Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 26 of 32
Found at i:3737635 original size:20 final size:20
Alignment explanation
Indices: 3737592--3737637 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3737582 AAATCTTTTG
3737592 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3737613 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3737633 CAAAA
1 CAAAA
3737638 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3739379 original size:38 final size:40
Alignment explanation
Indices: 3739324--3739403 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 40
3739314 GGGAGATAAA
*
3739324 GGGGAGAATGCATAAA-TTGCTACAA-TTATTTT-ATTAAG
1 GGGGAGAATGCACAAATTTGCTA-AATTTATTTTGATTAAG
* *
3739362 GGGGAGAATGTACAAATTTGTTAAATTTATTTTGATTAAG
1 GGGGAGAATGCACAAATTTGCTAAATTTATTTTGATTAAG
3739402 GG
1 GG
3739404 AGAAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 16 0.44
39 12 0.33
40 8 0.22
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (40 bp):
GGGGAGAATGCACAAATTTGCTAAATTTATTTTGATTAAG
Found at i:3740044 original size:13 final size:13
Alignment explanation
Indices: 3740026--3740051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3740016 TACAGCAAGT
3740026 ATGTATCGATACA
1 ATGTATCGATACA
3740039 ATGTATCGATACA
1 ATGTATCGATACA
3740052 CAAAAAATTT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3741407 original size:10 final size:9
Alignment explanation
Indices: 3741392--3741452 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
3741382 AGACCCCTTT
*
3741392 TTTTTTGTTA
1 TTTTTT-TTG
3741402 TTTTTTCTTG
1 TTTTTT-TTG
*
3741412 GTTTTTTTG
1 TTTTTTTTG
*
3741421 TTTTATTT-
1 TTTTTTTTG
*
3741429 TTTTTTGT-
1 TTTTTTTTG
3741437 TTTTTTTTG
1 TTTTTTTTG
3741446 TTTTTTT
1 TTTTTTT
3741453 GGGGTGTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
8 13 0.31
9 16 0.38
10 13 0.31
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:3741418 original size:24 final size:23
Alignment explanation
Indices: 3741389--3741452 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
3741379 TCTAGACCCC
3741389 TTTTTTTTTGTTATTTTTTCTTGG
1 TTTTTTTTTGTTATTTTTT-TTGG
*
3741413 TTTTTTTGTT-TTATTTTTTTTTG
1 TTTTTTT-TTGTTATTTTTTTTGG
3741436 TTTTTTTTTGTT-TTTTT
1 TTTTTTTTTGTTATTTTT
3741453 GGGGTGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 7 0.19
23 12 0.32
24 16 0.43
25 2 0.05
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.86
Consensus pattern (23 bp):
TTTTTTTTTGTTATTTTTTTTGG
Found at i:3741419 original size:14 final size:12
Alignment explanation
Indices: 3741389--3741452 Score: 62
Period size: 13 Copynumber: 5.4 Consensus size: 12
3741379 TCTAGACCCC
3741389 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
3741401 ATTTTTTCTTGGTT
1 -TTTTTT-TTTGTT
* *
3741415 TTTTTGTTT-TA
1 TTTTTTTTTGTT
3741426 TTTTTTTTTG--
1 TTTTTTTTTGTT
3741436 TTTTTTTTTGTT
1 TTTTTTTTTGTT
3741448 TTTTT
1 TTTTT
3741453 GGGGTGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 10 0.24
11 9 0.21
12 7 0.17
13 11 0.26
14 5 0.12
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:3741433 original size:15 final size:14
Alignment explanation
Indices: 3741413--3741449 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
3741403 TTTTTCTTGG
3741413 TTTTTTTGTTTTATT
1 TTTTTTTGTTTT-TT
3741428 TTTTTTTGTTTTTT
1 TTTTTTTGTTTTTT
3741442 TTTGTTTT
1 TTT-TTTT
3741450 TTTGGGGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (14 bp):
TTTTTTTGTTTTTT
Found at i:3749353 original size:13 final size:13
Alignment explanation
Indices: 3749335--3749359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3749325 CAAAGATCAG
3749335 TGTATCGATACAA
1 TGTATCGATACAA
3749348 TGTATCGATACA
1 TGTATCGATACA
3749360 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3749442 original size:13 final size:13
Alignment explanation
Indices: 3749424--3749448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3749414 CAAAAAAATA
3749424 TGTATCGATACAT
1 TGTATCGATACAT
3749437 TGTATCGATACA
1 TGTATCGATACA
3749449 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3749444 original size:33 final size:33
Alignment explanation
Indices: 3749402--3749468 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3749392 AGTAGCTTAA
3749402 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3749435 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3749468 A
1 A
3749469 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3750466 original size:171 final size:171
Alignment explanation
Indices: 3750267--3750661 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
3750257 TTTTAGAGAT
*
3750267 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
3750332 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
3750397 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
3750438 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
3750503 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
3750568 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
3750609 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
3750662 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:3750484 original size:49 final size:49
Alignment explanation
Indices: 3750338--3750496 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
3750328 AAAAGTGATA
* * * * *
3750338 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
3750389 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3750442 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3750491 ATGATG
1 AAGATG
3750497 AGAAGAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:3750713 original size:49 final size:49
Alignment explanation
Indices: 3750575--3751440 Score: 1087
Period size: 49 Copynumber: 17.7 Consensus size: 49
3750565 GGATGTCAAC
* *
3750575 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
3750627 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
3750670 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
3750719 ATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAAT
* *
3750767 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * * *
3750816 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
3750865 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* *
3750917 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
3750960 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
3751008 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
3751060 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
3751109 GTGCTGAGTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * *
3751158 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* * * *
3751207 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
3751256 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
3751308 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
3751357 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
* * *
3751409 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
3751441 GAGGGGTTGC
Statistics
Matches: 715, Mismatches: 71, Indels: 56
0.85 0.08 0.07
Matches are distributed among these distances:
43 77 0.11
44 2 0.00
46 2 0.00
48 86 0.12
49 355 0.50
51 2 0.00
52 191 0.27
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
Found at i:3751146 original size:101 final size:98
Alignment explanation
Indices: 3750513--3751440 Score: 1265
Period size: 101 Copynumber: 9.4 Consensus size: 98
3750503 GTGATAAAGA
* * * * * * *
3750513 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAACGTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG-TGCCAATGTG
* * *
3750578 CTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATG
60 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
*
3750620 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
3750679 CAAGGCCAGCTACATTGGACTTAAAGATAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
3750712 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTGCTGAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATGTGCTGAG
* *
3750775 TCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
65 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
3750809 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3750874 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
*
3750910 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
3750969 CAAGGCCAGCTACATTGGACTTAAAGGTG-AGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
3751001 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTG
* *
3751066 ATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
63 AGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
3751102 TGCCAATGTGCTGAGTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
3751167 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
3751200 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3751265 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
3751301 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3751366 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
*
3751402 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
3751441 GAGGGGTTGC
Statistics
Matches: 761, Mismatches: 35, Indels: 56
0.89 0.04 0.07
Matches are distributed among these distances:
91 45 0.06
92 33 0.04
94 1 0.00
95 88 0.12
96 4 0.01
97 80 0.11
98 201 0.26
99 1 0.00
100 47 0.06
101 227 0.30
103 1 0.00
107 33 0.04
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:3751509 original size:31 final size:31
Alignment explanation
Indices: 3751433--3751572 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
3751423 CCAGCTATAT
* *
