Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 207 of 230
Found at i:61721395 original size:6 final size:6
Alignment explanation
Indices: 61721384--61721413 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
61721374 AAGATGATGA
61721384 GATTGG GATTGG GATTGG GATTGG GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG
61721414 AGGGTTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GATTGG
Found at i:61727514 original size:42 final size:42
Alignment explanation
Indices: 61727407--61727514 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
61727397 ATCGATGTCG
* *
61727407 ATGCCATGTCTCAGACATGGTATTACACGAGATCACACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
* * *
61727449 ATGCCATGTCCCAAACATAGTCTTACACGAGATCACATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
* *
61727491 ATGTCATGTCCCAGTCATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
61727515 CCACTGGCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACGCCA
Found at i:61730146 original size:26 final size:26
Alignment explanation
Indices: 61730116--61730172 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
61730106 ATAGCTCTTA
*
61730116 TGAGCGTCCAGA-TATATGACTCTTTG
1 TGAGCGTCCAGATTA-AAGACTCTTTG
* * *
61730142 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCAGATTAAAGACTCTTTG
61730168 TGAGC
1 TGAGC
61730173 TTCCTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (26 bp):
TGAGCGTCCAGATTAAAGACTCTTTG
Found at i:61730188 original size:25 final size:26
Alignment explanation
Indices: 61730135--61730189 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
61730125 AGATATATGA
61730135 CTCTTTGTGAGCTTCCTGATTAAAGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
*
61730161 CTCTTTGTGAGCTTCCTG-TTAATGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
61730186 CTCT
1 CTCT
61730190 CCGGTGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGATTAAAGG
Found at i:61736428 original size:15 final size:15
Alignment explanation
Indices: 61736408--61736440 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
61736398 ATAACATAAG
*
61736408 AGAAGAAAAAGAAGA
1 AGAAGAAAAAGAAAA
61736423 AGAAGAAAAAGAAAA
1 AGAAGAAAAAGAAAA
61736438 AGA
1 AGA
61736441 GATTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAGAAAA
Found at i:61743750 original size:17 final size:17
Alignment explanation
Indices: 61743715--61743758 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
61743705 TAAAATTTAT
*
61743715 AAATTTATAGAAAAAATC
1 AAATTT-TATAAAAAATC
*
61743733 AAATTTTATAAAATATC
1 AAATTTTATAAAAAATC
61743750 AAATTTTAT
1 AAATTTTAT
61743759 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATTTTATAAAAAATC
Found at i:61743820 original size:19 final size:19
Alignment explanation
Indices: 61743766--61743823 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
61743756 TATGTATTTT
*
61743766 AAATTTAATAATA-ATATAA
1 AAATTTAA-AATATATAAAA
* * *
61743785 AAATATGATAATTTATAAAA
1 AAAT-TTAAAATATATAAAA
61743805 AAATTTAAAATATATAAAA
1 AAATTTAAAATATATAAAA
61743824 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTTAAAATATATAAAA
Found at i:61744075 original size:22 final size:22
Alignment explanation
Indices: 61744015--61744071 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
61744005 TTGCCCACTC
**
61744015 ATATTATTTTTAAAATATATATTT
1 ATATTA-TTTTAATTTA-ATATTT
61744039 ATATTATTTTAATTTAATATTT
1 ATATTATTTTAATTTAATATTT
61744061 A-A-TATTTTAAT
1 ATATTATTTTAAT
61744072 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 7 0.23
23 8 0.26
24 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTATTTTAATTTAATATTT
Found at i:61744081 original size:15 final size:15
Alignment explanation
Indices: 61744039--61744082 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61744029 ATATATATTT
*
61744039 ATATTATTTTAATTTA
1 ATATT-TTTTATTTTA
**
61744055 ATATTTAATATTTTA
1 ATATTTTTTATTTTA
61744070 ATATTTTTTATTT
1 ATATTTTTTATTT
61744083 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTTTTATTTTA
Found at i:61744092 original size:17 final size:17
Alignment explanation
Indices: 61744067--61744100 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61744057 ATTTAATATT
* *
61744067 TTAATATTTTTTATTTA
1 TTAAAATTTTATATTTA
61744084 TTAAAATTTTATATTTA
1 TTAAAATTTTATATTTA
61744101 GTTTTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAAAATTTTATATTTA
Found at i:61744488 original size:10 final size:10
Alignment explanation
Indices: 61744468--61744501 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
61744458 TAGTTTTAAT
61744468 ATTTT-TATA
1 ATTTTATATA
61744477 ATTTTATATA
1 ATTTTATATA
61744487 ATTTTATAT-
1 ATTTTATATA
61744496 ATTTTA
1 ATTTTA
61744502 GATTGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 11 0.46
10 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTATATA
Found at i:61745391 original size:16 final size:17
Alignment explanation
Indices: 61745359--61745424 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 17
61745349 ACATAATGTA
61745359 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
61745376 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
* * *
61745392 TTATAAA-ATTTAAATT
1 TAATAAATATATAAAAT
*
61745408 TAAT-GATAATATAAAAT
1 TAATAAAT-ATATAAAAT
61745425 ATATAATAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.08
16 19 0.50
17 16 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:61747833 original size:10 final size:10
Alignment explanation
Indices: 61747820--61747846 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
61747810 TAAACAAATA
61747820 TAATAATAAT
1 TAATAATAAT
61747830 TAATAATAAT
1 TAATAATAAT
61747840 TAATAAT
1 TAATAAT
61747847 TAATATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:61748472 original size:43 final size:43
Alignment explanation
Indices: 61748307--61748474 Score: 214
Period size: 43 Copynumber: 3.9 Consensus size: 43
61748297 ACGTGTGGCT
* *
61748307 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTATAGACCGAA-
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACC-AAG
* * * *
61748350 ACCTTTAACGGCGCTTATCCCATAAACGCCGCTAAAGACCAAG
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
* *
61748393 -ACTTTTAGAGGCGCTTCTCCCACAAACGCCGCTAAAAACCAAG
1 AAC-TTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
* *
61748436 AACTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAAAAC
1 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAAC
61748475 ATTATTTAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.03
43 104 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (43 bp):
AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAAACCAAG
Found at i:61748693 original size:18 final size:18
Alignment explanation
Indices: 61748670--61748728 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
61748660 TTAAAACAAG
61748670 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
61748688 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
61748705 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
61748723 TTACAT
1 TTACAT
61748729 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:61753277 original size:81 final size:82
Alignment explanation
Indices: 61753040--61753270 Score: 326
Period size: 81 Copynumber: 2.9 Consensus size: 82
61753030 CAAAATATTT
* * *
61753040 TTAGCGGCGCTTTT--TAAAACGCCGCTAAAGACCCCAACATTAGCGGCGCTTTCTCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
*
61753103 CGCTAAAGACCCCAGCA
66 CGCTAAAGACCCCAACA
* * * *
61753120 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGT-ATTCGCGGCG-ATTTTCAAAAACA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCA-TCATTAGCGGCGCTTTTTCAAAAACG
61753183 CCGCTAAAGACCCCAACA
65 CCGCTAAAGACCCCAACA
* * *
61753201 TTAGCGGCGCTTTTCCAAAAACACCGCTAAAGACCCCATCATTAACGACGCTTTTTCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
61753266 CGCTA
66 CGCTA
61753271 CAACCCCCAA
Statistics
Matches: 131, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 15 0.11
81 70 0.53
82 46 0.35
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (82 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCATTAGCGGCGCTTTTTCAAAAACGC
CGCTAAAGACCCCAACA
Found at i:61753279 original size:41 final size:41
Alignment explanation
Indices: 61753040--61753270 Score: 315
Period size: 41 Copynumber: 5.7 Consensus size: 41
61753030 CAAAATATTT
61753040 TTAGCGGCGCTTTTT--AAAACGCCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* *
61753079 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * **
61753120 TTAGCGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * *
61753161 TTCGCGGCG-ATTTTCAAAAACACCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* * *
61753201 TTAGCGGCGCTTTTCCAAAAACACCGCTAAAGACCCCATCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
* *
61753242 TTAACGACGCTTTTTCAAAAACGCCGCTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTA
61753271 CAACCCCCAA
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.08
40 33 0.20
41 121 0.72
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
Found at i:61753347 original size:16 final size:16
Alignment explanation
Indices: 61753326--61753357 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61753316 TGCGGCGTTA
61753326 AAAAACGCCGCTAATG
1 AAAAACGCCGCTAATG
61753342 AAAAACGCCGCTAATG
1 AAAAACGCCGCTAATG
61753358 CTCTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAACGCCGCTAATG
Found at i:61761590 original size:15 final size:15
Alignment explanation
Indices: 61761566--61761595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61761556 AATAATGTAC
*
61761566 ATATAGTAATAATAA
1 ATATAATAATAATAA
61761581 ATATAATAATAATAA
1 ATATAATAATAATAA
61761596 TAAACCAATT
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATAATAATAA
Found at i:61763440 original size:87 final size:87
Alignment explanation
Indices: 61763331--61763635 Score: 391
Period size: 87 Copynumber: 3.5 Consensus size: 87
61763321 ACAGGAATGC
* * *
61763331 AAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTG
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
61763396 CTCCAGTACTACTTAGGGAGAT
66 CTCCAGTACTACTTAGGGAGAT
* * * *
61763418 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
* * * * * *
61763483 CTTCGCTGCCAATAC--AAGAAGAC
66 C-TC-CAG-TACTACTTAGGGAGAT
*
61763506 AAGATCTGCT-ATTTTCAACCTACTCCACTACTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
1 AAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
* * *
61763570 GCTCCACTACTGCTTTGGGAGAT
65 GCTCCAGTACTACTTAGGGAGAT
*
61763593 AAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
61763636 TAGGATTCAT
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
85 3 0.02
86 2 0.01
87 104 0.57
88 66 0.36
89 3 0.02
90 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (87 bp):
AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
CTCCAGTACTACTTAGGGAGAT
Found at i:61763458 original size:44 final size:44
Alignment explanation
Indices: 61763330--61763713 Score: 165
Period size: 44 Copynumber: 8.8 Consensus size: 44
61763320 TACAGGAATG
*
61763330 CAAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* ** * * * * * * * *
61763374 CAAG-GCTGGGGA-CTTCCACCTGCTCCAGTACTACTTAGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* * *
61763417 TAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTGAGGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* *** * * * * * *** *
61763461 CAAG-GCTGGGGTCTTCGATCTACTTCGCTGCCAATACAAGAAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT-CAAGGAGA
*
61763505 CAAGATCTGCT-ATTTTCAACCTACTCCACTACTGCTCAAGGAGA
1 CAAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* ** * * * * * ***
61763549 CAAG-GCTGGGGA-CTTCGATCTGCTCCACTACTGCTTTGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* *
61763592 TAAGATATGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
1 CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
* * * * * *
61763636 TAGGAT-TCATAATCTTCAACCTATTCCACTGCTG-TCCAGGGAGA
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTGCT-CAAGGAGA
* * ** *
61763680 TAGGA-CTCACAATTTTCAACCTATTCCACTGCTG
1 CAAGATCT-GTAATTTTCAACCTACTCCACTGCTG
61763714 TCCATGGAGA
Statistics
Matches: 247, Mismatches: 80, Indels: 26
0.70 0.23 0.07
Matches are distributed among these distances:
43 82 0.33
44 147 0.60
45 18 0.07
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
CAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
Found at i:61763526 original size:175 final size:175
Alignment explanation
Indices: 61763297--61763627 Score: 529
Period size: 175 Copynumber: 1.9 Consensus size: 175
61763287 AGGACTGGTA
* * * * * *
61763297 TCTTCGATCTGCTTCGCCGTCAGTACAGGAATGCAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
61763362 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCAGTACTACTTAGGGAGATAAGATCTGT
66 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
61763427 AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
131 AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
*
61763472 TCTTCGATCTACTTCGCTGCCAATACAAGAA-GACAAGATCTGCTATTTTCAACCTACTCCACTA
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATG-CAAGATCTGCTATTTTCAACCTACTCCACTA
* * * *
61763536 CTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATATG
65 CTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATG
61763601 TAATTTTCAACCTACTCCACTGCTGCT
130 TAATTTTCAACCTACTCCACTGCTGCT
61763628 CAAGGAGATA
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
174 1 0.01
175 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (175 bp):
TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
AATTTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
Found at i:61763714 original size:44 final size:44
Alignment explanation
Indices: 61763606--61763818 Score: 268
Period size: 44 Copynumber: 4.8 Consensus size: 44
61763596 ATATGTAATT
* *
61763606 TTCAACCTACTCCACTGCTG-CTCAAGGAGATAGGATTCATAATC
1 TTCAACCTATTCCACTGCTGTC-CAAGGAGATAGGATTCACAATC
* * *
61763650 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTCACAATT
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
*
61763694 TTCAACCTATTCCACTGCTGTCCATGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
* * * *
61763738 TTCGACCTATTCCATTGTTGTCCAATGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
* * * *
61763782 TTCAAACTATTTCACTACTGT-CTAGAGAGATAGGATT
1 TTCAACCTATTCCACTGCTGTCCAAG-GAGATAGGATT
61763819 TATAACTTCA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
43 2 0.01
44 143 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCCAAGGAGATAGGATTCACAATC
Found at i:61773392 original size:27 final size:28
Alignment explanation
Indices: 61773362--61773421 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
61773352 AAAAAATAAA
*
61773362 AAAATAACTA-AAACTTTTTTATTTATC
1 AAAATAACTATAAACTTTTTTATTTACC
* *
61773389 AAAAT-ATTATAAATTTTTTTATTTACC
1 AAAATAACTATAAACTTTTTTATTTACC
61773416 AAAATA
1 AAAATA
61773422 TATCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATAACTATAAACTTTTTTATTTACC
Found at i:61774140 original size:28 final size:28
Alignment explanation
Indices: 61774109--61774164 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
61774099 CTATTTTAAT
61774109 TTTAAAAAATTAAATTAAATTAAAATAG
1 TTTAAAAAATTAAATTAAATTAAAATAG
*** **
61774137 TTTACTTAATTTTATTAAATTAAAATAG
1 TTTAAAAAATTAAATTAAATTAAAATAG
61774165 AGTTATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTAAAAAATTAAATTAAATTAAAATAG
Found at i:61774172 original size:19 final size:19
Alignment explanation
Indices: 61774148--61774210 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
61774138 TTACTTAATT
61774148 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
61774167 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
61774185 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
61774204 TTATTAA
1 TTATTAA
61774211 TGCTTACAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:61774700 original size:16 final size:16
Alignment explanation
Indices: 61774665--61774700 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61774655 TGGTTTACTG
* *
61774665 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTC
61774681 TAATGGAATAGAGCTC
1 TAATGGAATAGAGCTC
61774697 TAAT
1 TAAT
61774701 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTC
Found at i:61774994 original size:58 final size:58
Alignment explanation
Indices: 61774864--61775000 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
61774854 TAGTGTTATT
*
61774864 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
* * * * * *
61774922 ATATTTAAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
61774979 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
61775001 ATGAATTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 22 0.33
58 44 0.66
59 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
Found at i:61776968 original size:31 final size:31
Alignment explanation
Indices: 61776933--61776993 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
61776923 TTTATAAATT
61776933 GTGAATTATTTAAAAAATTTTATTTAAGTCA
1 GTGAATTATTTAAAAAATTTTATTTAAGTCA
* ** *
61776964 GTGAATTATTTTAAAGTTTTTATTTGAGTC
1 GTGAATTATTTAAAAAATTTTATTTAAGTC
61776994 GTTGAGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (31 bp):
GTGAATTATTTAAAAAATTTTATTTAAGTCA
Found at i:61777004 original size:31 final size:31
Alignment explanation
Indices: 61776950--61777032 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
61776940 ATTTAAAAAA
* *
61776950 TTTTATTTAAGTCAG-TGAATTATTTTAAAGT
1 TTTTATTTGAGTC-GTTGAGTTATTTTAAAGT
61776981 TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
1 TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
* * *
61777012 TTTTACTGGAGTCATTGAGTT
1 TTTTATTTGAGTCGTTGAGTT
61777033 GTTGAGTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTTATTTGAGTCGTTGAGTTATTTTAAAGT
Found at i:61777746 original size:411 final size:434
Alignment explanation
Indices: 61777272--61778605 Score: 1370
Period size: 464 Copynumber: 3.0 Consensus size: 434
61777262 CAAAATCGGG
* *
61777272 TTTTT-TACCTAAATAATATTAAAAATATATATATACTAAAATGGCATG-TTCTAAAAATTATGT
1 TTTTTATACCTAAATAATATT-AAAATATATATATACTGAAATGACATGTTTC-AAAAATTATGT
* * * * * *
61777335 ACCAAAATGGTATATTTAAAAGGGTGGA-GGATGGTGCATAAGCAGCACCGCCCTAATA-T-T-A
64 ACCAAAATGGTACATTCAAAGGGGTAGATGG-TGGTGCATAGGCGGCACCGCCCTAATATTCTGA
* *
61777396 -A-AA-TAG-T-AACAATATTTTAGTAGTGGTGCCTATCTGATA-G-ACGA-C-ACCCTTATCTG
128 CATAATTAGTTAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGAAC-ACCGACCCCTATCTG
* *
61777452 ATA-G-GT-G-G-T-ATA-C-CTA-AC-A-T-TTTTCCCCATTTGGCTCAATTTTAAAGTATCAG
192 ATAGGAGTGGTGCTGATAGCGCTACACTAGTATTTTCCCCATTCGGCTCAAGTTTAAAGTATCAG
* * *
61777505 TTTAAAAAAATATATCTTTTACCTCCAT-A-AAAAAATTTTATATTAAAATAAT-AAA-AAGAT-
