Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 343 of 352
Found at i:109810836 original size:20 final size:19
Alignment explanation
Indices: 109810811--109810858 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
109810801 CATTACAAGT
109810811 ATAATTATTATATTT-TATTA
1 ATAATTATT-TATTTATA-TA
109810831 ATAATTTATTTATTTATATA
1 ATAA-TTATTTATTTATATA
*
109810851 TTAATTAT
1 ATAATTAT
109810859 AGTTGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTATTTATTTATATA
Found at i:109817168 original size:18 final size:18
Alignment explanation
Indices: 109817145--109817180 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109817135 AAGGCACTTA
109817145 AATAATAATTAAACCATT
1 AATAATAATTAAACCATT
109817163 AATAATAATTAAACCATT
1 AATAATAATTAAACCATT
109817181 CAACTAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAATTAAACCATT
Found at i:109819064 original size:18 final size:20
Alignment explanation
Indices: 109819027--109819064 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
109819017 ATTTTTGAAA
*
109819027 ATTTTAATTATATCCTTAAT
1 ATTTTAATTAAATCCTTAAT
109819047 ATTTTAA-TAAAT-CTTAAT
1 ATTTTAATTAAATCCTTAAT
109819065 TAGGTCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAATTAAATCCTTAAT
Found at i:109823119 original size:14 final size:14
Alignment explanation
Indices: 109823100--109823130 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109823090 CTACCATTAA
109823100 ACTATTATGTTGTT
1 ACTATTATGTTGTT
*
109823114 ACTATTTTGTTGTT
1 ACTATTATGTTGTT
109823128 ACT
1 ACT
109823131 GTTCTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (14 bp):
ACTATTATGTTGTT
Found at i:109825522 original size:7 final size:7
Alignment explanation
Indices: 109825510--109825538 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
109825500 TTGAATATTT
109825510 CATTTCA
1 CATTTCA
109825517 CATTTCA
1 CATTTCA
109825524 CATTTCA
1 CATTTCA
109825531 CATTTCA
1 CATTTCA
109825538 C
1 C
109825539 TGTTATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (7 bp):
CATTTCA
Found at i:109834835 original size:20 final size:19
Alignment explanation
Indices: 109834798--109834836 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
109834788 CCTTCTATTC
109834798 CTTTTATTTTGTTTTCTTT
1 CTTTTATTTTGTTTTCTTT
109834817 CTTTTGATTTT-TTTCTCTTT
1 CTTTT-ATTTTGTTT-TCTTT
109834837 AAATTGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (19 bp):
CTTTTATTTTGTTTTCTTT
Found at i:109836413 original size:12 final size:13
Alignment explanation
Indices: 109836390--109836419 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
109836380 AGTGTGCTTG
109836390 TTTTTTATTTTTA
1 TTTTTTATTTTTA
109836403 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
109836415 TTTTT
1 TTTTT
109836420 ATTACATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:109836552 original size:5 final size:6
Alignment explanation
Indices: 109836538--109836562 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
109836528 AATGCTTCAA
109836538 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
109836563 GTTACATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:109836700 original size:24 final size:22
Alignment explanation
Indices: 109836658--109836701 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
109836648 CCTCCCGGTT
109836658 TTGTCTTCTTTGTCTTATTCTC
1 TTGTCTTCTTTGTCTTATTCTC
*
109836680 TTGTCTTTCTGTTTTCTTATTC
1 TTGTC-TTCT-TTGTCTTATTC
109836702 AAAATTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.05, C:0.20, G:0.09, T:0.66
Consensus pattern (22 bp):
TTGTCTTCTTTGTCTTATTCTC
Found at i:109838108 original size:41 final size:41
Alignment explanation
Indices: 109838052--109838146 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
109838042 TAGATTGAGA
* * *
109838052 ATTAGCGGCGC-TTTTTGAAAAATGCCACTATAGATCAAGC
1 ATTAGCGGCGCTTTTTTAAAAAACGCCACTATAGATCAACC
* * * *
109838092 ATTAGCGGCACTTTTTTAAAAAACGCCGCTATAGGTCCACC
1 ATTAGCGGCGCTTTTTTAAAAAACGCCACTATAGATCAACC
109838133 ATTAGCGGCGCTTT
1 ATTAGCGGCGCTTT
109838147 CTGCAAAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 10 0.22