3751433 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
3751463 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
3751491 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
3751522 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
3751556 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
3751573 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:3751553 original size:34 final size:32
Alignment explanation
Indices: 3751433--3751571 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
3751423 CCAGCTATAT
*
3751433 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
3751463 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
3751491 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
3751522 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
3751556 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
3751572 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:3751696 original size:105 final size:99
Alignment explanation
Indices: 3751574--3751775 Score: 246
Period size: 105 Copynumber: 2.0 Consensus size: 99
3751564 AGAGAGGGTG
*
3751574 AAAGATGTCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCACAG-AGTTATGGGCTTTAAAA
1 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA-AAGAGTGCCAC-GTAGTTATGGGCTTT--AA
* * *
3751637 AGGAAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
62 AGG---AAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGAA
* * * *
3751678 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG
1 AAAGA-TGCCACGAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTATGGGCTTTAAAGG
3751743 AAAAGAGTGCCACGGAGTCGTGGACTTAAAAGG
65 AAAAGAGTGCCACGGAGTCGTGGACTTAAAAGG
3751776 GTGCCACGGA
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
100 30 0.34
103 5 0.06
104 9 0.10
105 43 0.49
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.19
Consensus pattern (99 bp):
AAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTATGGGCTTTAAAGGA
AAAGAGTGCCACGGAGTCGTGGACTTAAAAGGAA
Found at i:3751719 original size:33 final size:33
Alignment explanation
Indices: 3751574--3751828 Score: 249
Period size: 33 Copynumber: 7.7 Consensus size: 33
3751564 AGAGAGGGTG
* * * *
3751574 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
* * *
3751606 ACAAG-GTGCCACAGAGTTATGGGCTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AGAAGG---A
3751644 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
3751678 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
*
3751711 AAAGAGTGCCACGTAGTTGTGGGCTTTA-AAGGA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGA
* *
3751744 AAAGAGTGCCACGGAGTCGTGGACTT------A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
* *
3751771 AAAGGGTGCCACGGAGTTATGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
3751804 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
3751829 AGTGCCATGG
Statistics
Matches: 188, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
27 23 0.12
32 3 0.02
33 71 0.38
34 39 0.21
35 23 0.12
36 5 0.03
37 5 0.03
38 19 0.10
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
Found at i:3751797 original size:27 final size:27
Alignment explanation
Indices: 3751743--3751802 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
3751733 GCTTTAAAGG
* *
3751743 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCATGGACTT
* *
3751770 AAAAGGGTGCCACGGAGTTATGGGCTT
1 AAAAGGGTGCCACGGAGTCATGGACTT
*
3751797 AGAAGG
1 AAAAGG
3751803 AAAAGAAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.15, G:0.37, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCATGGACTT
Found at i:3751835 original size:19 final size:19
Alignment explanation
Indices: 3751811--3751847 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3751801 GGAAAAGAAG
3751811 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
*
3751830 GTGCCATGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
3751848 CTTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.49, T:0.24
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:3751869 original size:54 final size:54
Alignment explanation
Indices: 3751776--3751882 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
3751766 ACTTAAAAGG
* * *
3751776 GTGCCACGGAGTTATGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTATGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
* *
3751830 GTGCCATGGAGTTGTGGGCTTTAAAAAG-AAA-AAGTGTGCCACAGAGTTGTGGG
1 GTGCCACGGAGTTATGGGC-TTAAAAAGAAAAGAAG-GTGCCACAGAGTTGTGGG
3751883 CTTTGAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.07
54 37 0.80
55 6 0.13
ACGTcount: A:0.28, C:0.12, G:0.38, T:0.21
Consensus pattern (54 bp):
GTGCCACGGAGTTATGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
Found at i:3751877 original size:35 final size:35
Alignment explanation
Indices: 3751838--3752031 Score: 289
Period size: 35 Copynumber: 5.4 Consensus size: 35
3751828 GAGTGCCATG
3751838 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
1 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
* *
3751873 GAGTTGTGGGCTTTGAAAAGGGAAAAAAGAGTGCCACA
1 GAGTTGTGGGCTTT-AAAA-AG-AAAAAGTGTGCCACA
*
3751911 GAGTTGTGGGCTTTGAAAAGAAAAAGTGTGCCACA
1 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
* * *
3751946 GAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACG
1 GAGTTGTGGGCTTT-AAAA-AGAAAAAGTGTGCCACA
3751983 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
1 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
3752018 GAGTTGTGGGCTTT
1 GAGTTGTGGGCTTT
3752032 GAAGAAAAAA
Statistics
Matches: 142, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
35 70 0.49
36 12 0.08
37 32 0.23
38 28 0.20
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.23
Consensus pattern (35 bp):
GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACA
Found at i:3752013 original size:72 final size:73
Alignment explanation
Indices: 3751828--3752034 Score: 380
Period size: 72 Copynumber: 2.8 Consensus size: 73
3751818 GGAGTTGTGG
*
3751828 GAGTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
3751893 GGAAAAAA
66 GGAAAAAA
* *
3751901 GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
3751966 GG-AAAAA
66 GGAAAAAA
3751973 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
3752035 GAAAAAATGC
Statistics
Matches: 129, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
72 65 0.50
73 64 0.50
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (73 bp):
GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GGAAAAAA
Found at i:3752074 original size:30 final size:31
Alignment explanation
Indices: 3752011--3752092 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 31
3752001 AGAAAAAGTG
* * *
3752011 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
3752042 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
3752072 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
3752093 AAAAAGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 28 0.60
31 19 0.40
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:3753080 original size:1 final size:1
Alignment explanation
Indices: 3753033--3753066 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
3753023 TGAAAAGGGG
*
3753033 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3753067 GCATCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:3753144 original size:11 final size:11
Alignment explanation
Indices: 3753130--3753159 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3753120 GATTTTCTGT
*
3753130 TTTTTTTTTTC
1 TTTTTTTTTCC
3753141 TTTTTTTTTCC
1 TTTTTTTTTCC
3753152 TTTTTTTT
1 TTTTTTTT
3753160 GTGTTTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:3759929 original size:13 final size:13
Alignment explanation
Indices: 3759911--3759935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3759901 CAAAGATCAG
3759911 TGTATCGATACAA
1 TGTATCGATACAA
3759924 TGTATCGATACA
1 TGTATCGATACA
3759936 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3760018 original size:13 final size:13
Alignment explanation
Indices: 3760000--3760024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3759990 CAAAAAAATA
3760000 TGTATCGATACAT
1 TGTATCGATACAT
3760013 TGTATCGATACA
1 TGTATCGATACA
3760025 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3760020 original size:33 final size:33
Alignment explanation
Indices: 3759978--3760044 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3759968 AGTAGCTTAA
3759978 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3760011 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3760044 A
1 A
3760045 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3760623 original size:21 final size:22
Alignment explanation
Indices: 3760581--3760631 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
3760571 AGTCGATTCA
*
3760581 TTATTTACTTCTTACAACTCAT
1 TTATTTTCTTCTTACAACTCAT
3760603 TTATTTTCTTCTCTA-AA-TCAT
1 TTATTTTCTTCT-TACAACTCAT
*
3760624 TTACTTTC
1 TTATTTTC
3760632 ATTTCAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
22 13 0.50
23 2 0.08
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTTCTTCTTACAACTCAT
Found at i:3762320 original size:35 final size:36
Alignment explanation
Indices: 3762236--3762335 Score: 145
Period size: 34 Copynumber: 2.9 Consensus size: 36
3762226 CTTACAATCT
* *
3762236 TATC-TTTTCACAGGCTAAAATAAAACCT-TCTCCC
1 TATCTTTTTCACAGGCTAAGATAGAACCTCTCTCCC
3762270 TAT-TTTTTCACAGGCTAAGATAGAACCTCT-TCCC
1 TATCTTTTTCACAGGCTAAGATAGAACCTCTCTCCC
*
3762304 TATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 TATCTTTTTCACAGGCTAAGATAGAACCTCTC
3762336 AATCACTTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