257 TTT-AAAAAATATA--TTTTACCTCCATAATAAAAAAATATATATTAAAATAATAAAATAACATG
* *
61777565 GACAAGAAAAAAATATAACAAAAAATATAACGTAAACGATACATAATAAATAC-A-AATATTATT
319 GA-AAGAAAAAAATATAAC-AAAAACATAACATAAACGATACATAATAAATACGAGAATATTATT
*
61777628 ATTATTTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGGTT
382 ATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGG-T
*
61777682 TTTTTATACCTAAATAATATTAAATATATATATATACTGAAATGATATGTTTCAAAAATTATGTA
1 TTTTTATACCTAAATAATATTAAA-ATATATATATACTGAAATGACATGTTTCAAAAATTATGTA
* *
61777747 CCAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCTTGATATTCTGACA
65 CCAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACA
61777812 TAATTTAGTTAAAAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGCAACACCAGTGACCCCT
130 TAA-TTAGTT---AAAAAATATTTTAGTAGTGGTGCCTATCTGATAGG-AACACC---GACCCCT
*
61777877 ATCTGATAGGCGGAACTTGTGGTGCCTATCTGATAGGCGGTACACTTAGTATTTTCCCCATTCGG
187 ATCTGATA---GG-A---GTGGTG-----CTGATA-GCGCTACAC-TAGTATTTTCCCCATTCGG
61777942 CTCAAGTTTAAAGTATCAGTTTAAAAAATATATTTTACCTCCATAAAGAATAAAAAAATATATAT
238 CTCAAGTTTAAAGTATCAGTTTAAAAAATATATTTTACCTCCAT----AATAAAAAAATATATAT
*
61778007 TAAAATAATAAAAATAACATGGAAATAAAAAAATATAACAAAAACATAACATAAACGATACATAA
299 TAAAATAAT-AAAATAACATGGAAAGAAAAAAATATAACAAAAACATAACATAAACGATACATAA
* *
61778072 TAAATACGAGTATTTTTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATAT
363 TAAATACGAG-AATATTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAATAT
61778137 AATAGGGT
427 AATAGGGT
*
61778145 TTTTTATACCTAAATAATATTAAAA-ATATATATACTGAAATGACATGTTCCAAAAATTATGTAC
1 TTTTTATACCTAAATAATATTAAAATATATATATACTGAAATGACATGTTTCAAAAATTATGTAC
* *
61778209 CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCTTGATATTCTGACAT
66 CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACAT
* * ** * ***
61778274 AATTTAGTTAAAAAATAATAATATTTTAGTAGTGGTGCATATTTGATAGGCGGCACTTGTGGTGC
131 AA-TTAGTT----AA-AA-AATATTTTAGTAGTGGTGCCTATCTGATAGG-AACAC---CGACCC
* * *
61778339 CTACCTGATAGGCGGCACTTGTGGTGCCTATCTGATAGGCGATACACTTAGTATTTTCCCCATCC
185 CTATCTGATA---GG-A---GTGGTG-----CTGATA-GCGCTACAC-TAGTATTTTCCCCATTC
* *
61778404 GGCTCAAGTTTAAAGTATCAGTTTAAAAAATATATATTTTACCTCCATAAAAAATAAAAAATAAA
236 GGCTCAAGTTTAAAGTATCAGTTT-AAAAA-ATATATTTTACCTCCAT--AATA-AAAAAATATA
* *
61778469 TATTAAAATAATAAAAATAACATGGCAATAAAAAAATATAACAAAAACATAACATAAACGATACA
296 TATTAAAATAAT-AAAATAACATGGAAAGAAAAAAATATAACAAAAACATAACATAAACGATACA
* * *
61778534 TAATAAATACGAGTATTTTTATTATTATTTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAA
360 TAATAAATACGAG-AATATTATTATTATTTTAAAATAATAATAAGTAAAATGTATTGGTTTAAAA
61778599 TATAATA
424 TATAATA
61778606 TATATAATAA
Statistics
Matches: 808, Mismatches: 44, Indels: 89
0.86 0.05 0.09
Matches are distributed among these distances:
410 8 0.01
411 94 0.12
412 6 0.01
413 1 0.00
414 1 0.00
415 1 0.00
416 2 0.00
418 3 0.00
419 1 0.00
423 31 0.04
424 1 0.00
425 1 0.00
426 3 0.00
430 13 0.02
434 1 0.00
439 2 0.00
440 1 0.00
441 1 0.00
447 1 0.00
448 3 0.00
450 1 0.00
451 2 0.00
452 2 0.00
453 12 0.01
454 1 0.00
455 11 0.01
456 34 0.04
458 1 0.00
459 21 0.03
461 145 0.18
462 26 0.03
463 29 0.04
464 182 0.23
465 149 0.18
466 17 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (434 bp):
TTTTTATACCTAAATAATATTAAAATATATATATACTGAAATGACATGTTTCAAAAATTATGTAC
CAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCCTAATATTCTGACAT
AATTAGTTAAAAAATATTTTAGTAGTGGTGCCTATCTGATAGGAACACCGACCCCTATCTGATAG
GAGTGGTGCTGATAGCGCTACACTAGTATTTTCCCCATTCGGCTCAAGTTTAAAGTATCAGTTTA
AAAAATATATTTTACCTCCATAATAAAAAAATATATATTAAAATAATAAAATAACATGGAAAGAA
AAAAATATAACAAAAACATAACATAAACGATACATAATAAATACGAGAATATTATTATTATTTTA
AAATAATAATAAGTAAAATGTATTGGTTTAAAATATAATAGGGT
Found at i:61778040 original size:19 final size:20
Alignment explanation
Indices: 61777990--61778043 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
61777980 CTCCATAAAG
* *
61777990 AATAAAAAAATATATATTAA
1 AATAAAAAAATATACATGAA
*
61778010 AATAATAAAAATA-ACATGGA
1 AATAA-AAAAATATACATGAA
61778030 AATAAAAAAATATA
1 AATAAAAAAATATA
61778044 ACAAAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.24
20 15 0.52
21 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AATAAAAAAATATACATGAA
Found at i:61778347 original size:27 final size:27
Alignment explanation
Indices: 61778317--61778379 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
61778307 GGTGCATATT
61778317 TGATAGGCGGCACTTGTGGTGCCTACC
1 TGATAGGCGGCACTTGTGGTGCCTACC
*
61778344 TGATAGGCGGCACTTGTGGTGCCTATC
1 TGATAGGCGGCACTTGTGGTGCCTACC
61778371 TGATAGGCG
1 TGATAGGCG
61778380 ATACACTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (27 bp):
TGATAGGCGGCACTTGTGGTGCCTACC
Found at i:61779487 original size:44 final size:44
Alignment explanation
Indices: 61779394--61779484 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 44
61779384 AAGAAAATTA
61779394 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
*
61779438 AAATAATTTAATC-TGAAATAAATTTAAATTTAAGTAAATAAAGAC
1 AAATAATTTAATCTTG--ATAAATTTAAATGTAAGTAAATAAAGAC
61779483 AA
1 AA
61779485 TAAATAACGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 2 0.05
44 13 0.30
45 29 0.66
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (44 bp):
AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
Found at i:61780290 original size:90 final size:91
Alignment explanation
Indices: 61780135--61780363 Score: 385
Period size: 90 Copynumber: 2.5 Consensus size: 91
61780125 CAAAATAATA
61780135 GTATT-ATTTCTTTAGAATGTTTGT-TTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
61780198 TTAAGGTTTCATTTTTATATTTTCGT
66 TTAAGGTTTCATTTTTATATTTTCGT
*
61780224 GTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGTAT
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
61780288 TTAAGGTTTCATTTTTATATTTTCGT
66 TTAAGGTTTCATTTTTATATTTTCGT
* * *
61780314 GTATTAATTTCTTTA-AATGTTTGTATTTTTTTTGTATTTGTAAATTTAAT
1 GTATTAATTTCTTTAGAATGTTTGTA-TTTTTTTATATCTATAAATTTAAT
61780364 TTAATTCGTA
Statistics
Matches: 132, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
89 18 0.14
90 90 0.68
91 24 0.18
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (91 bp):
GTATTAATTTCTTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
TTAAGGTTTCATTTTTATATTTTCGT
Found at i:61780400 original size:90 final size:90
Alignment explanation
Indices: 61780135--61780413 Score: 318
Period size: 90 Copynumber: 3.1 Consensus size: 90
61780125 CAAAATAATA
* *
61780135 GTATT-ATTTCTTTAGAATGTTTGT-TTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAAT
1 GTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTAT
* * * *
61780198 TTAAGGTTTCATTTTTATATTTTCGT
65 GTAAGGTTTCAATTTAAAATTTTCGT
* *
61780224 GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGTATT
1 GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTATG
* * *
61780289 TAAGGTTTCATTTTTATATTTTCGT
66 TAAGGTTTCAATTTAAAATTTTCGT
* * * *
61780314 GTATTAATTTCTTTA-AATGTTTGTATTTTTTTTGTATTTGTAAATTTAATTTAATTCGTATTA-
1 GTATTAATTTC-TTAGAATGTTTGTA-TTTTTTTATATCTATAAATTTAATGTAATT-GT-TTAG
* *
61780377 TATGT-A-GTTTGAATTTAAAATTTTTGT
62 TATGTAAGGTTTCAATTTAAAATTTTCGT
61780404 GTATTAATTT
1 GTATTAATTT
61780414 TACCATCCGT
Statistics
Matches: 172, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
89 18 0.10
90 116 0.67
91 29 0.17
92 6 0.03
93 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (90 bp):
GTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTATAAATTTAATGTAATTGTTTAGTATG
TAAGGTTTCAATTTAAAATTTTCGT
Found at i:61780685 original size:20 final size:20
Alignment explanation
Indices: 61780639--61780685 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
61780629 AAATTAATAT
61780639 TAAAAACAGAATAATTACAA
1 TAAAAACAGAATAATTACAA
* *
61780659 AATAAAACA-AATATTTACATA
1 TA-AAAACAGAATAATTACA-A
61780680 TAAAAA
1 TAAAAA
61780686 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAACAGAATAATTACAA
Found at i:61782262 original size:89 final size:89
Alignment explanation
Indices: 61782012--61782327 Score: 245
Period size: 89 Copynumber: 3.6 Consensus size: 89
61782002 TAAGAATAGT
* * * * * **
61782012 ATAC-GAC-AAATTAAATTTACAGACACAATAAAATACAAACCTTCTACAATATTAATACAAAAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* *
61782075 AATATAAAATTCAAAC-AAAAATT
66 AATATAAAATTCAAACTAAATATA
* * * * * * * * *
61782098 GTAC-GCACTAAATTAAATTTAAACA-ACCAACAAACTACAAACAGAT-GAGCAAAATTAACATA
1 ATACAG-ACTAAATTAAATTTACAGATA-CAACAAAATACAAACA-TTCTA-AAAAATTAATACA
* * *
61782160 TGGAAATTTAAAATTCAAACTACATATA
62 TGAAAATATAAAATTCAAACTAAATATA
*
61782188 ATACAGATTAAATTAAATTTACAGATACAA-AAAATACAAACATTCTAAAAAATTAATACATGAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* * *
61782252 AATATAAAAATGAAACATTAAATCCTA
66 AATATAAAATTCAAAC--TAAAT-ATA
* * *
61782279 A-ACA-ACTATATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAA
1 ATACAGACTAAATTAAATTTACAGATA-CAACAAAATACAAACATTCTAAA
61782328 GATATAATAC
Statistics
Matches: 179, Mismatches: 37, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
86 4 0.02
87 3 0.02
88 55 0.31
89 58 0.32
90 35 0.20
91 24 0.13
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.25
Consensus pattern (89 bp):
ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
AATATAAAATTCAAACTAAATATA
Found at i:61785434 original size:30 final size:29
Alignment explanation
Indices: 61785377--61785434 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
