Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold98
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: 1546936
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:958239 original size:31 final size:31
Alignment explanation
Indices: 958174--958263 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 31
958164 GTAGTAGCTT
* *
958174 TGTAGCGATACATTGTACCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATAC-AAACTTA
* *
958206 TGTATCGATACATTGTATCAATACACACTTA
1 TGTATCGATACATTGTATCGATACAAACTTA
* *
958237 TGTATCCATACATTTTATCGATACAAA
1 TGTATCGATACATTGTATCGATACAAA
958264 TCATTGAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
31 29 0.58
32 21 0.42
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (31 bp):
TGTATCGATACATTGTATCGATACAAACTTA
Found at i:978990 original size:24 final size:21
Alignment explanation
Indices: 978943--978991 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
978933 GTTGGAACCT
*
978943 TGTATCGATACATTCTAAAAA
1 TGTATCGATACATTATAAAAA
978964 TGTATCGATACATTTGGATAAAAA
1 TGTATCGATACA-TT--ATAAAAA
978988 TGTA
1 TGTA
978992 ATTTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 2 0.08
24 10 0.42
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTATAAAAA
Found at i:979709 original size:52 final size:50
Alignment explanation
Indices: 979653--979902 Score: 218
Period size: 52 Copynumber: 4.9 Consensus size: 50
979643 CACAGTTAGC
*
979653 GACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAAT
1 GACATTAGACTTAAAGATG-GAAG-ATGCCAATGTGCTGATTCAAGGCCAAT
** * * * * *
979705 GACATT-GGGTTAAGGAATGTTAAAGATGCCAGTATGCTGATTCAAGGCCAAC
1 GACATTAGACTTAAAG-ATG--GAAGATGCCAATGTGCTGATTCAAGGCCAAT
* * * **
979757 GATATCAGACTTAAAGAT-GAAGATGCCAATGTACTGATTCAAGGCCGGT
1 GACATTAGACTTAAAGATGGAAGATGCCAATGTGCTGATTCAAGGCCAAT
* * * *
979806 AACATTGGACTTAAAGATGGTTAAGGTGCTAATGTGCTGATTCAAGGCCAAT
1 GACATTAGACTTAAAGATGG--AAGATGCCAATGTGCTGATTCAAGGCCAAT
** * * *
979858 GACATCGGTCTTAAAGAT-GAAGGTGCCAATATGCTGATTCAAGGC
1 GACATTAGACTTAAAGATGGAAGATGCCAATGTGCTGATTCAAGGC
979903 TAGCGATATT
Statistics
Matches: 157, Mismatches: 35, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
49 62 0.39
50 1 0.01
51 6 0.04
52 79 0.50
53 9 0.06
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (50 bp):
GACATTAGACTTAAAGATGGAAGATGCCAATGTGCTGATTCAAGGCCAAT
Found at i:979745 original size:104 final size:101
Alignment explanation
Indices: 979575--979902 Score: 297
Period size: 101 Copynumber: 3.2 Consensus size: 101
979565 GTGATAAAGG
* * * * * *
979575 TGCCAATATGCTGATTC-AGGACTAGTGATATTGGGCTTAAAGATGTAAAGAATGTCAATGTGCT
1 TGCCAATGTGCTGATTCAAGG-CCAATGACATTGGGCTTAAAGATGTAAAGAATGCCAATATGCT
** * * *
979639 GATTCACA-GTTAGCGACATTAGACTTGAAGATGAGAAGAA
65 GATTCA-AGGCCAACGACATCAGACTTAAAGAT--GAAG-A
* *
979679 TGCCAATGTGCTGATTCAAGGCCAATGACATTGGG-TTAAGGAATGTTAAAG-ATGCCAGTATGC
1 TGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTAAAG-ATG-TAAAGAATGCCAATATGC
*
979742 TGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGA
64 TGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGA
* ** * * * * * *
979780 TGCCAATGTACTGATTCAAGGCCGGTAACATTGGACTTAAAGATGGTTAAG-GTGCTAATGTGCT
1 TGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTAAAGAT-GTAAAGAATGCCAATATGCT
* * * *
979844 GATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGG
65 GATTCAAGGCCAACGACATCAGACTTAAAGATGAAGA
*
979881 TGCCAATATGCTGATTCAAGGC
1 TGCCAATGTGCTGATTCAAGGC
979903 TAGCGATATT
Statistics
Matches: 186, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
101 98 0.53
102 10 0.05
103 6 0.03
104 64 0.34
105 8 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTAAAGATGTAAAGAATGCCAATATGCTG
ATTCAAGGCCAACGACATCAGACTTAAAGATGAAGA
Found at i:979914 original size:101 final size:89
Alignment explanation
Indices: 979831--980264 Score: 558
Period size: 88 Copynumber: 4.9 Consensus size: 89
979821 GATGGTTAAG
* * *
979831 GTGCTAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
979896 TCAAGGCTAGCGATATTGGT-CTT
66 TCAAGGCCAGCGATATTGGTGCTT
* ** * **
979919 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATGGTGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
979984 TCAAGGCCAGCGATATTGG-GCTT
66 TCAAGGCCAGCGATATTGGTGCTT
** * *
980007 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
980071 TCCAGGCCAGCGATATTGG-GCTT
66 TCAAGGCCAGCGATATTGGTGCTT
* * ** * *
980094 ATGCCAATATGCTGATTCAAGGCCAGA-GACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCA-ACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGA
980157 TTCAAGGCCAGCGATATTGGT-CTT
65 TTCAAGGCCAGCGATATTGGTGCTT
* * * ** **
980181 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
980246 TCAAGGCCAGCGATATTGG
66 TCAAGGCCAGCGATATTGG
980265 ACTTAGAAGA
Statistics
Matches: 313, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
87 155 0.50
88 158 0.50
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (89 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGTGCTT
Found at i:979934 original size:39 final size:39
Alignment explanation
Indices: 979880--980219 Score: 275
Period size: 39 Copynumber: 8.0 Consensus size: 39
979870 AAAGATGAAG
* *
979880 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
*
979919 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATGGT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTC-------T--T
* *
979967 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
* * *
980007 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
* * *
980046 AAAGACAAGGTGCCAATATGCTGATTCCAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
* *
980094 ATGCCAATATGCTGATTCAAGGCCAGAGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
*
980133 AGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
* * *
980181 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
980220 AAAGACAAAG
Statistics
Matches: 244, Mismatches: 29, Indels: 56
0.74 0.09 0.17
Matches are distributed among these distances:
39 137 0.56
40 1 0.00
42 1 0.00
46 1 0.00
48 70 0.29
49 34 0.14
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT
Found at i:980078 original size:48 final size:47
Alignment explanation
Indices: 980007--980269 Score: 261
Period size: 48 Copynumber: 5.9 Consensus size: 47
979997 TATTGGGCTT
* * *
980007 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGACAAG
* * *
980055 GTGCCAATATGCTGATTCCAGGCCAGCGATATTGGGCTT------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
*
980095 -TGCCAATATGCTGATTCAAGGCCAGAGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA-AGACAAG
*
980142 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT--------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
* * *
980181 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGAC-AAG
* *
980230 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
980270 GAAGAAGATG
Statistics
Matches: 175, Mismatches: 21, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
39 69 0.39
41 1 0.01
46 1 0.01
48 70 0.40
49 34 0.19
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
Found at i:980099 original size:87 final size:87
Alignment explanation
Indices: 979831--980264 Score: 652
Period size: 87 Copynumber: 5.0 Consensus size: 87
979821 GATGGTTAAG
* ** * *
979831 GTGCTAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
* *
979896 TCAAGGCTAGCGATATTGGTCTT
65 TCAAGGCCAGCGATATTGGGCTT
* ***
979919 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATGGTGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
979984 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* *
980007 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
980072 CCAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
980094 ATGCCAATATGCTGATTCAAGGCCAGAGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
980159 CAAGGCCAGCGATATTGGTCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
980181 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGAT
980246 TCAAGGCCAGCGATATTGG
65 TCAAGGCCAGCGATATTGG
980265 ACTTAGAAGA
Statistics
Matches: 316, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 158 0.50
88 158 0.50
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:980373 original size:30 final size:29
Alignment explanation
Indices: 980291--980386 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 29
980281 CACCAACTTG
**
980291 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGG-TGCCACTGACT
* *
980320 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACTGACT
*
980348 TATGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGGTGCCACTGACT
980378 TGTGGGCTT
1 TGTGGGCTT
980387 AAAAGGAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.04
28 20 0.36
29 11 0.20
30 23 0.41
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACTGACT
Found at i:980414 original size:33 final size:33
Alignment explanation
Indices: 980367--980744 Score: 296
Period size: 34 Copynumber: 11.8 Consensus size: 33
980357 TTGAAAAGGG
* * * *
980367 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
980400 TGCCACGGAGTTGTGGACTTGAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
980427 TGCCACGGAGTTGTGGACTTAAAAGGAAAAA-A
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
980459 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
* *
980494 TGCCATGGAGTCGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
980521 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
980554 GTGCCACGGAGTTGTAGG-CTTAAAAGGAAAAAGA
1 -TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGA
* *
980588 GTGCCACAGAGTTGTGGGCTTAAAAGG-----G-
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
980616 TGTCACGAAGTTGTAGACTTTGAAAA-GAAAAAGA
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA
* * *
980650 GTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAATG-
1 -TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA-GA
* * *
980685 TGCCATGGAGTTGTGGACTTAAAAGGAATAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
980718 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
980745 TGTCATAGAG
Statistics
Matches: 281, Mismatches: 34, Indels: 60
0.75 0.09 0.16
Matches are distributed among these distances:
27 61 0.22
28 5 0.02
29 5 0.02
32 1 0.00
33 85 0.30
34 99 0.35
35 24 0.09
36 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:980427 original size:60 final size:60
Alignment explanation
Indices: 980361--980743 Score: 199
Period size: 61 Copynumber: 6.1 Consensus size: 60
980351 GGGCTTTTGA
* * *
980361 AAAGGGTGCCACTGACTTGTGGGCTTAAAAGG-AGAAAGATGCCACGGAGTTGTGGACTTG
1 AAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAG-TGCCACGGAGTTGTGGACTTG
* *
980421 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGAC-TT-----
980486 G
60 G
* * * * * *
980487 AAAAAGGTGCCATGGAGTCGTGGACTTAAAAGG------GTGCCACAGAGTTGTGGACTTA
1 -AAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTG
* * *
980542 AAAGGAAAAAAAGTGCCACGGAGTTGTAGG-CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 AAAGG-------GTGCCACGGACTTGT-GGACTTAAAAGGAAAAA-AGTGCCACGGAGTTGTGGA
*
980606 CTTA
57 CTTG
* * * * * *
980610 AAAGGGTGTCACGAAGTTGTAGACTTTGAAAA-GAAAAAGAGTGCCATGGAGTTGTGGGCTTTAA
1 AAAGGGTGCCACGGACTTGTGGAC-TT-AAAAGGAAAAA-AGTGCCACGGAGTTGTGGAC-TT--
980674 AAAG
60 ---G
** * * * * * *
980678 AAAAATGTGCCATGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACAGAGTTGTGGACTTA
1 -AAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTG
980739 AAAGG
1 AAAGG
980744 ATGTCATAGA
Statistics
Matches: 254, Mismatches: 35, Indels: 68
0.71 0.10 0.19
Matches are distributed among these distances:
54 4 0.02
60 52 0.20
61 60 0.24
62 29 0.11
63 6 0.02
66 3 0.01
67 49 0.19
68 33 0.13
69 18 0.07
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (60 bp):
AAAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTG
Found at i:980431 original size:27 final size:27
Alignment explanation
Indices: 980400--980546 Score: 132
Period size: 27 Copynumber: 5.0 Consensus size: 27
980390 AGGAGAAAGA
*
980400 TGCCACGGAGTTGTGGACTTGAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
980427 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG------G
*
980460 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----GG
* *
980494 TGCCATGGAGTCGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
980521 TGCCACAGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
980547 AAAAAAAGTG
Statistics
Matches: 99, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
27 50 0.51
32 5 0.05
33 20 0.20
34 18 0.18
35 5 0.05
40 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:980519 original size:94 final size:93
Alignment explanation
Indices: 980366--980744 Score: 456
Period size: 94 Copynumber: 3.9 Consensus size: 93
980356 TTTGAAAAGG
* * * * * *
980366 GTGCCACTGACTTGTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTGAAAGGGTGCC
1 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
980431 ACGGAGTTGTGGACTTAAAAGGAAAAAA
66 ACAGAGTTGTGGACTTAAAAGGAAAAAA
* *
980459 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTCGTGGACTTAAAAGGGTGC
1 GTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
980524 CACAGAGTTGTGGACTTAAAAGGAAAAAAA
65 CACAGAGTTGTGGACTTAAAAGG-AAAAAA
* * * * *
980554 GTGCCACGGAGTTGTAGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGT
1 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
980619 CAC-GAAGTTGTAGACTTTGAAAA-GAAAAAGA
65 CACAG-AGTTGTGGAC-TT-AAAAGGAAAAA-A
* * *
980650 GTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCATGGAGTTGTGGACTTAAAAGGAATA
1 GTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G----
980715 AGGTGCCACAGAGTTGTGGACTTAAAAGGA
60 -GGTGCCACAGAGTTGTGGACTTAAAAGGA
980745 TGTCATAGAG
Statistics
Matches: 244, Mismatches: 26, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
93 17 0.07
94 75 0.31
95 67 0.27
96 43 0.18
97 17 0.07
100 4 0.02
101 4 0.02
102 16 0.07
103 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (93 bp):
GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACAGAGTTGTGGACTTAAAAGGAAAAAA
Found at i:980649 original size:62 final size:62
Alignment explanation
Indices: 980558--980749 Score: 176
Period size: 62 Copynumber: 3.0 Consensus size: 62
980548 AAAAAAGTGC
* *
980558 CACGGAGTTGTAGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAAGGGTGT
1 CACGAAGTTGTAGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGTGT
**
980619 CACGAAGTTGTAGACTTTGAAAA-GAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAA
1 CACGAAGTTGTAGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAG-----
* *
980683 TGTGC
58 GGTGT
* * * * * *
980688 CATGGAGTTGTGGACTTAAAAGGAATAAG-GTGCCACAGAGTTGTGGAC-TTAAAAGGATGT
1 CACGAAGTTGTAGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGTGT
980748 CA
1 CA
980750 TAGAGTTGTG
Statistics
Matches: 105, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
60 4 0.04
61 13 0.12
62 27 0.26
63 6 0.06
64 5 0.05
65 5 0.05
66 2 0.02
67 20 0.19
68 8 0.08
69 15 0.14
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.23
Consensus pattern (62 bp):
CACGAAGTTGTAGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGTGT
Found at i:980695 original size:130 final size:129
Alignment explanation
Indices: 980514--980766 Score: 341
Period size: 130 Copynumber: 2.0 Consensus size: 129
980504 TCGTGGACTT
* *