34 32 0.54
35 27 0.46
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (36 bp):
TATCTTTTTCACAGGCTAAGATAGAACCTCTCTCCC
Found at i:3767146 original size:62 final size:63
Alignment explanation
Indices: 3767076--3767204 Score: 199
Period size: 63 Copynumber: 2.1 Consensus size: 63
3767066 AATCTGCCAT
*
3767076 TATTGTTGTGGTTGC-AAAAGAC-TTGACTTAAAAAAATGTGTTTGAAAATTGCTTCACAAAAG
1 TATTGTTGTGGTT-CAAAAAGACTTTGACTTAAAAAAATGTGTTTGAAAATTGATTCACAAAAG
* * *
3767138 TATTGTTGTGGTTCAAAAAGACTTTGGCTTAAAAACATGTGTTTGAAAATTGATTCACAAAAT
1 TATTGTTGTGGTTCAAAAAGACTTTGACTTAAAAAAATGTGTTTGAAAATTGATTCACAAAAG
3767201 TATT
1 TATT
3767205 ATGAAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 1 0.02
62 20 0.33
63 40 0.66
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (63 bp):
TATTGTTGTGGTTCAAAAAGACTTTGACTTAAAAAAATGTGTTTGAAAATTGATTCACAAAAG
Found at i:3767392 original size:18 final size:18
Alignment explanation
Indices: 3767366--3767402 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3767356 TAACTTGAAT
* *
3767366 TATGGGTCTTGAATTTTG
1 TATGAGTCTTAAATTTTG
3767384 TATGAGTCTTAAATTTTG
1 TATGAGTCTTAAATTTTG
3767402 T
1 T
3767403 TCGAGCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.22, T:0.51
Consensus pattern (18 bp):
TATGAGTCTTAAATTTTG
Found at i:3767662 original size:25 final size:24
Alignment explanation
Indices: 3767574--3767663 Score: 69
Period size: 25 Copynumber: 3.7 Consensus size: 24
3767564 TTTTTTAATG
* * *
3767574 TTTATATTAT-AATATTATATATA
1 TTTATATAATAAAAATTACATATA
3767597 TTTTATATAATAAAAATTACATA-A
1 -TTTATATAATAAAAATTACATATA
*
3767621 TGTATATAAATATAAAATTA-ATATA
1 TTTATAT-AATA-AAAATTACATATA
*
3767646 TATTACATAATTAAAAAT
1 T-TTATATAA-TAAAAAT
3767664 AGAATGGACT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
23 6 0.11
24 17 0.31
25 25 0.46
26 6 0.11
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (24 bp):
TTTATATAATAAAAATTACATATA
Found at i:3771779 original size:2 final size:2
Alignment explanation
Indices: 3771772--3771816 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3771762 TGGGATCAGG
3771772 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3771814 TC T
1 TC T
3771817 GTGTATGTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3772888 original size:2 final size:2
Alignment explanation
Indices: 3772881--3772914 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3772871 TAAAAATTGA
3772881 AT AT AT AT 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 AT AT AT AT
3772915 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3773945 original size:19 final size:18
Alignment explanation
Indices: 3773919--3773958 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3773909 ATTTAATTAA
*
3773919 TTAAATTTAGATATAATT
1 TTAAATTTAAATATAATT
*
3773937 TTAATATTTAAATATTATT
1 TTAA-ATTTAAATATAATT
3773956 TTA
1 TTA
3773959 TTATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTAAATTTAAATATAATT
Found at i:3774874 original size:2 final size:2
Alignment explanation
Indices: 3774867--3774907 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
3774857 GTTAATGATA
*
3774867 AT AT AT AT AT AT AT AT AT AT A- AA AT AT A- AT AT A- 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
3774906 AT
1 AT
3774908 TAATAAAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3774882 original size:10 final size:10
Alignment explanation
Indices: 3774867--3774907 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
3774857 GTTAATGATA
3774867 ATATATATAT
1 ATATATATAT
3774877 ATATATATAT
1 ATATATATAT
*
3774887 A-AAATATA-
1 ATATATATAT
3774895 ATATA-ATAT
1 ATATATATAT
3774904 ATAT
1 ATAT
3774908 TAATAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 4 0.15
9 12 0.44
10 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATAT
Found at i:3774893 original size:21 final size:21
Alignment explanation
Indices: 3774866--3774907 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
3774856 TGTTAATGAT
3774866 AATATATATATATATATATATAA
1 AATATA-ATATA-ATATATATAA
3774889 AATATAATATAATATATAT
1 AATATAATATAATATATAT
3774908 TAATAAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAATATAATATATATAA
Found at i:3774911 original size:10 final size:11
Alignment explanation
Indices: 3774864--3774912 Score: 66
Period size: 10 Copynumber: 4.5 Consensus size: 11
3774854 AATGTTAATG
3774864 ATAATATATAT
1 ATAATATATAT
3774875 AT-ATATATAT
1 ATAATATATAT
*
3774885 ATAAAATATAAT
1 ATAATATAT-AT
3774897 ATAATATATAT
1 ATAATATATAT
3774908 -TAATA
1 ATAATA
3774913 AAGGGTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 15 0.44
11 9 0.26
12 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATATATAT
Found at i:3775288 original size:32 final size:30
Alignment explanation
Indices: 3775243--3775314 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 30
3775233 GATGAATATA
* *
3775243 ATAAAAAATAATTAATATATTAATAAAATTTAT
1 ATAAATAATTATTAATATA-T-A-AAAATTTAT
3775276 ATGAAATGAATTATTAATATATAAAAATTTAT
1 AT-AAAT-AATTATTAATATATAAAAATTTAT
3775308 ATAAATA
1 ATAAATA
3775315 TATAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 1 0.03
31 4 0.11
32 11 0.31
33 3 0.09
34 4 0.11
35 12 0.34
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
ATAAATAATTATTAATATATAAAAATTTAT
Found at i:3775340 original size:20 final size:21
Alignment explanation
Indices: 3775290--3775341 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3775280 AATGAATTAT
* *
3775290 TAATATATAAAAATTTATATA
1 TAATATATAATAATTTAAATA
3775311 -AATATATAATAATTTAAATA
1 TAATATATAATAATTTAAATA
3775331 TAAT-TATAATA
1 TAATATATAATA
3775342 TATAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATATATAATAATTTAAATA
Found at i:3775368 original size:45 final size:45
Alignment explanation
Indices: 3775284--3775383 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 45
3775274 ATATGAAATG
*
3775284 AATTATTAATATATAAAAATTTATATAAATATATAATAATTTAAATAT
1 AATTA-TAATATATAAAAA-TCATATAAATATATAATAA-TTAAATAT
* *
3775332 AATTATAATATATAAAAA-CATATCAATATA-ATATAATTATATAT
1 AATTATAATATATAAAAATCATATAAATATATA-ATAATTAAATAT
3775376 AATTATAA
1 AATTATAA
3775384 ATGAGCATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 16 0.33
45 14 0.29
47 13 0.27
48 5 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (45 bp):
AATTATAATATATAAAAATCATATAAATATATAATAATTAAATAT
Found at i:3775787 original size:2 final size:2
Alignment explanation
Indices: 3775780--3775808 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3775770 ACATACATAA
3775780 AT AT 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 AT AT A
3775809 AAAGAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3781471 original size:16 final size:17
Alignment explanation
Indices: 3781438--3781472 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3781428 TTATATGATA
*
3781438 AATATGATTTTGAAAAT
1 AATATGATTTTCAAAAT
3781455 AATATGA-TTTCAAAAT
1 AATATGATTTTCAAAAT
3781471 AA
1 AA
3781473 ATGTGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (17 bp):
AATATGATTTTCAAAAT
Found at i:3783723 original size:168 final size:162
Alignment explanation
Indices: 3783429--3783760 Score: 547
Period size: 168 Copynumber: 2.0 Consensus size: 162
3783419 ATGGTATCTA
3783429 ATATTTGAAATTGAAAAAAGAATAATATTTGGATTTAAGTTTATTTATGTACTTGAGGATATAAC
1 ATATTTGAAATTGAAAAAAGAATAATATTTGGATTTAAGTTTATTTATGTACTTGAGGATATAAC
* *
3783494 TTTAGGCATTGTGAAACTTATAGTCAAGTTGTTAAAAATATTATTTCAATTGTCGGTGTAAAAGA
66 TTTAGGCATTGTGAAACTTATAGCCAAGTTGTTAAAAAAATTATTTCAATTGTCGGTGTAAAAGA
*
3783559 AGATAACATTAATATGTGATTTTTATGAAGTG
131 AGATAACATTAATAAGTGATTTTTATGAAGTG
* *
3783591 ATATTTGAAATTGGAAAATGAATAATATTTGGATTTAAGTTTATTTATGTACTTGAGGATATATA
1 ATATTTGAAATTGAAAAAAGAATAATATTTGGATTTAAGTTTATTTATGTACTTGAGG----ATA
* *
3783656 TTTAACTTTAGGCATTGTGAAACTTATGGCCAAGTTGTTAAAAAAATTATTTCAATTGTCTGTGT
62 --TAACTTTAGGCATTGTGAAACTTATAGCCAAGTTGTTAAAAAAATTATTTCAATTGTCGGTGT
3783721 AAAAGAAGATAACATTAATAAGTGATTTTTATGAAGTG
125 AAAAGAAGATAACATTAATAAGTGATTTTTATGAAGTG
3783759 AT
1 AT
3783761 TAGGTGGTTG
Statistics
Matches: 157, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
162 56 0.36
166 3 0.02
168 98 0.62
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (162 bp):
ATATTTGAAATTGAAAAAAGAATAATATTTGGATTTAAGTTTATTTATGTACTTGAGGATATAAC
TTTAGGCATTGTGAAACTTATAGCCAAGTTGTTAAAAAAATTATTTCAATTGTCGGTGTAAAAGA
AGATAACATTAATAAGTGATTTTTATGAAGTG
Found at i:3784523 original size:3 final size:3
Alignment explanation
Indices: 3784515--3784585 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
3784505 CCCAACTTAG
*
3784515 ATA ATA ATA ATA ATA ACA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3784562 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
3784586 GCCCAAGTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3786700 original size:37 final size:38
Alignment explanation
Indices: 3786645--3786728 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
3786635 AAAATAGTAA
* * * * *
3786645 TTTTTATTTTTAATCATGCCATCA-TTTAGAATAATGG
1 TTTTTGTTTTGAACCATGCCATCAGTTGAGAATAACGG
* *
3786682 TTTTTGTTTTGAACCATGCTATTAGTTGAGAATAACGG
1 TTTTTGTTTTGAACCATGCCATCAGTTGAGAATAACGG
3786720 TTTTTGTTT
1 TTTTTGTTT
3786729 CGAATTATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 19 0.49
38 20 0.51
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (38 bp):
TTTTTGTTTTGAACCATGCCATCAGTTGAGAATAACGG
Found at i:3786753 original size:38 final size:38
Alignment explanation
Indices: 3786659--3786742 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
3786649 TATTTTTAAT
* * * *
3786659 CATGCCATCA-TTTAGAATAATGGTTTTTGTTTTGAAC