41 36 0.78
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTTAAAAAACGCCACTATAGATCAACC
Found at i:109838261 original size:40 final size:40
Alignment explanation
Indices: 109838206--109838355 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
109838196 AGCTTTAGTG
* * *
109838206 GCATTAGCGGTGCTTTTTGAAAAACGCAGTTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
109838246 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
109838286 -CTATTAGTGG-GTCTTTTTGAAAAATGCCGCTATAGATCGA
1 GC-ATTAGCGGCG-CTTTTTGAAAAACGCCGCTATAGATCGA
* * * * *
109838326 GCTTTAGCAGCACTTTATCAAAAACGCCGC
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
109838356 AAAAACATTT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 87 0.97
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:109838681 original size:14 final size:14
Alignment explanation
Indices: 109838662--109838692 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109838652 ATCATTTTAA
*
109838662 TTTAGGGTTTATGG
1 TTTAGGGTATATGG
109838676 TTTAGGGTATATGG
1 TTTAGGGTATATGG
109838690 TTT
1 TTT
109838693 TGGTTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (14 bp):
TTTAGGGTATATGG
Found at i:109838744 original size:22 final size:21
Alignment explanation
Indices: 109838719--109838769 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
109838709 GAGTTACTAT
*
109838719 TTTAAGGTTTAT-GTATTATGAG
1 TTTAAGGATTATGGT-TTATG-G
*
109838741 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGTTTATGG
109838762 TTTAAGGA
1 TTTAAGGA
109838770 CTAGGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 15 0.60
23 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATGGTTTATGG
Found at i:109838815 original size:14 final size:14
Alignment explanation
Indices: 109838782--109838815 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
109838772 AGGGGTTTGG
*
109838782 GGTTTATGATTTAT
1 GGTTTATGATTTAA
*
109838796 GTTTTATGATTTAA
1 GGTTTATGATTTAA
109838810 GGTTTA
1 GGTTTA
109838816 GGGGATAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (14 bp):
GGTTTATGATTTAA
Found at i:109839280 original size:43 final size:43
Alignment explanation
Indices: 109839198--109839425 Score: 234
Period size: 43 Copynumber: 5.3 Consensus size: 43
109839188 AATAATTTCA
* *
109839198 CTTTAGCGGC-TTTCATGGGAAAAGC-ACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTT-GTGAGAAAAGCGA-CGCTAAAGGTCATGTT
* * * *
109839241 CTATAGCAGCGTTTGTG-GTAAAAGTGACGCTAAATGTCATGTT
1 CTTTAGCGGCGTTTGTGAG-AAAAGCGACGCTAAAGGTCATGTT
* *
109839284 CTTTAGTGGCGTTTGTGAGAACAA-CGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGAGAA-AAGCGACGCTAAAGGTCATGTT
* * * *
109839327 TTTTAGCGGCGTTTATGAGAAAAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGAGAAAAGCGACGCTAAAGGTCATGTT
*
109839370 CTTTAGCGACGTTTGTG-GAAAAAGC-ACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGAG-AAAAGCGA-CGCTAAAGGTCATGTT
*
109839413 CTATAGCGGCGTT
1 CTTTAGCGGCGTT
109839426 GTAACAACCC
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
42 4 0.03
43 144 0.93
44 7 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGAGAAAAGCGACGCTAAAGGTCATGTT
Found at i:109839350 original size:86 final size:86
Alignment explanation
Indices: 109839217--109839425 Score: 278
Period size: 86 Copynumber: 2.4 Consensus size: 86
109839207 CTTTCATGGG
* * * * *
109839217 AAAAGCACCGCTAAAGGTCATGTTCTATAGCAGCGTTTGTGGTAAAAGTGACGCTAAATGTCATG
1 AAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGGTAAAAGCGACACTAAAGGTCATG
* *
109839282 TTCTTTAGTGGCGTTTGTGAGA
66 TTCTTTAGCGACGTTTGTG-GA
* * * * *
109839304 ACAA-CGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTATGAG-AAAAGCGCCACTAAAGGTCAT
1 AAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATG-GTAAAAGCGACACTAAAGGTCAT
109839367 GTTCTTTAGCGACGTTTGTGGA
65 GTTCTTTAGCGACGTTTGTGGA
109839389 AAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTT
1 AAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTT
109839426 GTAACAACCC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 5 0.05
86 95 0.91
87 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (86 bp):
AAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGGTAAAAGCGACACTAAAGGTCATG
TTCTTTAGCGACGTTTGTGGA
Found at i:109840874 original size:47 final size:47
Alignment explanation
Indices: 109840797--109841006 Score: 226
Period size: 47 Copynumber: 4.4 Consensus size: 47
109840787 TGGTTGAACC
* * * *
109840797 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTGCTTCT-GTATAAGACCATAGCTGGGAT
* * * *
109840844 ATAGCATCAGTGTGATATGAGCTTCTGTATAAGACCATATCTGAGAT
1 ATGGCATCAGTGTGATATGTGCTTCTGTATAAGACCATAGCTGGGAT
* * * *
109840891 ATGTCATCGGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCTGTATAAGACCATAGCTGGGAT
* * * *
109840938 ATGGCATCAGTGTGATATGTG-ATCTGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGCTTCTGTATAAGACCATAGCTGGGAT
*
109840984 ATGGCTTCAGTGTGTGATATGTG
1 ATGGCATCA--GTGTGATATGTG
109841007 ACTATGTGCA
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 29 0.21
47 85 0.61
48 25 0.18
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCTGTATAAGACCATAGCTGGGAT
Found at i:109842323 original size:15 final size:16
Alignment explanation
Indices: 109842305--109842337 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
109842295 TTAAAGGTAT
*
109842305 AAAGAGTAAA-AAATA
1 AAAGAATAAACAAATA
109842320 AAAGAATAAACAAATA
1 AAAGAATAAACAAATA
109842336 AA
1 AA
109842338 TAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAGAATAAACAAATA
Found at i:109842336 original size:16 final size:15
Alignment explanation
Indices: 109842305--109842346 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
109842295 TTAAAGGTAT
*
109842305 AAAGAGTAAAAAATA
1 AAAGAATAAAAAATA
109842320 AAAGAATAAACAAATA
1 AAAGAATAAA-AAATA
109842336 AATA-AATAAAA
1 AA-AGAATAAAA
109842347 GGCTTGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 13 0.54
17 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAGAATAAAAAATA
Found at i:109843636 original size:17 final size:17
Alignment explanation
Indices: 109843610--109843642 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
109843600 TTATTATTAT
109843610 TTTTGGTTTGTTTTTTG
1 TTTTGGTTTGTTTTTTG
*
109843627 TTTTGTTTTGTTTTTT
1 TTTTGGTTTGTTTTTT
109843643 TGGTTTTGTC
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:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (17 bp):
TTTTGGTTTGTTTTTTG
Found at i:109849409 original size:69 final size:69
Alignment explanation
Indices: 109849298--109849527 Score: 266
Period size: 69 Copynumber: 3.3 Consensus size: 69
109849288 GCTGTAATGG
* * *
109849298 GGAATAATGTGTAAAACCATAGCTCAACTATGGCAATATAGAGAGAGTTTGTCATGACATTAAAC
1 GGAATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGTCAGGACATTAAAC
109849363 ATGA
66 ATGA
* ** *** *
109849367 GGAATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGAGTCCCCCAGGTCATT-AAC
1 GGAATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGTCAGGACATTAAAC
*
109849431 ATGG
66 ATGA
* * * * * *
109849435 GGAATAATGTCTAAGACCAAAACTCAACTATGGCAACATAAAGAGACTCTGTCAGGACATTAAAC
1 GGAATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGTCAGGACATTAAAC
109849500 ATGA
66 ATGA
* *
109849504 -AACATGATGTGTAAAACCATAGCT
1 GGA-ATAATGTGTAAAACCATAGCT
109849528 TGGCTATGGC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
68 57 0.44
69 73 0.56
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (69 bp):
GGAATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGAGTCTGTCAGGACATTAAAC
ATGA
Found at i:109861466 original size:19 final size:19
Alignment explanation
Indices: 109861444--109861481 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
109861434 TAACATGACA
109861444 AAGATTAAAATTATAATAT
1 AAGATTAAAATTATAATAT
109861463 AAGATTAAAATTATAATAT
1 AAGATTAAAATTATAATAT
109861482 TACATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAGATTAAAATTATAATAT
Found at i:109865249 original size:9 final size:9
Alignment explanation
Indices: 109865235--109865413 Score: 216
Period size: 9 Copynumber: 20.0 Consensus size: 9
109865225 TGACAACATA
109865235 TAAGTTATG
1 TAAGTTATG
*
109865244 TAAGTTATA
1 TAAGTTATG
109865253 TAAGTTATG
1 TAAGTTATG