61785367 TAAATTAGTA
*
61785377 GAAACCTGAAAAGTAGACAGCTGAATTTT
1 GAAACCTGAAAAGTAGACAGATGAATTTT
* * *
61785406 GAAATCTGAAAAAGTAGAGAGATTAATTT
1 GAAACCTG-AAAAGTAGACAGATGAATTT
61785435 CCTAGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (29 bp):
GAAACCTGAAAAGTAGACAGATGAATTTT
Found at i:61800963 original size:15 final size:15
Alignment explanation
Indices: 61800933--61800961 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61800923 TCATCTTACG
61800933 TGAAATAATTTAAAA
1 TGAAATAATTTAAAA
61800948 TGAAA-AATTTAAAA
1 TGAAATAATTTAAAA
61800962 ATAGATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
TGAAATAATTTAAAA
Found at i:61801382 original size:20 final size:20
Alignment explanation
Indices: 61801357--61801399 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
61801347 TTGCTGCACC
* *
61801357 ATGCTGTTGTTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
61801377 ATGCTGCTGCTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
61801397 ATG
1 ATG
61801400 GGAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.40
Consensus pattern (20 bp):
ATGCTGCTGCTGTCCCTTCA
Found at i:61801496 original size:3 final size:3
Alignment explanation
Indices: 61801483--61801515 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
61801473 AAGAGAAAGG
*
61801483 AGA AG- AGA AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
61801516 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61801823 original size:15 final size:16
Alignment explanation
Indices: 61801785--61801821 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
61801775 GGATATGGAT
61801785 ATTTTTATATAATGTA
1 ATTTTTATATAATGTA
61801801 ATTTTTATATAATGTA
1 ATTTTTATATAATGTA
61801817 ATTTT
1 ATTTT
61801822 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
ATTTTTATATAATGTA
Found at i:61803820 original size:11 final size:11
Alignment explanation
Indices: 61803806--61803875 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
61803796 TTTTTTTAAA
61803806 TTTTAAAATAC
1 TTTTAAAATAC
61803817 TTTTAAAATAC
1 TTTTAAAATAC
*
61803828 TTTTTTTAAAT--
1 --TTTTAAAATAC
*
61803839 TTTT-TAA-A-
1 TTTTAAAATAC
*
61803847 TTTTAAAATAT
1 TTTTAAAATAC
61803858 TTTTAAAATAC
1 TTTTAAAATAC
61803869 TTTTAAA
1 TTTTAAA
61803876 TTTGTTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
8 6 0.12
9 6 0.12
10 1 0.02
11 28 0.57
13 8 0.16
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:61803832 original size:41 final size:41
Alignment explanation
Indices: 61803787--61803937 Score: 175
Period size: 41 Copynumber: 3.7 Consensus size: 41
61803777 ATATAATAAT
* *
61803787 TTTTTTATTTTTTTTTAAATTTTAAAATACTTTTAAAATAC
1 TTTTTTATATTTTTTTAAATTTTAAAATATTTTTAAAATAC
*
61803828 TTTTTT-TAAATTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAT-ATTTTTTTAAATTTTAAAATATTTTTAAAATAC
* * *
61803869 --TTTTAAATTTGTTT-AATTTTAAAATATTTTTAAAATATT
1 TTTTTTATATTTTTTTAAATTTTAAAATATTTTTAAAATA-C
* *
61803908 TTTTTTATTTTTGTTTTAATTTTTAAAATA
1 TTTTTTATATTT-TTTTAAATTTTAAAATA
61803938 AATTTTGGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
38 23 0.25
39 10 0.11
40 1 0.01
41 44 0.48
42 3 0.03
43 11 0.12
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTTTATATTTTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:61803872 original size:29 final size:29
Alignment explanation
Indices: 61803817--61803878 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
61803807 TTTAAAATAC
* *
61803817 TTTTAAAATACTTTTTTTAAATTTTTTAAA
1 TTTTAAAATAC-TTTTTAAAATCTTTTAAA
61803847 TTTTAAAATA-TTTTTAAAATACTTTTAAA
1 TTTTAAAATACTTTTTAAAAT-CTTTTAAA
61803876 TTT
1 TTT
61803879 GTTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.31
29 10 0.34
30 10 0.34
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAAATCTTTTAAA
Found at i:61803887 original size:38 final size:38
Alignment explanation
Indices: 61803797--61803910 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
61803787 TTTTTTATTT
*
61803797 TTTTTTAAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 TTTTTTAAATTTTAAAATATTTTTAAAATAC---TTTTAAA
61803838 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAA
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAA
*
61803876 TTTGTTT-AATTTTAAAATATTTTTAAAATATTTTT
1 TTT-TTTAAATTTTAAAATATTTTTAAAATACTTTT
61803911 TTTATTTTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
38 37 0.53
39 3 0.04
41 30 0.43
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (38 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTAAA
Found at i:61803901 original size:11 final size:11
Alignment explanation
Indices: 61803885--61803910 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61803875 ATTTGTTTAA
61803885 TTTTAAAATAT
1 TTTTAAAATAT
61803896 TTTTAAAATAT
1 TTTTAAAATAT
61803907 TTTT
1 TTTT
61803911 TTTATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61804364 original size:33 final size:33
Alignment explanation
Indices: 61804327--61804428 Score: 123
Period size: 33 Copynumber: 3.1 Consensus size: 33
61804317 AGTCATCCTA
*
61804327 GCTCGTATCCACCTCAGTACTCTGCTCCTTCCG
1 GCTCGTATCCACCTCAGTACTCCGCTCCTTCCG
* *
61804360 GCTCGTATCCACCTCAGTACTCCACTCCTTTCG
1 GCTCGTATCCACCTCAGTACTCCGCTCCTTCCG
* * * * * *
61804393 GCCCGTCTCCACCGCCGTACTCCGTTCCTCCCG
1 GCTCGTATCCACCTCAGTACTCCGCTCCTTCCG
61804426 GCT
1 GCT
61804429 TCATCGATGA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.46, G:0.16, T:0.27
Consensus pattern (33 bp):
GCTCGTATCCACCTCAGTACTCCGCTCCTTCCG
Found at i:61805859 original size:35 final size:35
Alignment explanation
Indices: 61805820--61805904 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 35
61805810 CAATTTAATT
61805820 ATATTTT-ATTATTTGATTCA-AATATAATCTGTAAA
1 ATATTTTGA-TATTTGATT-AGAATATAATCTGTAAA
*
61805855 ATATTTTGATATTTTATTATGAATATAATCTGTAAA
1 ATATTTTGATATTTGATTA-GAATATAATCTGTAAA
61805891 ATATTTTGATATTT
1 ATATTTTGATATTT
61805905 TTGAATTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 1 0.02
35 15 0.33
36 30 0.65
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (35 bp):
ATATTTTGATATTTGATTAGAATATAATCTGTAAA
Found at i:61806010 original size:19 final size:18
Alignment explanation
Indices: 61805968--61806013 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
61805958 ATATAATTGT
*
61805968 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
61805986 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
61806005 AATAATTTT
1 AATAATTTT
61806014 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:61806158 original size:21 final size:21
Alignment explanation
Indices: 61806126--61806180 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
61806116 ACCGCTATTT
61806126 CTAATCTCACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
*
61806148 C-AATCTTACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
61806168 CTAATCTCACCGC
1 CTAATCTCACCGC
61806181 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:61813189 original size:30 final size:32
Alignment explanation
Indices: 61813140--61813199 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
61813130 ATTATTATTA
* *
61813140 TTTTTTGAATCAATGCATACTTTAATCTTTGT
1 TTTTTTGAATCAATACATACTTCAATCTTTGT
61813172 TTTTTTGAA-CAA-ACATACTTCAATCTTT
1 TTTTTTGAATCAATACATACTTCAATCTTT
61813200 TATTTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 3 0.12
32 9 0.35
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (32 bp):
TTTTTTGAATCAATACATACTTCAATCTTTGT
Found at i:61823048 original size:21 final size:22
Alignment explanation
Indices: 61822999--61823048 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
61822989 CCTCGTCTTA
*
61822999 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTGCTTCTTTTTCTAAC
61823021 -TCATTTT-CTTCTTTCTTC-AAC
1 TTC-TTTTGCTTCTTT-TTCTAAC
61823042 TTCTTTT
1 TTCTTTT
61823049 TCAATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.66
Consensus pattern (22 bp):
TTCTTTTGCTTCTTTTTCTAAC
Found at i:61823867 original size:20 final size:21
Alignment explanation
Indices: 61823841--61823890 Score: 93
Period size: 20 Copynumber: 2.4 Consensus size: 21
61823831 AAAACCTGTA
61823841 AAAAATAAACACTCAACACTC
1 AAAAATAAACACTCAACACTC
61823862 -AAAATAAACACTCAACACTC
1 AAAAATAAACACTCAACACTC
61823882 AAAAATAAA
1 AAAAATAAA
61823891 AGTTAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAATAAACACTCAACACTC
Found at i:61830393 original size:52 final size:52
Alignment explanation
Indices: 61830322--61830667 Score: 457
Period size: 52 Copynumber: 6.9 Consensus size: 52
61830312 ATCAAGTGAC
** **
61830322 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
61830374 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
61830426 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
61830472 AAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
61830523 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61830569 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* ** *
61830621 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACA
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACA
61830668 GATGATAAGT
Statistics
Matches: 263, Mismatches: 18, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
45 29 0.11
46 56 0.21
51 12 0.05
52 166 0.63
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:61830512 original size:97 final size:97
Alignment explanation
Indices: 61830322--61830678 Score: 491