1 CATGCCATTAGTTGAGAATAACGGTTTTTGTTTCGAAC
* *
3786696 CATGCTATTAGTTGAGAATAACGGTTTTTGTTTCGAAT
1 CATGCCATTAGTTGAGAATAACGGTTTTTGTTTCGAAC
*
3786734 TATGCCATT
1 CATGCCATT
3786743 GGTTTGGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 8 0.21
38 30 0.79
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (38 bp):
CATGCCATTAGTTGAGAATAACGGTTTTTGTTTCGAAC
Found at i:3786903 original size:17 final size:17
Alignment explanation
Indices: 3786863--3786908 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
3786853 TTGTTATTTG
* *
3786863 ATAAATGTGATTTTGAA
1 ATAAATATGATTTGGAA
3786880 A-ATAATATGATTTGGAA
1 ATA-AATATGATTTGGAA
3786897 ATAAATAT-ATTT
1 ATAAATATGATTT
3786909 ATTGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 5 0.20
17 19 0.76
18 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (17 bp):
ATAAATATGATTTGGAA
Found at i:3790756 original size:147 final size:147
Alignment explanation
Indices: 3790188--3790759 Score: 324
Period size: 147 Copynumber: 3.9 Consensus size: 147
3790178 GAGATCTTAG
* * * * * **
3790188 AGGACTTAAAAAGAAAAAGCA-AACCTACGCCTACTATGTA-CTCTC-AGCATAAAAGTGACTTA
1 AGGACTTAAAAAGAAAATG-AGAACCTACACTTAATAAGTACCT-TCGA-CATAAAAGTGACCCA
* * * * * * **
3790250 GTGATAAATTAGGACTCAATGCTAAAAATTAC-AAAAATACCTTTATAG-GTATACTTTTGACAT
63 GTGACAAATTAGGACTCAGTTCTAAAAATTACGAAAAA-ACCGTGA-AGAGTATACCTTCAACAT
* ** * *
3790313 GAAAGTATCTTGGTAATCCTAA
126 AAAAGTATCTCAGCAACCCTAA
* * * * * * * * * * ** *
3790335 GGGACTTAGAAAGGAAAGGCGAACCTAAACCTAATATGTACCCTCGGCATAAAAGCAACCTAGTG
1 AGGACTTAAAAAGAAAATGAGAACCTACACTTAATAAGTACCTTCGACATAAAAGTGACCCAGTG
* * * ** * * ** * *
3790400 ACAAATTAAGACTCAATTCTAAAAATTATGAAAATGCCCCTAAAGGAGT-TA---AAAATTATGA
66 ACAAATTAGGACTCAGTTCTAAAAATTACGAAAA-AACCGTGAA-GAGTATACCTTCAA-CATAA
* ** *
3790461 AAGTATCCCAAAAATCCTAA
128 AAGTATCTCAGCAACCCTAA
** * * * *
3790481 AGGACTTAAAAAGAAAATGAGAACCTATGCTTAATATGTACCTTCGACATAGAAGTGATCCGGTG
1 AGGACTTAAAAAGAAAATGAGAACCTACACTTAATAAGTACCTTCGACATAAAAGTGACCCAGTG
* * ** * * * *
3790546 ACAAATTAGGACTCGGTTCTAAGAATTACGAAAATGCCGTTATGGGTATACCTTCGACATAAAAG
66 ACAAATTAGGACTCAGTTCTAAAAATTACGAAAAAACCGTGAAGAGTATACCTTCAACATAAAAG
3790611 TATCTCAGCAACCCTAA
131 TATCTCAGCAACCCTAA
* *
3790628 AGGACTTAAAAAGGAAAA-GTGAACCTACACTTAATAAGTATCC-TCGGCATAAAAGTGACCCAG
1 AGGACTTAAAAA-GAAAATGAGAACCTACACTTAATAAGTA-CCTTCGACATAAAAGTGACCCAG
* * * * *
3790691 TGACAAATTAGGACTTAGTTTTGAAAAATTATGAAAAAA-CGCTGAAGAG-ATATCTTCAACGTA
64 TGACAAATTAGGACTCAGTTCT-AAAAATTACGAAAAAACCG-TGAAGAGTATACCTTCAACATA
3790754 AAAGTA
127 AAAGTA
3790760 CCCAATACCC
Statistics
Matches: 322, Mismatches: 87, Indels: 32
0.73 0.20 0.07
Matches are distributed among these distances:
144 3 0.01
145 7 0.02
146 97 0.30
147 177 0.55
148 36 0.11
149 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (147 bp):
AGGACTTAAAAAGAAAATGAGAACCTACACTTAATAAGTACCTTCGACATAAAAGTGACCCAGTG
ACAAATTAGGACTCAGTTCTAAAAATTACGAAAAAACCGTGAAGAGTATACCTTCAACATAAAAG
TATCTCAGCAACCCTAA
Found at i:3793055 original size:165 final size:165
Alignment explanation
Indices: 3792758--3793351 Score: 540
Period size: 165 Copynumber: 3.6 Consensus size: 165
3792748 TTGTCTTATA
* * ** **
3792758 AAAACAATGCAAAACTCATAAAATAAATTTAATTTTGCAAAACTAATTTAATATGAATTTTATGA
1 AAAA-AATGAAAAACTCTTAAAATAAATAAAATTTT-CAAAACTAATTTAATATGAATTAAATGA
* * *
3792823 CAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCGCAAATATTTACGAAGTA
64 TAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCGCAAACATTTAAGAAGTA
* *
3792888 GAAAACTCCGTATTTTAAAAATA-AAAAATTTTAAGG
129 GAAAACTCCGTATTTCAAAAACAGAAAAATTTTAAGG
* * *
3792924 AAAAAATGAAAAACTCTTAAAAGTAAATGAAATTTTCAAAACTAATTTAATATGAAATAGATGAT
1 AAAAAATGAAAAACTCTTAAAA-TAAATAAAATTTTCAAAACTAATTTAATATGAATTAAATGAT
* * * *
3792989 GATATTTGATGAATTTTAAAAGTTATAAACCAAGAAAAATC-CCCATGTAAACATTTATAG-AGT
65 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCC-CGCAAACATTTA-AGAAGT
* **
3793052 AGAAAGCTCCGTATTTCGGAAACAGAAAAATTTTAAGG
128 AGAAAACTCCGTATTTCAAAAACAGAAAAATTTTAAGG
* * * ** * *
3793090 AAAAAATGAAAAAATCATGAAAATAAATAAAAGTTTCAAAAGGAATTTAATATGAGTTAAATAAT
1 AAAAAATGAAAAACTC-TTAAAATAAATAAAATTTTCAAAACTAATTTAATATGAATTAAATGAT
* * * * * * *
3793155 AATATTTGATGAATTTTAAAAATTTTAAACCAATG-AAAATC-CTCTCG-AAAAAATTACGGAGA
65 AATATTTGATGAATTTTAAAAATTATAAACCAA-GAAAAATCTC-CCCGCAAACATTTAAGAAGT
* * **
3793217 AGAAAACTTCGTATTTCGAAAACAAGAGGAATTTTAA--
128 AGAAAACTCCGTATTTCAAAAAC-AGAAAAATTTTAAGG
* * * ** ** ** * * *
3793254 AAGAAAATAAAAAATTCATGGAATAAAATAAAATTTTTGAAACTGTTTTAATGA-AAACTAAGTG
1 AA-AAAATGAAAAACTCTTAAAAT-AAATAAAATTTTCAAAACTAATTTAAT-ATGAATTAAATG
* *
3793318 ATAATATTTGATGAATATTAAAAATTTTAAACCA
63 ATAATATTTGATGAATTTTAAAAATTATAAACCA
3793352 GTGAAAATCT
Statistics
Matches: 354, Mismatches: 62, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
164 9 0.03
165 210 0.59
166 128 0.36
167 7 0.02
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
AAAAAATGAAAAACTCTTAAAATAAATAAAATTTTCAAAACTAATTTAATATGAATTAAATGATA
ATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCTCCCCGCAAACATTTAAGAAGTAGA
AAACTCCGTATTTCAAAAACAGAAAAATTTTAAGG
Found at i:3797124 original size:20 final size:20
Alignment explanation
Indices: 3797095--3797240 Score: 96
Period size: 20 Copynumber: 6.8 Consensus size: 20
3797085 TTTTACCCAG
3797095 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3797115 ATGTACCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
3797135 ATGTATCGATACATTTTGTCTTTTTACCTA
1 ATGTATCGATACA-------TTTTT--C-A
3797165 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* ** * *
3797186 ATGTAACGATACACGTATGA
1 ATGTATCGATACATTTTTCA
3797206 ATGTATCGATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
3797226 ATGTATCGATACATT
1 ATGTATCGATACATT
3797241 CTGTCTTTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 24
0.70 0.12 0.17
Matches are distributed among these distances:
20 71 0.73
21 3 0.03
22 1 0.01
24 5 0.05
27 3 0.03
30 1 0.01
31 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3797150 original size:40 final size:39
Alignment explanation
Indices: 3797095--3797239 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
3797085 TTTTACCCAG
3797095 ATGTATCGATACATTTTTCAATGTACCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTA-CGATACATGTATGA
** *
3797135 ATGTATCGATACATTTTGTC--T-T--TTTAC--CTA-G-
1 ATGTATCGATACATTTT-TCAATGTACGATACATGTATGA
*
3797166 ATGTATCGATACATTTTTCAATGTAACGATACACGTATGA
1 ATGTATCGATACATTTTTCAATGT-ACGATACATGTATGA
3797206 ATGTATCGATACATTCTTT-AATGTATCGATACAT
1 ATGTATCGATACATT-TTTCAATGTA-CGATACAT
3797240 TCTGTCTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
30 2 0.02
31 17 0.20
32 2 0.02
33 3 0.04
35 3 0.04
36 3 0.04
38 3 0.04
39 3 0.04
40 44 0.52
41 5 0.06
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTTTTCAATGTACGATACATGTATGA
Found at i:3797204 original size:71 final size:71
Alignment explanation
Indices: 3797083--3797220 Score: 249
Period size: 71 Copynumber: 1.9 Consensus size: 71
3797073 AAAAGTCACA
* *
3797083 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTACCGATACATGTATGAATGTATCGATACA
1 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTAACGATACACGTATGAATGTATCGATACA
3797148 TTTTGT
66 TTTTGT
*
3797154 CTTTTTACCTAGATGTATCGATACATTTTTCAATGTAACGATACACGTATGAATGTATCGATACA
1 CTTTTTACCCAGATGTATCGATACATTTTTCAATGTAACGATACACGTATGAATGTATCGATACA
3797219 TT
66 TT
3797221 CTTTAATGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (71 bp):
CTTTTTACCCAGATGTATCGATACATTTTTCAATGTAACGATACACGTATGAATGTATCGATACA
TTTTGT
Found at i:3799063 original size:11 final size:10
Alignment explanation
Indices: 3799043--3799073 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
3799033 TGGGAAAAAG
3799043 ATTTTTAAAT
1 ATTTTTAAAT
3799053 ATTTTTGAAAT
1 ATTTTT-AAAT
3799064 ATTTTTAAAT
1 ATTTTTAAAT
3799074 CGATCCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:3800851 original size:135 final size:139
Alignment explanation
Indices: 3800696--3801007 Score: 364
Period size: 135 Copynumber: 2.3 Consensus size: 139
3800686 TTTTCACCTT
* *
3800696 GTTTGGCTGTATTGGCATTAGGACCTGGTCAAAGTCATTCCACACTCGTTTGACTGCATTAGCGT
1 GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCATTCCACACTCGTTTGACTGCATTAGCGT
* * * * * * *
3800761 T-GGACCT-AGTCAAACTC-TT-CCTTCGTTTGGCTATATTGGCGTTA-GTCTTGGTTAAACTTT
66 TAGGACCTGA-TCAAACTCTTTACCCTCATTTGACTATATTGGCGTTAGGACCTAGTCAAACTTT
*
3800821 TTCTATACTC
130 TTCTACACTC
* ** * * * *
3800831 GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTTTACCCTCGTTTGGCTGTATTGGCGT
1 GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCATTCCACACTCGTTTGACTGCATTAGCGT
3800896 TAGGACCTGATCAAACTCTTTTTACCCTCATTTGACTATATTGGCGTTAGGACCTAGTCAAACTT
66 TAGGACCTGATCAAACTC--TTTACCCTCATTTGACTATATTGGCGTTAGGACCTAGTCAAACTT
* *
3800961 TTTTTACCCTC
129 TTTCTACACTC
* * *
3800972 GTTTAACTGTATTAGCATTAAGACCTGGTCAAACTC
1 GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTC
3801008 TTTTTATCCT
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
135 57 0.39
136 14 0.09
137 1 0.01
139 2 0.01
140 22 0.15
141 52 0.35
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (139 bp):
GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCATTCCACACTCGTTTGACTGCATTAGCGT
TAGGACCTGATCAAACTCTTTACCCTCATTTGACTATATTGGCGTTAGGACCTAGTCAAACTTTT
TCTACACTC
Found at i:3800881 original size:47 final size:47
Alignment explanation
Indices: 3800592--3801146 Score: 347
Period size: 47 Copynumber: 12.0 Consensus size: 47
3800582 TCGAACTCTT
* * *
3800592 TCTTTTT-CCCTTCATTTGACTGTATTGGCATTA-GCCCTAGTCAAAC