980514 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTAGG-CTTAAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAAAGTGCCACGGAGTTGT-GGACTTAAA
* *
980578 AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGTCACGA-AGTTGTAGACTTTGAAAA
65 AGGAAAAAG-GTGCCACAGAGTTGTGGACTTAAAAGGATGTCA-GAGAGTTGTAGACTTTGAAAA
980642 GA
128 GA
** * * *
980644 AAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAG-AAAAATGTGCCATGGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAAAGTGCCACGGAGTTGTGGACTTAAA
* * *
980708 AGGAATAAGGTGCCACAGAGTTGTGGACTTAAAAGGATGTCATAGAGTTGTGGACTTTG
65 AGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGATGTCAGAGAGTTGTAGACTTTG
980767 GGAAAAGATG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
128 1 0.01
129 46 0.43
130 54 0.50
131 7 0.06
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.23
Consensus pattern (129 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAAAGTGCCACGGAGTTGTGGACTTAAAA
GGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGATGTCAGAGAGTTGTAGACTTTGAAAAGA
Found at i:980791 original size:30 final size:30
Alignment explanation
Indices: 980752--980862 Score: 132
Period size: 31 Copynumber: 3.6 Consensus size: 30
980742 GGATGTCATA
* *
980752 GAGTTGTGGACTTTGGGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAGAAAAGATGCCACT
* *
980782 GAGTCGTGGACTTTAAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAAAGA-TGCCACT
* *
980813 GTGTTGTGGACTTTGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTG-AGAAAAGATGCCACT
* *
980844 AAGTCATGGACTTTGAGAA
1 GAGTCGTGGACTTTGAGAA
980863 GAGAGATTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 23 0.34
31 37 0.55
32 7 0.10
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (30 bp):
GAGTCGTGGACTTTGAGAAAAGATGCCACT
Found at i:982062 original size:17 final size:15
Alignment explanation
Indices: 982049--982078 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
982039 TTTTTTTGTG
982049 TGTT-TTTTTGTTTT
1 TGTTGTTTTTGTTTT
982063 TGTTGTTTTTGTTTT
1 TGTTGTTTTTGTTTT
982078 T
1 T
982079 TTTTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TGTTGTTTTTGTTTT
Found at i:982063 original size:9 final size:9
Alignment explanation
Indices: 982039--982089 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
982029 GCCTTTGCAC
982039 TTTTTTTGTG
1 TTTTTTT-TG
982049 TGTTTTTTTG
1 T-TTTTTTTG
*
982059 TTTTTGTTG
1 TTTTTTTTG
*
982068 TTTTTGTT-
1 TTTTTTTTG
*
982076 TTTTTTTTC
1 TTTTTTTTG
982085 TTTTT
1 TTTTT
982090 GTGTTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.19
9 20 0.54
10 4 0.11
11 6 0.16
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:982079 original size:17 final size:17
Alignment explanation
Indices: 982039--982097 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
982029 GCCTTTGCAC
982039 TTTTTTTGTGTGTTTTT-
1 TTTTTTTGT-TGTTTTTG
982056 TTGTTTTTGTTGTTTTTG
1 TT-TTTTTGTTGTTTTTG
* *
982074 TTTTTTTTTTCTTTTTG
1 TTTTTTTGTTGTTTTTG
*
982091 TGTTTTT
1 TTTTTTT
982098 ACTTTTGACT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 28 0.76
18 9 0.24
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (17 bp):
TTTTTTTGTTGTTTTTG
Found at i:982103 original size:26 final size:26
Alignment explanation
Indices: 982051--982103 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
982041 TTTTTGTGTG
* *
982051 TTTTTTTGTTTTTGTTGTTTTTGTTT
1 TTTTTTTCTTTTTGTTGTTTTTCTTT
982077 TTTTTTTCTTTTTG-TGTTTTTACTTT
1 TTTTTTTCTTTTTGTTGTTTTT-CTTT
982103 T
1 T
982104 GACTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.83
Consensus pattern (26 bp):
TTTTTTTCTTTTTGTTGTTTTTCTTT
Found at i:985436 original size:16 final size:16
Alignment explanation
Indices: 985415--985446 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
985405 TTGTGTAAAA
*
985415 ATAAATCTAGGTTTTG
1 ATAAATCCAGGTTTTG
985431 ATAAATCCAGGTTTTG
1 ATAAATCCAGGTTTTG
985447 TGTATAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (16 bp):
ATAAATCCAGGTTTTG
Found at i:987764 original size:51 final size:51
Alignment explanation
Indices: 987707--987839 Score: 239
Period size: 51 Copynumber: 2.6 Consensus size: 51
987697 TAACTAGATG
* * *
987707 TATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATA
1 TATCGATACATTCATACATGTATCGATACATCTGGGTAAAAAGACAGAATA
987758 TATCGATACATTCATACATGTATCGATACATCTGGGTAAAAAGACAGAATA
1 TATCGATACATTCATACATGTATCGATACATCTGGGTAAAAAGACAGAATA
987809 TATCGATACATTCATACATGTATCGATACAT
1 TATCGATACATTCATACATGTATCGATACAT
987840 TGAAAAATGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (51 bp):
TATCGATACATTCATACATGTATCGATACATCTGGGTAAAAAGACAGAATA
Found at i:987834 original size:20 final size:20
Alignment explanation
Indices: 987809--987859 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
987799 AGACAGAATA
* *
987809 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
*
987829 TATCGATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
987849 TATCGATACAT
1 TATCGATACAT
987860 CTGGGTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:990047 original size:13 final size:13
Alignment explanation
Indices: 990029--990054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
990019 AATTTTTTTG
990029 TGTATCGATACAT
1 TGTATCGATACAT
990042 TGTATCGATACAT
1 TGTATCGATACAT
990055 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:990794 original size:21 final size:21
Alignment explanation
Indices: 990753--990796 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
990743 CTCTCCTTTA
* *
990753 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
990774 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
990795 TC
1 TC
990797 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:992619 original size:13 final size:13
Alignment explanation
Indices: 992601--992626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
992591 ATAATCACCC
992601 TGTATCGATACAA
1 TGTATCGATACAA
992614 TGTATCGATACAA
1 TGTATCGATACAA
992627 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:994722 original size:15 final size:15
Alignment explanation
Indices: 994697--994732 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
994687 CATCAATTTC
*
994697 TTTTGGAGCTTCTTCA
1 TTTT-GAGCTTCCTCA
994713 TTTTGAGCTTCCTCA
1 TTTTGAGCTTCCTCA
994728 TTTTG
1 TTTTG
994733 GACATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.11, C:0.19, G:0.17, T:0.53
Consensus pattern (15 bp):
TTTTGAGCTTCCTCA
Found at i:996565 original size:21 final size:21
Alignment explanation
Indices: 996536--996580 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
996526 AAGTTTTCAT
*
996536 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
996556 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
996578 TTT
1 TTT
996581 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:998816 original size:13 final size:13
Alignment explanation
Indices: 998798--998823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
998788 AATTTTTTTG
998798 TGTATCGATACAT
1 TGTATCGATACAT
998811 TGTATCGATACAT
1 TGTATCGATACAT
998824 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1003085 original size:20 final size:20
Alignment explanation
Indices: 1003060--1003214 Score: 94
Period size: 20 Copynumber: 7.7 Consensus size: 20
1003050 TTCACAATTC
1003060 GTATCGATACATTGTTCATT
1 GTATCGATACATTGTTCATT
*
1003080 GTATCGATACATTCTGGGTTTACCCAGAT
1 GTATCGATACA-T-T--G-TT---CA-TT
1003109 GTATCGATACATT-TTGCATT
1 GTATCGATACATTGTT-CATT
* * *
1003129 GTATCGATACATGGCTCCTT
1 GTATCGATACATTGTTCATT
1003149 GTATCGAT--A-----CATT
1 GTATCGATACATTGTTCATT
*
1003162 GTATCGATACATTGCTCATT
1 GTATCGATACATTGTTCATT
*
1003182 GTATCGATACATT-TTACAAT
1 GTATCGATACATTGTT-CATT
1003202 GTATCGATACATT
1 GTATCGATACATT
1003215 CAGGAATTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 36
0.71 0.06 0.24
Matches are distributed among these distances:
13 11 0.10
15 1 0.01
18 1 0.01
19 1 0.01
20 68 0.63
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 12 0.11
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTGTTCATT
Found at i:1003167 original size:33 final size:33
Alignment explanation
Indices: 1003125--1003194 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1003115 ATACATTTTG
*
1003125 CATTGTATCGATACATGGCTCCTTGTATCGATA
1 CATTGTATCGATACATGGCTCATTGTATCGATA
*
1003158 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATGGCTCATTGTATCGATA
1003191 CATT
1 CATT
1003195 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (33 bp):
CATTGTATCGATACATGGCTCATTGTATCGATA
Found at i:1003194 original size:13 final size:13
Alignment explanation
Indices: 1003147--1003175 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1003137 ACATGGCTCC
1003147 TTGTATCGATACA
1 TTGTATCGATACA
1003160 TTGTATCGATACA
1 TTGTATCGATACA
1003173 TTG
1 TTG
1003176 CTCATTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1003205 original size:53 final size:53
Alignment explanation
Indices: 1003108--1003214 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
1003098 TTTACCCAGA
* **
1003108 TGTATCGATACATTTTGCATTGTATCGATACATGGCTCCTTGTATCGATACAT
1 TGTATCGATACATTCTGCATTGTATCGATACATGGCTCAATGTATCGATACAT
**
1003161 TGTATCGATACATTGCT-CATTGTATCGATACAT-TTTACAATGTATCGATACAT
1 TGTATCGATACATT-CTGCATTGTATCGATACATGGCT-CAATGTATCGATACAT
1003214 T
1 T
1003215 CAGGAATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATCGATACATGGCTCAATGTATCGATACAT
Found at i:1005749 original size:77 final size:77
Alignment explanation
Indices: 1005486--1005803 Score: 244
Period size: 79 Copynumber: 4.1 Consensus size: 77
1005476 TTTCATCTCG
* * * *
1005486 GGGATACTCCAATCTCATTATTTTCGAGGGGATACTCCAA---C-TTTTA-TTTCTAAAATACCA
1 GGGATACT-CAAACCCATTATTTCCGAGGGGATACTCCAACCCCGATTTATTTTC-AAAATACCA
*
1005546 ATTTTTCACAATAA
64 ATTTTTCACAATCA
* * * * * *
1005560 GGGATACTCCAAACCCATTATTTCCAAGGGGATACTTCAACCCTGACCTTA-TTTCTAAATCATC
1 GGGATACT-CAAACCCATTATTTCCGAGGGGATACTCCAACCCCGA-TTTATTTTCAAAAT-ACC
*
1005624 GATTTTTCACAATC-
63 AATTTTTCACAATCA
* * **
1005638 GAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTCATTTTCAAAATACC
1 G-GGATACT-CAAACCCATTATTTCCGAGGGGATACTCCAACCCCGATTT-ATTTTCAAAATACC
*
1005703 AATTTTT-A-TATCA
63 AATTTTTCACAATCA
* * **
1005716 GGGATACTCAAACCCTATTATTTCCGAGAGGATACTCCAACCCCAATTT-TATTTCTGGAATACC
1 GGGATACTCAAACCC-ATTATTTCCGAGGGGATACTCCAACCCCGATTTAT-TTTC-AAAATACC
* *
1005780 AATTTTCCAAAATC-
63 AATTTTTCACAATCA
1005794 GGAGATACTC
1 GG-GATACTC
1005804 CAGCCTCGTT
Statistics
Matches: 194, Mismatches: 34, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
74 35 0.18
75 1 0.01
76 10 0.05
77 50 0.26
78 12 0.06
79 78 0.40
80 8 0.04
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (77 bp):
GGGATACTCAAACCCATTATTTCCGAGGGGATACTCCAACCCCGATTTATTTTCAAAATACCAAT
TTTTCACAATCA
Found at i:1005785 original size:156 final size:152
Alignment explanation
Indices: 1005486--1005805 Score: 344
Period size: 156 Copynumber: 2.1 Consensus size: 152
1005476 TTTCATCTCG
* * *
1005486 GGGATACTCCAATCTCATTATTTTCGAGGGGATACTCCAACTTTTATTTCTAAAATACCAATTTT
1 GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACTTTCATTTCTAAAATACCAATTTT
* * **
1005551 TCACAATAAGGGATACTCCAAACCCATTATTTCCAAGGGGATACTTCAACCCTGACCTTATTTCT
66 TCACAATAAGGGATACTCCAAACCCATTATTTCCAAGAGGATACTCCAACCCCAACCTTATTTCT
* * * *
1005616 AAATCATCGATTTTTCACAATC
131 AAATCACCAATTTTCCAAAATC
* *
1005638 GAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTCATTT-TCAAAATAC
1 G-GGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAA---C--TTTCATTTCT-AAAATAC
* * * **
1005702 CAATTTTT-A-TATCAGGGATACT-CAAACCCTATTATTTCCGAGAGGATACTCCAACCCCAATT
59 CAATTTTTCACAATAAGGGATACTCCAAACCC-ATTATTTCCAAGAGGATACTCCAACCCCAACC
*
1005764 TTATTTCTGGAAT-ACCAATTTTCCAAAATC
123 TTATTTCT-AAATCACCAATTTTCCAAAATC
1005794 GGAGATACTCCA
1 GG-GATACTCCA
1005806 GCCTCGTTGT
Statistics
Matches: 139, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
152 1 0.01
153 35 0.25
155 8 0.06
156 68 0.49
157 5 0.04
158 22 0.16
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (152 bp):
GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACTTTCATTTCTAAAATACCAATTTT
TCACAATAAGGGATACTCCAAACCCATTATTTCCAAGAGGATACTCCAACCCCAACCTTATTTCT
AAATCACCAATTTTCCAAAATC
Found at i:1009785 original size:52 final size:52
Alignment explanation
Indices: 1009715--1009835 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1009705 GAAAATTTAT
* *
1009715 CTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1009767 CTGCATTTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1009819 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1009836 AAGATAAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1009848 original size:52 final size:52
Alignment explanation
Indices: 1009715--1009855 Score: 198
Period size: 52 Copynumber: 2.7 Consensus size: 52
1009705 GAAAATTTAT
*
1009715 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGCAAATTTGC
* *
1009767 CTGCATTTATCGATACATTTTATAA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGCAAATTTGC
*
1009819 CTGCATGTATCGATACA-AAGATAAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-ATAAGTGTATCGATACA
1009856 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
51 4 0.05
52 75 0.94
53 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTAATAAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1009862 original size:13 final size:13
Alignment explanation
Indices: 1009844--1009868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1009834 CAAAGATAAG
1009844 TGTATCGATACAA
1 TGTATCGATACAA
1009857 TGTATCGATACA
1 TGTATCGATACA
1009869 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:1009949 original size:33 final size:33
Alignment explanation
Indices: 1009907--1010042 Score: 236
Period size: 33 Copynumber: 4.1 Consensus size: 33
1009897 GGCAGTAGCT
* ***
1009907 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAACATTTTATGTATCGA
1009940 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAACATTTTATGTATCGA
1009973 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAACATTTTATGTATCGA
1010006 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAACATTTTATGTATCGA
1010039 TACA
1 TACA
1010043 AATCGTTGAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 99 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
TACATTGTATCGATACAACATTTTATGTATCGA
Found at i:1009950 original size:13 final size:13
Alignment explanation
Indices: 1009932--1010022 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
1009922 CAAAAAAATA
1009932 TGTATCGATACAT
1 TGTATCGATACAT
1009945 TGTATCGATACAACATTTT
1 TGTATCGAT---ACA---T
1009964 ATGTATCGATACAT
1 -TGTATCGATACAT
1009978 TGTATCGATACAACATTTT
1 TGTATCGAT---ACA---T
1009997 ATGTATCGATACAT
1 -TGTATCGATACAT
1010011 TGTATCGATACA
1 TGTATCGATACA
1010023 ACATTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 6 0.09
17 6 0.09
19 2 0.03
20 18 0.28
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1009970 original size:20 final size:20
Alignment explanation
Indices: 1009945--1010043 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
1009935 ATCGATACAT
1009945 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
1009965 TGTATCGAT---ACA---T-
1 TGTATCGATACAACATTTTA
1009978 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
1009998 TGTATCGAT---ACA---T-
1 TGTATCGATACAACATTTTA
1010011 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
1010031 TGTATCGATACAA
1 TGTATCGATACAA
