGT
6801016 GAGTTTTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 24 0.73
19 2 0.06
20 7 0.21
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (18 bp):
GCCTACCATAATTGGGTC
Found at i:6801253 original size:31 final size:31
Alignment explanation
Indices: 6801217--6801279 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
6801207 TTATTTATAA
6801217 TAGTTTAATCCTACTTAACCTAAACTTGGAG
1 TAGTTTAATCCTACTTAACCTAAACTTGGAG
6801248 TAGTTTAATCCTACTTAACCTAAACTTGGAG
1 TAGTTTAATCCTACTTAACCTAAACTTGGAG
6801279 T
1 T
6801280 GTAAGTAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (31 bp):
TAGTTTAATCCTACTTAACCTAAACTTGGAG
Found at i:6801433 original size:16 final size:16
Alignment explanation
Indices: 6801408--6801446 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6801398 CCTAAATACT
6801408 AAATACTAAATAAGAA
1 AAATACTAAATAAGAA
* *
6801424 AAATATTAAATAATAA
1 AAATACTAAATAAGAA
*
6801440 AATTACT
1 AAATACT
6801447 TGTTAAACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
AAATACTAAATAAGAA
Found at i:6802010 original size:15 final size:16
Alignment explanation
Indices: 6801978--6802023 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
6801968 TTTTTTCTTC
*
6801978 TATTTATATT-ATTAT
1 TATTTATTTTAATTAT
6801993 TATTTATTTTAATT-T
1 TATTTATTTTAATTAT
6802008 TATTCTA-TTTAATTAT
1 TATT-TATTTTAATTAT
6802024 ATGTTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTTTAATTAT
Found at i:6802162 original size:12 final size:12
Alignment explanation
Indices: 6802139--6802198 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
6802129 AAAGAGGTAA
6802139 ATTTCTTTTTTTT
1 ATTTC-TTTTTTT
6802152 ATTTCTTTTTTT
1 ATTTCTTTTTTT
* * *
6802164 ATTTATATTATT
1 ATTTCTTTTTTT
*
6802176 ATTACTTTTATTT
1 ATTTCTTTT-TTT
*
6802189 ATTTATTTTT
1 ATTTCTTTTT
6802199 CAATTATATT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
12 23 0.62
13 14 0.38
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTCTTTTTTT
Found at i:6810971 original size:3 final size:3
Alignment explanation
Indices: 6810963--6811005 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6810953 AAGACACAAG
*
6810963 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6811006 TGAATCACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6830160 original size:2 final size:2
Alignment explanation
Indices: 6830153--6830215 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
6830143 TAGAGGTTTG
**
6830153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A NG T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6830193 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
6830216 CAGATTATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6832718 original size:3 final size:3
Alignment explanation
Indices: 6832703--6832735 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6832693 GCATGGGTAA
*
6832703 ATG ATG CTG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
6832736 TATTTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:6839033 original size:8 final size:8
Alignment explanation
Indices: 6839020--6839049 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6839010 TTTTGATTGA
6839020 AATAAAAT
1 AATAAAAT
6839028 AATAAAAT
1 AATAAAAT
6839036 AATAATAAT
1 AATAA-AAT
6839045 AATAA
1 AATAA
6839050 TTTGAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATAAAAT
Found at i:6842097 original size:2 final size:2
Alignment explanation
Indices: 6842090--6842115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6842080 TAATACGTGC
6842090 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6842116 GTATTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6847246 original size:15 final size:15
Alignment explanation
Indices: 6847228--6847272 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
6847218 GGCGGCGACA
6847228 ACGGCAGCGGAAGCG
1 ACGGCAGCGGAAGCG
*
6847243 ACGGCGGC-G--GCG
1 ACGGCAGCGGAAGCG
*
6847255 ACGACAGCGGAAGCG
1 ACGGCAGCGGAAGCG
6847270 ACG
1 ACG
6847273 ACGACGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
12 9 0.38
13 1 0.04
14 1 0.04
15 13 0.54
ACGTcount: A:0.24, C:0.29, G:0.47, T:0.00
Consensus pattern (15 bp):
ACGGCAGCGGAAGCG
Found at i:6847262 original size:27 final size:27
Alignment explanation
Indices: 6847218--6847272 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
6847208 TGATGTTAGT
*
6847218 GGCGGCGACAACGGCAGCGGAAGCGAC
1 GGCGGCGACAACGACAGCGGAAGCGAC
* *
6847245 GGCGGCGGCGACGACAGCGGAAGCGAC
1 GGCGGCGACAACGACAGCGGAAGCGAC
6847272 G
1 G
6847273 ACGACGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.47, T:0.00
Consensus pattern (27 bp):
GGCGGCGACAACGACAGCGGAAGCGAC
Found at i:6847273 original size:15 final size:14
Alignment explanation
Indices: 6847234--6847284 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
6847224 GACAACGGCA
6847234 GCGGAAGCGACG--
1 GCGGAAGCGACGAC
**
6847246 GCGGCGGCGACGAC
1 GCGGAAGCGACGAC
6847260 AGCGGAAGCGACGAC
1 -GCGGAAGCGACGAC
6847275 GACGGAAGCG
1 G-CGGAAGCG
6847285 GCTGCGACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 10 0.32
14 1 0.03
15 20 0.65
ACGTcount: A:0.25, C:0.27, G:0.47, T:0.00
Consensus pattern (14 bp):
GCGGAAGCGACGAC
Found at i:6847573 original size:14 final size:15
Alignment explanation
Indices: 6847552--6847581 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6847542 ACCGGCCCAT
*
6847552 GAAAAAAGAAAAAAA
1 GAAAAAGGAAAAAAA
6847567 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
6847582 TAAATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:6847604 original size:25 final size:27
Alignment explanation
Indices: 6847575--6847630 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
6847565 AAGAAAAAGG
*
6847575 AAAAAAATAA-ATTATT-TATAAAATTT
1 AAAATAATAATATT-TTATATAAAATTT
* *
6847601 AAAATATTAATATTTTATATATAATTT
1 AAAATAATAATATTTTATATAAAATTT
6847628 AAA
1 AAA
6847631 CATTATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATAATAATATTTTATATAAAATTT
Found at i:6847661 original size:26 final size:26
Alignment explanation
Indices: 6847599--6847662 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
6847589 TTTATAAAAT
*
6847599 TTAAAATATTAATATTTTATATATAA
1 TTAAAATATTAATATATTATATATAA