1 TCTTTTTACCC-TCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * * *
3800638 T-TTTTCCATA-CCTCATTTGATTGTATTGGTATT--GCCCTAGTCAAA-
1 TCTTTT---TACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * *
3800683 TACTTTTCA-CCTTGTTTGGCTGTATTGGCATTAGGACCTGGTCAAAG
1 T-CTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* ** * * * * *
3800730 TCATTCCACACTCGTTTGACTGCATTAGCGTT-GGACCTAGTCAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * * * * *
3800776 TC---TT-CCTTCGTTTGGCTATATTGGCGTTA-GTCTTGGTTAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
**
3800818 T-TTTTCTATACTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
1 TCTTTT-TACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * *
3800865 TCTTTTTACCCTCGTTTGGCTGTATTGGCGTTAGGACCTGATCAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * *
3800912 TCTTTTTACCCTCATTTGACTATATTGGCGTTAGGACCTAGTCAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * *
3800959 TTTTTTTACCCTCGTTTAACTGTATTAGCATTAAGACCTGGTCAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * ** * * *
3801006 TCTTTTTATCCTCGTCTT-ACTATATTAGTGTTAGGGCTTGGTTAAAC
1 TCTTTTTACCCTCGT-TTGACTGTATTGGCATTAGGACCTGGTCAAAC
* * * * * * * * *
3801053 TCCTTTCACCTTTGTTTCACTGTATTGGCGTTA--ATCTTGATCGAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGA-CCTGGTCAAAC
* * * * *
3801099 TTTTTTTACCGTTGTTTGATTGTATTGGCATTA-GTCCTGGTCAAAC
1 TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
3801145 TC
1 TC
3801147 CTTTCATAAC
Statistics
Matches: 395, Mismatches: 92, Indels: 44
0.74 0.17 0.08
Matches are distributed among these distances:
42 28 0.07
44 20 0.05
45 6 0.02
46 106 0.27
47 226 0.57
48 9 0.02
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (47 bp):
TCTTTTTACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAAC
Found at i:3801190 original size:45 final size:45
Alignment explanation
Indices: 3801129--3801281 Score: 150
Period size: 45 Copynumber: 3.4 Consensus size: 45
3801119 TGTATTGGCA
* *
3801129 TTAGTCCTGGTCAAACTCCTTTCATAACTT-GTTTGACGTAATGGT
1 TTAGCCCTAGTCAAACTCCTTTCAT-ACTTCGTTTGACGTAATGGT
* * * *
3801174 TTAGCCCTAGTCAAACTCTTTTTCAT-CTTCATTTGACGTGATGAT
1 TTAGCCCTAGTCAAACTC-CTTTCATACTTCGTTTGACGTAATGGT
** * *
3801219 TTAGCTTTAGTCAAACTCCTTTTCATA-TTCGTTTGACATAAAGGT
1 TTAGCCCTAGTCAAACTCC-TTTCATACTTCGTTTGACGTAATGGT
* *
3801264 TTAGCCATGGTCAAACTC
1 TTAGCCCTAGTCAAACTC
3801282 GGTACATCTA
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
44 3 0.03
45 78 0.90
46 6 0.07
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (45 bp):
TTAGCCCTAGTCAAACTCCTTTCATACTTCGTTTGACGTAATGGT
Found at i:3802636 original size:28 final size:28
Alignment explanation
Indices: 3802596--3802667 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
3802586 GGAATAAAGC
** *
3802596 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3802624 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3802652 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3802668 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3802725 original size:52 final size:49
Alignment explanation
Indices: 3802656--3802825 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 49
3802646 AAATAACGAG
* * *
3802656 GTTGGAGTATCCTCGATTGTGAAAAATTGTTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTG-T-GTTTT-GAAATAAAACCGGA
** * *
3802708 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATT-GTGTTTTG-AAATAAAACC-GGA
3802761 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATT-GTGTTTTGAA--ATAAAACCGGA
3802812 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3802826 TCGAAAATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.83
53 10 0.10
54 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGTGTTTTGAAATAAAACCGGA
Found at i:3802844 original size:28 final size:28
Alignment explanation
Indices: 3802799--3802880 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
3802789 AGTGTTTTAA
* *
3802799 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
3802826 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
3802853 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
3802881 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:3805406 original size:13 final size:13
Alignment explanation
Indices: 3805388--3805412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3805378 CACATACTTA
3805388 TGTATCGATACAT
1 TGTATCGATACAT
3805401 TGTATCGATACA
1 TGTATCGATACA
3805413 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3805424 original size:32 final size:33
Alignment explanation
Indices: 3805368--3805431 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
3805358 TAGCTAATTA
*
3805368 TGTATCGATACACATACTTATGTATCGATACAT
1 TGTATCGATACACAAACTTATGTATCGATACAT
3805401 TGTATCGATACA-AAACTTATGTATCGATACA
1 TGTATCGATACACAAACTTATGTATCGATACA
3805432 AAATGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACACAAACTTATGTATCGATACAT
Found at i:3806074 original size:55 final size:54
Alignment explanation
Indices: 3805990--3809969 Score: 5960
Period size: 55 Copynumber: 72.3 Consensus size: 54
3805980 ATAAATTGTA
* * ** * *
3805990 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3806045 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3806100 TCCTGCTCTTTGGGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3806155 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3806210 TCCTGTTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3806265 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3806320 TCCTGCTCTCTTAGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCT-TT-GAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3806377 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3806432 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3806487 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3806542 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3806597 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3806652 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3806707 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3806762 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3806817 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3806872 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3806927 TCCCGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3806982 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3807037 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3807092 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3807147 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807202 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807257 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3807312 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3807367 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3807422 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807477 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807532 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3807587 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3807642 TCCCGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3807697 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3807752 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3807807 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3807862 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807917 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3807972 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3808027 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3808082 TCCCGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3808137 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3808192 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3808247 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3808302 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3808357 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3808412 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3808467 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3808522 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3808577 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3808632 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3808687 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3808742 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3808797 TCCCGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3808852 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3808907 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3808962 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3809017 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809072 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809127 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3809182 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3809237 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3809292 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809347 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809402 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3809457 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3809512 TCCCGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3809567 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3809622 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3809677 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3809732 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809787 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3809842 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3809897 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3809952 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