1010044 ATCGTTGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 18 0.28
14 2 0.03
16 6 0.09
17 6 0.09
19 2 0.03
20 31 0.48
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAACATTTTA
Found at i:1010827 original size:49 final size:49
Alignment explanation
Indices: 1010764--1010882 Score: 220
Period size: 49 Copynumber: 2.4 Consensus size: 49
1010754 ATATGCGGCT
*
1010764 AGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
*
1010813 AGCGACATTAGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1010862 AGCGACATTGGACTTAAAGAT
1 AGCGACATTGGACTTAAAGAT
1010883 GAAGATGAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
Found at i:1011063 original size:218 final size:215
Alignment explanation
Indices: 1010619--1011098 Score: 542
Period size: 218 Copynumber: 2.2 Consensus size: 215
1010609 GTTTTACAGT
* * * * * *
1010619 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
1010684 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAG
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAG
* * * *
1010749 AGCCAATATGCGGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCA
131 AGCCAATATGCGGCCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1010814 GCGACATTAGACTTAAAGATAAA
196 GCGACATTAGACTTAAAG---AA
* * *
1010837 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGAT
1 -GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGAT
* *
1010901 AAAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGATGAAAAAGGATG
65 AAA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGA-GAAAAAGGA--
* * * ** * * *
1010964 TCAATGTGCTGAT-T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGTCGATATGCTG
125 TAAAAGAGCCAATATGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATGCTG
* * *
1011027 ATTCAAGGCCAGCTATATTGGACTTAAAG-A
185 ATTCAAGGCCAGCGACATTAGACTTAAAGAA
*
1011057 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAG
1011099 GTGAGGTGCC
Statistics
Matches: 224, Mismatches: 27, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
218 92 0.41
219 60 0.27
220 2 0.01
221 29 0.13
224 41 0.18
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (215 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAG
AGCCAATATGCGGCCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
GCGACATTAGACTTAAAGAA
Found at i:1011174 original size:49 final size:49
Alignment explanation
Indices: 1010965--1012133 Score: 1514
Period size: 49 Copynumber: 24.7 Consensus size: 49
1010955 AAAAGGATGT
* *
1010965 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1011017 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011060 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1011108 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1011157 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1011205 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1011254 CAATGTGCTG-TGTCAAGGCTAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGAT-TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1011303 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011346 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011395 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1011443 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
**
1011492 CAATGTGCTGCGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1011540 CGATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** * * *
1011589 CAATGTGCTGCGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1011638 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011681 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1011730 CAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011773 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1011822 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1011865 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1011914 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1011957 CAATGTGCTGATTCAAGGACAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** * *
1012006 CAACATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1012049 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1012098 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1012134 GAATGGTTGC
Statistics
Matches: 975, Mismatches: 95, Indels: 97
0.84 0.08 0.08
Matches are distributed among these distances:
43 255 0.26
44 2 0.00
45 7 0.01
46 2 0.00
47 6 0.01
48 183 0.19
49 485 0.50
50 2 0.00
51 2 0.00
52 31 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1011381 original size:92 final size:93
Alignment explanation
Indices: 1010965--1012133 Score: 1318
Period size: 92 Copynumber: 12.4 Consensus size: 93
1010955 AAAAGGATGT
* * * *
1010965 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGTCGATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAATGTGCTGATT
*
1011030 CAAGGCCAGCTATATTGGACTTAAAGA--TGC
62 CAAGGCCAGCTACATTGGACTTAAAGAGGTGC
*
1011060 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1011125 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTT-AA-A-G-AGGTGC
* *
1011157 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1011222 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTACATTGGACTT-AA-A-G-AGGTGC
* * *
1011254 CAATGTGCTG-TGTCAAGGCTAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCA
1 CAATGTGCTGAT-TCAAGGCCAGCTACATTGGACTTAAAGATGA-GGTGCCAATGTGCTGATTCA
* *
1011318 AGGCCAGCGATATTGGACTT-AA-AGGTGC
64 AGGCCAGCTACATTGGACTTAAAGAGGTGC
* *
1011346 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAA
1011411 GGCCAGCTACATTGGACTTAAAGATGAGGTGC
65 GGCCAGCTACATTGGACTT-AA-A-GAGGTGC
**
1011443 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGCGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAA
1011508 GGCCAGCTACATTGGACTTAAAGATGAGGTGC
65 GGCCAGCTACATTGGACTT-AA-A-GAGGTGC
* * **
1011540 CGATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGCGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGTGCTGATTCAA
*
1011605 GGCCAGCTACATTGGACTTAAAGATGATGATGT
65 GGCCAGCTACATTGGACTTAAAGA-G--G-TGC
* * * *
1011638 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AGGTACCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1011698 GCCAGCTACATTGGACTTAAAGATGAAGATGC
66 GCCAGCTACATTGGACTTAAAGA-G--G-TGC
* * *
1011730 CAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT--A-A--AGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1011790 GCCAGCTACATTGGACTTAAAGATGAAGATGC
66 GCCAGCTACATTGGACTTAAAGA-G--G-TGC
* * *
1011822 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1011882 GCCAGCTACATTGGACTTAAAGATGAAGATGC
66 GCCAGCTACATTGGACTTAAAGA-G--G-TGC
* * *
1011914 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
*
1011974 GACAGCTACATTGGACTTAAAGATGAAGATGC
66 GCCAGCTACATTGGACTTAAAGA-G--G-TGC
** * *
1012006 CAACATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AGGTGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
1012066 GCCAGCTACATTGGACTTAAAGATAAAGGTGC
66 GCCAGCTACATTGGACTTAAAG----AGGTGC
* * *
1012098 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1012134 GAATGGTTGC
Statistics
Matches: 1001, Mismatches: 49, Indels: 50
0.91 0.04 0.05
Matches are distributed among these distances:
91 37 0.04
92 516 0.52
93 4 0.00
94 5 0.00
95 46 0.05
96 5 0.00
97 320 0.32
98 68 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (93 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAG
GCCAGCTACATTGGACTTAAAGAGGTGC
Found at i:1012193 original size:38 final size:36
Alignment explanation
Indices: 1012154--1013240 Score: 932
Period size: 34 Copynumber: 32.3 Consensus size: 36
1012144 CACCGACTTG
* *
1012154 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
1012190 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
** *
1012225 TGTGGGCTTTAAAAGAAAAAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAG-GGAAAAAGA-GTGCCACGGAGT
* *
1012263 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
*
1012297 TATGGGC-TTAAAA--G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012324 TGTGGGC-TTAGAA-GGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1012358 TGTGGGC-TTAGAA-GGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
** * * * *
1012392 CATGGACTTT----GAGACAAA-A-TGCCACTGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * * *
1012422 CGTGGACTTTGAAAA--GAAGAAG-GTGCCACAGAGC
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012456 TGTGGGCTTTAAAA-AGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1012490 TGTGGGCTTT-------AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012519 CGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1012553 TGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012586 TGTGGGCTTTCAAAAAGGAAAAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT--AAAAGG--GAAAAAGAGTGCCACGGAGT
*
1012626 TGTGGGCTTTAAAA-GGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1012660 TGTCGGC-TTAGAA-GG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1012693 TGTGGGC-TTAGAA-GGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012727 TGTGGGC-TTAGAA-GGAAAAAGAGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1012761 TGTGGGC-TTAGAA-GG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1012794 TGTGGGCTTT-AAA-GG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1012827 CGTGGAC-TTAAAA--G-----G-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1012854 TGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1012885 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1012922 TGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1012956 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1012993 TGTGGGCTTTAAAA-AGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1013028 TGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1013061 TGTGGGC-TTAGAA-GGAAAAGAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAA-AGAGTGCCACGGAGT
* * *
1013096 TGTGGGCTTTAAAA-AGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1013131 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
*
1013165 TGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1013199 TGTGGACTTT-AAA-GG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1013231 TGTGGGCTTT
1 TGTGGGCTTT
1013241 GAAGAAAAAA
Statistics
Matches: 917, Mismatches: 74, Indels: 124
0.82 0.07 0.11
Matches are distributed among these distances:
27 38 0.04
28 9 0.01
29 26 0.03
30 19 0.02
31 27 0.03
32 44 0.05
33 155 0.17
34 310 0.34
35 136 0.15
36 52 0.06
37 52 0.06
38 22 0.02
39 6 0.01
40 21 0.02
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:1012212 original size:34 final size:33
Alignment explanation
Indices: 1012174--1013360 Score: 866
Period size: 34 Copynumber: 35.6 Consensus size: 33
1012164 AGGAAGGGAG
*
1012174 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAA-GGAA
*
1012208 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAG----GAA
* * *
1012247 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
1012281 AAA-AGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1012312 ---G-TGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012341 AAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
** * ** *
1012375 AAAGAGTGCCACGGAGTCATGGACTT-TGA-GAC
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1012407 AAA-ATGCCACTGAGTCGTGGACTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * * * *
1012440 GAAGGTGCCACAGAGCTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
1012474 GAAGGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012504 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
1012537 GAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
1012570 AAAGGTGCCACGGAGTTGTGGGCTTTCAAAAAGGAAAAA
1 AAAGATGCCACGGAGTTGTGGGC-TT--AAAAGG---AA
*
1012609 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * * *
1012644 GAAGGTGCCACGGAGTTGTCGGCTTAGAAGG-A
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012676 AAAGAGTGCCACGTAGTTGTGGGCTTAGAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1012710 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012744 AAAGAGTGTCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012777 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1012810 AAAGAGTGCCACGTAGTCGTGGACTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
1012842 ---G-TGCCACAGAGTTGTGGGCTTTGAA--AA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1012869 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
1012905 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
1012940 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
* *
1012976 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1013011 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AAAG-ATGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1013045 AAAGGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1013078 AAGAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AA-AGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1013114 AAAGTGTGCCACAGAGTTGTGGGCTTTAAACA-GAA
1 AAAG-ATGCCACGGAGTTGTGGGC-TTAAA-AGGAA
* *
1013149 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
1013183 AAAGGTGCCACGGAGTTGTGGACTTTAAAGG-A
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
1013215 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-GAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * * * ** *
1013247 AAA-ACGCCACTGAGTCGTGGACTT-TGA-GAC
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * * *
1013277 AAA-ATGCCACTGAGTCGTGGACTTTAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * * * *
1013308 AAGGATGCCACTGAGTCGTGGACTTTAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1013340 AAGGATGCCACTGAGTCGTGG
1 AAAGATGCCACGGAGTTGTGG
1013361 ACTTTGAGCA
Statistics
Matches: 986, Mismatches: 106, Indels: 124
0.81 0.09 0.10
Matches are distributed among these distances:
27 42 0.04
29 18 0.02
30 49 0.05
31 42 0.04
32 102 0.10
33 172 0.17
34 301 0.31
35 120 0.12
36 38 0.04
37 46 0.05
38 24 0.02
39 12 0.01
40 20 0.02
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:1012317 original size:27 final size:27
Alignment explanation
Indices: 1012285--1012338 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1012275 GATGAAAAAA
1012285 GTGCCACGGAGTTATGGGCTTAAAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
* *
1012312 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
1012339 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGGCTTAAAAGG
Found at i:1012575 original size:33 final size:33
Alignment explanation
Indices: 1012306--1013365 Score: 950
Period size: 34 Copynumber: 31.8 Consensus size: 33
1012296 TTATGGGCTT
* *
1012306 AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTA-AAAG
* *
1012339 AAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTA-AAAG
** * *
1012373 AAAAAGAGTGCCACGGAGTCATGGACTTT--GAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
1012405 ACAAAA--TGCCACTGAGTCGTGGACTTTGAAAAG
1 A-AAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * *
1012438 AAGAAGGTGCCACAGAGCTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1012472 AAGAAGGTGCCACGGAGTTGTGGGCTTT--AA-
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1012502 AAAGA-GTGCCACGGAGTCGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1012535 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1012568 AAAAAGGTGCCACGGAGTTGTGGGCTTTCAAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT--AAAA-G