109865262 TAAGTTATG
1 TAAGTTATG
*
109865271 TAAGTTATA
1 TAAGTTATG
109865280 TAAGTTATG
1 TAAGTTATG
109865289 TAAGTTATG
1 TAAGTTATG
*
109865298 TAAGTTATA
1 TAAGTTATG
109865307 TAAGTTATG
1 TAAGTTATG
109865316 TAAGTTATG
1 TAAGTTATG
* *
109865325 TATGTTATA
1 TAAGTTATG
*
109865334 TGAGTTATG
1 TAAGTTATG
*
109865343 TAAGTTATA
1 TAAGTTATG
*
109865352 TAAGTTATA
1 TAAGTTATG
* *
109865361 T-ATTTATC
1 TAAGTTATG
*
109865369 TAAGTTATA
1 TAAGTTATG
109865378 TAAGTTATG
1 TAAGTTATG
* *
109865387 TATGTTTTG
1 TAAGTTATG
*
109865396 TAAGTTATA
1 TAAGTTATG
*
109865405 TAAATTATG
1 TAAGTTATG
109865414 ATATCAAATA
Statistics
Matches: 144, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
8 6 0.04
9 138 0.96
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:109865266 original size:27 final size:27
Alignment explanation
Indices: 109865235--109865412 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
109865225 TGACAACATA
109865235 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
109865262 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
109865289 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
* *
109865316 TAAGTTATGTATGTTATATGAGTTATG
1 TAAGTTATGTAAGTTATATAAGTTATG
* * *
109865343 TAAGTTATATAAGTTATAT-ATTTATC
1 TAAGTTATGTAAGTTATATAAGTTATG
* * * *
109865369 TAAGTTATATAAGTTATGTATGTTTTG
1 TAAGTTATGTAAGTTATATAAGTTATG
* *
109865396 TAAGTTATATAAATTAT
1 TAAGTTATGTAAGTTAT
109865413 GATATCAAAT
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 23 0.17
27 115 0.83
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (27 bp):
TAAGTTATGTAAGTTATATAAGTTATG
Found at i:109865538 original size:15 final size:15
Alignment explanation
Indices: 109865518--109865573 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
109865508 AAGTAGCGGG
109865518 ATTAAATAATATTTA
1 ATTAAATAATATTTA
109865533 ATTAAATAATATTT-
1 ATTAAATAATATTTA
109865547 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
109865562 ATTAAGTAATAT
1 ATTAAATAATAT
109865574 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:109866298 original size:290 final size:290
Alignment explanation
Indices: 109865778--109866785 Score: 1971
Period size: 290 Copynumber: 3.5 Consensus size: 290
109865768 TTATGATAAA
*
109865778 AAGTCTTTTTGAATTTTTTAAGATTCATCATAAGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
*
109865843 TATCTTGCAGCTCGATATAAGGCAACCCGTTAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
109865908 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
109865973 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
109866038 ATAGTAAATGAGCTCGATAGAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
*
109866068 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTTCACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
109866133 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
109866198 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
109866263 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
*
109866328 ATAGTAAATGAGCTCGATAAAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
*
109866358 AAGTCTTTTTGAATTTTTTAAGATTCATTATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
109866423 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
109866488 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
131 TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
109866553 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
196 AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
109866618 ATAGTAAATGAGCTCGATAGAACTTTTTTC
261 ATAGTAAATGAGCTCGATAGAACTTTTTTC
109866648 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
1 AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
109866713 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
66 TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
109866778 TATTTAAA
131 TATTTAAA
109866786 ATAAGGTTGG
Statistics
Matches: 710, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 710 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (290 bp):
AAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTA
TATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAA
TATTTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCA
AAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCA
ATAGTAAATGAGCTCGATAGAACTTTTTTC
Found at i:109868892 original size:62 final size:61
Alignment explanation
Indices: 109868730--109868910 Score: 344
Period size: 61 Copynumber: 3.0 Consensus size: 61
109868720 ACAAACTAGT
109868730 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
*
109868791 TTTTCCATTTCAGAACAAAAAATCGAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
109868852 TTTTCCATTTCAGAACAAAAATATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
1 TTTTCCATTTCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
109868911 CAAATTTTGG
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
61 81 0.69
62 36 0.31
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.19
Consensus pattern (61 bp):
TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
Found at i:109871587 original size:41 final size:40
Alignment explanation
Indices: 109871529--109871665 Score: 184
Period size: 41 Copynumber: 3.4 Consensus size: 40
109871519 GTTATGAGAT
*
109871529 TTTTAGCGGCGTTTTACGAAAAGCGCCGCTGATGCTCTGG
1 TTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
109871569 TGTTTAGCGGCGTTTTACGAAAAGTGCCTCTAATGCTCTGG
1 T-TTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * **
109871610 TTTTTTGCGGCGTTTTAGGAAAAGCGATGCTAATGCTCTGG
1 -TTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
109871651 TTTTAGCAGCGTTTT
1 TTTTAGCGGCGTTTT
109871666 TTCTAGAACG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 14 0.17
41 69 0.82
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:109878307 original size:26 final size:25
Alignment explanation
Indices: 109878269--109878328 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
109878259 GGGAAGTTAC
* * *
109878269 TTTTAAATTTAGATTTTTATTCTACT
1 TTTTGAATATAGA-TTTTATTATACT
*
109878295 TTTTGAATATAGATTTTATTATAGT
1 TTTTGAATATAGATTTTATTATACT
109878320 TATTTGAAT
1 T-TTTGAAT
109878329 GTAATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTGAATATAGATTTTATTATACT
Found at i:109889375 original size:13 final size:12
Alignment explanation
Indices: 109889356--109889384 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
109889346 GTATTAATAA
109889356 AAAATATAT-TT
1 AAAATATATATT
109889367 AAAATATATATT
1 AAAATATATATT
109889379 AAAATA
1 AAAATA
109889385 AAAAGTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATATATT
Found at i:109900547 original size:12 final size:13
Alignment explanation
Indices: 109900524--109900552 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
109900514 TTTTCTAAAT
109900524 AAAAAATCAAAGC
1 AAAAAATCAAAGC
109900537 AAAAAAT-AAAGC
1 AAAAAATCAAAGC
109900549 AAAA
1 AAAA
109900553 TCGAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAATCAAAGC
Found at i:109900880 original size:21 final size:21
Alignment explanation
Indices: 109900840--109900879 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
109900830 AAATTGAAGA
*
109900840 TTAAAAAATTCAGAAAAAAAT
1 TTAAAAAAATCAGAAAAAAAT
109900861 TTAAAAAAAT-AGAAAAAAA
1 TTAAAAAAATCAGAAAAAAA
109900880 AAATACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (21 bp):
TTAAAAAAATCAGAAAAAAAT
Found at i:109914357 original size:2 final size:2
Alignment explanation
Indices: 109914350--109914395 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
109914340 GCGATCTCGA
*
109914350 TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
109914392 TC TC
1 TC TC
109914396 GCCTTGGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:109914469 original size:15 final size:15
Alignment explanation
Indices: 109914449--109914501 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
109914439 AGGAGAGCTT
109914449 TTTAATTTATTTTAA
1 TTTAATTTATTTTAA
109914464 TTTAATTT-TTTTAA
1 TTTAATTTATTTTAA
*
109914478 ---AATTTTATTTTTA
1 TTTAA-TTTATTTTAA
109914491 TTT-ATTTATTT
1 TTTAATTTATTT
109914502 ATTTATTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
11 2 0.06
12 3 0.09
13 5 0.16