3809970 AAAAAGCGGA
Statistics
Matches: 3720, Mismatches: 115, Indels: 180
0.93 0.03 0.04
Matches are distributed among these distances:
53 12 0.00
54 101 0.03
55 3459 0.93
56 84 0.02
57 58 0.02
58 4 0.00
59 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:3806289 original size:26 final size:26
Alignment explanation
Indices: 3806201--3806290 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
3806191 GTGTGGGCTT
* *
3806201 TGAAAGGTGTCCTGTTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3806227 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3806254 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3806282 TGAAAGGTG
1 TGAAAGGTG
3806291 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 2 0.04
26 17 0.36
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3806319 original size:29 final size:29
Alignment explanation
Indices: 3806231--3806319 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
3806221 GAGGACTGAA
3806231 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
3806260 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
3806286 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
3806315 AGGTG
1 AGGTG
3806320 TCCTGCTCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:3806951 original size:26 final size:26
Alignment explanation
Indices: 3806863--3806952 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3806853 GTGTGGGCTT
* *
3806863 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3806889 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3806916 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3806944 TGAAAGGTG
1 TGAAAGGTG
3806953 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3807116 original size:26 final size:26
Alignment explanation
Indices: 3807028--3807117 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3807018 GTGTGGGCTT
*
3807028 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3807054 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3807081 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3807109 TGAAAGGTG
1 TGAAAGGTG
3807118 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3807332 original size:26 final size:26
Alignment explanation
Indices: 3807303--3807392 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3807293 GTGTGGGCTT
3807303 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
3807329 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
3807356 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
3807384 TGAAAGGTG
1 TGAAAGGTG
3807393 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:3807666 original size:26 final size:26
Alignment explanation
Indices: 3807578--3807667 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3807568 GTGTGGGCTT
* *
3807578 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3807604 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3807631 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3807659 TGAAAGGTG
1 TGAAAGGTG
3807668 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3807831 original size:26 final size:26
Alignment explanation
Indices: 3807743--3807832 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3807733 GTGTGGGCTT
*
3807743 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3807769 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3807796 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3807824 TGAAAGGTG
1 TGAAAGGTG
3807833 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3808106 original size:26 final size:26
Alignment explanation
Indices: 3808018--3808107 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3808008 GTGTGGGCTT
* *
3808018 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3808044 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3808071 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3808099 TGAAAGGTG
1 TGAAAGGTG
3808108 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3808271 original size:26 final size:26
Alignment explanation
Indices: 3808183--3808272 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3808173 GTGTGGGCTT
*
3808183 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3808209 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3808236 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3808264 TGAAAGGTG
1 TGAAAGGTG
3808273 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3808487 original size:26 final size:26
Alignment explanation
Indices: 3808458--3808547 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3808448 GTGTGGGCTT
3808458 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
3808484 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
3808511 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
3808539 TGAAAGGTG
1 TGAAAGGTG
3808548 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:3808821 original size:26 final size:26
Alignment explanation
Indices: 3808733--3808822 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3808723 GTGTGGGCTT
* *
3808733 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3808759 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3808786 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3808814 TGAAAGGTG
1 TGAAAGGTG
3808823 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3808986 original size:26 final size:26
Alignment explanation
Indices: 3808898--3808987 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3808888 GTGTGGGCTT
*
3808898 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3808924 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3808951 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3808979 TGAAAGGTG
1 TGAAAGGTG
3808988 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3809202 original size:26 final size:26
Alignment explanation
Indices: 3809173--3809262 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3809163 GTGTGGGCTT
3809173 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
3809199 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
3809226 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
3809254 TGAAAGGTG
1 TGAAAGGTG
3809263 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:3809536 original size:26 final size:26
Alignment explanation
Indices: 3809448--3809537 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3809438 GTGTGGGCTT
* *
3809448 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3809474 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3809501 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3809529 TGAAAGGTG
1 TGAAAGGTG
3809538 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3809701 original size:26 final size:26
Alignment explanation
Indices: 3809613--3809702 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3809603 GTGTGGGCTT
*
3809613 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3809639 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3809666 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3809694 TGAAAGGTG
1 TGAAAGGTG
3809703 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3810956 original size:1 final size:1
Alignment explanation
Indices: 3810952--3811002 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
3810942 CTTTTCTCTC
* * * * *
3810952 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3811003 GAAGAGAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:3823579 original size:28 final size:28
Alignment explanation
Indices: 3823539--3823610 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
3823529 GGAATAAAGC
** *
3823539 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3823567 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3823595 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3823611 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3823668 original size:52 final size:49
Alignment explanation
Indices: 3823599--3823768 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 49
3823589 AAATAACGAG
* * *
3823599 GTTGGAGTATCCTCGATTGTGAAAAATTGTTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTG-T-GTTTT-GAAATAAAACCGGA
** * *
3823651 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATT-GTGTTTTG-AAATAAAACC-GGA
3823704 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AACGATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATT-GTGTTTTGAA--ATAAAACCGGA
3823755 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3823769 TCGAAAATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 81 0.83
53 10 0.10
54 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGTGTTTTGAAATAAAACCGGA
Found at i:3823787 original size:28 final size:28
Alignment explanation
Indices: 3823742--3823823 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
3823732 AGTGTTTTAA
* *
3823742 CGATAAA-ACCGGAGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
3823769 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
3823796 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
3823824 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:3826261 original size:13 final size:13
Alignment explanation
Indices: 3826243--3826268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3826233 ACAAAGATCC
3826243 ATGTATCGATACA
1 ATGTATCGATACA
3826256 ATGTATCGATACA
1 ATGTATCGATACA
3826269 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3826264 original size:33 final size:33