*
1012604 AAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGG
1 ---AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA-G
* * *
1012642 AAGAAGGTGCCACGGAGTTGTCGGC-TTAGAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
1012674 GAAAAGAGTGCCACGTAGTTGTGGGC-TTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTA-AAAG
*
1012708 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTA-AAAG
* *
1012742 AAAAAGAGTGTCACGGAGTTGTGGGC-TTAGAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1012775 GAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
* * * *
1012808 GAAAAGAGTGCCACGTAGTCGTGGAC-TTAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
*
1012841 -----GGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
1012870 ---AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--G
1012903 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAG
1012938 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--G
*
1012974 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1013009 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG
*
1013043 AAAAAGGTGCCACGGAGTTGTGGGC-TTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTA-AAAG
1013076 AAAAGAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAA-AG-GTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1013112 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAACAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AG
1013147 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
*
1013181 AAAAAGGTGCCACGGAGTTGTGGACTTT-AAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
* *
1013213 GAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
** * * * *
1013245 AAAAA-ACGCCACTGAGTCGTGGACTTT--GAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
1013275 ACAAAA--TGCCACTGAGTCGTGGACTTT-AAAG
1 A-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
* * *
1013306 -AAAAGGATGCCACTGAGTCGTGGACTTT-AAAG
1 AAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAG
* * *
1013338 -AAAAGGATGCCACTGAGTCGTGGACTTT
1 AAAAAGG-TGCCACGGAGTTGTGGGCTTT
1013366 GAGCAGAGAT
Statistics
Matches: 901, Mismatches: 77, Indels: 99
0.84 0.07 0.09
Matches are distributed among these distances:
27 15 0.02
28 3 0.00
29 30 0.03
30 45 0.05
31 51 0.06
32 107 0.12
33 154 0.17
34 290 0.32
35 100 0.11
36 20 0.02
37 53 0.06
38 6 0.01
39 6 0.01
40 21 0.02
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
Found at i:1012858 original size:27 final size:27
Alignment explanation
Indices: 1012776--1012898 Score: 95
Period size: 33 Copynumber: 4.1 Consensus size: 27
1012766 GCTTAGAAGG
*
1012776 AAAAGAGTGCCACGTAGTTGTGGGCTTT
1 AAAAGGGTGCCACG-AGTTGTGGGCTTT
* * *
1012804 AAAGGAAAAGAGTGCCACGTAGTCGTGGAC-TT
1 -----AAAAGGGTGCCACG-AGTTGTGGGCTTT
1012836 AAAAGGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCAC-GAGTTGTGGGCTTT
1012864 GAAAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 -AAAAG--GGTGCCAC-GAGTTGTGGGCTTT
1012895 AAAA
1 AAAA
1012899 AGGGAAAAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
27 20 0.25
28 3 0.04
29 5 0.06
30 4 0.05
31 22 0.28
32 2 0.03
33 23 0.29
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGAGTTGTGGGCTTT
Found at i:1013388 original size:31 final size:30
Alignment explanation
Indices: 1013182--1013427 Score: 242
Period size: 31 Copynumber: 7.9 Consensus size: 30
1013172 TTTAAAAAGA
* * * *
1013182 AAAAGGTGCCACGGAGTTGTGGACTTTAAAGG
1 AAAAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
1013214 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
1013245 AAAAAACGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
1013275 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
1013306 AAAAGGATGCCACTGAGTCGTGGACTTTAAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTT-GAG
1013338 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* * *
1013369 CAGAGATTGCCACTAAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
1013400 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
1013428 AAATTGTCGA
Statistics
Matches: 192, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
30 29 0.15
31 82 0.43
32 81 0.42
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:1013399 original size:125 final size:126
Alignment explanation
Indices: 1012776--1013430 Score: 334
Period size: 125 Copynumber: 5.0 Consensus size: 126
1012766 GCTTAGAAGG
* * * *
1012776 AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGTAGTCGTGGAC-TT--A-
1 AAAAG-GTGCCACGGAGTCGTGGACTTTAAAGGAAAAG-GTGCCACGGAGTCGTGGACTTTGAAG
**** * * * * *
1012837 AAAGGGTGCCAC-AGAGTTGTGGGCTTTGA-AA-AGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
64 AAAAAACGCCACTA-AGTCGTGGACTTTGAGAAGAGAA--TGCCACTGAGTCGTGGACTTT--AA
1012899 AGGGA
124 A--GA
* * * * *
1012904 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAG-GTGCCACGGAGTCGTGGACTTT--AAAGGAAAAGGTGCCACGGAGTCGTGGACTTTG--
* * * * * * * *
1012969 AAGGGAAAAAGAGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGG
61 AA--GAAAAA-A-CGCCACTA-AGTCGTGGACTTTGAGAAG-AGAA---TGCCACTGAGTCGTGG
*
1013033 GCTTTAAAAGA
117 ACTTT-AAAGA
* * * *
1013044 AAAAGGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAGGTGCCACGGAGTCGTGGACTTTA-AAGG-AAA-AG-GTGCCACGGAGTCGTGGACTTT--
* ** * * * * * * *
1013108 AAAGAAAAAGTGTGCCAC-AGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCACGGAGTTGTGGG
60 GAAGAAAAA--ACGCCACTA-AGTCGTGGACTTTGAGA-AG-AGAA--TGCCACTGAGTCGTGGA
1013171 CTTTAAAAAGA
118 CTTT--AAAGA
* * *
1013182 AAAAGGTGCCACGGAGTTGTGGACTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA
1 AAAAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAA
*
1013247 AAAACGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTCGTGGACTTTAAAG-
66 AAAACGCCACTAAGTCGTGGACTTTGAGA-AGAGAATGCCACTGAGTCGTGGACTTTAAAGA
* *
1013306 AAAAGGATGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGG-TGCCACGGAGTCGTGGACTTTAAAGGAAAAGG-TGCCACGGAGTCGTGGACTTTGAAG
* * ** * *
1013369 CAGAGATTGCCACTAAGTCGTGGACTTTGAGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
64 -AAAAAACGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAA
1013431 TTGTCGAAAA
Statistics
Matches: 453, Mismatches: 41, Indels: 68
0.81 0.07 0.12
Matches are distributed among these distances:
124 16 0.04
125 72 0.16
126 24 0.05
127 18 0.04
128 27 0.06
129 18 0.04
130 12 0.03
131 16 0.04
132 4 0.01
133 8 0.02
134 1 0.00
135 22 0.05
136 3 0.01
137 33 0.07
138 72 0.16
139 46 0.10
140 33 0.07
142 7 0.02
143 21 0.05
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (126 bp):
AAAAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAA
AAAACGCCACTAAGTCGTGGACTTTGAGAAGAGAATGCCACTGAGTCGTGGACTTTAAAGA
Found at i:1013413 original size:94 final size:93
Alignment explanation
Indices: 1013200--1013430 Score: 290
Period size: 94 Copynumber: 2.5 Consensus size: 93
1013190 CCACGGAGTT
* * * *
1013200 GTGGACTTTAAAGGAAAAGG-TGCCACGGAGTTGTGGGCTTTGAAGAAAAAACGCCACTGAGTCG
1 GTGGACTTTAAA-GAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAAACGCCACTGAGTCG
*
1013264 TGGACTTTGAGACAAAATGCCACTGAGTC
65 TGGACTTTGAGACAAAATGCCACTAAGTC
* *
1013293 GTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCG
1 GTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAA-AACGCCACTGAGTCG
*
1013358 TGGACTTTGAG-CAGAGATTGCCACTAAGTC
65 TGGACTTTGAGACA-A-AATGCCACTAAGTC
* * *
1013388 GTGGACTTT-GAGAAGA-GATTGCCACTTAGTCGTGGACTTTAAA
1 GTGGACTTTAAAGAAAAGGA-TGCCACTGAGTCGTGGACTTTAAA
1013431 TTGTCGAAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
92 7 0.06
93 41 0.34
94 53 0.43
95 21 0.17
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAGAAAAAACGCCACTGAGTCGT
GGACTTTGAGACAAAATGCCACTAAGTC
Found at i:1015073 original size:21 final size:21
Alignment explanation
Indices: 1015043--1015083 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1015033 CCATAACATT
1015043 ACTTTATCAAACTTTC-TCAAA
1 ACTTTATCAAA-TTTCATCAAA
*
1015064 ACTTTTTCAAATTTCATCAA
1 ACTTTATCAAATTTCATCAA
1015084 TTGGTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (21 bp):
ACTTTATCAAATTTCATCAAA
Found at i:1016627 original size:20 final size:20
Alignment explanation
Indices: 1016574--1016627 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1016564 AAACCCTTGT
*
1016574 ATGTATCGATACACATCCAG
1 ATGTATCGATACATATCCAG
*
1016594 ATGTATCGACACATATCCAG
1 ATGTATCGATACATATCCAG
1016614 ATGTATCGATACAT
1 ATGTATCGATACAT
1016628 TATGCTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATATCCAG
Found at i:1016690 original size:20 final size:19
Alignment explanation
Indices: 1016644--1016700 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1016634 TTGTATCGAT
* *
1016644 ACATTGTATCGATATATGT
1 ACATTGTATCGATACATGC
*
1016663 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
1016682 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1016701 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1018783 original size:14 final size:15
Alignment explanation
Indices: 1018764--1018792 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1018754 TTTTGTAGAG
1018764 TTTTATA-GATTTTA
1 TTTTATATGATTTTA
1018778 TTTTATATGATTTTA
1 TTTTATATGATTTTA
1018793 AAGTTGACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTTATATGATTTTA
Found at i:1022120 original size:20 final size:21
Alignment explanation
Indices: 1022097--1022148 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1022087 AGATTGCACA
*
1022097 GTATCGATACATG-ACCA-AAT
1 GTATCGATACATGTA-AAGAAT
* *
1022117 GTATCAATACTTGTAAAGAAT
1 GTATCGATACATGTAAAGAAT
1022138 GTATCGATACA
1 GTATCGATACA
1022149 AGTCATTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
GTATCGATACATGTAAAGAAT
Found at i:1022227 original size:13 final size:13
Alignment explanation
Indices: 1022209--1022300 Score: 64
Period size: 13 Copynumber: 8.0 Consensus size: 13
1022199 TGCACACAAG
1022209 ATGTATCGATACA
1 ATGTATCGATACA
1022222 ATGTATCGATAC-
1 ATGTATCGATACA
* *
1022234 A--T-CCCA-A-A
1 ATGTATCGATACA
1022242 ATGTATCGATACA
1 ATGTATCGATACA
1022255 ATGTATCGATAC-
1 ATGTATCGATACA
* *
1022267 A--T-CCCA-A-A
1 ATGTATCGATACA
1022275 ATGTATCGATACA
1 ATGTATCGATACA
1022288 ATGTATCGATACA
1 ATGTATCGATACA
1022301 TCCCAAAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 4 0.07
11 4 0.07
12 4 0.07
13 39 0.66
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1022246 original size:20 final size:20
Alignment explanation
Indices: 1022221--1022321 Score: 104
Period size: 20 Copynumber: 5.8 Consensus size: 20
1022211 GTATCGATAC
1022221 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
1022241 AATGTATCGAT--A---C--
1 AATGTATCGATACATCCCAA
1022254 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
1022274 AATGTATCGAT--A---C--
1 AATGTATCGATACATCCCAA
1022287 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
1022307 AATGTATCGATACAT
1 AATGTATCGATACAT
1022322 TGGCTTGTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 28
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
18 4 0.06
20 37 0.55
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATCCCAA
Found at i:1022250 original size:33 final size:33
Alignment explanation
Indices: 1022191--1022320 Score: 226
Period size: 33 Copynumber: 4.0 Consensus size: 33
1022181 CTTAACTGTT
* * *
1022191 TGTATCGATGCA-CACAAGATGTATCGATACAA
1 TGTATCGATACATCCCAAAATGTATCGATACAA
1022223 TGTATCGATACATCCCAAAATGTATCGATACAA
1 TGTATCGATACATCCCAAAATGTATCGATACAA
1022256 TGTATCGATACATCCCAAAATGTATCGATACAA
1 TGTATCGATACATCCCAAAATGTATCGATACAA
1022289 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACATCCCAAAATGTATCGATACA
1022321 TTGGCTTGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 11 0.12
33 83 0.88
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACATCCCAAAATGTATCGATACAA
Found at i:1024848 original size:13 final size:13
Alignment explanation
Indices: 1024830--1024855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1024820 TACAGCAAGT
1024830 ATGTATCGATACA
1 ATGTATCGATACA
1024843 ATGTATCGATACA
1 ATGTATCGATACA
1024856 CAAAAAATTG
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:1027098 original size:21 final size:21
Alignment explanation
Indices: 1027065--1027109 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1027055 TTGCAAGTTG
*
1027065 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1027087 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1027107 AAA
1 AAA
1027110 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1028935 original size:15 final size:15
Alignment explanation
Indices: 1028915--1028944 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1028905 AAAAATGTCT
*
1028915 AAAATGAGGAAGCTC
1 AAAATGAAGAAGCTC
1028930 AAAATGAAGAAGCTC
1 AAAATGAAGAAGCTC
1028945 CAAACGAAAT
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:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAATGAAGAAGCTC
Found at i:1038555 original size:20 final size:18
Alignment explanation
Indices: 1038514--1038565 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 18
1038504 ATATTCATAA
*
1038514 TGTATCGATACATTGAAT
1 TGTATCAATACATTGAAT
1038532 TGTATCAATACATTGTACAT
1 TGTATCAATACATTG-A-AT
1038552 TGTATCAATACATT
1 TGTATCAATACATT
1038566 CAAGGGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 14 0.45
19 1 0.03
20 16 0.52
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (18 bp):
TGTATCAATACATTGAAT
Found at i:1045731 original size:62 final size:61
Alignment explanation
Indices: 1045629--1045832 Score: 268
Period size: 61 Copynumber: 3.3 Consensus size: 61
1045619 ACCTTTTATC
* * ** * *
1045629 CTTTC-AGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1045689 CTTTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-TTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
1045751 CCTTCCAGTCCTCAAAGAGCATGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAAGATGCCTTT-TCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
1045812 CTTCCTAGTCCTCAAAGAGCA
1 CTTTCTAGTCCTCAAAGAGCA
1045833 GGACCTTCTC
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
60 5 0.04
61 72 0.57
62 50 0.39
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (61 bp):
CTTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1045973 original size:162 final size:162
Alignment explanation
Indices: 1045695--1045999 Score: 470
Period size: 162 Copynumber: 1.9 Consensus size: 162
1045685 GGCACTTTTC
* * * *
1045695 TAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 TAGTCCACAAAGAGCAAGACGCCTTTTCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAGT
* *
1045760 CCTCAAAGAGCATGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCT
66 CCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTCGGTGGCACTTTCCTAGTCCT
1045824 CAAAGAGCAGGACCTTCTCTCCTTTTACCCTT
131 CAAAGAGCAGGACCTTCTCTCCTTTTACCCTT
* *
1045856 TAGTCCACAAAGAGTAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCTAG
1 TAGTCCACAAAGAGCAAGACGCCTTTT-CTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAG
* ** *
1045921 TCCTTAAAGAGCAGGATGCCTTT-TCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGTC
65 TCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTCGGTGGCACTTTCCTAGTC
1045985 CTCAAAGAGCAGGAC
129 CTCAAAGAGCAGGAC
1046000 GCCTTTTCCT
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
161 24 0.19
162 78 0.60
163 27 0.21