* * * *
6847625 TTTAAACATTATTAATATTA-ATATGA
1 TTAAAATATTAAT-ATATTATATATAA
6847651 TTAAAATATTAA
1 TTAAAATATTAA
6847663 ATANNNNNNN
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAAAATATTAATATATTATATATAA
Found at i:6847846 original size:25 final size:25
Alignment explanation
Indices: 6847812--6847861 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6847802 NNNNNNNNTA
6847812 ATTAAAATATT-AGTAATTAAATTAT
1 ATTAAAATATTGA-TAATTAAATTAT
*
6847837 ATTAAAATATTGATATTTAAATTAT
1 ATTAAAATATTGATAATTAAATTAT
6847862 TAATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTAAAATATTGATAATTAAATTAT
Found at i:6858066 original size:2 final size:2
Alignment explanation
Indices: 6858061--6858100 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
6858051 TTTTTTTTTT
*
6858061 TA TA TA TA TA TA AA TA TA TA TA TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6858101 CTTGTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6860603 original size:19 final size:18
Alignment explanation
Indices: 6860579--6860616 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
6860569 ATTAATAGTT
6860579 TAAAATATTAAATTATAAA
1 TAAAATATTAAATT-TAAA
*
6860598 TAAAATATTATATTTAAA
1 TAAAATATTAAATTTAAA
6860616 T
1 T
6860617 GATCAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATTAAATTTAAA
Found at i:6860632 original size:32 final size:35
Alignment explanation
Indices: 6860559--6860636 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 35
6860549 ATTTCAACAT
6860559 TTAATAAAATATTAATAGTTTAAAATATTAAATTA
1 TTAATAAAATATTAATAGTTTAAAATATTAAATTA
* *
6860594 TAAATAAAATATT-ATA-TTT-AAATGA-TCAATTA
1 TTAATAAAATATTAATAGTTTAAAAT-ATTAAATTA
6860626 TTAATAAAATA
1 TTAATAAAATA
6860637 AATTATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 20 0.51
33 4 0.10
34 3 0.08
35 12 0.31
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (35 bp):
TTAATAAAATATTAATAGTTTAAAATATTAAATTA
Found at i:6860763 original size:27 final size:27
Alignment explanation
Indices: 6860733--6860807 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
6860723 TTAAATAATC
6860733 AATTATTAATATTTTAAATAAATTAAG
1 AATTATTAATATTTTAAATAAATTAAG
*
6860760 AATTATTAATATTTTAAATAAATTATG
1 AATTATTAATATTTTAAATAAATTAAG
6860787 AATTATTAATA-TTTAAA-AAAT
1 AATTATTAATATTTTAAATAAAT
6860808 AATATAAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 4 0.09
26 6 0.13
27 37 0.79
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
AATTATTAATATTTTAAATAAATTAAG
Found at i:6860818 original size:21 final size:23
Alignment explanation
Indices: 6860793--6860848 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
6860783 TATGAATTAT
6860793 TAATATTTAAAAAATAAT-ATAA
1 TAATATTTAAAAAATAATCATAA
** *
6860815 -AATAAAATAAAAATTAATCATAA
1 TAAT-ATTTAAAAAATAATCATAA
6860838 TAATATTTAAA
1 TAATATTTAAA
6860849 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
21 3 0.12
22 11 0.42
23 9 0.35
24 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAATATTTAAAAAATAATCATAA
Found at i:6860841 original size:31 final size:32
Alignment explanation
Indices: 6860805--6860886 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
6860795 ATATTTAAAA
6860805 AATAATATAAAATAAAATAAAA-ATTAATCAT
1 AATAATATAAAATAAAATAAAATATTAATCAT
* * *
6860836 AATAATATTTAAATTAAATAAAATATTAATGAT
1 AATAATA-TAAAATAAAATAAAATATTAATCAT
*
6860869 TA-AAT-TATAAATAAAATA
1 AATAATATA-AAATAAAATA
6860887 TTAATATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 16 0.38
32 16 0.38
33 9 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (32 bp):
AATAATATAAAATAAAATAAAATATTAATCAT
Found at i:6860854 original size:26 final size:25
Alignment explanation
Indices: 6860838--6860905 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
6860828 TTAATCATAA
6860838 TAATATTTAAATTAAA-TAAAATAT
1 TAATATTTAAATTAAATTAAAATAT
*
6860862 TAATGA-TTAAATTATAAATAAAATAT
1 TAAT-ATTTAAATTA-AATTAAAATAT
*
6860888 TAATATTTTAATTAAATT
1 TAATATTTAAATTAAATT
6860906 CTAGATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 12 0.32
25 7 0.18
26 19 0.50
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
TAATATTTAAATTAAATTAAAATAT
Found at i:6862423 original size:17 final size:17
Alignment explanation
Indices: 6862401--6862434 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6862391 CACGTCCTTT
*
6862401 TAGCAATCATGCCGTGA
1 TAGCAATCACGCCGTGA
6862418 TAGCAATCACGCCGTGA
1 TAGCAATCACGCCGTGA
6862435 GAGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (17 bp):
TAGCAATCACGCCGTGA
Found at i:6864507 original size:2 final size:2
Alignment explanation
Indices: 6864489--6864563 Score: 60
Period size: 2 Copynumber: 42.0 Consensus size: 2
6864479 TATTTTATTA
* * *
6864489 AT AT A- AT AT AA AT AT AT AT -T AT AT AT AA AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6864529 -T AT A- AT A- AT AT A- AT AT AT A- AT AT A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6864564 CAGATGGAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
1 9 0.16
2 49 0.84
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6864514 original size:17 final size:17
Alignment explanation
Indices: 6864494--6864562 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 17
6864484 TATTAATATA
6864494 ATATAAATATATATTAT
1 ATATAAATATATATTAT
*
6864511 ATATAAATACATA-TAT
1 ATATAAATATATATTAT
*
6864527 AT-TATAATA-ATATAAT
1 ATATA-AATATATATTAT
6864543 ATAT-AATATA-ATTAT
1 ATATAAATATATATTAT
6864558 ATATA
1 ATATA
6864563 TCAGATGGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
15 17 0.39
16 14 0.32
17 13 0.30
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAATATATATTAT
Found at i:6864563 original size:17 final size:17
Alignment explanation
Indices: 6864489--6864563 Score: 80
Period size: 17 Copynumber: 4.2 Consensus size: 17
6864479 TATTTTATTA
6864489 ATATAATATAAATATAT
1 ATATAATATAAATATAT
*
6864506 AT-TATATATAAATACAT
1 ATATA-ATATAAATATAT
*
6864523 ATATATTATAATAATATAAT
1 ATATAATAT-A-AATAT-AT
*
6864543 ATATAATATAATTATAT
1 ATATAATATAAATATAT
6864560 ATAT
1 ATAT
6864564 CAGATGGAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
16 2 0.04
17 24 0.50
18 7 0.15
19 5 0.10
20 10 0.21
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATATAAATATAT
Found at i:6864764 original size:42 final size:42
Alignment explanation
Indices: 6864702--6864786 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
6864692 AAATAAGTAA
6864702 ATAATAGAAACAAAACACACCTTTGGCTTAGCAAGGGATACC
1 ATAATAGAAACAAAACACACCTTTGGCTTAGCAAGGGATACC
*
6864744 ATAATAGAAACAAAATACACCTTTGGCTTAGCAAGGGATACC
1 ATAATAGAAACAAAACACACCTTTGGCTTAGCAAGGGATACC
6864786 A
1 A
6864787 AATCATCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (42 bp):
ATAATAGAAACAAAACACACCTTTGGCTTAGCAAGGGATACC
Found at i:6865652 original size:2 final size:2
Alignment explanation
Indices: 6865645--6865689 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6865635 CATAAGTTCC
*
6865645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6865687 AT A
1 AT A
6865690 GCACACTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6879493 original size:35 final size:36
Alignment explanation
Indices: 6879454--6879523 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
6879444 TAAAAGGAAA
* *
6879454 AATTATGA-TCGTTGAAAATTAA-AAATTAAAAAAAG
1 AATTAT-ATTCGTTGAAAATAAATAAAATAAAAAAAG
*
6879489 AATTATATTTGTTGAAAATAAATAAAATAAAAAAA
1 AATTATATTCGTTGAAAATAAATAAAATAAAAAAA
6879524 ACCCACGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 18 0.60
36 11 0.37
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (36 bp):
AATTATATTCGTTGAAAATAAATAAAATAAAAAAAG
Found at i:6884388 original size:2 final size:2
Alignment explanation
Indices: 6884383--6884416 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6884373 ATAAAAAAAT
* *
6884383 TA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6884417 CACATGCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6886327 original size:2 final size:2
Alignment explanation
Indices: 6886320--6886345 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6886310 GAAAGAAATA
6886320 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6886346 GCAAGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6897016 original size:23 final size:23
Alignment explanation
Indices: 6896986--6897031 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
6896976 TAGGGTGCTC
6896986 CTTATTTTTTTAAAAAAAT-TATA
1 CTTA-TTTTTTAAAAAAATATATA
6897009 CTTATTTTTTAAAAAAATATATA
1 CTTATTTTTTAAAAAAATATATA
6897032 ATAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
CTTATTTTTTAAAAAAATATATA
Found at i:6900009 original size:14 final size:14
Alignment explanation
Indices: 6899990--6900044 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
6899980 AATTGTCTAT
6899990 TTATTTATTTATTA
1 TTATTTATTTATTA
*
6900004 TTATTTAATTATTA
1 TTATTTATTTATTA
*
6900018 TT-TTCATTTTATTA
1 TTATTTA-TTTATTA
6900032 -TATTT-TTTATTA
1 TTATTTATTTATTA
6900044 T
1 T
6900045 CATATTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 23 0.68
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:6900026 original size:17 final size:16
Alignment explanation
Indices: 6899987--6900077 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 16
6899977 TGCAATTGTC
*
6899987 TATTTATTTATTTATTAT
1 TATTTAATTA-TTATT-T
6900005 TATTTAATTATTATTT
1 TATTTAATTATTATTT
* *
6900021 TCATTTTATTATATTTTT
1 T-ATTTAATTAT-TATTT
*
6900039 TATTATCATATTTTCTATTT
1 TATT-T-A-ATTAT-TATTT
6900059 TATTTCTAATTATTATTT
1 TA-TT-TAATTATTATTT
6900077 T
1 T
6900078 TTCATACTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
16 2 0.03
17 17 0.29
18 21 0.36
19 4 0.07
20 11 0.19
21 3 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTAATTATTATTT
Found at i:6900057 original size:27 final size:28
Alignment explanation
Indices: 6900027--6900099 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
6900017 ATTTTCATTT
6900027 TATTATATTTTTTATTATCATATTTTC-
1 TATTATATTTTTTATTATCATATTTTCA
* * * * *
6900054 TATTTTATTTCTAATTATTATTTTTTCA
1 TATTATATTTTTTATTATCATATTTTCA
*
6900082 TACTTTACATTTTTTATT
1 TA--TTATATTTTTTATT
6900100 CTAGGTTACT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
27 22 0.65
28 2 0.06
30 10 0.29
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTATATTTTTTATTATCATATTTTCA
Found at i:6900221 original size:17 final size:17
Alignment explanation
Indices: 6900192--6900233 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
6900182 GTCTTAGATT
6900192 TTTATTATTATTTATT-TA
1 TTTATT-TTATTT-TTCTA
6900210 TTTATTTTATTTTTCTA
1 TTTATTTTATTTTTCTA
6900227 TTTATTT
1 TTTATTT
6900234 AATGTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTTCTA
Found at i:6900635 original size:18 final size:17
Alignment explanation
Indices: 6900607--6900658 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
6900597 TAAAGCTATA
6900607 TTATTATTATTCTTTTAT
1 TTATTATTATT-TTTTAT
6900625 TT-TTCATTATTTATTTAT
1 TTATT-ATTATTT-TTTAT
6900643 TTATTATTATTATTTT
1 TTATTATTATT-TTTT
6900659 TAAAAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.10
18 24 0.80
19 3 0.10
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTATTTTTTAT
Found at i:6901556 original size:52 final size:51
Alignment explanation
Indices: 6901500--6901691 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 51
6901490 CCCCAAAGGC
* *
6901500 CGGATCTCCCCTTTTTCACTCACTCTTTCTCTAACGCCGGCCACCCAAAAAT
1 CGGATCT-CCCTCTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAAT
* * * *
6901552 CGGATCTCCCTCTTTCATTCACTTTCTCT-TATA-GGCAGCCACCCCAAAGAA-
1 CGGATCTCCCTCTTTCACTCACTCTCTCTCTA-ACGCCGGCCA-CCCAAA-AAT
* * **
6901603 CGGATCTCCCCTTTTTCACTCACTCTCTCTCTAACGTCGGCCACCTTAAAAT
1 CGGATCT-CCCTCTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAAT
* *
6901655 -GGTTCTCCCTCTTTCACTCACTCTCTCTCTACCGCCG
1 CGGATCTCCCTCTTTCACTCACTCTCTCTCTAACGCCG
6901692 ACCCCTCTCT
Statistics
Matches: 116, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
50 36 0.31
51 39 0.34
52 33 0.28
53 8 0.07
ACGTcount: A:0.19, C:0.40, G:0.10, T:0.31
Consensus pattern (51 bp):
CGGATCTCCCTCTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAAT
Found at i:6901611 original size:103 final size:102
Alignment explanation
Indices: 6901489--6901682 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 102
6901479 ACCGGCGACT
** *
6901489 ACCCCAAAGGCCGGATCTCCCCTTTTTCACTCACTCTTTCTCTAACGCCGGCCACCCAAAAATCG