Alignment explanation
Indices: 3826222--3826288 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3826212 AAAATTTCCA
***
3826222 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3826255 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3826288 A
1 A
3826289 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3826348 original size:13 final size:13
Alignment explanation
Indices: 3826330--3826354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3826320 ACAATACTTA
3826330 TGTATCGATACAT
1 TGTATCGATACAT
3826343 TGTATCGATACA
1 TGTATCGATACA
3826355 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3826352 original size:32 final size:32
Alignment explanation
Indices: 3826311--3826373 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3826301 TAGCTAATTA
*
3826311 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3826343 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3826374 AAATGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3826376 original size:19 final size:19
Alignment explanation
Indices: 3826308--3826376 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
3826298 CAGTAGCTAA
*
3826308 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
3826327 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
3826342 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
3826359 TTATGTATCGATACAAAA
1 TTATGTATCGATACAAAA
3826377 TGTTGAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.25
14 1 0.02
16 2 0.05
18 1 0.02
19 29 0.66
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:3826455 original size:21 final size:21
Alignment explanation
Indices: 3826431--3826487 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3826421 CATTTGTAGG
3826431 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
3826452 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
3826473 ATGTATCGATACATT
1 ATGTATCGATACATT
3826488 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:3826498 original size:1 final size:1
Alignment explanation
Indices: 3826492--3826534 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
3826482 TACATTTAAA
***
3826492 TTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3826535 CAAACACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:3826535 original size:16 final size:16
Alignment explanation
Indices: 3826490--3826537 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
3826480 GATACATTTA
3826490 AATTTTTTTTTTTTT-
1 AATTTTTTTTTTTTTC
*
3826505 -TTTTTTTTTTTTTTC
1 AATTTTTTTTTTTTTC
3826520 AATTTTTTTTTTTTTC
1 AATTTTTTTTTTTTTC
3826536 AA
1 AA
3826538 ACACTTTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 13 0.45
16 16 0.55
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (16 bp):
AATTTTTTTTTTTTTC
Found at i:3827162 original size:55 final size:53
Alignment explanation
Indices: 3827078--3829561 Score: 3639
Period size: 55 Copynumber: 45.1 Consensus size: 53
3827068 ATAAATTGTA
* * * * *
3827078 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3827133 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3827188 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3827243 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3827298 TCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3827353 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3827408 TCCTGCTCTCTTAGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCT-TT-GAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
3827465 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3827520 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3827575 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3827630 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3827685 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3827740 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3827795 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3827850 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3827905 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3827960 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3828015 TCCCGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3828070 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3828125 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3828180 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3828235 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3828290 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3828345 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3828400 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3828455 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3828510 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3828565 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3828620 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3828675 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3828730 TCCCGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3828785 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3828840 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3828895 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3828950 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3829005 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3829060 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3829115 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
3829170 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3829225 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3829280 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
*
3829335 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3829390 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
3829445 TCCCGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
3829500 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
3829555 TCCTGCT
1 TCCTGCT
3829562 ACTAGCCAGG
Statistics
Matches: 2297, Mismatches: 75, Indels: 114
0.92 0.03 0.05
Matches are distributed among these distances:
53 6 0.00
54 63 0.03
55 2116 0.92
56 54 0.02
57 52 0.02
58 4 0.00
59 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (53 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:3827377 original size:26 final size:26
Alignment explanation
Indices: 3827289--3827378 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
3827279 GTGTGGGCTT
* *
3827289 TGAAAGGTGTCCTGTTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3827315 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3827342 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3827370 TGAAAGGTG
1 TGAAAGGTG
3827379 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 2 0.04
26 17 0.36
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3827407 original size:29 final size:29
Alignment explanation
Indices: 3827319--3827407 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
3827309 GAGGACTGAA
3827319 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
3827348 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
3827374 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
3827403 AGGTG
1 AGGTG
3827408 TCCTGCTCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:3828039 original size:26 final size:26
Alignment explanation
Indices: 3827951--3828040 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3827941 GTGTGGGCTT
* *
3827951 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3827977 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3828004 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3828032 TGAAAGGTG
1 TGAAAGGTG
3828041 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3828204 original size:26 final size:26
Alignment explanation
Indices: 3828116--3828205 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3828106 GTGTGGGCTT
*
3828116 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3828142 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3828169 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3828197 TGAAAGGTG
1 TGAAAGGTG
3828206 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3828420 original size:26 final size:26
Alignment explanation
Indices: 3828391--3828480 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3828381 GTGTGGGCTT
3828391 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
3828417 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
3828444 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
3828472 TGAAAGGTG
1 TGAAAGGTG
3828481 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:3828754 original size:26 final size:26
Alignment explanation
Indices: 3828666--3828755 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3828656 GTGTGGGCTT
* *
3828666 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3828692 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3828719 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3828747 TGAAAGGTG
1 TGAAAGGTG
3828756 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3828919 original size:26 final size:26
Alignment explanation
Indices: 3828831--3828920 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
3828821 GTGTGGGCTT
*
3828831 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
3828857 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
3828884 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
3828912 TGAAAGGTG
1 TGAAAGGTG
3828921 CCACCAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:3829135 original size:26 final size:26
Alignment explanation