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (162 bp):
TAGTCCACAAAGAGCAAGACGCCTTTTCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAGT
CCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTCGGTGGCACTTTCCTAGTCCT
CAAAGAGCAGGACCTTCTCTCCTTTTACCCTT
Found at i:1046078 original size:123 final size:123
Alignment explanation
Indices: 1045856--1046120 Score: 372
Period size: 123 Copynumber: 2.2 Consensus size: 123
1045846 TTTTACCCTT
* * *
1045856 TAGTCCACAAAGAGTAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCTAG
1 TAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAG
* * ** *
1045921 TCCTTAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTC
66 TCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTCGGTGGCAC-TTCC
* * *
1045980 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACATAAGTTGGTGGCACCTTCCAG
1 TAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAG
* *
1046044 TCCTCAAAGAGTAGGATG-CTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCC
66 TCCTCAAAGAGCAGGATGCCTTT-TCCTTGCAAAGCCCACACAAGTCGGTGGCACTTCC
*
1046102 CAGTCCTCAAAGAGCAAGA
1 TAGTCCTCAAAGAGCAAGA
1046121 TGCTCTCTCT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
122 24 0.19
123 71 0.57
124 30 0.24
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (123 bp):
TAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCCAG
TCCTCAAAGAGCAGGATGCCTTTTCCTTGCAAAGCCCACACAAGTCGGTGGCACTTCC
Found at i:1046124 original size:61 final size:61
Alignment explanation
Indices: 1045857--1046123 Score: 331
Period size: 61 Copynumber: 4.3 Consensus size: 61
1045847 TTTACCCTTT
* * * * * *
1045857 AGTCCACAAAGAGTAAGACGCCTTTTCCTTTTAAAAGCCCACACAAGTTGATGGCACCTTCT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * *
1045919 AGTCCTTAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCC
* *
1045981 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* **
1046042 AGTCCTCAAAGAGTAGGATG-CTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CC
*
1046103 AGTCCTCAAAGAGCAAGATGC
1 AGTCCTCAAAGAGCAGGATGC
1046124 TCTCTCTTTT
Statistics
Matches: 178, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
60 7 0.04
61 90 0.51
62 81 0.46
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:1046239 original size:61 final size:60
Alignment explanation
Indices: 1046137--1046391 Score: 264
Period size: 61 Copynumber: 4.2 Consensus size: 60
1046127 CTCTTTTCAC
* *
1046137 CCTT-TAGTCCTCAAAGAGTAGGA-CACCTTTCCTTTTAAAAGCCCAAACAAGTTAGTGACA
1 CCTTCTAGTCCTCAAAGAGTAGGAGC-CTTTTCCTTTT-AAAGCCCAAACAAGTTAGTGGCA
* * * *
1046197 CCTTCTAGTCCTCAAAGAGTGGGAGGCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGCCA
1 CCTTCTAGTCCTCAAAGAGTAGGA-GCCTTTTCCTTTTAAAGCCCAAACAAGTTAGTGGCA
* * * **
1046258 CTTTTCTAGTCCTCAAAGAGTAGGACCCATTTTCCTTTTAAAGCCTAAACAAGTCGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGTAGGAGCC-TTTTCCTTTTAAAGCCCAAACAAGTTAGTGGCA
* * ** * *
1046320 CCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGTAGGA-GCCTTT-TCCTTTTAAAGCCCAAACAAGTTAGTGGCA
*
1046381 CCTGCTAGTCC
1 CCTTCTAGTCC
1046392 CCAAGGAGCA
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
60 7 0.04
61 97 0.60
62 58 0.36
63 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (60 bp):
CCTTCTAGTCCTCAAAGAGTAGGAGCCTTTTCCTTTTAAAGCCCAAACAAGTTAGTGGCA
Found at i:1046245 original size:161 final size:162
Alignment explanation
Indices: 1045980--1046277 Score: 413
Period size: 161 Copynumber: 1.8 Consensus size: 162
1045970 GGCACTTTTC
* * * * *
1045980 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCCAGT
1 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCAAACAAGTTAGTGACACCTTCCAGT
* * *
1046045 CCTCAAAGAGTAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCAC-TTCCCAGTCCT
66 CCTCAAAGAGTAGGAGGCTTTCTCCTTGCAAAGCCCACACAAGTTAGTGCCACTTTCCCAGTCCT
1046109 CAAAGAGCAAGATGCTCTCTCTTTTCACCCTT
131 CAAAGAGCAAGATGCTCTCTCTTTTCACCCTT
* *
1046141 TAGTCCTCAAAGAGTAGGACACC-TTTCCTTTTAAAAGCCCAAACAAGTTAGTGACACCTTCTAG
1 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCAAACAAGTTAGTGACACCTTCCAG
* * ** * *
1046205 TCCTCAAAGAGTGGGAGGCCTTT-TCTTTTTAAAGCCCACACAAGTTAGTGCCACTTTTCTAGTC
65 TCCTCAAAGAGTAGGAGG-CTTTCTCCTTGCAAAGCCCACACAAGTTAGTGCCACTTTCCCAGTC
1046269 CTCAAAGAG
129 CTCAAAGAG
1046278 TAGGACCCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
160 9 0.08
161 89 0.75
162 20 0.17
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (162 bp):
TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCAAACAAGTTAGTGACACCTTCCAGT
CCTCAAAGAGTAGGAGGCTTTCTCCTTGCAAAGCCCACACAAGTTAGTGCCACTTTCCCAGTCCT
CAAAGAGCAAGATGCTCTCTCTTTTCACCCTT
Found at i:1046319 original size:284 final size:284
Alignment explanation
Indices: 1045634--1046381 Score: 1144
Period size: 285 Copynumber: 2.6 Consensus size: 284
1045624 TTATCCTTTC
* *
1045634 AGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
1 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
* * *
1045699 CCTCAAAGAGCAAGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
66 CCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* * *
1045764 AAAGAGCATGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
130 AAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
* *
1045829 AGCAGGACCTTCTCTCCTTTTACCCTTTAGTCCACAAAGAGTAAGACGCCTTTTCCTTTTAAAAG
195 AGCAAGACCTTCTCTCCTTTTACCCTTTAGTCCACAAAGAGTAAGACACCTTTTCCTTTTAAAAG
* *
1045894 CCCACACAAGTTGATGGCACCTTCT
260 CCCAAACAAGTTGATGACACCTTCT
* * *
1045919 AGTCCTTAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
1 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
*
1045984 CCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCCAGTCCTC
66 CCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
*
1046049 AAAGAGTAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
130 AAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
* * *
1046114 AGCAAGA--TGCTCTCTCTTTTCACCCTTTAGTCCTCAAAGAGTAGGACACC-TTTCCTTTTAAA
195 AGCAAGACCTTCTCTC-CTTTT-ACCCTTTAGTCCACAAAGAGTAAGACACCTTTTCCTTTTAAA
1046176 AGCCCAAACAAGTT-AGTGACACCTTCT
258 AGCCCAAACAAGTTGA-TGACACCTTCT
* * ** *
1046203 AGTCCTCAAAGAGTGGGAGGCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGCCACTTTTCTAGT
1 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
* * * *
1046268 CCTCAAAGAGTAGGACCCATTTTCCTTTTAAAGCCTAAACAAGTCGGTGGCACCTTCCAGTCCTC
66 CCTCAAAGAGCAGGACCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
*
1046333 AAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCAC
130 AAAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCAC
1046382 CTGCTAGTCC
Statistics
Matches: 424, Mismatches: 34, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
283 9 0.02
284 202 0.48
285 213 0.50
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (284 bp):
AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTTTCTAGT
CCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
AAGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
GCAAGACCTTCTCTCCTTTTACCCTTTAGTCCACAAAGAGTAAGACACCTTTTCCTTTTAAAAGC
CCAAACAAGTTGATGACACCTTCT
Found at i:1046330 original size:223 final size:224
Alignment explanation
Indices: 1045913--1046352 Score: 564
Period size: 223 Copynumber: 2.0 Consensus size: 224
1045903 GTTGATGGCA
* ** * * * * * *
1045913 CCTTCTAGTCCTTAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGGCACTTT
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACTCT
* * *
1045978 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCCA
66 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGCCACCTTCCA
** * *
1046043 GTCCTCAAAGAGTAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
131 GTCCTCAAAGAGTAGGACCCTTTCTCCTTGCAAAGCCCAAACAAGTCGGTGGCACTTCCCAGTCC
1046108 TCAAAGAGCAAGATGCTCTCTCTTTTCAC
196 TCAAAGAGCAAGATGCTCTCTCTTTTCAC
* *
1046137 CCTT-TAGTCCTCAAAGAGTAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTTAGTGACAC-CT
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACTCT
** * * * *
1046200 TCTAGTCCTCAAAGAGTGGGAGGCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGCCACTTTTCT
66 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGCCAC-CTTCC
** *
1046265 AGTCCTCAAAGAGTAGGACCCATTT-TCCTTTTAAAGCCTAAACAAGTCGGTGGCACCTT-CCAG
130 AGTCCTCAAAGAGTAGGACCC-TTTCTCCTTGCAAAGCCCAAACAAGTCGGTGGCA-CTTCCCAG
* *
1046328 TCCTCAAAGAGCAGGATGCTTTCTC
193 TCCTCAAAGAGCAAGATGCTCTCTC
1046353 CTTGCAAAGC
Statistics
Matches: 184, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
222 53 0.29
223 121 0.66
224 10 0.05
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (224 bp):
CCTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACTCT
TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGCCACCTTCCA
GTCCTCAAAGAGTAGGACCCTTTCTCCTTGCAAAGCCCAAACAAGTCGGTGGCACTTCCCAGTCC
TCAAAGAGCAAGATGCTCTCTCTTTTCAC
Found at i:1046362 original size:123 final size:123
Alignment explanation
Indices: 1046141--1046373 Score: 310
Period size: 123 Copynumber: 1.9 Consensus size: 123
1046131 TTTCACCCTT
* *
1046141 TAGTCCTCAAAGAGTAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTTAGTGACACCTTCTAGT
1 TAGTCCTCAAAGAGTAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACCTTCCAGT
** * **
1046206 CCTCAAAGAGTGGGAGGCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGCCACTTTTC
66 CCTCAAAGAGCAGGAGGCCTTTTCCTTGCAAAGCCCACACAAGTTAGTGCCACTTTTC
* * *
1046264 TAGTCCTCAAAGAGTAGGAC-CCATTTTCCTTTT-AAAGCCTAAACAAGTCGGTGGCACCTTCCA
1 TAGTCCTCAAAGAGTAGGACACC--TTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACCTTCCA
* *
1046327 GTCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAAAGCCCATACAAGTT
64 GTCCTCAAAGAGCAGGAGGCCTTT-TCCTTGCAAAGCCCACACAAGTT
1046374 GGTGGCACCT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
122 6 0.06
123 80 0.84
124 9 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (123 bp):
TAGTCCTCAAAGAGTAGGACACCTTTCCTTTTAAAAGCCCAAACAAGTCAGTGACACCTTCCAGT
CCTCAAAGAGCAGGAGGCCTTTTCCTTGCAAAGCCCACACAAGTTAGTGCCACTTTTC
Found at i:1049631 original size:77 final size:79
Alignment explanation
Indices: 1049531--1049756 Score: 253
Period size: 76 Copynumber: 2.9 Consensus size: 79
1049521 CTCACAATCA
* * * *
1049531 GGGATACTTCAA-CCTCGATTTTATTTTTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCT-GAATTTATTTCTAGAACACCAATTTTTCATAATCGGGGATACTCCAAC
**
1049595 CCCGTTATTTTTGA-
65 CCCGTTATTTTCAAG
* * * * *
1049609 GGGATACTCTAACCCT-AATTTATTTCCAGAACACCAA-TTTTCACAATCGGGGATACTTCAACG
1 GGGATACTCCAACCCTGAATTTATTTCTAGAACACCAATTTTTCATAATCGGGGATACTCCAACC
*
1049672 CCATTATTTTCAAG
66 CCGTTATTTTCAAG
* * * * *
1049686 GGGATACTCCAACCCTGATTTTATTTCTAGAACACCAATTTTCCATAGTCAAGGGATACTCCAGC
1 GGGATACTCCAACCCTGAATTTATTTCTAGAACACCAATTTTTCATAATC-GGGGATACTCCAAC
1049751 CCCGTT
65 CCCGTT
1049757 GTCATCTCCA
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
76 33 0.28
77 32 0.27
78 29 0.24
79 11 0.09
80 15 0.12
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCTGAATTTATTTCTAGAACACCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCAAG
Found at i:1049727 original size:78 final size:77
Alignment explanation
Indices: 1049530--1049728 Score: 249
Period size: 78 Copynumber: 2.6 Consensus size: 77
1049520 TCTCACAATC
* * * *
1049530 AGGGATACTTCAA-CCTCGATTTTATTTTTAAAACACCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGATACTCCAACCCT-GATTTTATTTCTAGAACACCAA-TTTTCACAATCGGGGATACTCCAA
* **
1049594 CCCCGTTATTTTTG
64 CCCCATTATTTTCA
* * * * *
1049608 AGGGATACTCTAACCCT-AATTTATTTCCAGAACACCAATTTTCACAATCGGGGATACTTCAACG
1 AGGGATACTCCAACCCTGATTTTATTTCTAGAACACCAATTTTCACAATCGGGGATACTCCAACC
1049672 CCATTATTTTCA
66 CCATTATTTTCA
1049684 AGGGGATACTCCAACCCTGATTTTATTTCTAGAACACCAATTTTC
1 A-GGGATACTCCAACCCTGATTTTATTTCTAGAACACCAATTTTC
1049729 CATAGTCAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
76 33 0.32
77 32 0.31
78 35 0.34
79 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (77 bp):
AGGGATACTCCAACCCTGATTTTATTTCTAGAACACCAATTTTCACAATCGGGGATACTCCAACC
CCATTATTTTCA
Found at i:1054843 original size:44 final size:44
Alignment explanation
Indices: 1054778--1054863 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
1054768 CTGATGTATG
*
1054778 GTTACCACCCTAGTTAGATTCTTTTTATTCCT-ATTTGACGTACA
1 GTTACCACCCTAGTTAAATTCTTTTTATT-CTGATTTGACGTACA
* *
1054822 GTTACCACCCTGGTTAAATTCTTTTTGTTCTGATTTGACGTA
1 GTTACCACCCTAGTTAAATTCTTTTTATTCTGATTTGACGTA
1054864 TGGTTGCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (44 bp):
GTTACCACCCTAGTTAAATTCTTTTTATTCTGATTTGACGTACA
Found at i:1054879 original size:44 final size:44
Alignment explanation
Indices: 1054790--1054888 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
1054780 TACCACCCTA
* **
1054790 GTTAGATTCTTTTTATTCCTATTTGACGTACAGTTACCACCCTG
1 GTTAAATTCTTTTTATTCCTATTTGACGTACAGTTACCAAACTG
* ** *
1054834 GTTAAATTCTTTTTGTT-CTGATTTGACGTATGGTTGCCAAACTG
1 GTTAAATTCTTTTTATTCCT-ATTTGACGTACAGTTACCAAACTG
*
1054878 GTCAAA-TCTTT
1 GTTAAATTCTTT
1054889 CTCTTTCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 7 0.15
44 39 0.85
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.44
Consensus pattern (44 bp):
GTTAAATTCTTTTTATTCCTATTTGACGTACAGTTACCAAACTG
Found at i:1054995 original size:132 final size:132
Alignment explanation
Indices: 1054757--1055000 Score: 298
Period size: 132 Copynumber: 1.8 Consensus size: 132
1054747 CAAAAACTGC
** ** *
1054757 CTCTTTCTCGTCTGATGTATGGTTACCACCCTAGTTAGATTCTTTTTATTCCTATTTGACGTACA
1 CTCTTTCTAATCTGATGTATGGTTACCACCCTAGTTAGATTAATTTCATTCCTATTTGACGTACA
* * * *
1054822 GTTACCACCCTGGTTAAATTCTTTTTGTTCTGATTTGACGTATGGTTGCCAAACTGGTCAAATCT
66 GTTACCACCCTGGTTAAATTCTTTCTCTTCTGATCTAACGTATGGTTGCCAAACTGGTCAAATCT
1054887 TT
131 TT
* *
1054889 CTCTTTCTAATCTGACT-TATGGTTACCACCCTAGTTAGATTAATTTCA-TGCTGATTTGATGTA
1 CTCTTTCTAATCTGA-TGTATGGTTACCACCCTAGTTAGATTAATTTCATTCCT-ATTTGACGTA
** *
1054952 TGGTTACCTCCCTGGTTAAA-TCTACTTCTCTTCTG-TCTAACGTATGGTT
64 CAGTTACCACCCTGGTTAAATTCT--TTCTCTTCTGATCTAACGTATGGTT
1055001 ACTACTTTGG
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
131 6 0.06
132 79 0.84
133 9 0.10
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (132 bp):
CTCTTTCTAATCTGATGTATGGTTACCACCCTAGTTAGATTAATTTCATTCCTATTTGACGTACA
GTTACCACCCTGGTTAAATTCTTTCTCTTCTGATCTAACGTATGGTTGCCAAACTGGTCAAATCT
TT
Found at i:1055174 original size:44 final size:44
Alignment explanation
Indices: 1055126--1055543 Score: 178
Period size: 44 Copynumber: 9.5 Consensus size: 44
1055116 AATTTAATAA
* *
1055126 ATGGTTACCACTTTGGTCAAACTCTTCTCTTTCCTGTCTAACGT
1 ATGGTTACCACCTTGGTCAAATTCTTCTCTTTCCTGTCTAACGT
* * * * * * * *
1055170 ATGGTTACGACCTTGGTTAGATTCTTTTCATTCC-GATTTGATGT
1 ATGGTTACCACCTTGGTCAAATTCTTCTCTTTCCTG-TCTAACGT
* * * *
1055214 ATGGTTACCTCTTTGGTCAAA-TCTACCTCTCTT-CTATCTAACGT
1 ATGGTTACCACCTTGGTCAAATTCT-TCTCT-TTCCTGTCTAACGT
* *** *
1055258 ATGGTTACTACCTTGGTCAAATTCTT-TCATTTGGAGT-TAACAT
1 ATGGTTACCACCTTGGTCAAATTCTTCTC-TTTCCTGTCTAACGT
* * * * *
1055301 ATGGTTAACATCTTGGTCAAA-TCTGCCTCTTTCATGTCTAATGT
1 ATGGTTACCACCTTGGTCAAATTCT-TCTCTTTCCTGTCTAACGT
* * * * * *
1055345 ATGGTTACCACCCTGGTCAGATTCTTTTCATTT-CTATTTGACGT
1 ATGGTTACCACCTTGGTCAAATTCTTCTC-TTTCCTGTCTAACGT
* * * * * * **
1055389 ATGGTTACCACCCTAGTCGAATTC-ACTATTTTCCTGTCTGACAA
1 ATGGTTACCACCTTGGTCAAATTCTTCT-CTTTCCTGTCTAACGT
* * * * * *
1055433 ATGGTTGCCACCGTGGTCAGATATT-TT-T-ATTCC-GATTTGATGT
1 ATGGTTACCACCTTGGTCA-A-ATTCTTCTCTTTCCTG-TCTAACGT
* * * * * *