Period size: 97 Copynumber: 3.6 Consensus size: 97
61830312 ATCAAGTGAC
** *
61830322 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGT-
* *
61830387 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
59 GTAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61830426 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTAGCTT
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTAGCTT
**
61830491 TAGCTACACTTATCTGATCAAGTGACAAGTGG
66 CGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61830523 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG-TAGCT
*
61830588 TCGGCTACACTTATCTGATCAAGTGACAAGTGA
65 TCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * * *
61830621 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGA-TGATAAGTG
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
61830679 GCTACACTTA
Statistics
Matches: 234, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
97 103 0.44
98 90 0.38
104 41 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTAGCTT
CGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:61830720 original size:37 final size:37
Alignment explanation
Indices: 61830643--61830861 Score: 363
Period size: 37 Copynumber: 6.0 Consensus size: 37
61830633 GATAGCTTTA
* *
61830643 GCTACACTTATCTGATCAAGAGACAGA-TGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61830679 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61830716 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61830753 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61830790 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
61830827 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61830862 ATCATACGTA
Statistics
Matches: 174, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
35 11 0.06
36 29 0.17
37 134 0.77
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:61833585 original size:31 final size:31
Alignment explanation
Indices: 61833547--61833614 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
61833537 TTACAAAATT
61833547 ATCACTGAACTATTCAAAAGTTTTCATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
* * *
61833578 CTCACTGAATTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
61833609 ATCACT
1 ATCACT
61833615 TAAGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
ATCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:61846156 original size:27 final size:29
Alignment explanation
Indices: 61846104--61846158 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
61846094 TTATTATTAT
* *
61846104 TTTTTGAATCAATGCATACTTTAATCTTG
1 TTTTTGAATCAATACATACTTCAATCTTG
61846133 TTTTTGAA-CAA-ACATACTTCAATCTT
1 TTTTTGAATCAATACATACTTCAATCTT
61846159 TTATTTGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 3 0.12
29 8 0.33
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTTGAATCAATACATACTTCAATCTTG
Found at i:61848470 original size:24 final size:22
Alignment explanation
Indices: 61848427--61848473 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
61848417 TATTATTAAT
61848427 TATATCATATAAAAATTAAATA
1 TATATCATATAAAAATTAAATA
61848449 TATATACATA-AAATAATATAAATA
1 TATAT-CATATAAA-AAT-TAAATA
61848473 T
1 T
61848474 TAAAAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TATATCATATAAAAATTAAATA
Found at i:61855877 original size:23 final size:22
Alignment explanation
Indices: 61855826--61855877 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
61855816 CCTCGTCTTA
*
61855826 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
61855848 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
61855871 TTCTTTT
1 TTCTTTT
61855878 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:61856704 original size:21 final size:21
Alignment explanation
Indices: 61856680--61856730 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
61856670 AAAACCTGTA
61856680 AAAAATAAACACTCAACACTC
1 AAAAATAAACACTCAACACTC
61856701 AAAAATAAACACTCAACACTC
1 AAAAATAAACACTCAACACTC
61856722 AAAAATAAA
1 AAAAATAAA
61856731 AGTTAGCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAATAAACACTCAACACTC
Found at i:61863425 original size:52 final size:52
Alignment explanation
Indices: 61863354--61863705 Score: 467
Period size: 52 Copynumber: 7.0 Consensus size: 52
61863344 ATCAAGTGAC
* **
61863354 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61863406 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61863458 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
61863504 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
61863556 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
61863602 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
61863654 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
61863706 ATAAGTGGCT
Statistics
Matches: 267, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 178 0.67
53 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:61863476 original size:98 final size:98
Alignment explanation
Indices: 61863406--61863712 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
61863396 TGACAAGTGG
* *
61863406 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
61863471 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
61863504 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
61863569 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
61863602 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
61863667 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
*
61863700 AGAGTGATAAGTG
1 AAAGTGATAAGTG
61863713 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:61863560 original size:150 final size:144
Alignment explanation
Indices: 61863340--61863705 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
61863330 TTTGAGTACT
61863340 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
61863405 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
61863470 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
61863490 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
61863555 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
61863620 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
61863634 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
61863699 CAGAGTG
60 CA-AGTG
61863706 ATAAGTGGCT
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 44 0.21
150 157 0.77
151 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:61863719 original size:37 final size:37
Alignment explanation
Indices: 61863676--61863895 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
61863666 GATAGCTTTA
* *
61863676 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61863713 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61863750 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61863787 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61863824 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
61863861 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61863896 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:61866650 original size:31 final size:31
Alignment explanation
Indices: 61866612--61866679 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
61866602 TTACAAAATT
61866612 ATCACTGAACTATTCAAAAGTTTTCATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
* * *
61866643 CTCACTGAATTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
61866674 ATCACT
1 ATCACT
61866680 TAAGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
ATCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:61867722 original size:31 final size:31
Alignment explanation
Indices: 61867684--61867751 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
61867674 TTACAAAATT
61867684 ATCACTGAACTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTTATTTAA
* *
61867715 CTCACTGAATTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTTATTTAA
61867746 ATCACT
1 ATCACT
61867752 AGGCTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (31 bp):
ATCACTGAACTATTCAAAAGTTTTTATTTAA
Found at i:61870007 original size:26 final size:27
Alignment explanation
Indices: 61869956--61870013 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
61869946 TATTATTTCC
*
61869956 AATA-AAAATAATAAATATATTGAAAT
1 AATATAAAATAATAAATATATCGAAAT
61869982 AATATAAAATAATAAA-ATA-CGAAAAT
1 AATATAAAATAATAAATATATCG-AAAT
61870008 AATATA
1 AATATA
61870014 TTTTTATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.03
26 17 0.59
27 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
AATATAAAATAATAAATATATCGAAAT
Found at i:61879879 original size:3 final size:3
Alignment explanation
Indices: 61879871--61879902 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61879861 ATACCTTTAA
61879871 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
61879903 AAACTTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:61880765 original size:32 final size:32
Alignment explanation
Indices: 61880728--61880799 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
61880718 CAAAATTTCA
61880728 AAATTAAAAAAGTATAA-AGACTAAAATTGACC
1 AAATTAAAAAAGTATAAGA-ACTAAAATTGACC
* *
61880760 AAATT-AAAGAGTATAAGAACTAAAATTGATC
1 AAATTAAAAAAGTATAAGAACTAAAATTGACC
*
61880791 AAAATAAAA
1 AAATTAAAA
61880800 TATAATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (32 bp):
AAATTAAAAAAGTATAAGAACTAAAATTGACC
Found at i:61883967 original size:19 final size:19
Alignment explanation