1 ACCCCAAAGAACGGATCTCCCCTTTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAAT-G
* *
6901554 GATCTCCCTCTTTCATTCACTTTCTCTTATAGGCAGCC
65 GATCTCCCTCTTTCACTCACTCTCTCTTATAGGCAGCC
* **
6901592 ACCCCAAAGAACGGATCTCCCCTTTTTCACTCACTCTCTCTCTAACGTCGGCCACCTTAAAATGG
1 ACCCCAAAGAACGGATCTCCCCTTTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAATGG
*
6901657 TTCTCCCTCTTTCACTCACTCTCTCT
66 ATCTCCCTCTTTCACTCACTCTCTCT
6901683 CTACCGCCGA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 25 0.30
103 57 0.70
ACGTcount: A:0.20, C:0.39, G:0.10, T:0.30
Consensus pattern (102 bp):
ACCCCAAAGAACGGATCTCCCCTTTTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAATGG
ATCTCCCTCTTTCACTCACTCTCTCTTATAGGCAGCC
Found at i:6902222 original size:15 final size:14
Alignment explanation
Indices: 6902195--6902234 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
6902185 TCTCTCTTCT
6902195 ATTTTTTTA-TTTC
1 ATTTTTTTATTTTC
6902208 ATTTTTTTCATTTTC
1 ATTTTTTT-ATTTTC
6902223 ATTTTTTTATTT
1 ATTTTTTTATTT
6902235 GTTGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTTTATTTTC
Found at i:6902391 original size:1 final size:1
Alignment explanation
Indices: 6902387--6902479 Score: 60
Period size: 1 Copynumber: 93.0 Consensus size: 1
6902377 TTTTCTCCTC
* * * * * ** * * *
6902387 TTTTTTGTTTTGTTTTTTTTGTTTTGTTTTGTTTTGGTTTTTTTTTTTGTTTTTTGTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
6902452 GTTTTTGTTTTTTGTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
6902480 GTCGTTTAAA
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (1 bp):
T
Found at i:6902399 original size:5 final size:5
Alignment explanation
Indices: 6902389--6902481 Score: 90
Period size: 5 Copynumber: 19.2 Consensus size: 5
6902379 TTCTCCTCTT
*
6902389 TTTTG TTTTG TTTT- TTTTG TTTTG TTTTG TTTTG GTTT- TTTT- TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
* *
6902436 TTTT- TTGTTG TTTT- TTGTT- TTTGTT TTTTG TTTTG TTTTT TTTTG
1 TTTTG TT-TTG TTTTG TT-TTG TTT-TG TTTTG TTTTG TTTTG TTTTG
6902481 T
1 T
6902482 CGTTTAAATG
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
4 16 0.21
5 55 0.72
6 5 0.07
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:6902434 original size:23 final size:22
Alignment explanation
Indices: 6902389--6902479 Score: 112
Period size: 24 Copynumber: 3.9 Consensus size: 22
6902379 TTCTCCTCTT
6902389 TTTTGTTTTGTTTTTTTTGTTTTG
1 TTTTGTTTTG-TTTTTTT-TTTTG
6902413 TTTTGTTTTGGTTTTTTTTTTTG
1 TTTTGTTTT-GTTTTTTTTTTTG
6902436 TTTT-TTGTTGTTTTTTGTTTTTG
1 TTTTGTT-TTGTTTTTT-TTTTTG
6902459 TTTTTTGTTTTGTTTTTTTTT
1 --TTTTGTTTTGTTTTTTTTT
6902480 GTCGTTTAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.15
23 17 0.28
24 19 0.31
25 14 0.23
26 2 0.03
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (22 bp):
TTTTGTTTTGTTTTTTTTTTTG
Found at i:6902452 original size:35 final size:35
Alignment explanation
Indices: 6902387--6902478 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 35
6902377 TTTTCTCCTC
6902387 TTTTTTGTTTTGTTTTTTTTGTTTTGTTTTGTTTTGG
1 TTTTTTGTTTTGTTTTTTTTG--TTGTTTTGTTTTGG
* *
6902424 TTTTTTTTTTTGTTTTTTGTTGTT-TTTTGTTTTTG
1 TTTTTTGTTTTGTTTTTT-TTGTTGTTTTGTTTTGG
6902459 TTTTTTGTTTTGTTTTTTTT
1 TTTTTTGTTTTGTTTTTTTT
6902479 TGTCGTTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
34 2 0.04
35 27 0.53
36 2 0.04
37 17 0.33
38 3 0.06
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (35 bp):
TTTTTTGTTTTGTTTTTTTTGTTGTTTTGTTTTGG
Found at i:6902481 original size:28 final size:27
Alignment explanation
Indices: 6902387--6902481 Score: 118
Period size: 28 Copynumber: 3.3 Consensus size: 27
6902377 TTTTCTCCTC
6902387 TTTTTTGTTTTGTTTTTTTTGTTTTGTTT
1 TTTTTTG-TTT-TTTTTTTTGTTTTGTTT
* *
6902416 TGTTTTGGTTTTTTTTTTTGTTTTTTGTTG
1 T-TTTTTGTTTTTTTTTTTG--TTTTGTTT
6902446 TTTTTTGTTTTTGTTTTTTGTTTTGTTT
1 TTTTTTGTTTTT-TTTTTTGTTTTGTTT
6902474 TTTTTTGT
1 TTTTTTGT
6902482 CGTTTAAATG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
28 24 0.41
29 14 0.24
30 20 0.34
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (27 bp):
TTTTTTGTTTTTTTTTTTGTTTTGTTT
Found at i:6902486 original size:13 final size:13
Alignment explanation
Indices: 6902387--6902476 Score: 97
Period size: 12 Copynumber: 7.5 Consensus size: 13
6902377 TTTTCTCCTC
6902387 TTTTTTG-TTTTG
1 TTTTTTGTTTTTG
6902399 TTTTTT-TTGTTT-
1 TTTTTTGTT-TTTG
* *
6902411 TGTTTTGTTTTGG
1 TTTTTTGTTTTTG
6902424 TTTTTT-TTTTTG
1 TTTTTTGTTTTTG
6902436 TTTTTTG---TTG
1 TTTTTTGTTTTTG
6902446 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
6902459 TTTTTTG-TTTTG
1 TTTTTTGTTTTTG
6902471 TTTTTT
1 TTTTTT
6902477 TTTGTCGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
10 10 0.15
12 36 0.55
13 20 0.30
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:6902606 original size:22 final size:21
Alignment explanation
Indices: 6902581--6902708 Score: 112
Period size: 22 Copynumber: 6.0 Consensus size: 21
6902571 ATGAGGTTTT
6902581 GAAAATGTACCCGGAGACTTTA
1 GAAAATGTACCCGGAG-CTTTA
*
6902603 GAAAATGTACTCGGAGGCTTTA
1 GAAAATGTACCCGGA-GCTTTA
*
6902625 GAAAATGTACCCAGAGGCTTTA
1 GAAAATGTACCCGGA-GCTTTA
* * ** * *
6902647 TAGAATGTACTTGGAGATTTT
1 GAAAATGTACCCGGAGCTTTA
* * *
6902668 GAAAATGTACTCGGAGGTTTT
1 GAAAATGTACCCGGAGCTTTA
* *
6902689 GAAAATATATCCGGAGCTTT
1 GAAAATGTACCCGGAGCTTT
6902709 TAAGAGAAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
21 37 0.43
22 49 0.56
23 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (21 bp):
GAAAATGTACCCGGAGCTTTA
Found at i:6902629 original size:44 final size:43
Alignment explanation
Indices: 6902573--6902683 Score: 141
Period size: 44 Copynumber: 2.6 Consensus size: 43
6902563 AATGTGCCAT
6902573 GAGGTTTTGAAAATGTACCCGGAGACTTTAGAAAATGTACTCG
1 GAGGTTTTGAAAATGTACCCGGAGACTTTAGAAAATGTACTCG
* * * * * *
6902616 GAGGCTTTAGAAAATGTACCCAGAGGCTTTATAGAATGTACTTG
1 GAGG-TTTTGAAAATGTACCCGGAGACTTTAGAAAATGTACTCG
* *
6902660 GAGATTTTGAAAATGTACTCGGAG
1 GAGGTTTTGAAAATGTACCCGGAG
6902684 GTTTTGAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 21 0.37
44 36 0.63
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (43 bp):
GAGGTTTTGAAAATGTACCCGGAGACTTTAGAAAATGTACTCG
Found at i:6903013 original size:120 final size:120