1055476 ATGGCTACCGCCCTGGTCAAA-TCTACCTCTCTCCTGTCTGACGT
1 ATGGTTACCACCTTGGTCAAATTCT-TCTCTTTCCTGTCTAACGT
* *
1055520 ACGGTTACTACCTTGGTCAAATTC
1 ATGGTTACCACCTTGGTCAAATTC
1055544 ATTTCATTTT
Statistics
Matches: 266, Mismatches: 84, Indels: 47
0.67 0.21 0.12
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 5 0.02
43 64 0.24
44 175 0.66
45 16 0.06
46 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (44 bp):
ATGGTTACCACCTTGGTCAAATTCTTCTCTTTCCTGTCTAACGT
Found at i:1055247 original size:263 final size:261
Alignment explanation
Indices: 1054875--1055573 Score: 794
Period size: 263 Copynumber: 2.7 Consensus size: 261
1054865 GGTTGCCAAA
* * * * *
1054875 CTGGTCAAATCTTTCTCTTT-CTAATCTGACTTATGGTTACCACCCTAGTTAGATTAATTTCATG
1 CTGGTCAAATC-TTCTCTTTCCT-GTCTGACATATGGTTACCACCCTGGTTAGATT-TTTTCATT
* * *
1054939 CTGATTTGATGTATGGTTACCTCCCTGGTTAAATCTACTTCTCTTCTGTCTAACGTATGGTTACT
63 CCGATTTGATGTATGGTTACCTCCCTGGTCAAATCTACCTCTCTTCTGTCTAACGTATGGTTACT
* **
1055004 ACTTTGGTCAAATTCTTTCATTTGGAATTAACATATGGTTACCACCCTAGTCAAATCTGTTTATC
128 ACCTTGGTCAAATTCTTTCATTTGGAATTAACATATGGTTACCACCCTAGTCAAATCTGCCTAT-
* * * *
1055069 GTC-TATCTAATGTATGGTTACCATCCTGGACGGATTTTTTTCATTTCAATTTAATAAATGGTTA
192 GTCATATCTAATGTATGGTTACCACCCTGGACAGATTCTTTTCATTTCAATTTAACAAATGGTTA
*
1055133 CCACT
257 CCACC
* * * * *
1055138 TTGGTCAAACTCTTCTCTTTCCTGTCTAACGTATGGTTACGACCTTGGTTAGATTCTTTTCATTC
1 CTGGTCAAA-TCTTCTCTTTCCTGTCTGACATATGGTTACCACCCTGGTTAGATT-TTTTCATTC
** *
1055203 CGATTTGATGTATGGTTACCTCTTTGGTCAAATCTACCTCTCTTCTATCTAACGTATGGTTACTA
64 CGATTTGATGTATGGTTACCTCCCTGGTCAAATCTACCTCTCTTCTGTCTAACGTATGGTTACTA
* * * * * * *
1055268 CCTTGGTCAAATTCTTTCATTTGGAGTTAACATATGGTTAACATCTTGGTCAAATCTGCCTCTTT
129 CCTTGGTCAAATTCTTTCATTTGGAATTAACATATGGTTACCACCCTAGTCAAATCTGCCTATGT
* * * * **
1055333 CATGTCTAATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCTATTTGACGTATGGTTACC
194 CATATCTAATGTATGGTTACCACCCTGGACAGATTCTTTTCATTTCAATTTAACAAATGGTTACC
1055398 ACC
259 ACC
* * * * * * * *
1055401 CTAGTCGAAT-TCACTATTTTCCTGTCTGACAAATGGTTGCCACCGTGGTCAGATATTTTT-ATT
1 CTGGTCAAATCT-TCT-CTTTCCTGTCTGACATATGGTTACCACCCTGGTTAGAT-TTTTTCATT
* * * * *
1055464 CCGATTTGATGTATGGCTACCGCCCTGGTCAAATCTACCTCTCTCCTGTCTGACGTACGGTTACT
63 CCGATTTGATGTATGGTTACCTCCCTGGTCAAATCTACCTCTCTTCTGTCTAACGTATGGTTACT
* * * *
1055529 ACCTTGGTCAAATTCATTTCATTTTGATTTGACGTATGGTTACCA
128 ACCTTGGTCAAATTC-TTTCATTTGGAATTAACATATGGTTACCA
1055574 TTATGGTCAA
Statistics
Matches: 367, Mismatches: 62, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
261 1 0.00
262 80 0.22
263 281 0.77
264 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (261 bp):
CTGGTCAAATCTTCTCTTTCCTGTCTGACATATGGTTACCACCCTGGTTAGATTTTTTCATTCCG
ATTTGATGTATGGTTACCTCCCTGGTCAAATCTACCTCTCTTCTGTCTAACGTATGGTTACTACC
TTGGTCAAATTCTTTCATTTGGAATTAACATATGGTTACCACCCTAGTCAAATCTGCCTATGTCA
TATCTAATGTATGGTTACCACCCTGGACAGATTCTTTTCATTTCAATTTAACAAATGGTTACCAC
C
Found at i:1056770 original size:79 final size:78
Alignment explanation
Indices: 1056580--1056887 Score: 266
Period size: 79 Copynumber: 3.9 Consensus size: 78
1056570 TGGAGATAAC
* * * * * * *
1056580 AACGGGGCTAGAGTATCCCCGATTAT-AGAAAATCGGTG-TTCTGGAAAGAAAATCAGGGTTAGA
1 AACGGGGTTGGAGTATCCCTGATTATGA-AAAATCGATGCTT-TGAAAATAAAATCAGGGTTGGA
1056643 GTATCCCCTCGAAAAT
64 GTATCCCCTC-AAAAT
*
1056659 AACAGGGTTGGAGTATCCCTGATTAT-AGAAAATCGATGCTTTGAAAATAAAATCAGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGA-AAAATCGATGCTTTGAAAATAAAATCAGGGTTGGAG
*
1056723 TATCCGCTCAAAAGT
65 TATCCCCTCAAAA-T
* * * * ** *
1056738 AACGGGGTTGTAGTATCCATGATTATGAAAAATCAATACTTT-AGAAATAAAGCCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGCTTTGA-AAATAAAATCAGGGTTGGAG
***
1056802 TATCTTTTCAAAAAT
65 TATCCCCTC-AAAAT
* * * * * * * *
1056817 AACGGGATTGGAGTGTCCCCGATTATGAAAAATTGATGTTTTGGAAGTAAAA-CTGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGCTTTGAAAATAAAATC-AGGGTTGGAG
1056881 TATCCCC
65 TATCCCC
1056888 GATTATGGAA
Statistics
Matches: 187, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
78 6 0.03
79 174 0.93
80 7 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGCTTTGAAAATAAAATCAGGGTTGGAGT
ATCCCCTCAAAAT
Found at i:1056900 original size:51 final size:51
Alignment explanation
Indices: 1056824--1056924 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
1056814 AATAACGGGA
* *
1056824 TTGGAGTGTCCCCGATTATGAAAAATTGATGTTTTGGAAGTAAAACTGGGG
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAGTAAAACTGGGG
* *
1056875 TTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAGTAAAACTGGG
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAGTAAAACTGGG
1056925 TTAGAGTGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.32
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAGTAAAACTGGGG
Found at i:1059413 original size:50 final size:50
Alignment explanation
Indices: 1059301--1059435 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
1059291 AAAAATGCCT
* * * * *
1059301 GAATGTTTCGATACATTGAAAAATGTATTGATAC-ATCTGGGTAAACCCA
1 GAATGTATCGATACAATGAACAATGTATCGATACAATCGGGGTAAACCCA
1059350 GAATGTATCGATACAATGAACAATGTATCGATACAAT-GGGGTAAAACCCA
1 GAATGTATCGATACAATGAACAATGTATCGATACAATCGGGGT-AAACCCA
* **
1059400 GAATGTATCGATACAATAAACAATGGGTCGATACAA
1 GAATGTATCGATACAATGAACAATGTATCGATACAA
1059436 ATTGTGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
49 34 0.45
50 42 0.55
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (50 bp):
GAATGTATCGATACAATGAACAATGTATCGATACAATCGGGGTAAACCCA
Found at i:1060056 original size:41 final size:41
Alignment explanation
Indices: 1060009--1060088 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
1059999 GAAGGGGGCA
* * *
1060009 TCCTACTCTTTGAGGATTAAGG-AAAAGGAGAATGAAATGGG
1 TCCTACTCCTTGAGGACTAAGGAAAAAGGA-AATAAAATGGG
*
1060050 TCCTACTCCTTGGGGACTAAGGAAAAAGGAAATAAAATG
1 TCCTACTCCTTGAGGACTAAGGAAAAAGGAAATAAAATG
1060089 CATCTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (41 bp):
TCCTACTCCTTGAGGACTAAGGAAAAAGGAAATAAAATGGG
Found at i:1060113 original size:41 final size:41
Alignment explanation
Indices: 1060068--1060337 Score: 150
Period size: 41 Copynumber: 6.3 Consensus size: 41
1060058 CTTGGGGACT
* *
1060068 AAGGAAAAAGGAAATAAAATGCATCTTGCCCTTTGAAAACA
1 AAGGAAAAAGGAAATAAAATGCATCATGCTCTTTGAAAACA
* * ** * * *
1060109 AAGGAAAAGGGAAATTAAATGTGTCCTG-TTTTCTGAAGACA
1 AAGGAAAAAGGAAATAAAATGCATCATGCTCTT-TGAAAACA
* ** *
1060150 AAGGAAAAAGGAGAATAAAGTGCGCCATGCTCTTTGAGAACTA
1 AAGGAAAAAGGA-AATAAAATGCATCATGCTCTTTGAAAAC-A
* * *
1060193 TAAGGGAGAAAAAGGAAATAAAGTGCATCATGCTCTTTGTAGACA
1 -AA--G-GAAAAAGGAAATAAAATGCATCATGCTCTTTGAAAACA
* * * * * *
1060238 GAGGAAAAAAGAAAAAAAAGGCATCCTGCTCTTCGAGGATAA-A
1 AAGGAAAAAGGAAATAAAATGCATCATGCTCTTTGA--A-AACA
* * ** * *
1060281 AGGGAAAAGAAGGAAATGAAATGTGTCTTGCTCTTT-AAGGACA
1 AAGG-AAA-AAGGAAATAAAATGCATCATGCTCTTTGAA-AACA
1060324 AAGGAAAAAGGAAA
1 AAGGAAAAAGGAAA
1060338 AGGCATCCTG
Statistics
Matches: 171, Mismatches: 44, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
40 2 0.01
41 74 0.43
42 22 0.13
43 12 0.07
44 8 0.05
45 20 0.12
46 24 0.14
47 9 0.05
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (41 bp):
AAGGAAAAAGGAAATAAAATGCATCATGCTCTTTGAAAACA
Found at i:1060437 original size:61 final size:61
Alignment explanation
Indices: 1060366--1060793 Score: 476
Period size: 61 Copynumber: 7.1 Consensus size: 61
1060356 GGCTAAGGAG
*
1060366 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * **
1060427 GAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1060488 GAAAAGAAAAAGGTGTCCTGCTTTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * * *
1060551 AAAAGGAAAAGACGTCCTCCCCCTTGGGGACTGAAAAGTGCCACTAACTTGTGAGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * **
1060612 AAAAGGAAAATGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCGGCTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* ** *
1060672 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTGGAAAGTGCTACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1060733 ------AAAAGGCGTCCTGCTTTTTGAGAACTGGAAAA-TGCCACCAACTGGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
*
1060788 GAAAGG
1 AAAAGG
1060794 CGTCCTGCAC
Statistics
Matches: 304, Mismatches: 53, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
55 44 0.14
56 4 0.01
60 52 0.17
61 130 0.43
62 49 0.16
63 25 0.08
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1060688 original size:121 final size:122
Alignment explanation
Indices: 1060366--1060793 Score: 512
Period size: 121 Copynumber: 3.5 Consensus size: 122
1060356 GGCTAAGGAG
* *
1060366 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* **
1060431 GGAAAAGGCATCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTCATGTGGGCTTT
66 GGAAAAGGCGTCCTACTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT
* * *
1060488 GAAAAGAAAAAGGTGTCCTGCTTTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 -AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
1060553 AAGGAAAAGACGTCCTCCCCCTTGGGGACTGAAAAGTGCCACTAACTTGTGAGGGCTTT
64 AAGGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * **
1060612 AAAAGGAAAATGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCGGCTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
1060676 GGAAAAGGCGTCCTACTCTTTGAGGACTGGAAAGTGCTACCAACTTGTGTGGGCTTT
66 GGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
1060733 ------AAAAGGCGTCCTGCTTTTTGAGAACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1060792 GG
66 GG
1060794 CGTCCTGCAC
Statistics
Matches: 261, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
115 23 0.09
116 28 0.11
121 76 0.29
122 1 0.00
123 57 0.22
124 72 0.28
125 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (122 bp):
AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1061005 original size:62 final size:62
Alignment explanation
Indices: 1060832--1061008 Score: 241
Period size: 61 Copynumber: 2.9 Consensus size: 62
1060822 AAAGGAGAGA
* * * *
1060832 GCATCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTTGGCTTT-AAGAGAAGAAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAGAAG
* * * * *
1060893 GCATCCTACTCTCTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAAGAA-AAG
1 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAGAAG
*
1060954 GCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAA
1 GCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTAGGCTTTAAAA
1061009 GGCACCCTAC
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
61 65 0.65
62 35 0.35
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (62 bp):
GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAGAAG
Found at i:1061084 original size:217 final size:210
Alignment explanation
Indices: 1060623--1061138 Score: 653
Period size: 217 Copynumber: 2.4 Consensus size: 210
1060613 AAAGGAAAAT
**
1060623 GCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCGGCTTGTGTGGGCTTTAAAAGGAA-AAGGC
1 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-GAAGAAGGC
* * * *
1060685 GTCCTACTCTTTGAGGACTGGAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTT
64 GTCCTACTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGCATCCTGCTCT
* * * ** *
1060750 TTGAGAACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCACTTTAAGGACTA
129 TTGAGAACTAGAAAATGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTTAAGGACTA
*
1060815 ATGGGTGAAAGGAGAGA
194 AAGGGTGAAAGGAGAGA
* * * * *
1060832 GCATCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTTGGCTTTAAGAGAAGAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGT
* *
1060897 CCTACTCTCTGAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAGGCATCCTG
66 CCTACTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT------AAAAGGCATCCTG
* * *
1060962 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGCACCCTACTCTTTGAA
125 CTCTTTGAGAACTAGAAAA-TGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTT-AA
1061027 -GACTAAAGGGTGAAAGGAGAGA
188 GGACTAAAGGGTGAAAGGAGAGA
* * *
1061049 GCGTCCTACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGT
* * *
1061114 CCTGCTTTTTGAGGACTGAAAAGTG
66 CCTACTCTTTGAGGACTGGAAAGTG
1061139 AAAGGAGAAA
Statistics
Matches: 260, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
209 22 0.08
210 72 0.28
211 3 0.01
216 28 0.11
217 133 0.51
218 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (210 bp):
GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGT
CCTACTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
GAGAACTAGAAAATGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTTAAGGACTAAA
GGGTGAAAGGAGAGA
Found at i:1067516 original size:44 final size:44
Alignment explanation
Indices: 1067453--1067563 Score: 213
Period size: 44 Copynumber: 2.5 Consensus size: 44
1067443 GGTTGCGAAA
*
1067453 ATGGTTACCACCCTGGTCAAATTCACTTCCTTCCTATCTGACAT
1 ATGGTTGCCACCCTGGTCAAATTCACTTCCTTCCTATCTGACAT
1067497 ATGGTTGCCACCCTGGTCAAATTCACTTCCTTCCTATCTGACAT
1 ATGGTTGCCACCCTGGTCAAATTCACTTCCTTCCTATCTGACAT
1067541 ATGGTTGCCACCCTGGTCAAATT
1 ATGGTTGCCACCCTGGTCAAATT
1067564 TTTTTTATTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGTTGCCACCCTGGTCAAATTCACTTCCTTCCTATCTGACAT
Found at i:1067919 original size:88 final size:87
Alignment explanation
Indices: 1067453--1068477 Score: 444
Period size: 88 Copynumber: 11.8 Consensus size: 87
1067443 GGTTGCGAAA
* * ** * * * * *
1067453 ATGGTTACCACCCTGGTCAAATTCACTTCCTTCCTATCTGACATATGGTTGCCACCCTGGTCAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* * *
1067518 TTCACTTC-CTTCCTA-TCTGACAT
66 TT-ACCTCTC-T-CTAGTCTAACGT
* * * * * * * * *
1067541 ATGGTTGCCACCCTGGTCAAATTTTTTTTATTCCGATTTCATGTTTGGTTACCACCCTCGTCAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* * * *
1067606 TCTTCCTCTCTCCAATCTAACCT
66 T-TACCTCTCTCTAGTCTAACGT
* * * ** *
1067629 ATGGTTA-CAACTCGGGTCAGATTCTTTTCGTTCTTATTTGACGTATGGTTACCACCCTAGTCAA
1 ATGGTTACCACCT-TGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAA
* * * *
1067693 ATTCACCTATTTCCTAGTCTGATGT
65 ATT-ACCTCTCT-CTAGTCTAACGT
* * * ** * *
1067718 ATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTGACACATGGTTACCACCTTGGTTAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* *
1067783 TT---TGTCTCTTGTCTAACGT
66 TTACCTCTCTCTAGTCTAACGT
* *
1067802 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGATGTATAGTTACCACCCTGGTCAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* *
1067867 TCTACCTCTCTCTTGTCTGACGT
66 T-TACCTCTCTCTAGTCTAACGT
* ** * * *** * * * * * *
1067890 ATGGCTACTGCCTTGGTCAAATTCATTTCATTTTAATTTGACGTATGGCTACTATCTTAGTGAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* *
1067955 TCTACCTCTCTCCTA-T-T--GGA
66 T-TACCTCTCT-CTAGTCTAACGT
* * * ** ** * * * *
1067975 ATGGTTACCACCCTGGTCAGATTCATTTCGTTTTGATTTGACCCATGGCTACCATCATGATCAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
* * * * *
1068040 TCTGCCTCTATCTTGTCTGATGT
66 T-TACCTCTCTCTAGTCTAACGT
* * * ** * * *
1068063 ATGGTTATCACCTAGCTCAGATTC-TTAGA-TCCTTATTTGACGTACGGTTACCACCCTAGTCAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCC-GATTTGACGTATGGTTACCACCCTGGTCAA
1068126 ATTCACCTC-CTTCTTA-TCTAACGT
65 ATT-ACCTCTC-TC-TAGTCTAACGT
* * * * ** * *
1068150 ATGCTT-CACACCGTGGTCAGATTCTTTTTATTCTGATTTGACACATGGTTGCCACCCTGGTGAA
1 ATGGTTAC-CACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAA
** *
1068214 ATTTGTCTCTCTTCT-GTCTAACAT
65 A-TTACCTCTC-TCTAGTCTAACGT
* * * * *