Indices: 3829106--3829195 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
3829096 GTGTGGGCTT
3829106 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
3829132 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
3829159 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
3829187 TGAAAGGTG
1 TGAAAGGTG
3829196 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:3829224 original size:29 final size:29
Alignment explanation
Indices: 3829136--3829224 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
3829126 GAGGACTGAA
3829136 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
3829165 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
3829191 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
3829220 AGGTG
1 AGGTG
3829225 TCCTGCTCGT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:3829469 original size:26 final size:26
Alignment explanation
Indices: 3829381--3829470 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 26
3829371 GTGTGGGCTT
* *
3829381 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCCGCTCTTTGGGGAC
*
3829407 TGAAAGGTG-CCAC-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-CGC-TCTT-TG-GGGAC
*
3829434 TTTAAGAGGTGTCCCGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCCGCTCTTTGGGGAC
3829462 TGAAAGGTG
1 TGAAAGGTG
3829471 CCACCAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 8 0.16
29 9 0.18
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCCGCTCTTTGGGGAC
Found at i:3829499 original size:29 final size:29
Alignment explanation
Indices: 3829411--3829499 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
3829401 GAGGACTGAA
3829411 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
* *
3829440 AGGTGTCC-CGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCAC-CAACTTGTGTGGG-CTTTAAG
3829466 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
3829495 AGGTG
1 AGGTG
3829500 TCCTGCTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
25 3 0.06
26 9 0.19
27 9 0.19
28 9 0.19
29 14 0.30
30 3 0.06
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:3835118 original size:52 final size:52
Alignment explanation
Indices: 3835040--3835168 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
3835030 CGAAATATGA
3835040 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
3835092 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
3835144 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3835169 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:3835179 original size:52 final size:51
Alignment explanation
Indices: 3835040--3835188 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
3835030 CGAAATATGA
3835040 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
3835092 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
3835144 AAATTTACCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3835189 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:3835195 original size:13 final size:13
Alignment explanation
Indices: 3835177--3835201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3835167 CAAAGATCAG
3835177 TGTATCGATACAA
1 TGTATCGATACAA
3835190 TGTATCGATACA
1 TGTATCGATACA
3835202 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3836804 original size:9 final size:9
Alignment explanation
Indices: 3836790--3836822 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3836780 TTTGACTTAA
3836790 TTTTTTTCT
1 TTTTTTTCT
*
3836799 TTTTTTTCC
1 TTTTTTTCT
3836808 TTTTTTTCT
1 TTTTTTTCT
3836817 TTTTTT
1 TTTTTT
3836823 CCCTACTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3837159 original size:15 final size:15
Alignment explanation
Indices: 3837136--3837165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3837126 ACTAGTTGGA
3837136 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
*
3837151 AAAACTAAATAAAAT
1 AAAAATAAATAAAAT
3837166 TTTCAAAAAC
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:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:3840240 original size:12 final size:12
Alignment explanation
Indices: 3840223--3840247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3840213 TCTTTCCTTC
3840223 TAAAGAATTAAG
1 TAAAGAATTAAG
3840235 TAAAGAATTAAG
1 TAAAGAATTAAG
3840247 T
1 T
3840248 CTCAACAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAAGAATTAAG
Found at i:3840724 original size:21 final size:22
Alignment explanation
Indices: 3840685--3840729 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
3840675 AAACATAAAA
*
3840685 AAACCTTTGTTTCCTTTTATAT
1 AAACCTTTATTTCCTTTTATAT
3840707 AAACCTTTATTT-CTTTTATAT
1 AAACCTTTATTTCCTTTTATAT
3840728 AA
1 AA
3840730 TTATCTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (22 bp):
AAACCTTTATTTCCTTTTATAT
Found at i:3841875 original size:21 final size:21
Alignment explanation
Indices: 3841828--3841887 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
3841818 TATAAACAGT
*
3841828 AAATGTATCAATACAAAAGTG
1 AAATGTATCAATACAAAACTG
* *
3841849 -AATGTATCAATACATACCTG
1 AAATGTATCAATACAAAACTG
3841869 AAATGTATCAATACAAAAC
1 AAATGTATCAATACAAAAC
3841888 CACCCTGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (21 bp):
AAATGTATCAATACAAAACTG
Found at i:3845275 original size:13 final size:12
Alignment explanation
Indices: 3845233--3845276 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
3845223 TTTCTTTGTG
3845233 AAAGAAAAAAAA
1 AAAGAAAAAAAA
*
3845245 AAGGAAAAAAACA
1 AAAGAAAAAAA-A
3845258 AAAGAAAAAAAGA
1 AAAGAAAAAAA-A
3845271 AAAGAA
1 AAAGAA
3845277 TGAAAGGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:3845282 original size:21 final size:22
Alignment explanation
Indices: 3845236--3845282 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
3845226 CTTTGTGAAA
3845236 GAAA-AAAAAAAGGAAAAAAAC
1 GAAAGAAAAAAAGGAAAAAAAC
* * *
3845257 AAAAGAAAAAAA-GAAAAGAAT
1 GAAAGAAAAAAAGGAAAAAAAC
3845278 GAAAG
1 GAAAG
3845283 GAAGGAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
GAAAGAAAAAAAGGAAAAAAAC
Found at i:3846542 original size:90 final size:91
Alignment explanation
Indices: 3846413--3846741 Score: 355
Period size: 92 Copynumber: 3.6 Consensus size: 91
3846403 CCCCACCATA
* *
3846413 CATTCCCAATCATATCCATTTCT-TTCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATT
1 CATTCCCAATCATATCCTTTTCTCTT-AACCACTAAATGGTATTGATGCATCACAAAGCTTGATT
*
3846477 TCCTTGGGGTCAAGAATCTCGACCACA
65 TCCTTGGGGTCAAGAATCTCGACCACT
* * *
3846504 AATTCCCAATCATA-CCTTTTCTCTTAGCCACTAAATGGTATTGATGCATCACAAAG-TATAATT
1 CATTCCCAATCATATCCTTTTCTCTTAACCACTAAATGGTATTGATGCATCACAAAGCT-TGATT
* *
3846567 TCCTTGGGGT-ATGGATATCTAGACCACT
65 TCCTTGGGGTCA-AGA-ATCTCGACCACT
* * * * *
3846595 CATTCCCAATCATATCCCTTTCATC-CAACCACTAAATGGTATCGATGCATCACGAAGCCTGATT
1 CATTCCCAATCATATCCTTTTC-TCTTAACCACTAAATGGTATTGATGCATCACAAAGCTTGATT
* * *
3846659 TCCTTGGGG-CAAAAATATCCTGACCATT
65 TCCTTGGGGTCAAGAATCT-C-GACCACT
* * * * *
3846687 CATTCCTAATCATATCCCTTTTCTTTTAGCCAGTAGATGGTATTGATGCATCACA
1 CATTCCCAATCATAT-CCTTTTCTCTTAACCACTAAATGGTATTGATGCATCACA
3846742 TAACCATAAA
Statistics
Matches: 196, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
89 2 0.01
90 55 0.28
91 39 0.20
92 69 0.35
93 31 0.16
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (91 bp):
CATTCCCAATCATATCCTTTTCTCTTAACCACTAAATGGTATTGATGCATCACAAAGCTTGATTT
CCTTGGGGTCAAGAATCTCGACCACT
Found at i:3847647 original size:20 final size:19
Alignment explanation
Indices: 3847622--3847709 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
3847612 TTTTCATAAT
3847622 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATT-TTCA
*
3847642 TTGTATC---A-A--TACA
1 TTGTATCGATACATTTTCA
*
3847655 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
3847675 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
3847695 ATGTATCGATACATT
1 TTGTATCGATACATT
3847710 CAGGCATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 10 0.18
16 2 0.04
17 2 0.04
19 1 0.02
20 40 0.73
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:3847664 original size:33 final size:33
Alignment explanation
Indices: 3847622--3847689 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
3847612 TTTTCATAAT
*
3847622 TTGTATCGATACATTGTTCATTGTATCAATACA
1 TTGTATCGATACATTGCTCATTGTATCAATACA
*
3847655 TTGTATCGATACATTGCTCATTGTATCGATACA
1 TTGTATCGATACATTGCTCATTGTATCAATACA
3847688 TT
1 TT
3847690 TTACAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (33 bp):
TTGTATCGATACATTGCTCATTGTATCAATACA
Found at i:3847689 original size:13 final size:13
Alignment explanation
Indices: 3847640--3847670 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3847630 ATACATTGTT
3847640 CATTGTATCAATA
1 CATTGTATCAATA
*
3847653 CATTGTATCGATA
1 CATTGTATCAATA
3847666 CATTG
1 CATTG
3847671 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:3850157 original size:79 final size:79
Alignment explanation
Indices: 3850023--3850244 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 79
3850013 CTTCATCTCA
* * *
3850023 GGGATACTCCAACCCTGATTTTATTTCCAAAACA-TCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAAC
*
3850087 CCCGTTATTTCCGAG
65 CCCGTCATTTCCGAG
* * **
3850102 GGGATACTCCAACCCCGATTTTATTCCCAAAACACTAGTTTTTCACAATTAGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACC
*
3850167 CCGTCATTTTCGAG
66 CCGTCATTTCCGAG
*
3850181 GGGATACTCCAACCCC-AGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGA-TTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
3850245 TCTGATTTTA
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 125 0.98
80 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACC
CCGTCATTTCCGAG
Done.