Alignment explanation
Indices: 6902800--6903036 Score: 404
Period size: 120 Copynumber: 2.0 Consensus size: 120
6902790 AAATATACCC
* *
6902800 GGAGGTTTAAAGAGAATAATGTGCCCAAAGGTCTTGAGAATGTACCCGGAGGATTTAAGAAATGT
1 GGAGGTTTAAAGAGAATAATGTGCCCAAAGGTCTTCAGAATGTACCCGGAGGATTTAAGAAATAT
*
6902865 GGCTCCTCGAAAACTGAGGCAACGTAACTTTAAAAAATATTGACACTAATTACTT
66 GGCTCCTCAAAAACTGAGGCAACGTAACTTTAAAAAATATTGACACTAATTACTT
* *
6902920 GGAGGATTT-AAGAGAATAATGTGCCCAGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATA
1 GGAGG-TTTAAAGAGAATAATGTGCCCAAAGGTCTTCAGAATGTACCCGGAGGATTTAAGAAATA
*
6902984 TGGCTCCTCAAAAACTGAGGCAACGTAACTTTAAAAAATATTGACATTAATTA
65 TGGCTCCTCAAAAACTGAGGCAACGTAACTTTAAAAAATATTGACACTAATTA
6903037 TTTGAAATAT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 107 0.97
121 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (120 bp):
GGAGGTTTAAAGAGAATAATGTGCCCAAAGGTCTTCAGAATGTACCCGGAGGATTTAAGAAATAT
GGCTCCTCAAAAACTGAGGCAACGTAACTTTAAAAAATATTGACACTAATTACTT
Found at i:6904299 original size:70 final size:71
Alignment explanation
Indices: 6904184--6904323 Score: 203
Period size: 70 Copynumber: 2.0 Consensus size: 71
6904174 TAAATTCCCA
* *
6904184 TCTTCGCTCTAGACTGCCCTTTCGAGTTTTCACCCCAGAGCTTCATCTTTT-TCACTCACT-TTT
1 TCTTCGCTCTACACTGCCCTTTCGAGTTTTCACCCCAGAGCTTCAT-TTTTCACACTCACTGTTT
6904247 TTTTTTG
65 TTTTTTG
* * * *
6904254 TCTTCGCTCTACACTGCCCTTTCGGGTTTTCACCCTAGAGTTTCATTTTTCACACTTACTGTTTT
1 TCTTCGCTCTACACTGCCCTTTCGAGTTTTCACCCCAGAGCTTCATTTTTCACACTCACTGTTTT
6904319 TTTTT
66 TTTTT
6904324 TTTTTATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
69 4 0.06
70 49 0.79
71 9 0.15
ACGTcount: A:0.13, C:0.29, G:0.11, T:0.47
Consensus pattern (71 bp):
TCTTCGCTCTACACTGCCCTTTCGAGTTTTCACCCCAGAGCTTCATTTTTCACACTCACTGTTTT
TTTTTG
Found at i:6911998 original size:18 final size:17
Alignment explanation
Indices: 6911970--6912021 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
6911960 TAAAGCTATA
6911970 TTATTATTATTCTTTTAT
1 TTATTATTATT-TTTTAT
6911988 TT-TTCATTATTTATTTAT
1 TTATT-ATTATTT-TTTAT
6912006 TTATTATTATTATTTT
1 TTATTATTATT-TTTT
6912022 TAAAAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.10
18 24 0.80
19 3 0.10
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTATTTTTTAT
Found at i:6912913 original size:52 final size:50
Alignment explanation
Indices: 6912878--6913057 Score: 229
Period size: 51 Copynumber: 3.5 Consensus size: 50
6912868 ATCTCCATTT
*
6912878 TTTCACTCACTCTCTCTCTAACGCCAGCCACCCAAAAACTGGATCTCCCTC
1 TTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAAC-GGATCTCCCTC
* *
6912929 TTTCACTCACTCTCTCT-T-ACAGGCGGCCACCCTAAAGAACGGATCTTCCCTT
1 TTTCACTCACTCTCTCTCTAAC-GCCGGCCACCC-AAA-AACGGATC-TCCCTC
* *
6912981 TTTCACTCACTCTCTCTCTAACGCCGGACACCCCAAAATCGGATCTCCCTC
1 TTTCACTCACTCTCTCTCTAACGCCGGCCA-CCCAAAAACGGATCTCCCTC
* *
6913032 TTTCACTCACTCTCGCTCTACCGCCG
1 TTTCACTCACTCTCTCTCTAACGCCG
6913058 ACTCTTCTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
49 2 0.02
50 10 0.09
51 54 0.48
52 32 0.28
53 10 0.09
54 5 0.04
ACGTcount: A:0.21, C:0.42, G:0.11, T:0.27
Consensus pattern (50 bp):
TTTCACTCACTCTCTCTCTAACGCCGGCCACCCAAAAACGGATCTCCCTC
Found at i:6913025 original size:103 final size:103
Alignment explanation
Indices: 6912835--6913045 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 103
6912825 CTTCTCTCTC
* * * *
6912835 CTCTCTCCTACCGGCGGCTACCCCAAAGATCGGATCTCCATTTTTTCACTCACTCTCTCTCTAAC
1 CTCTCTCCTACAGGCGGCCACCCCAAAGAACGGATCTCCACTTTTTCACTCACTCTCTCTCTAAC
*
6912900 GCCAGCCACCCAAAAACTGGATCTCCCTCTTTCACTCA
66 GCCAGACACCCAAAAACTGGATCTCCCTCTTTCACTCA
* *
6912938 CTCTCTCTTACAGGCGGCCACCCTAAAGAACGGATCTTCC-CTTTTTCACTCACTCTCTCTCTAA
1 CTCTCTCCTACAGGCGGCCACCCCAAAGAACGGATC-TCCACTTTTTCACTCACTCTCTCTCTAA
* *
6913002 CGCCGGACACCCCAAAA-TCGGATCTCCCTCTTTCACTCA
65 CGCCAGACACCCAAAAACT-GGATCTCCCTCTTTCACTCA
6913041 CTCTC
1 CTCTC
6913046 GCTCTACCGC
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
102 1 0.01
103 93 0.96
104 3 0.03
ACGTcount: A:0.21, C:0.41, G:0.11, T:0.27
Consensus pattern (103 bp):
CTCTCTCCTACAGGCGGCCACCCCAAAGAACGGATCTCCACTTTTTCACTCACTCTCTCTCTAAC
GCCAGACACCCAAAAACTGGATCTCCCTCTTTCACTCA
Found at i:6913568 original size:13 final size:15
Alignment explanation
Indices: 6913550--6913583 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6913540 TCTCTCTTCT
6913550 ATTTTTTT-A-TTTC
1 ATTTTTTTCATTTTC
6913563 ATTTTTTTCATTTTC
1 ATTTTTTTCATTTTC
6913578 ATTTTT
1 ATTTTT
6913584 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 1 0.05
15 10 0.53
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTTCATTTTC
Found at i:6913610 original size:31 final size:33
Alignment explanation
Indices: 6913549--6913612 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
6913539 CTCTCTCTTC
* *
6913549 TATTTTTTTATTTCATTTTTTTCATTTTCATTTT
1 TATTTTTTTATTT-AGTTGTTTCATTTTCATTTT
6913583 TATTTTTTTATTT-GTTGTTT-ATTTTCATTT
1 TATTTTTTTATTTAGTTGTTTCATTTTCATTT
6913613 ATAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.36
32 5 0.18
34 13 0.46
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (33 bp):
TATTTTTTTATTTAGTTGTTTCATTTTCATTTT
Found at i:6917948 original size:23 final size:23
Alignment explanation
Indices: 6917922--6917990 Score: 129
Period size: 23 Copynumber: 3.0 Consensus size: 23
6917912 TAGAATAACA
*
6917922 ATTCTTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
6917945 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
6917968 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
6917991 GTTATTGTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:6922760 original size:18 final size:18
Alignment explanation
Indices: 6922737--6922816 Score: 68
Period size: 18 Copynumber: 4.9 Consensus size: 18
6922727 GACTAAGAAA
6922737 TCAATTAGTCAATGATTG
1 TCAATTAGTCAATGATTG
*
6922755 TCAATTAGTTAATGA---
1 TCAATTAGTCAATGATTG
**
6922770 T-AA-TAGTC--T-ATAA
1 TCAATTAGTCAATGATTG
6922783 TCAATTAGTCAATGATTG
1 TCAATTAGTCAATGATTG
*
6922801 TCAATTAGTTAATGAT
1 TCAATTAGTCAATGAT
6922817 AATAGTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
10 1 0.02
11 1 0.02
13 5 0.10
14 4 0.08
15 6 0.12
17 1 0.02
18 31 0.63