1068238 ATGGTT--C-CC-TGGTCAGATTTTTTTTCATAT-AGATTTGATGGATGGTTACCACCTTGGTCA
1 ATGGTTACCACCTTGGTCAGA-TTCTTTTCAT-TCCGATTTGACGTATGGTTACCACCCTGGTCA
* *
1068298 AATTTACCTCTCTTCT-GTCTCACAT
64 AA-TTACCTCTC-TCTAGTCTAACGT
** ** * ** * * ** * * *
1068323 ATGGTCT-CTGCCAAGGTCAAATTCCATTCATTTCGATTTGATGTATCATTACTATCTTGG-CGA
1 ATGGT-TACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTC--
* * * * *
1068386 AAACTGCCTCTTTCTCA-TCTGATGT
63 AAATTACCTCTCTCT-AGTCTAACGT
* * * * ** **
1068411 ATGGTTACCACCCTAGTTAGATTCTTTTTATTCTTATTTGACGTACAGTTACCACCCTGGTCAAA
1 ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
1068476 TT
66 TT
1068478 TTTTTTGTTC
Statistics
Matches: 698, Mismatches: 200, Indels: 79
0.71 0.20 0.08
Matches are distributed among these distances:
84 76 0.11
85 126 0.18
86 6 0.01
87 72 0.10
88 335 0.48
89 80 0.11
90 3 0.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (87 bp):
ATGGTTACCACCTTGGTCAGATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTGGTCAAA
TTACCTCTCTCTAGTCTAACGT
Found at i:1068590 original size:44 final size:44
Alignment explanation
Indices: 1068409--1069212 Score: 243
Period size: 44 Copynumber: 18.3 Consensus size: 44
1068399 CTCATCTGAT
* * * *
1068409 GTATGGTTACCACCCTAGTTAGATTCTTTTTATTCTTATTTGAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGAC
** * * **
1068453 GTACAGTTACCACCCTGGTCAAATTTTTTTTGTTCTGATTTGAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGAC
* ** * * *
1068497 GTATGGTTGCCAAACTAGTCAAA-TCTTTCTCTTTCTAATCTGAC
1 GTATGGTTACCACCCTAGTCAAATTCTTT-TCATTCTGATTTGAC
* * * *
1068541 CTATGGTTACCACTCTAGTCAAATTCATTTCATTCTGATTTGAT
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGAC
* * * * * * * *
1068585 GTATGGTTACCTCCCTGGTTAAATCTACCTCTC-TTTTG-TCTAAC
1 GTATGGTTACCACCCTAGTCAAAT-T-CTTTTCATTCTGATTTGAC
* * * * * *
1068629 GTATTGTTACTACCTTGGTCAAATTC-TTTCATT-TGGAATTAAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCT-GATTTGAC
* * * *
1068672 ATGTGGTTACCACCCTAGTCAAA-TCTGTTT-ATCGTCT-ATCTGAT
1 GTATGGTTACCACCCTAGTCAAATTCT-TTTCAT--TCTGATTTGAC
* * * * * *
1068716 GTATGGTTACCATCCTGGACAGATTTTTTTCATT-TCGATTTAAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCT-GATTTGAC
** ** * * * * * *
1068760 AAATGGTTACCACTTTGGTCAAACTCTTCTCTTTCCT-ATCTAAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATT-CTGATTTGAC
* * * * * * * *
1068804 GTATGGTTACGACCTTGGTTAGATTCTTTTCATT-TCGATGTAAT
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCT-GATTTGAC
** * * * * *
1068848 GTATGGTTACCATTCTGGTCAAATCTACCTCTC-TTCT-ATCTAAC
1 GTATGGTTACCACCCTAGTCAAAT-T-CTTTTCATTCTGATTTGAC
* * * * *
1068892 GTATGGTTACTACCTTGGTCAAATTC-TTTCATT-TGGAGTTAAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCT-GATTTGAC
* * * * ** * * * *
1068935 ATATGGTTACCATCTTGGTCAAA-TCTGCCTCTTTCATG-TCTAAT
1 GTATGGTTACCACCCTAGTCAAATTCT-TTTCATTC-TGATTTGAC
* * *
1068979 GTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCT-ATTTGAC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATT-CTGATTTGAC
* * *
1069023 GTATGGTTGCCACCCTAGTCGAATTCACTATTT--TCCTG-TTTGAC
1 GTATGGTTACCACCCTAGTCAAATT--CT-TTTCATTCTGATTTGAC
* * * * *
1069067 AG-ATGGTTGCCACCCTAGTCAGATATTTTTTTTATTCCGATTTGAT
1 -GTATGGTTACCACCCTAGTCA-A-ATTCTTTTCATTCTGATTTGAC
* ** * * * *
1069113 GTATGGCTACTGCCCTAGTCAAATCTACCTCTC-TCCTG-TCTGAC
1 GTATGGTTACCACCCTAGTCAAAT-T-CTTTTCATTCTGATTTGAC
* * * * * * *
1069157 GTACGGTTACTACCTTGGTCAAATTCATTTCATTTTGATTTGGC
1 GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGAC
1069201 GTATGGTTACCA
1 GTATGGTTACCA
1069213 TCATGGTCAA
Statistics
Matches: 551, Mismatches: 161, Indels: 96
0.68 0.20 0.12
Matches are distributed among these distances:
41 8 0.01
42 17 0.03
43 62 0.11
44 388 0.70
45 34 0.06
46 39 0.07
47 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (44 bp):
GTATGGTTACCACCCTAGTCAAATTCTTTTCATTCTGATTTGAC
Found at i:1068781 original size:88 final size:86
Alignment explanation
Indices: 1068623--1069030 Score: 313
Period size: 88 Copynumber: 4.7 Consensus size: 86
1068613 CTCTCTTTTG
* * * * * * * **
1068623 TCTAACGTATTGTTACTACCTTGGTCA-AATTCTTTCATTTGGAATTAACATGTGGTTACCACCC
1 TCTAACGTATGGTTACCACCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTTACCA-TT
*
1068687 TAGTCAAATCTGTTTATCGTCTA
65 TGGTCAAATCTGTTTATC-TCTA
* * * *
1068710 TCTGATGTATGGTTACCATCC-TGGACAGATTTTTTTCATTTCGATTTAACAAATGGTTACCACT
1 TCTAACGTATGGTTACCA-CCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTTACCA-T
*
1068774 TTGGTCAAACTCT-TCTCTTTC-CTA
64 TTGGTCAAA-TCTGT-T-TATCTCTA
* * * * **
1068798 TCTAACGTATGGTTACGACCTTGGTTAGATTCTTTTCATTTCGATGTAATGTATGGTTACCATTC
1 TCTAACGTATGGTTACCACCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTTACCATT-
*** *
1068863 TGGTCAAATCTACCTCTCTTCTA
65 TGGTCAAATCTGTTTATC-TCTA
* * * * *
1068886 TCTAACGTATGGTTACTACCTTGGTCA-AATTCTTTCATTTGGAGTTAACATATGGTTACCATCT
1 TCTAACGTATGGTTACCACCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTTACCAT-T
** * * *
1068950 TGGTCAAATCTGCCTCTTTCATG
65 TGGTCAAATCTGTTTATCTC-TA
* * * * * *
1068973 TCTAATGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCTATTTGACGTATGGTT
1 TCTAACGTATGGTTACCACCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTT
1069031 GCCACCCTAG
Statistics
Matches: 256, Mismatches: 52, Indels: 25
0.77 0.16 0.08
Matches are distributed among these distances:
86 5 0.02
87 95 0.37
88 149 0.58
89 4 0.02
90 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (86 bp):
TCTAACGTATGGTTACCACCTTGGTCAGATTTTTTTCATTTCGATTTAACATATGGTTACCATTT
GGTCAAATCTGTTTATCTCTA
Found at i:1070239 original size:79 final size:80
Alignment explanation
Indices: 1070106--1070283 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
1070096 GAGTGCCCTT
* * * * *
1070106 GAAAGTAACAAGGTTGGAGTATCCCTGATTATAGAAAATCGATGCTTCGAAAATAAAATCAGGGT
1 GAAAGTAACGAGGTTGGAGTATCCATGATTATAGAAAATCAATACTTAGAAAATAAAATCAGGGT
1070171 TGGAGTATC-CTCTCA
66 TGGAGTATCTCT-TCA
* * *
1070186 -AAAGTAACGGGGTTGGAGTATCCATGATTAT-GAGAAATCAATACTTTAG-AAATAAAGTCGGG
1 GAAAGTAACGAGGTTGGAGTATCCATGATTATAGA-AAATCAATAC-TTAGAAAATAAAATCAGG
1070248 GTTGGAGTATCTCTTCA
64 GTTGGAGTATCTCTTCA
*
1070265 GAAA-TAACGAGATTGGAGT
1 GAAAGTAACGAGGTTGGAGT
1070284 GCCCCCAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 2 0.02
79 74 0.88
80 8 0.10
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (80 bp):
GAAAGTAACGAGGTTGGAGTATCCATGATTATAGAAAATCAATACTTAGAAAATAAAATCAGGGT
TGGAGTATCTCTTCA
Found at i:1070353 original size:51 final size:51
Alignment explanation
Indices: 1070277--1070380 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
1070267 AATAACGAGA
* * *
1070277 TTGGAGTGCCCCCAATTATGAAAAATTGATGTTTTGGAAGTAAAACCGGGG
1 TTGGAGTACCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGG
* * * * *
1070328 TTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACTGGGG
1 TTGGAGTACCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGG
1070379 TT
1 TT
1070381 ACAGTGTTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
TTGGAGTACCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGG
Found at i:1072768 original size:20 final size:20
Alignment explanation
Indices: 1072743--1072846 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
1072733 AAAATGCCTG
1072743 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
1072763 AATGTATCGATACATCTGGATAAACCCA
1 AATGTATCGATACAT-T-G---AA---A
* *
1072791 GAATGTATCGATACAATGAAC
1 -AATGTATCGATACATTGAAA
** * *
1072812 AATACATCGATACAATGAAT
1 AATGTATCGATACATTGAAA
1072832 AATGTATCGATACAT
1 AATGTATCGATACAT
1072847 CGGGGTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
20 44 0.66
21 1 0.01
22 1 0.01
24 2 0.03
25 2 0.03
27 1 0.01
28 2 0.03
29 14 0.21
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1072883 original size:70 final size:69
Alignment explanation
Indices: 1072748--1072884 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
1072738 GCCTGAATGT
* * * *
1072748 ATCGATACATTGAAAAATGTATCGATACATCTGGATAAACCCAGAATGTATCGATACAATGAACA
1 ATCGATACAATGAAAAATGTATCGATACATCGGGATAAACCCAAAATGTATCGATACAATAAACA
1072813 ATAC
66 ATAC
* *
1072817 ATCGATACAATGAATAATGTATCGATACATCGGGGTAAAACCCAAAATGTATCGATACAATAAAC
1 ATCGATACAATGAAAAATGTATCGATACATCGGGAT-AAACCCAAAATGTATCGATACAATAAAC
1072882 AAT
65 AAT
1072885 GTATCAATAC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 32 0.52
70 29 0.48
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.24
Consensus pattern (69 bp):
ATCGATACAATGAAAAATGTATCGATACATCGGGATAAACCCAAAATGTATCGATACAATAAACA
ATAC
Found at i:1072895 original size:70 final size:69
Alignment explanation
Indices: 1072743--1072896 Score: 218
Period size: 70 Copynumber: 2.2 Consensus size: 69
1072733 AAAATGCCTG
* * *
1072743 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGATAAACCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATGAAAAATGTATCGATACATCGGGATAAACCCAAAATGTATCGATACAAT
*
1072808 GAAC
66 AAAC
** * *
1072812 AATACATCGATACAATGAATAATGTATCGATACATCGGGGTAAAACCCAAAATGTATCGATACAA
1 AATGTATCGATACAATGAAAAATGTATCGATACATCGGGAT-AAACCCAAAATGTATCGATACAA
1072877 TAAAC
65 TAAAC
*
1072882 AATGTATCAATACAA
1 AATGTATCGATACAA
1072897 ATTGTGAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 35 0.48
70 38 0.52
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (69 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCGGGATAAACCCAAAATGTATCGATACAAT
AAAC
Found at i:1073512 original size:41 final size:41
Alignment explanation
Indices: 1073467--1073798 Score: 125
Period size: 41 Copynumber: 7.8 Consensus size: 41
1073457 GGAAAGGGGC
* *
1073467 GTCCTACTCTTTGAGGATTAAGG-AAAAGGAGAATAAAATGG
1 GTCCTACTCCTTGAGGACTAAGGAAAAAGGA-AATAAAATGG
* *
1073508 GTCCTACTCCTTGGGGACTAAGGAAAAAAGGAAATAAAATGC
1 GTCCTACTCCTTGAGGACTAAGG-AAAAAGGAAATAAAATGG
* * * * * * *
1073550 ATCTTGC-CCTTTGAAGACAAAGGAAAAAGGAAATTAAATGT
1 GTCCTACTCC-TTGAGGACTAAGGAAAAAGGAAATAAAATGG
* * * * * **
1073591 GTCCTGCT-TTCTGAGGACAAAAGAAAAAGGAGAATAAAGTAC
1 GTCCTACTCCT-TGAGGACTAAGGAAAAAGGA-AATAAAATGG
* * * * * * *
1073633 GTCATGCTCTTTGAGAACTATAAGGGAGAAAAAAGAAATAAAGTGC
1 GTCCTACTCCTTGAGGAC--TAA--G-GAAAAAGGAAATAAAATGG
* * * * *
1073679 GTCTTGCTCTTTGAGGAC-AGAGGAAAAAAGAAA-AGAAAAGG
1 GTCCTACTCCTTGAGGACTA-AGGAAAAAGGAAATA-AAATGG
* * ** * * *
1073720 CATCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGAAATCAAATGT
1 -GTCCTACTCCTTGAGGAC-TAA-GG-AAA-AAGGAAATAAAATGG
* *
1073766 GTCCTACTCTTTGAGGACAAAGGAAAAAGGAAA
1 GTCCTACTCCTTGAGGACTAAGGAAAAAGGAAA
1073799 AAGCATCTTG
Statistics
Matches: 228, Mismatches: 42, Indels: 42
0.73 0.13 0.13
Matches are distributed among these distances:
40 2 0.01
41 82 0.36
42 61 0.27
43 13 0.06
44 9 0.04
45 18 0.08
46 35 0.15
47 8 0.04
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (41 bp):
GTCCTACTCCTTGAGGACTAAGGAAAAAGGAAATAAAATGG
Found at i:1073573 original size:42 final size:42
Alignment explanation
Indices: 1073465--1073798 Score: 257
Period size: 42 Copynumber: 7.9 Consensus size: 42
1073455 AAGGAAAGGG
* **
1073465 GCGTCCTACTCTTTGAGGATTAAGG--AAAAGGAGAATAAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGA-AATAAAAT
* * * * *
1073506 GGGTCCTACTCCTTGGGGACTAAGGAAAAAAGGAAATAAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * * * *
1073548 GCATCTTGCCCTTTGAAGACAAAGG-AAAAAGGAAATTAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * *
1073589 GTGTCCTGCT-TTCTGAGGACAAAAG-AAAAAGGAGAATAAAGT
1 GCGTCCTGCTCTT-TGAGGACAAAGGAAAAAAGGA-AATAAAAT
* * * * *
1073631 ACGTCATGCTCTTTGAGAACTATAAGGGAGAAAAAAGAAATAAAGT
1 GCGTCCTGCTCTTTGAGGAC-A-AA-GGA-AAAAAGGAAATAAAAT
* * * * *
1073677 GCGTCTTGCTCTTTGAGGACAGAGGAAAAAAGAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * *
1073719 GCATCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGGAAATCAAAT
1 GCGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAATAAAAT
* *
1073764 GTGTCCTACTCTTTGAGGACAAAGG-AAAAAGGAAA
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAA
1073799 AAGCATCTTG
Statistics
Matches: 231, Mismatches: 49, Indels: 26
0.75 0.16 0.08
Matches are distributed among these distances:
40 2 0.01
41 67 0.29
42 74 0.32
43 17 0.07
44 12 0.05
45 27 0.12
46 25 0.11
47 7 0.03
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (42 bp):
GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
Found at i:1073911 original size:61 final size:61
Alignment explanation
Indices: 1073826--1074252 Score: 433
Period size: 61 Copynumber: 7.1 Consensus size: 61
1073816 GGGCAAAAGA
* *
1073826 GAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGTCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * **
1073888 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACAAACTCATGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1073949 GAAAAGAAAAAGGTGTCATGCTCTTTGAAGACTAGAAAATTGCCACCAACTTGTGTGGGCTTT
1 GAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
1074012 AAAAAGAATAGACGTCCTGCGCCTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
1074073 -AAAAGGAAAATGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCGACTTGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * ** ** *
1074133 -AAAAGGAAAAGGCGTTCTACTCTTTGAGGACTGGAAAGTGTTACCAACTTGTATGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1074194 ------AAAAGGCGTCCTGCTCTTTGAGAACTGGAAAA-TGCCACCAACTGGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
1074249 GAAA
1 GAAA
1074253 GGCGTCCTGC
Statistics
Matches: 302, Mismatches: 54, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
55 42 0.14
56 4 0.01
60 57 0.19
61 125 0.41
62 46 0.15
63 28 0.09
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1074160 original size:121 final size:122
Alignment explanation
Indices: 1073827--1074254 Score: 469
Period size: 121 Copynumber: 3.5 Consensus size: 122
1073817 GGCAAAAGAG
* * *
1073827 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGTCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAA
* **
1073892 A-GAAAAGGCATCCTACTCTTTGAGGACT-AAAAGGTGCCACAAACTCATGTGGGCTTT
65 AGGAAAAGGCGTCCTACTCTTTGAGGACTGAAAA-GTGCCACAAACTTGTGTGGGCTTT
* * * * *
1073949 GAAAAGAAAAAGGTGTCATGCTCTTTGAAGACTAGAAAATTGCCACCAACTTGTGTGGGCTTTAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
1074014 AAAGAATAGACGTCCTGCGCCTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTT
64 AAGGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACAAACTTGTGTGGGCTTT
* * *
1074073 AAAAGGAAAATGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCGACTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * ** * *
1074137 GGAAAAGGCGTTCTACTCTTTGAGGACTGGAAAGTGTTACCAACTTGTATGGGCTTT
66 GGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACAAACTTGTGTGGGCTTT
* * * * *
1074194 ------AAAAGGCGTCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1074253 GG
66 GG
1074255 CGTCCTGCAC
Statistics
Matches: 259, Mismatches: 42, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
115 24 0.09
116 29 0.11
121 73 0.28
122 1 0.00
123 61 0.24
124 67 0.26
125 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (122 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACAAACTTGTGTGGGCTTT
Found at i:1074466 original size:62 final size:61
Alignment explanation
Indices: 1074293--1074469 Score: 221
Period size: 61 Copynumber: 2.9 Consensus size: 61
1074283 AAAGGAGAGA
* * * * * *
1074293 GCATCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTTGGCTTTAAGAAGAGAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAG
* * *