14 13 0.41
15 9 0.28
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATTTATTTTAA
Found at i:109914482 original size:22 final size:22
Alignment explanation
Indices: 109914457--109914498 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
109914447 TTTTTAATTT
*
109914457 ATTTTAATTTAATTTTTTTAAA
1 ATTTTAATTTAATTTATTTAAA
* *
109914479 ATTTTATTTTTATTTATTTA
1 ATTTTAATTTAATTTATTTA
109914499 TTTATTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTAATTTAATTTATTTAAA
Found at i:109918871 original size:13 final size:14
Alignment explanation
Indices: 109918840--109918869 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
109918830 TGAATTATTT
109918840 TTTATAATTTTTAA
1 TTTATAATTTTTAA
109918854 TTTATAATTTTTAA
1 TTTATAATTTTTAA
109918868 TT
1 TT
109918870 ATTTGTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATAATTTTTAA
Found at i:109920531 original size:17 final size:17
Alignment explanation
Indices: 109920509--109920542 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109920499 TCATATTTAA
109920509 AAAATAAATAAATAAAT
1 AAAATAAATAAATAAAT
* *
109920526 AAAATATATCAATAAAT
1 AAAATAAATAAATAAAT
109920543 CTTATATAAT
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAATAAATAAAT
Found at i:109927736 original size:2 final size:2
Alignment explanation
Indices: 109927731--109927759 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
109927721 TAAAATCAGC
109927731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109927760 ATTTTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109927911 original size:30 final size:31
Alignment explanation
Indices: 109927870--109927940 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
109927860 TTGAACGATC
* ** *
109927870 TAATATTAATATATTATTGA-TATCTGAGTT
1 TAATTTTAATATACAATTGAGTATCTAAGTT
* *
109927900 TAATTTTAATATACAATTTAGTATTTAAGTT
1 TAATTTTAATATACAATTGAGTATCTAAGTT
109927931 TAATTTTAAT
1 TAATTTTAAT
109927941 GTTTAAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (31 bp):
TAATTTTAATATACAATTGAGTATCTAAGTT
Found at i:109928139 original size:57 final size:57
Alignment explanation
Indices: 109928027--109928140 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
109928017 CATAAAGTAT
* * **
109928027 TTAATTGGGACAAAAAAATTAAGTATCAAATTAAATATTGAAGTCAAATTTAAATAC
1 TTAATTAGGACAAAAAAATCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
* * *
109928084 TTAATTAGGA-AAAAAAACTCAAGTATTAAATTGAATATTGAAGTTAAATACAAATAC
1 TTAATTAGGACAAAAAAA-TCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
109928141 AAGAAAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 7 0.14
57 42 0.86
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (57 bp):
TTAATTAGGACAAAAAAATCAAGTATCAAATTAAATATTGAAGTCAAATACAAATAC
Found at i:109928204 original size:16 final size:17
Alignment explanation
Indices: 109928162--109928204 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
109928152 TTAACTTTTT
109928162 TTATTAAAATTTATATA
1 TTATTAAAATTTATATA
*
109928179 TGT-TTTAAATTT-TATA
1 T-TATTAAAATTTATATA
109928195 TTATTAAAAT
1 TTATTAAAAT
109928205 AATATTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 9 0.41
18 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAAATTTATATA
Found at i:109929019 original size:18 final size:19
Alignment explanation
Indices: 109928993--109929034 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
109928983 GAGACATTTA
*
109928993 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATAGTAT
* *
109929011 TTTTTATGTATTATATTAT
1 TTTTAATGTATTATAGTAT
109929030 TTTTA
1 TTTTA
109929035 TAAAAATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTAATGTATTATAGTAT
Found at i:109930574 original size:102 final size:101
Alignment explanation
Indices: 109930428--109930633 Score: 261
Period size: 102 Copynumber: 2.0 Consensus size: 101
109930418 ATAGGACATG
* * * ** ** *
109930428 TGGCAGTTTTTTTAACTCCTTTGTGGAGTTAAAAGATTGTATTGCTGGTGTACCGAATTCGAACC
1 TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
* *
109930493 CTATATATATGTGTGCGCGTGTATAGTGTGAAGCAATT
66 C--TATATATGTCTGCGCGTGTATAGTATGAAGCAATT
*