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (18 bp):
TCAATTAGTCAATGATTG
Found at i:6922802 original size:46 final size:46
Alignment explanation
Indices: 6922735--6922845 Score: 213
Period size: 46 Copynumber: 2.4 Consensus size: 46
6922725 TAGACTAAGA
6922735 AATCAATTAGTCAATGATTGTCAATTAGTTAATGATAATAGTCTAT
1 AATCAATTAGTCAATGATTGTCAATTAGTTAATGATAATAGTCTAT
*
6922781 AATCAATTAGTCAATGATTGTCAATTAGTTAATGATAATAGTTTAT
1 AATCAATTAGTCAATGATTGTCAATTAGTTAATGATAATAGTCTAT
6922827 AATCAATTAGTCAATGATT
1 AATCAATTAGTCAATGATT
6922846 ATAGTCTATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (46 bp):
AATCAATTAGTCAATGATTGTCAATTAGTTAATGATAATAGTCTAT
Found at i:6922842 original size:28 final size:28
Alignment explanation
Indices: 6922801--6922857 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6922791 TCAATGATTG
* *
6922801 TCAATTAGTTAATGATAATAGTTTATAA
1 TCAATTAGTCAATGATAATAGTCTATAA
*
6922829 TCAATTAGTCAATGATTATAGTCTATAA
1 TCAATTAGTCAATGATAATAGTCTATAA
6922857 T
1 T
6922858 TAAGGATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (28 bp):
TCAATTAGTCAATGATAATAGTCTATAA
Found at i:6925500 original size:3 final size:3
Alignment explanation
Indices: 6925456--6925488 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6925446 CTCTTACATA
6925456 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6925489 ATTTGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6926081 original size:24 final size:24
Alignment explanation
Indices: 6926049--6926094 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6926039 CTTATTTACT
6926049 TACCTTATTTCTTATGACTCAACC
1 TACCTTATTTCTTATGACTCAACC
6926073 TACCTTATTTCTTATGACTCAA
1 TACCTTATTTCTTATGACTCAA
6926095 TATATACGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.43
Consensus pattern (24 bp):
TACCTTATTTCTTATGACTCAACC
Found at i:6926922 original size:30 final size:32
Alignment explanation
Indices: 6926870--6926938 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
6926860 CATTTTGATG
* * *
6926870 ACATAGCATTGAGATGATGACGTGGC-ATGCT
1 ACATGGCATTGAGATAATGACGTGGCAATGCC
6926901 ACATGGCATTGAG-TAATGACGTGGCAATGCC
1 ACATGGCATTGAGATAATGACGTGGCAATGCC
6926932 ACATGGC
1 ACATGGC
6926939 CTTATTCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (32 bp):
ACATGGCATTGAGATAATGACGTGGCAATGCC
Found at i:6926951 original size:31 final size:30
Alignment explanation
Indices: 6926870--6926955 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
6926860 CATTTTGATG
* *
6926870 ACATAGCATTGAGATGATGACGTGGCATGCT
1 ACATGGCATTGAG-TGATGACGTGGCATGCC
*
6926901 ACATGGCATTGAGTAATGACGTGGCAATGCC
1 ACATGGCATTGAGTGATGACGTGGC-ATGCC
* *
6926932 ACATGGCCTT-ATTCGATGACGTGG
1 ACATGGCATTGAGT-GATGACGTGG
6926956 TGGTGCTGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 13 0.28
31 34 0.72
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (30 bp):
ACATGGCATTGAGTGATGACGTGGCATGCC
Found at i:6928370 original size:11 final size:12
Alignment explanation
Indices: 6928348--6928381 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
6928338 TTGAGTCTCG
6928348 ATAAAAATAATA
1 ATAAAAATAATA
6928360 ATAAAAA-AAT-
1 ATAAAAATAATA
6928370 ATAAAAATAATA
1 ATAAAAATAATA
6928382 GAATAGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:6930674 original size:16 final size:16
Alignment explanation
Indices: 6930649--6930681 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6930639 AAAGGTAAGT
6930649 AAATAAAT-AAATAAA
1 AAATAAATAAAATAAA
6930664 AAATGAAATAAAATAAA
1 AAAT-AAATAAAATAAA
6930681 A
1 A
6930682 TAAATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 4 0.25
17 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAATAAATAAAATAAA
Found at i:6939315 original size:11 final size:11
Alignment explanation
Indices: 6939299--6939323 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6939289 TGTCAAGCTC
6939299 AATAAATTTAT
1 AATAAATTTAT
6939310 AATAAATTTAT
1 AATAAATTTAT
6939321 AAT
1 AAT
6939324 GAATCAATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAAATTTAT
Found at i:6941683 original size:9 final size:9
Alignment explanation
Indices: 6941661--6941734 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
6941651 TTCCTTTAAA
6941661 TTTTTCTTCC
1 TTTTTCTT-C
6941671 TTTTT-TTC
1 TTTTTCTTC
*
6941679 TTTTTCTCC
1 TTTTTCTTC
* *
6941688 TGTTTCCTC
1 TTTTTCTTC
* *
6941697 TTCTT-TTG
1 TTTTTCTTC
6941705 TTTTTC-TC
1 TTTTTCTTC
*
6941713 TTTTTCTTT
1 TTTTTCTTC
6941722 TTTTTCTTTC
1 TTTTTC-TTC
6941732 TTT
1 TTT
6941735 GTTTTTTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
8 18 0.38
9 20 0.42
10 10 0.21
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:6941739 original size:17 final size:17
Alignment explanation
Indices: 6941661--6941743 Score: 55
Period size: 17 Copynumber: 4.8 Consensus size: 17
6941651 TTCCTTTAAA
6941661 TTTTTCTTCCTTTTTT-TC
1 TTTTTCTT--TTTTTTCTC
* * *
6941679 TTTTTCTCCTGTTTCCTC
1 TTTTTCT-TTTTTTTCTC
* *
6941697 TTCTT-TTGTTTTTCTC
1 TTTTTCTTTTTTTTCTC
6941713 TTTTTCTTTTTTTTCT-
1 TTTTTCTTTTTTTTCTC
*
6941729 TTCTTTGTTTTTTTT
1 TT-TTTCTTTTTTTT
6941744 AATAAATAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
16 12 0.24
17 25 0.50
18 13 0.26
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCTC
Found at i:6943208 original size:491 final size:491
Alignment explanation
Indices: 6942283--6943246 Score: 1651
Period size: 491 Copynumber: 2.0 Consensus size: 491
6942273 GAATGTCCTC
*
6942283 ATTTCAAGCGCTGTAATGACTACTGGTTGAATATTTGTAAAATATCATAAACTCTTTATAGGGGG
1 ATTTCAAGCACTGTAATGACTACTGGTTGAATATTTGTAAAATATCATAAACTCTTTATAGGGGG
* * **
6942348 TGAGCAGTCGCCGGATTGTTGGGCTGCCTCACTGATAAAGGTATGTTTATAGTGAATCATCTAGG
66 TGAGCAGTCGACGGATTGTTGGACTGCCTCACTGATAAAGGTATGTTTATAACGAATCATCTAGG
* *
6942413 GCTGCCCTTATGGCCCGATTATGGCGTGTCTTGGTCCCTTTATAGTTAATTTCATATTAATAAAA
131 GCTGCCCTTATGACCCGATTATGGCGTGTCTTGGTCCCTTTATAATTAATTTCATATTAATAAAA
*
6942478 TATTTTTTCGTTTTATGACTAAGTGGTTGCATACATAACATTCGTTGTGCCTTTTGATTTTGATG
196 CATTTTTTCGTTTTATGACTAAGTGGTTGCATACATAACATTCGTTGTGCCTTTTGATTTTGATG
*
6942543 CGGGTTCTCTTAGTCTGATTTGTTGTTGTTGTTAATGTTGGATCAAATATAACCGAGTATTAGCT
261 CGGGTTCTCTTAGTCTGATTTGTTGTTATTGTTAATGTTGGATCAAATATAACCGAGTATTAGCT
* *