1074354 GCATCCTGCTCTTT-ATGGACTAGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAG
1 GCATCCTGCTCTTTGA-GGACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAG
** *
1074415 GGGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAA
1 GCATCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTAGGCTTTAAAA
1074470 GGCACCCTAC
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.71
62 28 0.28
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAG
Found at i:1074508 original size:217 final size:209
Alignment explanation
Indices: 1074087--1074599 Score: 627
Period size: 217 Copynumber: 2.4 Consensus size: 209
1074077 GGAAAATGCG
* * *
1074087 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCGACTTGTGTGGGCTTTAAAAGGAAAAGGCGTTC
1 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
* * ** *
1074150 TACTCTTTGAGGACTGGAAAGTGTTACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
64 TGCTCTTTGAGGACTAGAAAGTGCCACCAACCTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
* * * ** * *
1074215 GAACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCACTTTAATGACTAATGG
129 GAACTGAAAAATGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTTAAGGACTAATGG
1074280 GTGAAAGGAGAGAGCA
194 GTGAAAGGAGAGAGCA
* * *
1074296 TCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTTGGCTTTAAGAAGAGAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGAGAAGGCGTCCT
* * *
1074361 GCTCTTT-ATGGACTAGAAGGTGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAGGGGTCCTGCT
65 GCTCTTTGA-GGACTAGAAAGTGCCACCAACCTGTATGGGCTTT------AAAAGGCGTCCTGCT
* * * *
1074425 CTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGCACCCTACTCTTTGAGGA
123 CTTTGAGAACT-GAAAAATGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTTAAGGA
*
1074490 CTAATGGGTGAAAGGAGAGAGCG
187 CTAATGGGTGAAAGGAGAGAGCA
* * *
1074513 TCCTACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGTCTT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-AGAAGGCGTCCT
*
1074578 GCTCTTTGAGGACTAAAAAGTG
65 GCTCTTTGAGGACTAGAAAGTG
1074600 AAAGGAGAAA
Statistics
Matches: 257, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
209 18 0.07
210 68 0.26
211 5 0.02
216 27 0.11
217 138 0.54
218 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (209 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTG
CTCTTTGAGGACTAGAAAGTGCCACCAACCTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGAGA
ACTGAAAAATGCCACCAACTGGTGTAGGCTTTAAAAGGCACCCTACACTTTAAGGACTAATGGGT
GAAAGGAGAGAGCA
Found at i:1074606 original size:100 final size:95
Alignment explanation
Indices: 1074417--1074607 Score: 231
Period size: 94 Copynumber: 2.0 Consensus size: 95
1074407 AAGAAAAGGG
* *
1074417 GTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGCACCCTACTC
1 GTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAACCCTACTC
***
1074482 TTTGAGGACTAATGGGTGAAAGGAGAGAGC
66 TTTGAGGACTAAAAAGTGAAAGGAGAGAGC
** *
1074512 GTCCTACTCTTTGAGGACT-GGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAGGCGTC
1 GTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAG--GAA--C--C
* *
1074576 TTGCTCTTTGAGGACTAAAAAGTGAAAGGAGA
60 CTACTCTTTGAGGACTAAAAAGTGAAAGGAGA
1074608 AAGTTTAGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
94 31 0.39
95 18 0.22
96 2 0.03
98 1 0.01
100 28 0.35
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (95 bp):
GTCCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAACCCTACTC
TTTGAGGACTAAAAAGTGAAAGGAGAGAGC
Found at i:1075607 original size:21 final size:21
Alignment explanation
Indices: 1075583--1075623 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1075573 TTTTCTCTCT
*
1075583 TTTTTTCTTTATTTTTGTTTA
1 TTTTTTATTTATTTTTGTTTA
1075604 TTTTTTATTTATTTTTGTTT
1 TTTTTTATTTATTTTTGTTT
1075624 TGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTTATTTATTTTTGTTTA
Found at i:1075629 original size:21 final size:20
Alignment explanation
Indices: 1075583--1075634 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
1075573 TTTTCTCTCT
1075583 TTTTTTCTTTATTTTTGTTTA
1 TTTTTT-TTTATTTTTGTTTA
1075604 TTTTTTATTTATTTTTGTTT-
1 TTTTTT-TTTATTTTTGTTTA
1075624 TGTTTTTTTTA
1 T-TTTTTTTTA
1075635 AAAGGAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTATTTTTGTTTA
Found at i:1088161 original size:79 final size:78
Alignment explanation
Indices: 1088030--1088333 Score: 308
Period size: 79 Copynumber: 3.8 Consensus size: 78
1088020 TTTTGGAGAT
* * ** * * *
1088030 AATAACGGGGCTGAAGTATCCCCAATTATAGAAAATCGGTG-TTCTGGAAATAAAATCGAGGTTG
1 AATAACAGGGTTGAAGTATCCCTGATTAT-GAAAATCGATGCTT-TGAAAATAAAACCGAGGTTG
1088094 GAGTATCCCCTCGAA
64 GAGTATCCCCTCGAA
* * *
1088109 AATAACAGGGTTGAAATATCCCTGATTATAGAAAATCGATGCTTTGAAAATAAAATCGGGGTTGG
1 AATAACAGGGTTGAAGTATCCCTGATTAT-GAAAATCGATGCTTTGAAAATAAAACCGAGGTTGG
1088174 AGTATCCCCTCGAA
65 AGTATCCCCTCGAA
* * * * * * * *
1088188 AGTAAC-GAGGTTGGAGTATCCCTCATTGTGAGAAATCAATACTTT-AGAAATAAAGCCGGGGTT
1 AATAACAG-GGTTGAAGTATCCCTGATTATGA-AAATCGATGCTTTGA-AAATAAAACCGAGGTT
1088251 GGAGTATCCCCTCGAA
63 GGAGTATCCCCTCGAA
* * * * * *
1088267 AATAACAGGATTGAAGTGTCCCTGATTATGAAAAATTGATGTTTTGGAAGTAAAACCGAGGTTGG
1 AATAACAGGGTTGAAGTATCCCTGATTATG-AAAATCGATGCTTTGAAAATAAAACCGAGGTTGG
1088332 AG
65 AG
1088334 AATTCTCAAT
Statistics
Matches: 187, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 4 0.02
79 179 0.96
80 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (78 bp):
AATAACAGGGTTGAAGTATCCCTGATTATGAAAATCGATGCTTTGAAAATAAAACCGAGGTTGGA
GTATCCCCTCGAA
Found at i:1090946 original size:88 final size:88
Alignment explanation
Indices: 1090812--1091008 Score: 236
Period size: 88 Copynumber: 2.2 Consensus size: 88
1090802 TTTAATGCAG
* * * *
1090812 GGTTACCACCCTGGTCAAATTTGCCTCTTTCTTGTCTAGCGCATGGTTACCACCCTCGTTAGATG
1 GGTTACCACCCTGGTCAAATTTGCCTCTTTCATGCCTAACGCATGGTTACCACCCTCGTCAGATG
*
1090877 CTTTTTATT-CTGACTCAACATAT
66 CTTTTCATTCCT-ACTCAACATAT
* * ** *
1090900 GGTTACCACCTTGGTCAAATTTGCCT-TTCTCATGCCTAACGTATGGTTTTCACCCTGGTCAGAT
1 GGTTACCACCCTGGTCAAATTTGCCTCTT-TCATGCCTAACGCATGGTTACCACCCTCGTCAGAT
* * *
1090964 TCTTTTCATTCCTATTTAACATAT
65 GCTTTTCATTCCTACTCAACATAT
*
1090988 GGTTACCACCCTGGTCGAATT
1 GGTTACCACCCTGGTCAAATT
1091009 CACTTTTTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
87 2 0.02
88 88 0.96
89 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (88 bp):
GGTTACCACCCTGGTCAAATTTGCCTCTTTCATGCCTAACGCATGGTTACCACCCTCGTCAGATG
CTTTTCATTCCTACTCAACATAT
Found at i:1090989 original size:44 final size:43
Alignment explanation
Indices: 1090936--1091058 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
1090926 TTCTCATGCC
* **
1090936 TAACGTATGGTTTTCACCCTGGTCAGATT-CTTTTCATTCCTATT
1 TAACATATGGTTACCACCCTGGTCAGATTACTTTT--TTCCTATT
*
1090980 TAACATATGGTTACCACCCTGGTC-GAATTCACTTTTTTCCTGTT
1 TAACATATGGTTACCACCCTGGTCAG-ATT-ACTTTTTTCCTATT
* * *
1091024 TGACAGATGGTTGCCACCCTGGTCAGA-TA-TTTTTT
1 TAACATATGGTTACCACCCTGGTCAGATTACTTTTTT
1091059 ATTTCGATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
41 6 0.09
42 1 0.01
43 2 0.03
44 53 0.78
45 1 0.01
46 5 0.07
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (43 bp):
TAACATATGGTTACCACCCTGGTCAGATTACTTTTTTCCTATT
Found at i:1091391 original size:88 final size:88
Alignment explanation
Indices: 1091204--1091743 Score: 389
Period size: 88 Copynumber: 6.2 Consensus size: 88
1091194 TTGATGTGTT
** * * * * * *
1091204 AGATTCTTTTCATTCCAATTTGATGCATGGTTACCACCCTGGTCAAATTTGCC--TCTCTTGTCA
1 AGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTCTTATCT
* * * *
1091267 GGCGTATGGTTGCTACCTTAGTC
66 GACGTATGGTTACCACCCTAGTC
* * * * * * *
1091290 AAATTCATTTCATTTTGATTTGACGTATGGTTACTATCTTGGTGAAATCTACCTTTCTCTTATCT
1 AGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTCTTATCT
* * *
1091355 AACGCATGGTTACCACCCTGGTC
66 GACGTATGGTTACCACCCTAGTC
* * * *
1091378 AGATTCTTTTCATTCCT-ATTTGACATATGGTTACCAGCCTGCTCAAAT-TCACCTCTT-TCCTA
1 AGATTCTTTTCATT-CTGATTTGACGTATGGTTACCACCCTGGTCAAATCT-ACCT-TTCTCTTA
* * * * *
1091440 TCTGACCTATTGTTAACACCTTGGTC
63 TCTGACGTATGGTTACCACCCTAGTC
** * * * ** * *
1091466 AGATTCTTTTCATTCTGATTTGACACATGGTTACCGCCCT-ATTAAAT-T-TGTTTATCTTCTGT
1 AGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTC-T-TAT
* * *
1091528 CTAATGTATGGTTACCACCCTAGTA
64 CTGACGTATGGTTACCACCCTAGTC
* * * *
1091553 AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCTACCTCTCT-TCTATC
1 AGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTCT-TATC
* * **
1091617 TGACGTATGGTTTCTACCAAAGTC
65 TGACGTATGGTTACCACCCTAGTC
* * * * * * * * *
1091641 AAATTCATTTCATT-TCGATTTGACGTATGGTTACTATCTTGGTGAAATCTGCCTCTCTCTTGTC
1 AGATTCTTTTCATTCT-GATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTCTTATC
* *
1091705 TGATGTATGGTTACCAACCTAGTC
65 TGACGTATGGTTACCACCCTAGTC
1091729 AGATTCTTTTCATTC
1 AGATTCTTTTCATTC
1091744 CTATTTGCTG
Statistics
Matches: 346, Mismatches: 93, Indels: 27
0.74 0.20 0.06
Matches are distributed among these distances:
84 2 0.01
85 3 0.01
86 40 0.12
87 64 0.18
88 229 0.66
89 5 0.01
90 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (88 bp):
AGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTTTCTCTTATCT
GACGTATGGTTACCACCCTAGTC
Found at i:1091408 original size:44 final size:44
Alignment explanation
Indices: 1091360--1091505 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 44
1091350 TATCTAACGC
1091360 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCCTATTTGACAT
1 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCCTATTTGACAT
* * * *** * * *
1091404 ATGGTTACCAGCCTGCTCAAATTCACCTCTTTCCTATCTGACCT
1 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCCTATTTGACAT
* * * *
1091448 ATTGTTAACACCTTGGTCAGATTCTTTTCATT-CTGATTTGACAC
1 ATGGTTACCACCCTGGTCAGATTCTTTTCATTCCT-ATTTGACAT
*
1091492 ATGGTTACCGCCCT
1 ATGGTTACCACCCT
1091506 ATTAAATTTG
Statistics
Matches: 75, Mismatches: 26, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
43 2 0.03
44 73 0.97
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (44 bp):
ATGGTTACCACCCTGGTCAGATTCTTTTCATTCCTATTTGACAT
Found at i:1091586 original size:44 final size:44
Alignment explanation
Indices: 1091466--1091595 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 44
1091456 CACCTTGGTC
* *** * *
1091466 AGATTCTTTTCATTCTGATTTGACACATGGTTACCGCCCTATTA
1 AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTA
* *
1091510 A-ATTTGTTTATC-TTCTG-TCTAATGTATGGTTACCACCCTAGTA
1 AGATTT-TTT-TCATTCTGATTTGATGTATGGTTACCACCCTAGTA
1091553 AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGT
1 AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGT
1091596 CAAATCTACC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 31 0.44
44 36 0.51
45 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (44 bp):
AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTA
Found at i:1091625 original size:44 final size:43
Alignment explanation
Indices: 1091533--1091729 Score: 105
Period size: 44 Copynumber: 4.5 Consensus size: 43
1091523 TCTGTCTAAT
** * * *
1091533 GTATGGTTACCACCCTAGT-AAGAT-TTTTTTCATTCTGATTTGAT
1 GTATGGTTACCACCCTAGTCAA-ATCTCCTCTC-TTCT-ATCTGAC
1091577 GTATGGTTACCACCCTAGTCAAATCTACCTCTCTTCTATCTGAC
1 GTATGGTTACCACCCTAGTCAAATCT-CCTCTCTTCTATCTGAC
* * ** * * * *
1091621 GTATGGTTTCTACCAAAGTCAAAT-TCATTTCATTTCGATTTGAC
1 GTATGGTTACCACCCTAGTCAAATCTCCTCTC--TTCTATCTGAC
* * * * * * *
1091665 GTATGGTTACTATCTTGGTGAAATCTGCCTCTC-TCTTGTCTGAT
1 GTATGGTTACCACCCTAGTCAAATCT-CCTCTCTTC-TATCTGAC
*
1091709 GTATGGTTACCAACCTAGTCA
1 GTATGGTTACCACCCTAGTCA
1091730 GATTCTTTTC
Statistics
Matches: 115, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
42 4 0.03
43 3 0.03
44 93 0.81
45 8 0.07
46 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (43 bp):
GTATGGTTACCACCCTAGTCAAATCTCCTCTCTTCTATCTGAC
Found at i:1091654 original size:175 final size:172
Alignment explanation
Indices: 1091204--1091750 Score: 469
Period size: 175 Copynumber: 3.1 Consensus size: 172
1091194 TTGATGTGTT
* * * * *
1091204 AGATTCTTTTCATTCCAATTTGATGCATGGTTACCACCCTGGTCAAATTTGCCTCTC-T-TGTCA
1 AGATTCTTTTCATT-CTATTTGATGTATGGTTACCACCCT-GTCAAA-TTACCTCTCTTCTATCT
* * * * * *
1091267 GGCGTATGGTTGCTACCTTAGTCAAATTCATTTCATTTTGATTTGACGTATGGTTACTATCTTGG
63 GACGTATGGTTACTACCTTAGTCAAATTCATTTCA-TTTGATTTGACGTATGGTTACCACCCTGA
* *
1091332 TGAAATCTACCTTTCTCTTATCTAACGCATGGTTACCACCCTGGTC
127 TGAAATCTACCTTTCTCTTATCTAACGCATGGTTACCACCCTAGTA
** *
1091378 AGATTCTTTTCATTCCTATTTGACATATGGTTACCAGCCTGCTCAAATTCACCTCT-TTCCTATC
1 AGATTCTTTTCATT-CTATTTGATGTATGGTTACCACCCTG-TCAAATT-ACCTCTCTT-CTATC
* * * * * ** *
1091442 TGACCTATTGTTAAC-ACCTTGGTCAGATTCTTTTCATTCTGATTTGACACATGGTTACCGCCCT
62 TGACGTATGGTT-ACTACCTTAGTCAAATTCATTTCATT-TGATTTGACGTATGGTTACCACCCT
* ** * * * *
1091506 -ATTAAAT-T-TGTTTATCTTCTGTCTAATGTATGGTTACCACCCTAGTA
125 GATGAAATCTACCTTTCTC-T-TATCTAACGCATGGTTACCACCCTAGTA
*
1091553 AGATTTTTTTCATTCTGATTTGATGTATGGTTACCACCCTAGTCAAATCTACCTCTCTTCTATCT
1 AGATTCTTTTCATTCT-ATTTGATGTATGGTTACCACCCT-GTCAAAT-TACCTCTCTTCTATCT
* ** * * * *
1091618 GACGTATGGTTTCTACCAAAGTCAAATTCATTTCATTTCGATTTGACGTATGGTTACTATCTTGG
63 GACGTATGGTTACTACCTTAGTCAAATTCATTTCATTT-GATTTGACGTATGGTTACCACCCTGA
* * * * * * * *
1091683 TGAAATCTGCCTCTCTCTTGTCTGATGTATGGTTACCAACCTAGTC
127 TGAAATCTACCTTTCTCTTATCTAACGCATGGTTACCACCCTAGTA
1091729 AGATTCTTTTCATTCCTATTTG
1 AGATTCTTTTCATT-CTATTTG
1091751 CTGCATAGTT
Statistics
Matches: 295, Mismatches: 59, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
173 8 0.03
174 52 0.18
175 126 0.43
176 100 0.34
177 5 0.02
178 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (172 bp):
AGATTCTTTTCATTCTATTTGATGTATGGTTACCACCCTGTCAAATTACCTCTCTTCTATCTGAC
GTATGGTTACTACCTTAGTCAAATTCATTTCATTTGATTTGACGTATGGTTACCACCCTGATGAA
ATCTACCTTTCTCTTATCTAACGCATGGTTACCACCCTAGTA
Found at i:1092486 original size:20 final size:20
Alignment explanation
Indices: 1092463--1092535 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1092453 ACAATTCAAA
1092463 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1092483 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1092504 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1092524 GTATCGATACAT
1 GTATCGATACAT
1092536 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1092507 original size:21 final size:21
Alignment explanation
Indices: 1092481--1092556 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1092471 ACATGTTGCA
1092481 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1092502 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1092522 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1092543 ATGTATCGATACAT
1 ATGTATCGATACAT
1092557 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1092514 original size:41 final size:41
Alignment explanation
Indices: 1092463--1092556 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1092453 ACAATTCAAA
*
1092463 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1092504 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1092545 GTATCGATACAT
1 GTATCGATACAT
1092557 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1092613 original size:13 final size:13
Alignment explanation
Indices: 1092595--1092620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1092585 TACAGCAAGT
1092595 ATGTATCGATACA
1 ATGTATCGATACA
1092608 ATGTATCGATACA
1 ATGTATCGATACA
1092621 CAAAAAATTG
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
Done.