Indices: 61883943--61884040 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
61883933 AATCTTCGAG
61883943 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
61883962 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
61883981 GATATATGCAATCTTAAATAT
1 G--ATATGTAATCTTAGATAT
61884002 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
61884024 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
61884041 GATTTAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
19 30 0.44
20 3 0.04
21 18 0.26
22 7 0.10
23 10 0.15
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:61883989 original size:21 final size:21
Alignment explanation
Indices: 61883944--61884006 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
61883934 ATCTTCGAGG
*
61883944 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
61883963 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
61883984 ATATGCAATCTTAAATATGAT
1 ATATGCAATCTTAGATATGAT
61884005 AT
1 AT
61884007 GTAATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.45
21 22 0.55
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:61884050 original size:22 final size:23
Alignment explanation
Indices: 61884006--61884050 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61883996 AAATATGATA
*
61884006 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
61884029 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
61884051 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:61884741 original size:22 final size:22
Alignment explanation
Indices: 61884678--61884736 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 22
61884668 TAATATAATT
*
61884678 ATTATTTTTATTTATTTATATGTA
1 ATTA-TTTT-TTTATCTATATGTA
61884702 ATTATTTTTTTATCTATATGT-
1 ATTATTTTTTTATCTATATGTA
61884723 ATATATTTATTTTA
1 AT-TATTT-TTTTA
61884737 GTATACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 17 0.53
23 9 0.28
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (22 bp):
ATTATTTTTTTATCTATATGTA
Found at i:61884852 original size:15 final size:17
Alignment explanation
Indices: 61884820--61884857 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
61884810 AATGCAAATA
61884820 TATTTTTTTATATACTT
1 TATTTTTTTATATACTT
*
61884837 TATTTTTTT-T-TCCTT
1 TATTTTTTTATATACTT
61884852 TATTTT
1 TATTTT
61884858 CATAAATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTTATATACTT
Found at i:61888278 original size:2 final size:2
Alignment explanation
Indices: 61888273--61888318 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
61888263 CCAAATACTT
61888273 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
61888315 GA GA
1 GA GA
61888319 TTACCTTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:61892545 original size:32 final size:34
Alignment explanation
Indices: 61892489--61892556 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 34
61892479 GAATTATACT
61892489 AGGTTATAACCTTTTTTTTATAATATGTAAATTA
1 AGGTTATAACCTTTTTTTTATAATATGTAAATTA
*
61892523 AGGTTATAGCC-TTTTTTT-TAATATGTAAATTA
1 AGGTTATAACCTTTTTTTTATAATATGTAAATTA
61892555 AG
1 AG
61892557 TTAAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 16 0.48
33 7 0.21
34 10 0.30
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (34 bp):
AGGTTATAACCTTTTTTTTATAATATGTAAATTA
Found at i:61893372 original size:35 final size:34
Alignment explanation
Indices: 61893308--61893373 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
61893298 ACAAATTATT
* * *
61893308 TGTTACTGATATTGAGATGGGCTAAGGCCCAAAC
1 TGTTACTGATACTGAAAAGGGCTAAGGCCCAAAC
*
61893342 TGTTACTGATACTGAAAAAGGGCTTAGGCCCA
1 TGTTACTGATACTG-AAAAGGGCTAAGGCCCA
61893374 GGACTACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 13 0.48
35 14 0.52
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (34 bp):
TGTTACTGATACTGAAAAGGGCTAAGGCCCAAAC
Found at i:61901423 original size:27 final size:27
Alignment explanation
Indices: 61901067--61901412 Score: 374
Period size: 27 Copynumber: 12.9 Consensus size: 27
61901057 AAAATAACTA
* *
61901067 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATCG
** * *
61901094 AAATACCCTTAGAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * * *
61901121 AAATACCCTCATAGTGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
61901148 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
61901175 AAATACCCCCATAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
61901202 AAATACCCCCATAGGGTAAATTGACTC-
1 AAATACCCCCATAGGGTAAAATGA-TCG
* * *
61901229 AAATA-CCCCTTAAGGT-AAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
* *
61901254 AAATACCCCCATAGGGTAGAATAATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
61901281 AAATACCCTCATAGGGTAAAATGAACA
1 AAATACCCCCATAGGGTAAAATGATCG
* * * ** *
61901308 AAATACTCCAATAGGGTAGAATGGCCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
61901335 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
61901362 AAATACCCTCTTAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
61901389 AAATACCCTCATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
61901413 CTATTATACC
Statistics
Matches: 269, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
24 1 0.00
25 10 0.04
26 18 0.07
27 238 0.88
28 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:61901494 original size:72 final size:71
Alignment explanation
Indices: 61901381--61901517 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 71
61901371 CTTAGGGTAA
* * *
61901381 AATGATCGAAATACCCTCATAGGGTAAAATGACTATTATACCCC-TAGGAGATGAAATAACTGTT
1 AATGATCGAAATACCCTCATAGGGTAAAATGACGATAATACCCCATAGG-G-TAAAATAACTGTT
61901445 ATGGCTAG
64 ATGGCTAG
* * * *
61901453 AATGATTGGAATACCTTCATAGGGTAAAATGACCGA-AATACCCCATAGGGTAAAATGACTGTTA
1 AATGATCGAAATACCCTCATAGGGTAAAATGA-CGATAATACCCCATAGGGTAAAATAACTGTTA
61901517 T
65 T
61901518 ACCCCTAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
71 13 0.23
72 37 0.66
73 6 0.11
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (71 bp):
AATGATCGAAATACCCTCATAGGGTAAAATGACGATAATACCCCATAGGGTAAAATAACTGTTAT
GGCTAG
Found at i:61901519 original size:26 final size:26
Alignment explanation
Indices: 61901470--61901544 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
61901460 GGAATACCTT
* **
61901470 CATAGGGTAAAATGACCGAAATACCC
1 CATAGGGTAAAATGACTGTTATACCC
61901496 CATAGGGTAAAATGACTGTTATACCC
1 CATAGGGTAAAATGACTGTTATACCC
*
61901522 C-TAGGAGATGAAATGACTGTTAT
1 CATAGG-G-TAAAATGACTGTTAT
61901545 GACTTTATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 4 0.09
26 25 0.58
27 14 0.33
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (26 bp):
CATAGGGTAAAATGACTGTTATACCC
Found at i:61901535 original size:98 final size:99
Alignment explanation
Indices: 61901363--61901545 Score: 314
Period size: 98 Copynumber: 1.9 Consensus size: 99
61901353 AAATGACCAA
* *
61901363 AATACCCTCTTAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACTATTATACCCCTAG
1 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTATTATACCCCTAG
61901428 GAGATGAAATAACTGTTATGGCTAGAATGATTGG
66 GAGATGAAATAACTGTTATGGCTAGAATGATTGG
* *
61901462 AATACCTTCATAGGGTAAAATGACCGAAATACCC-CATAGGGTAAAATGACTGTTATACCCCTAG
1 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTATTATACCCCTAG
*
61901526 GAGATGAAATGACTGTTATG
66 GAGATGAAATAACTGTTATG
61901546 ACTTTATGTT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 48 0.61
99 31 0.39
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (99 bp):
AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTATTATACCCCTAG
GAGATGAAATAACTGTTATGGCTAGAATGATTGG
Found at i:61905548 original size:107 final size:107
Alignment explanation
Indices: 61905362--61905558 Score: 304
Period size: 107 Copynumber: 1.8 Consensus size: 107
61905352 CAAAAAATTA
* * *
61905362 AGTGTGTTAGGCTGAGTAACCGGGGTGGGGTGTTTGGGTTGTCATCCCACTTCGCGTTAAAAGGG
1 AGTGTGTTAGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
61905427 CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
66 CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
* * * *
61905469 AGTGTGTTGGGCTTAGTAACCGGGGTGGGGTGCTTGGGTTGCCATTCCACTTTGCGTCAAAAGGG
1 AGTGTGTTAGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
* **
61905534 CCAATACATTCTTAAGTAAAAAAAA
66 CCAAAACATTCTTAACCAAAAAAAA
61905559 AATGAAGGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 80 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (107 bp):
AGTGTGTTAGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
Found at i:61906151 original size:11 final size:12
Alignment explanation
Indices: 61906133--61906161 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
61906123 AATTTGAATT
61906133 TTATTTTTAGGA
1 TTATTTTTAGGA
61906145 TTATTTTTAGGA
1 TTATTTTTAGGA
61906157 TTATT
1 TTATT
61906162 ATATTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (12 bp):
TTATTTTTAGGA
Found at i:61913251 original size:123 final size:122
Alignment explanation
Indices: 61913084--61913335 Score: 366
Period size: 123 Copynumber: 2.1 Consensus size: 122
61913074 CTCAAAAACC
* *
61913084 GAAGTCAACCGAAATCGCACCCTCAATTCCCTGAAGGCGCACCAACCAACCCTTGGTCTCCACCC
1 GAAGTCAACCAAAATCGCACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGGTCTCCACCC
*
61913149 AACTA-ACGAAAGAACATAGTGCAGTTTGGCAACACAAGAGAGAAC-GAATCGAAAAGAG
66 AAC-AGACGAAAGAACATAGTGCAATTTGGCAACACAAGAGAGAACAG-ATCGAAAAG-G
* * *
61913207 GAAGTCAACCAAAATCGTACCCTCAATTCCTTGAAGATGCACCAACCAACCCTTGGTCTCCACCC
1 GAAGTCAACCAAAATCGCACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGGTCTCCACCC
* * **
61913272 AACAGATGAAAGAACGTAGTGCAATTTGGCAATGCAAGAGAGAACAGATCGAAAAGG
66 AACAGACGAAAGAACATAGTGCAATTTGGCAACACAAGAGAGAACAGATCGAAAAGG
61913329 GAA-TCAA
1 GAAGTCAA
61913336 AGACTAGCAG
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
121 4 0.03
122 5 0.04
123 107 0.91
124 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.15
Consensus pattern (122 bp):
GAAGTCAACCAAAATCGCACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGGTCTCCACCC
AACAGACGAAAGAACATAGTGCAATTTGGCAACACAAGAGAGAACAGATCGAAAAGG
Found at i:61913863 original size:3 final size:3
Alignment explanation
Indices: 61913855--61913890 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
61913845 TGTACTGTAC
61913855 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
61913891 TATAATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:61914588 original size:15 final size:16
Alignment explanation
Indices: 61914556--61914590 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
61914546 ACTTATACCG
61914556 AAAATGAAATATTAAA
1 AAAATGAAATATTAAA
61914572 AAAATGAAATATTAAA
1 AAAATGAAATATTAAA
61914588 AAA
1 AAA
61914591 GGCAAGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATGAAATATTAAA
Found at i:61917044 original size:26 final size:26
Alignment explanation
Indices: 61916981--61917055 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
61916971 AACACACCAA
* * *
61916981 TATCACAGCAAAACTGCCAGCAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
*
61917007 TATCGCAACAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * *
61917033 TATCGTAGCAAAGTTACCAGTAA
1 TATCGCAGCAAAGCTGCCAGTAA
61917056 CAATATACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:61918663 original size:17 final size:17
Alignment explanation
Indices: 61918641--61918673 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61918631 CCCAAAACCG
61918641 AAATGAGAAGTATACCA
1 AAATGAGAAGTATACCA
*
61918658 AAATGAGCAGTATACC
1 AAATGAGAAGTATACC
61918674 CCTTTGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (17 bp):
AAATGAGAAGTATACCA
Found at i:61920924 original size:50 final size:50
Alignment explanation
Indices: 61920849--61921042 Score: 298
Period size: 50 Copynumber: 3.9 Consensus size: 50
61920839 ATATGGGTAA
61920849 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
61920899 AGAGGTCACATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
61920949 AAAGGTCCCATGTAAGACCATGTGTGGGACATAGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
61920999 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC
61921043 AATATTTGAA
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 128 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:61924336 original size:3 final size:3
Alignment explanation
Indices: 61924328--61924354 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61924318 TGTACTGCAC
61924328 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
61924355 AATATTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:61926783 original size:18 final size:17
Alignment explanation
Indices: 61926741--61926788 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
61926731 TGTCGTTCGT
61926741 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
61926758 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
61926777 TTTCAAAACATT
1 TTTCAAAACATT
61926789 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:61932061 original size:34 final size:36
Alignment explanation
Indices: 61932007--61932076 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 36
61931997 CCTCATTTTA
* *
61932007 CTTTCTTTTCCTTTTCTTTTTTCTTC-TGGCCGAAC
1 CTTTCTTCTCCTTCTCTTTTTTCTTCTTGGCCGAAC
61932042 CTTTCTTCT-CTTCTCTTTTTTCTTCTTTGGCCGAA
1 CTTTCTTCTCCTTCTCTTTTTTCTTC-TTGGCCGAA
61932077 TAATCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 15 0.48
35 8 0.26
36 8 0.26
ACGTcount: A:0.06, C:0.29, G:0.09, T:0.57
Consensus pattern (36 bp):
CTTTCTTCTCCTTCTCTTTTTTCTTCTTGGCCGAAC
Found at i:61932759 original size:27 final size:27
Alignment explanation
Indices: 61932729--61932970 Score: 250
Period size: 27 Copynumber: 9.0 Consensus size: 27
61932719 CCGTAATGGG
*
61932729 ACCGAAATACCCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
* * *
61932756 ACCGAAATACCTTCGAATGGTAGAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
* * *
61932783 ACTGAAATACCCTTGAAAGTTAAAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
** *
61932810 AGTGAAATACCCTTGAAAGGTAAAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
* * *
61932837 ACCAAAATACTCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
* * *
61932864 ATCGAAATACCCCCGAAAGGTAAAATG
1 ACCGAAATACCCTCGAAAGGTAAAATT
* **
61932891 ATCGAAATACCCTTAAAAGGTAAAATT
1 ACCGAAATACCCTCGAAAGGTAAAATT
** * * *
61932918 ACAAAAATACCCCCGAAGGGTAAAATG
1 ACCGAAATACCCTCGAAAGGTAAAATT
* *
61932945 ACCGAAATACCCTTGTAAGGTAAAAT
1 ACCGAAATACCCTCGAAAGGTAAAAT
61932971 GATCGTTATA
Statistics
Matches: 174, Mismatches: 41, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (27 bp):
ACCGAAATACCCTCGAAAGGTAAAATT
Found at i:61932871 original size:81 final size:79
Alignment explanation
Indices: 61932731--61932984 Score: 294
Period size: 81 Copynumber: 3.1 Consensus size: 79
61932721 GTAATGGGAC
* * * * *
61932731 CGAAATACCCTCGAAGGGTAAAATTACCGAAATACCTTCGAATGGTAGAATTACTGAAATACCCT
1 CGAAATACCCTTGAAAGGTAAAATTACCAAAATACC-TCGAAGGGTAAAATTAC-GAAATACCCT
* *
61932796 TGAAAGTTAAAATTAGT
64 TGAAAGGTAAAATGA-T
*
61932813 -GAAATACCCTTGAAAGGTAAAATTACCAAAATACTCTCGAAGGGTAAAATTATCGAAATACCCC
1 CGAAATACCCTTGAAAGGTAAAATTACCAAAATAC-CTCGAAGGGTAAAATTA-CGAAATACCCT
*
61932877 CGAAAGGTAAAATGAT
64 TGAAAGGTAAAATGAT
* * * *
61932893 CGAAATACCCTTAAAAGGTAAAATTACAAAAATACCCCCGAAGGGTAAAATGACCGAAATACCCT
1 CGAAATACCCTTGAAAGGTAAAATTACCAAAATA-CCTCGAAGGGTAAAATTA-CGAAATACCCT
*
61932958 TGTAAGGTAAAATGAT
64 TGAAAGGTAAAATGAT
**
61932974 CGTTATACCCT
1 CGAAATACCCT
61932985 AGGAGATGAA
Statistics
Matches: 149, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 145 0.97
82 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.23
Consensus pattern (79 bp):
CGAAATACCCTTGAAAGGTAAAATTACCAAAATACCTCGAAGGGTAAAATTACGAAATACCCTTG
AAAGGTAAAATGAT
Found at i:61933394 original size:28 final size:28
Alignment explanation
Indices: 61933345--61933432 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
61933335 ACTGCATTTT
* *
61933345 ACTGATTATTGTATTGGGCTAAAGCTCAC
1 ACTG-TTACTGTATTGGGCTAAAGCCCAC
* *
61933374 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAAGCCCAC
* *
61933402 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAAGCCCAC
61933430 ACT
1 ACT
61933433 ATACTGATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 50 0.94
29 3 0.06
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAAGCCCAC
Found at i:61933453 original size:33 final size:28
Alignment explanation
Indices: 61933349--61933466 Score: 85
Period size: 28 Copynumber: 4.0 Consensus size: 28
61933339 CATTTTACTG
* * * * *
61933349 ATTATTGTATTGGGCTAAAGCTCACATT
1 ATTACTGTATAGGGCTAAGGCCCACACT
* *
61933377 GTTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATAGGGCTAAGGCCCACACT
*
61933405 GTTACTGTA-ATGGGCTAAGGCCCACACT
1 ATTACTGTATA-GGGCTAAGGCCCACACT
* *
61933433 ATACTGATTCTGTATAGGGCTCAGGCCCAGACT
1 AT--T-A--CTGTATAGGGCTAAGGCCCACACT
61933466 A
1 A
61933467 ATTCTGCATG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
28 50 0.68
30 1 0.01
31 1 0.01
33 21 0.28
34 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (28 bp):
ATTACTGTATAGGGCTAAGGCCCACACT
Found at i:61933522 original size:40 final size:40
Alignment explanation
Indices: 61933467--61933543 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
61933457 GCCCAGACTA
*
61933467 ATTCTGCATGTTGCATAGTGAATAGCTAGTAGGGGATCTG
1 ATTCTGCATGATGCATAGTGAATAGCTAGTAGGGGATCTG
* *
61933507 ATTCTGCATGATGCATAGTGATTGGCTAGTAGGGGAT
1 ATTCTGCATGATGCATAGTGAATAGCTAGTAGGGGAT
61933544 TACACATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.32
Consensus pattern (40 bp):
ATTCTGCATGATGCATAGTGAATAGCTAGTAGGGGATCTG
Found at i:61935888 original size:18 final size:16
Alignment explanation
Indices: 61935865--61935898 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
61935855 TGAGTGTTGC
61935865 ATTTTAATCCTTCATTTT
1 ATTTTAAT--TTCATTTT
61935883 ATTTTAATTTCATTTT
1 ATTTTAATTTCATTTT
61935899 TTCCCGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTCATTTT
Found at i:61935980 original size:3 final size:3
Alignment explanation
Indices: 61935972--61936054 Score: 94
Period size: 3 Copynumber: 27.0 Consensus size: 3
61935962 TTAGTTTAAG
* * *
61935972 ATT ATT ATT GATTT AGT ATC ATT ATT ATT ATT ATT ATT ATT ATT AGT
1 ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** *
61936019 ATT ATT ATT ATT ATT ATT GGT ATT ATT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
61936055 TTTTTATTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 62 0.94
4 2 0.03
5 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:61936360 original size:4 final size:4
Alignment explanation
Indices: 61936351--61936422 Score: 144
Period size: 4 Copynumber: 18.0 Consensus size: 4
61936341 ATATTAAATT
61936351 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
61936399 ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC
61936423 TCTATTGTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 68 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:61936504 original size:29 final size:28
Alignment explanation
Indices: 61936471--61936545 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
61936461 CTTTTTTAAA
*
61936471 TATTTTAATATCTTTAATCTATTTCAACT
1 TATTTTAATAT-TTTAATCTATTTAAACT
* * *
61936500 TATTTCAATATTGTTAATTTATTTAAATT
1 TATTTTAATATT-TTAATCTATTTAAACT
*
61936529 TATTTTAACATTTTAAT
1 TATTTTAATATTTTAAT
61936546 TTATATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (28 bp):
TATTTTAATATTTTAATCTATTTAAACT
Found at i:61941034 original size:21 final size:20
Alignment explanation
Indices: 61941008--61941051 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
61940998 TTAACTGGAC
*
61941008 TGATAAGCAGCAAGAAAGTTT
1 TGATAAACAG-AAGAAAGTTT
**
61941029 TGATAAATTGAAGAAAGTTT
1 TGATAAACAGAAGAAAGTTT
61941049 TGA
1 TGA
61941052 CTGAGGCCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (20 bp):
TGATAAACAGAAGAAAGTTT
Found at i:61944206 original size:71 final size:71
Alignment explanation
Indices: 61944090--61944228 Score: 269
Period size: 71 Copynumber: 2.0 Consensus size: 71
61944080 TTCGTGGAAA
*
61944090 TAGAACTTTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
61944155 AAAAAC
66 AAAAAC
61944161 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
61944226 AAA
66 AAA
61944229 GCTAGAAAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (71 bp):
TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCG
AAAAAC
Found at i:61944515 original size:54 final size:54
Alignment explanation
Indices: 61944359--61944585 Score: 253
Period size: 54 Copynumber: 4.2 Consensus size: 54
61944349 TAATGGGACC
* *
61944359 GAAATA-CCTTGAAAGGTAAAATTATCGAAATACCCTCAAAGGGTAAAAGTACT
1 GAAATACCCTCGAAAGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACT
* * * * **
61944412 TAAATGCCCTCGAAGGGTACTTAAATTATCGAAATTCCCTTGAAGGGTAAAATTACT
1 GAAATACCCTCGAAAGGTA---AAATTATCGAAATACCCTCAAAGGGTAAAATTACT
*
61944469 GAAATACCTTCGAAAGGTAAAATTATCGAAATACCCTCGAAA-GGTAAAATTACT
1 GAAATACCCTCGAAAGGTAAAATTATCGAAATACCCTC-AAAGGGTAAAATTACT
* * * * *
61944523 AAAATACCCTCGAAGGGTAAAATGACCGAAATACCC-CAAAGGGTAAAATGACT
1 GAAATACCCTCGAAAGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACT
**
61944576 GTTATACCCT
1 GAAATACCCT
61944586 AGGAGATGAA
Statistics
Matches: 144, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 3 0.02
53 23 0.16
54 70 0.49
55 2 0.01
57 46 0.32
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (54 bp):
GAAATACCCTCGAAAGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACT
Found at i:61944574 original size:26 final size:27
Alignment explanation
Indices: 61944356--61944571 Score: 188
Period size: 27 Copynumber: 8.0 Consensus size: 27
61944346 TCGTAATGGG
* *
61944356 ACCGAAATACCTTGAAA-GGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* *
61944382 ATCGAAATACCCTCAAAGGGTAAAAGT
1 ACCGAAATACCCTCAAAGGGTAAAATT
** * *
61944409 ACTTAAATGCCCTCGAAGGGTACTTAAATT
1 ACCGAAATACCCTCAAAGGGTA---AAATT
* * **
61944439 ATCGAAATTCCCTTGAAGGGTAAAATT
1 ACCGAAATACCCTCAAAGGGTAAAATT
* *
61944466 ACTGAAATACCTTCGAAA-GGTAAAATT
1 ACCGAAATACCCTC-AAAGGGTAAAATT
*
61944493 ATCGAAATACCCTCGAAA-GGTAAAATT
1 ACCGAAATACCCTC-AAAGGGTAAAATT
** * *
61944520 ACTAAAATACCCTCGAAGGGTAAAATG
1 ACCGAAATACCCTCAAAGGGTAAAATT
61944547 ACCGAAATACCC-CAAAGGGTAAAAT
1 ACCGAAATACCCTCAAAGGGTAAAAT
61944572 GACTGTTATA
Statistics
Matches: 152, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 28 0.18
27 101 0.66
28 2 0.01
30 21 0.14
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
ACCGAAATACCCTCAAAGGGTAAAATT
Found at i:61944793 original size:26 final size:26
Alignment explanation
Indices: 61944764--61944839 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
61944754 ATGCCACATA
*
61944764 TACTGTTACTGGTAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCTGCGT
*
61944790 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCTGCGT
* * *
61944816 TATTATTACTGGAAGCTTTACTGC
1 TACTGTTACTGGAAGCTTTGCTGC
61944840 AATATTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCGT
Found at i:61944845 original size:26 final size:26
Alignment explanation
Indices: 61944795--61944845 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
61944785 TGCGTTACTG
* * **
61944795 TTACTGGCAGCTTTGCTGCGTTATTA
1 TTACTGGAAGCTTTACTGCAATATTA
61944821 TTACTGGAAGCTTTACTGCAATATT
1 TTACTGGAAGCTTTACTGCAATATT
61944846 GGTGTGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
TTACTGGAAGCTTTACTGCAATATTA
Found at i:61944976 original size:28 final size:28
Alignment explanation
Indices: 61944927--61945019 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 28
61944917 ACTGCATTGT
*
61944927 ACTGATTACTGTATT-AGGCTAAAGCCCAC
1 ACTG-TTATTGTATTGA-GCTAAAGCCCAC
* * *
61944956 ATTGTTATTGTATTGAGCTAATG-CCAT
1 ACTGTTATTGTATTGAGCTAAAGCCCAC
* * * *
61944983 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTATTGTATTGAGCTAAAGCCCAC
61945011 ACTG-TATTG
1 ACTGTTATTG
61945020 ATACTATATA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
27 25 0.49
28 22 0.43
29 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (28 bp):
ACTGTTATTGTATTGAGCTAAAGCCCAC
Found at i:61945002 original size:27 final size:28
Alignment explanation
Indices: 61944926--61945015 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
61944916 CACTGCATTG
*
61944926 TACTGATTACTGTATTAGGCTAAAGCCCA
1 TACTG-TTACTGTATTGGGCTAAAGCCCA
* * * * *
61944955 CATTGTTATTGTATTGAGCTAATG-CCA
1 TACTGTTACTGTATTGGGCTAAAGCCCA
* *
61944982 TACTGTTACTGTAATGGGCTAAGGCCCA
1 TACTGTTACTGTATTGGGCTAAAGCCCA
*
61945010 CACTGT
1 TACTGT
61945016 ATTGATACTA
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
27 21 0.45
28 23 0.49
29 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (28 bp):
TACTGTTACTGTATTGGGCTAAAGCCCA
Found at i:61960588 original size:17 final size:18
Alignment explanation
Indices: 61960566--61960600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61960556 ATTTGGGTCA
61960566 TGTGGG-CCAAACGGGCG
1 TGTGGGCCCAAACGGGCG
*
61960583 TGTGGGCCCACACGGGCG
1 TGTGGGCCCAAACGGGCG
61960601 AACATCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.29, G:0.46, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCAAACGGGCG
Found at i:61962561 original size:24 final size:23
Alignment explanation
Indices: 61962521--61962567 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
61962511 CCATGACAAA
*
61962521 TTTATTTCAGATGCAGAAAAAAT
1 TTTATTTCAGATACAGAAAAAAT
* *
61962544 TTTAGTTTCATATACAGAACAAAT
1 TTTA-TTTCAGATACAGAAAAAAT
61962568 CATAGTCAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTATTTCAGATACAGAAAAAAT
Found at i:61963974 original size:27 final size:27
Alignment explanation
Indices: 61963944--61963995 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
61963934 AATGAAGAAG
* *
61963944 AGAATTAAAGAATCAAAAAA-AAAAGGA
1 AGAATGAAAAAAT-AAAAAATAAAAGGA
61963971 AGAATGAAAAAATAAAAAATAAAAG
1 AGAATGAAAAAATAAAAAATAAAAG
61963996 ACAGTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.12
Consensus pattern (27 bp):
AGAATGAAAAAATAAAAAATAAAAGGA
Found at i:61966638 original size:6 final size:6
Alignment explanation
Indices: 61966627--61966652 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61966617 TTTTTCTTAA
61966627 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
61966653 CCCAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:61967547 original size:66 final size:66
Alignment explanation
Indices: 61967469--61967601 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
61967459 CAAACCCCAC
61967469 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
1 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
61967534 A
66 A
* * * *
61967535 CCCAATCAGATATATATTCAAAATTATCATGCTTACATGCTCATTTACATATATCAAGTAAGTAT
1 CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
61967600 A
66 A
61967601 C
1 C
61967602 ACGGACATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (66 bp):
CCCAACCAGATATATATTCAAAATTACCATGCTTACATGCTCATATACATATATCAAGTAAATAT
A
Found at i:61970185 original size:19 final size:20
Alignment explanation
Indices: 61970161--61970207 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
61970151 ATAATAAATA
* *
61970161 TTTATTTTTTTATAT-TTTT
1 TTTATTTTTTGAAATATTTT
61970180 TTTA-TTTTTGAAATATTTT
1 TTTATTTTTTGAAATATTTT
61970199 TTTATTTTT
1 TTTATTTTT
61970208 AAAATGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 12 0.50
20 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTATTTTTTGAAATATTTT
Found at i:61970212 original size:19 final size:19
Alignment explanation
Indices: 61970176--61970212 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61970166 TTTTTTATAT
*
61970176 TTTTTTTATTTTTGAAATA
1 TTTTTTTATTTTTAAAATA
61970195 TTTTTTTATTTTTAAAAT
1 TTTTTTTATTTTTAAAAT
61970213 GAATTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTTTATTTTTAAAATA
Found at i:61977662 original size:16 final size:16
Alignment explanation
Indices: 61977641--61977672 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61977631 TCACACATGC
61977641 CTGTGTGGCCCACACG
1 CTGTGTGGCCCACACG
*
61977657 CTGTGTGGTCCACACG
1 CTGTGTGGCCCACACG
61977673 GCCCAAATGG
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:0.12, C:0.34, G:0.31, T:0.22
Consensus pattern (16 bp):
CTGTGTGGCCCACACG
Done.