6942608 GACTTGCGTAGAAGCATTCACTCAAGTGCCACACGGACTATCACATACTTAAGCAAATGAGTGTA
326 GACTTGCGTAGAAACATTCACTCAAGTGCCACACGGACTATCACATACTTAAGCAAAGGAGTGTA
* * *
6942673 GTTCGTGACATTAAACATCTTTCTCAAAAAGCAAACTTTAAAGTACTGTCCCTCCCTCTCTTTCT
391 GTTCGTGACACTAAACATCATTCTCAAAAAGCAAACTCTAAAGTACTGTCCCTCCCTCTCTTTCT
6942738 TCACCTTTAGTTGTAAAATTGTTCCCTTTTTAGCCT
456 TCACCTTTAGTTGTAAAATTGTTCCCTTTTTAGCCT
* *
6942774 ATTTCAAGCACTGTAATGGCTACTGGTTGAATATTTGTAAAATATCGTAAACTCTTTATAGGGGG
1 ATTTCAAGCACTGTAATGACTACTGGTTGAATATTTGTAAAATATCATAAACTCTTTATAGGGGG
*
6942839 TGAGCAGTCGACGGATTGTTGGACTGCCTCACT-AGTAAAGGTATGTTTATAACGAATCATTTAG
66 TGAGCAGTCGACGGATTGTTGGACTGCCTCACTGA-TAAAGGTATGTTTATAACGAATCATCTAG
* *
6942903 GGCTGCCCTTATGACTCGATTATGGCGTGTCTTGGTCGCTTTATAATTAATTTCATATTAATAAA
130 GGCTGCCCTTATGACCCGATTATGGCGTGTCTTGGTCCCTTTATAATTAATTTCATATTAATAAA
*
6942968 ACATTTTTTCGTTTTATGACTAAGTGGTTGCATACATGACATTCGTTGTGCCTTTTGATTTTGAT
195 ACATTTTTTCGTTTTATGACTAAGTGGTTGCATACATAACATTCGTTGTGCCTTTTGATTTTGAT
* *
6943033 GCGGGTTCTTTTAGTCTGATTTGTTGTTATTGTTAATGTTGGATCAAATATAACCGAGTATTGGC
260 GCGGGTTCTCTTAGTCTGATTTGTTGTTATTGTTAATGTTGGATCAAATATAACCGAGTATTAGC
* * * *
6943098 TGACTTGTGTAGAAACGTTCACTCAAGTGCCACATGGACTATCGCATACTTAAGCAAAGGAGTGT
325 TGACTTGCGTAGAAACATTCACTCAAGTGCCACACGGACTATCACATACTTAAGCAAAGGAGTGT
* * *
6943163 AGTTCGTGACACTAAACATCATTCTCAGAAAGCAAACTCTAAAGTATTGTCCCTCCCTTTCTTTC
390 AGTTCGTGACACTAAACATCATTCTCAAAAAGCAAACTCTAAAGTACTGTCCCTCCCTCTCTTTC
6943228 TTCACCTTTAGTTGTAAAA
455 TTCACCTTTAGTTGTAAAA
6943247 CTGCTCCCCT
Statistics
Matches: 443, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
490 1 0.00
491 442 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (491 bp):
ATTTCAAGCACTGTAATGACTACTGGTTGAATATTTGTAAAATATCATAAACTCTTTATAGGGGG
TGAGCAGTCGACGGATTGTTGGACTGCCTCACTGATAAAGGTATGTTTATAACGAATCATCTAGG
GCTGCCCTTATGACCCGATTATGGCGTGTCTTGGTCCCTTTATAATTAATTTCATATTAATAAAA
CATTTTTTCGTTTTATGACTAAGTGGTTGCATACATAACATTCGTTGTGCCTTTTGATTTTGATG
CGGGTTCTCTTAGTCTGATTTGTTGTTATTGTTAATGTTGGATCAAATATAACCGAGTATTAGCT
GACTTGCGTAGAAACATTCACTCAAGTGCCACACGGACTATCACATACTTAAGCAAAGGAGTGTA
GTTCGTGACACTAAACATCATTCTCAAAAAGCAAACTCTAAAGTACTGTCCCTCCCTCTCTTTCT
TCACCTTTAGTTGTAAAATTGTTCCCTTTTTAGCCT
Found at i:6943548 original size:26 final size:25
Alignment explanation
Indices: 6943519--6943568 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
6943509 TTTTTTTCTC
6943519 TTTTTCTCTATATTTTTCCTTCTTTT
1 TTTTTCTCTATATTTTTCC-TCTTTT
* *
6943545 TTTTTCTCTTTTTTTTTCCTCTTT
1 TTTTTCTCTATATTTTTCCTCTTT
6943569 CTCTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTCTCTATATTTTTCCTCTTTT
Found at i:6943551 original size:10 final size:10
Alignment explanation
Indices: 6943490--6943560 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
6943480 GACTTTTTCC
6943490 TTTTTTT-TT
1 TTTTTTTCTT
* *
6943499 TGTTTTTCCT
1 TTTTTTTCTT
*
6943509 TTTTTTTCTC
1 TTTTTTTCTT
*
6943519 TTTTTCTCTAT
1 TTTTTTTCT-T
6943530 ATTTTTCCTTCTT
1 -TTTTT--TTCTT
6943543 TTTTTTTCTCT
1 TTTTTTTCT-T
6943554 TTTTTTT
1 TTTTTTT
6943561 TCCTCTTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.12
10 20 0.42
11 8 0.17
12 10 0.21
13 1 0.02
14 3 0.06
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:6943566 original size:13 final size:13
Alignment explanation
Indices: 6943531--6943568 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
6943521 TTTCTCTATA
6943531 TTTTTCCTTCTTTT
1 TTTTTCC-TCTTTT
6943545 TTTTT-CTCTTTT
1 TTTTTCCTCTTTT
6943557 TTTTTCCTCTTT
1 TTTTTCCTCTTT
6943569 CTCTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.48
13 7 0.30
14 5 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCCTCTTTT
Found at i:6943589 original size:3 final size:3
Alignment explanation
Indices: 6943581--6943613 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6943571 CTAATAAACC
6943581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6943614 AAACCTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6945588 original size:23 final size:23
Alignment explanation
Indices: 6945521--6945626 Score: 115
Period size: 23 Copynumber: 4.7 Consensus size: 23
6945511 ATGTGTGACA
*
6945521 TGAGAAT-TGTAACATGCCATGG
1 TGAGAATATGTGACATGCCATGG
* * ****
6945543 TGGGAATGTGTGACAAAAAATGG
1 TGAGAATATGTGACATGCCATGG
*
6945566 TGAGAATTTGTGACATGCCATGG
1 TGAGAATATGTGACATGCCATGG
* *
6945589 TGAGAATATGTGAGATGGCATGG
1 TGAGAATATGTGACATGCCATGG
6945612 TGAGAATATGTGACA
1 TGAGAATATGTGACA
6945627 CAACTGTGAC
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
22 6 0.09
23 61 0.91
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.26
Consensus pattern (23 bp):
TGAGAATATGTGACATGCCATGG
Found at i:6945669 original size:81 final size:78
Alignment explanation
Indices: 6945572--6945858 Score: 241
Period size: 81 Copynumber: 3.7 Consensus size: 78
6945562 ATGGTGAGAA
* * * *
6945572 TTTGTGACATGCCATGGTGAGAATATGTGAGATGGCATGGTGAGAATATGTGACACAACTGTGAC
1 TTTGTGACACGCCATGGTGAGAATATGTGACACGACATGGTGAGAATATGTGACAC-ACTGTGAC
6945637 ATAGTAGGGTTTAAAG
65 A-AGTA-GGTTTAAAG
* * * * **
6945653 TTTGTGACACGCCATGGAGGGAATATGTGACACAATAAAGTGAGAATATGTG--ACAC-GT--C-
1 TTTGTGACACGCCATGGTGAGAATATGTGACACGACATGGTGAGAATATGTGACACACTGTGACA
* *
6945712 A-T-GGTGTGAA-
66 AGTAGGTTTAAAG
* * * *
6945722 TATGTGACACGCCATAGTGAGAATATGTGAGACGACATGGTGAGAATATGTGACACGACTATGAC
1 TTTGTGACACGCCATGGTGAGAATATGTGACACGACATGGTGAGAATATGTGACAC-ACTGTGAC
* * *
6945787 ACAGCAAGATTTAGAG
65 A-AG-TAGGTTTAAAG
* * * * *
6945803 TTTGTGACACGCCATGGTGAGAATGTGTGACATGGCATGGTGAAAATGTGTGACAC
1 TTTGTGACACGCCATGGTGAGAATATGTGACACGACATGGTGAGAATATGTGACAC
6945859 GGTAAGGTGA
Statistics
Matches: 159, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
69 43 0.27
70 6 0.04
71 2 0.01
72 3 0.02
73 2 0.01
75 2 0.01
77 3 0.02
78 2 0.01
79 2 0.01
80 4 0.03
81 90 0.57
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (78 bp):
TTTGTGACACGCCATGGTGAGAATATGTGACACGACATGGTGAGAATATGTGACACACTGTGACA
AGTAGGTTTAAAG
Found at i:6945778 original size:46 final size:46
Alignment explanation
Indices: 6945655--6945780 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
6945645 GTTTAAAGTT
* * * * *
6945655 TGTGACACGCCATGGAGGGAATATGTGACACAATAAAGTGAGAATA
1 TGTGACACGACATGGTGAGAATATGTGACACGACAAAGTGAGAATA
* * * *
6945701 TGTGACACGTCATGGTGTGAATATGTGACACGCCATAGTGAGAATA
1 TGTGACACGACATGGTGAGAATATGTGACACGACAAAGTGAGAATA
*
6945747 TGTGAGACGACATGGTGAGAATATGTGACACGAC
1 TGTGACACGACATGGTGAGAATATGTGACACGAC
6945781 TATGACACAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.22
Consensus pattern (46 bp):
TGTGACACGACATGGTGAGAATATGTGACACGACAAAGTGAGAATA
Found at i:6945779 original size:23 final size:23
Alignment explanation
Indices: 6945655--6945780 Score: 144
Period size: 23 Copynumber: 5.5 Consensus size: 23
6945645 GTTTAAAGTT
* * *
6945655 TGTGACACGCCATGGAGGGAATA
1 TGTGACACGACATGGTGAGAATA
* * **
6945678 TGTGACACAATAAAGTGAGAATA
1 TGTGACACGACATGGTGAGAATA
* *
6945701 TGTGACACGTCATGGTGTGAATA
1 TGTGACACGACATGGTGAGAATA
* *
6945724 TGTGACACGCCATAGTGAGAATA
1 TGTGACACGACATGGTGAGAATA
*
6945747 TGTGAGACGACATGGTGAGAATA
1 TGTGACACGACATGGTGAGAATA
6945770 TGTGACACGAC
1 TGTGACACGAC
6945781 TATGACACAG
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.22
Consensus pattern (23 bp):
TGTGACACGACATGGTGAGAATA
Found at i:6945833 original size:23 final size:23
Alignment explanation
Indices: 6945805--6945947 Score: 126
Period size: 23 Copynumber: 6.1 Consensus size: 23
6945795 ATTTAGAGTT
* *
6945805 TGTGACACGCCATGGTGAGAATG
1 TGTGACACGGCATGGTGAGAATA
* * *
6945828 TGTGACATGGCATGGTGAAAATG
1 TGTGACACGGCATGGTGAGAATA
* * *
6945851 TGTGACACGGTAAGGTGAGAATC
1 TGTGACACGGCATGGTGAGAATA
* * *
6945874 TGTGATATGGCATGGTGAGAATT
1 TGTGACACGGCATGGTGAGAATA
*
6945897 TGTGACACGGTATGGTGAGAATATA
1 TGTGACACGGCATGGTGAG-A-ATA
**
6945922 TGTGACACACCATGGATG-GAATA
1 TGTGACACGGCATGG-TGAGAATA
6945945 TGT
1 TGT
6945948 TACATGCCAT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
23 78 0.80
24 2 0.02
25 15 0.15
26 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (23 bp):
TGTGACACGGCATGGTGAGAATA
Found at i:6945855 original size:150 final size:148
Alignment explanation
Indices: 6945521--6945930 Score: 433
Period size: 150 Copynumber: 2.7 Consensus size: 148
6945511 ATGTGTGACA
* * * *** *
6945521 TGAGAATTGTAACATGCCATGGTGGGAATGTGTGACAAAAAATGGTGAGAATTTGTGACATGCCA
1 TGAGAATTGTGACATGACATGGTGAGAATGTGTGAC-ACGTATGGTGAGAATATGTGACATGCCA
* * * * * *
6945586 TGGTGAGAATATGTGAGATGGCATGGTGAGAATATGTGACACAACTGTGACATAGTAGGGTTTAA
65 TGGTGAGAATATGTGAGACGGCATGGTGAGAATATGTGACACAACTATGACACAGCAAGATTTAA
6945651 AGTTTGTGACACGCCATGG
130 AGTTTGTGACACGCCATGG
* * ** * ** * * *
6945670 AGGGAATATGTGACACAATAAAGTGAGAATATGTGACACGTCATGGTGTGAATATGTGACACGCC
1 TGAGAAT-TGTGACATGACATGGTGAGAATGTGTGACACGT-ATGGTGAGAATATGTGACATGCC
* * *
6945735 ATAGTGAGAATATGTGAGACGACATGGTGAGAATATGTGACACGACTATGACACAGCAAGATTTA
64 ATGGTGAGAATATGTGAGACGGCATGGTGAGAATATGTGACACAACTATGACACAGCAAGATTTA
*
6945800 GAGTTTGTGACACGCCATGG
129 AAGTTTGTGACACGCCATGG
* * * * * *
6945820 TGAGAATGTGTGACATGGCATGGTGAAAATGTGTGACACGGTAAGGTGAGAATCTGTGATATGGC
1 TGAGAAT-TGTGACATGACATGGTGAGAATGTGTGACAC-GTATGGTGAGAATATGTGACATGCC
* * *
6945885 ATGGTGAGAATTTGTGACACGGTATGGTGAGAATATATGTGACACA
64 ATGGTGAGAATATGTGAGACGGCATGGTGAG-A-ATATGTGACACA
6945931 CCATGGATGG
Statistics
Matches: 206, Mismatches: 50, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
149 6 0.03
150 186 0.90
151 3 0.01
152 11 0.05
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (148 bp):
TGAGAATTGTGACATGACATGGTGAGAATGTGTGACACGTATGGTGAGAATATGTGACATGCCAT
GGTGAGAATATGTGAGACGGCATGGTGAGAATATGTGACACAACTATGACACAGCAAGATTTAAA
GTTTGTGACACGCCATGG
Found at i:6945858 original size:46 final size:46
Alignment explanation
Indices: 6945805--6945918 Score: 165
Period size: 46 Copynumber: 2.5 Consensus size: 46
6945795 ATTTAGAGTT
** *
6945805 TGTGACACGCCATGGTGAGAATGTGTGACATGGCATGGTGAAAATG
1 TGTGACACGGTATGGTGAGAATCTGTGACATGGCATGGTGAAAATG
* * * *
6945851 TGTGACACGGTAAGGTGAGAATCTGTGATATGGCATGGTGAGAATT
1 TGTGACACGGTATGGTGAGAATCTGTGACATGGCATGGTGAAAATG
6945897 TGTGACACGGTATGGTGAGAAT
1 TGTGACACGGTATGGTGAGAAT
6945919 ATATGTGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.28, C:0.11, G:0.35, T:0.26
Consensus pattern (46 bp):
TGTGACACGGTATGGTGAGAATCTGTGACATGGCATGGTGAAAATG
Found at i:6945936 original size:25 final size:24
Alignment explanation
Indices: 6945884--6945945 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
6945874 TGTGATATGG
**
6945884 CATGGTGAGAAT-TTGTGACACGG
1 CATGGTGAGAATATTGTGACACAC
*
6945907 TATGGTGAGAATATATGTGACACAC
1 CATGGTGAGAATAT-TGTGACACAC
6945932 CATGGATG-GAATAT
1 CATGG-TGAGAATAT
6945946 GTTACATGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.34
24 1 0.03
25 18 0.56
26 2 0.06
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (24 bp):
CATGGTGAGAATATTGTGACACAC
Found at i:6949162 original size:35 final size:35
Alignment explanation
Indices: 6949072--6949170 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
6949062 CGTGTGATGG
*
6949072 TATTGAAATGTGCGTGTAG-GAAGTGCACATAATGA
1 TATTGAAATGCGCGTGTAGAG-AGTGCACATAATGA
* * * *
6949107 TATTGAAATGTGAGTATAGAGAGTGCACATGATGA
1 TATTGAAATGCGCGTGTAGAGAGTGCACATAATGA
***
6949142 TATTGCCTTGCGCGTGTAGAGAGTGCACA
1 TATTGAAATGCGCGTGTAGAGAGTGCACA
6949171 AGAGCTGATG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 53 0.98
36 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (35 bp):
TATTGAAATGCGCGTGTAGAGAGTGCACATAATGA
Found at i:6950206 original size:18 final size:18
Alignment explanation
Indices: 6950157--6950221 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
6950147 CATTGTAAAC
6950157 ATTTTTA-TTTATTAT-T
1 ATTTTTATTTTATTATAT
* * *
6950173 -TTTTTATCTGACTATAT
1 ATTTTTATTTTATTATAT
6950190 ATTTTTATTTTATTATAT
1 ATTTTTATTTTATTATAT
*
6950208 CCTTTTTATATTTA
1 -ATTTTTAT-TTTA
6950222 AGTATTTACT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 6 0.16
16 5 0.14
17 1 0.03
18 14 0.38
19 7 0.19
20 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTATTTTATTATAT
Found at i:6950585 original size:3 final size:3
Alignment explanation
Indices: 6950577--6950611 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
6950567 CCCTTAGTAC
6950577 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
6950612 TTCATTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 26 0.87
4 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.