109930531 TGGCAGTTTTTTT-ACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTTGAACC
1 TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
* * *
109930595 CTATATGTGTCTGTGTGTGTATAGTATGAAGCAATT
66 CTATATATGTCTGCGCGTGTATAGTATGAAGCAATT
109930631 TGG
1 TGG
109930634 TAACTATATT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 33 0.37
102 43 0.48
103 13 0.15
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (101 bp):
TGGCAGTTTTTTTAACTCCATTATGGAGTTAAAAAATTCCATTGCCAGTGTACCAAATTCGAACC
CTATATATGTCTGCGCGTGTATAGTATGAAGCAATT
Found at i:109935772 original size:145 final size:144
Alignment explanation
Indices: 109935591--109935933 Score: 462
Period size: 145 Copynumber: 2.4 Consensus size: 144
109935581 ATACATATCC
*** * *
109935591 ATATCCAACACACTTAAACCCAAGTAACATAAGTTATGAAAGTATGTCACATTATTCGCATAAGA
1 ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
109935656 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCGTATCTGT
66 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTC-TATCTGT
109935721 ATCGGATACATATCC
130 ATCGGATACATATCC
* * *
109935736 ATATCCAACACACTTAAGTTCGAGTAACATAAGTTATGAAGGCATGTTACATTATTCGCATATGA
1 ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
* * * * *
109935801 TATGAGAATATGATCTCAAAGGACCCATCATTTAATGAAAGGCTTTAGAATA--CTC--T-TGTA
66 TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCTATCTGTA
*
109935861 TCGGATACATATTC
131 TCGGATACATATCC
* * * *
109935875 ATATTCAACATACATGTAAGTTTAAGTAACATAAGTTATGAAGGCACGTCACATTATTC
1 ATATCCAACACAC-T-TAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTC
109935934 ACATTATTCG
Statistics
Matches: 176, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
139 28 0.16
140 2 0.01
141 39 0.22
143 3 0.02
145 104 0.59
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (144 bp):
ATATCCAACACACTTAAGTTCAAGTAACATAAGTTATGAAGGCATGTCACATTATTCGCATAAGA
TACGAGAATATGATCTCAAAGGACCCTTCATTTAATGAAAAGCCTTAGAAAAGTCTCTATCTGTA
TCGGATACATATCC
Found at i:109937661 original size:79 final size:79
Alignment explanation
Indices: 109937521--109937764 Score: 443
Period size: 79 Copynumber: 3.1 Consensus size: 79
109937511 ATAAAAGTTA
* *
109937521 AAATGTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTCTAGCATAATTT
1 AAAT-TTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTT
109937586 TAAAGTTATTTACCT
65 TAAAGTTATTTACCT
*
109937601 AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAAAATCTGTAACATAATTTT
1 AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
109937666 AAAGTTATTTACCT
66 AAAGTTATTTACCT
*
109937680 AAATTTTTACCAGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
1 AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
109937745 AAAGTTATTTACCT
66 AAAGTTATTTACCT
109937759 AAATTT
1 AAATTT
109937765 GTCTCTCTAT
Statistics
Matches: 159, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 155 0.97
80 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (79 bp):
AAATTTTTACCGGTGAATAAGAGGTCGGTGGTTAAAATTCGAAATAGAATCTGTAACATAATTTT
AAAGTTATTTACCT
Found at i:109939286 original size:24 final size:23
Alignment explanation
Indices: 109939218--109939288 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
109939208 TGCTTCAATA
* *
109939218 TTCAAATTGGTACTTGAATTTTT
1 TTCAATTTGATACTTGAATTTTT
109939241 TTCAATTTGATACTTGAATTTTT
1 TTCAATTTGATACTTGAATTTTT
109939264 TTCAATTTGATACTT-AAGTTTTT
1 TTCAATTTGATACTTGAA-TTTTT
109939287 TT
1 TT
109939289 TTTCAACTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 2 0.04
23 43 0.96
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (23 bp):
TTCAATTTGATACTTGAATTTTT
Found at i:109941214 original size:25 final size:25
Alignment explanation
Indices: 109941059--109941249 Score: 86
Period size: 25 Copynumber: 7.7 Consensus size: 25
109941049 AGCATATATC
* **
109941059 CGGGAAGCTCTTTCGAGCCATATAA-
1 CGGGAAGCTCATAAGAGCCAT-TAAT
* *
109941084 CGGGAAGCTCA-AGTGAGCCTTGTAA-
1 CGGGAAGCTCATA-AGAGCCAT-TAAT
109941109 CGGGAAGCTCATAAGAGCCA-TAAT
1 CGGGAAGCTCATAAGAGCCATTAAT
* * ** *
109941133 TGGAAAGCTCATGCGAGCCAAT-AT
1 CGGGAAGCTCATAAGAGCCATTAAT
* * *** **
109941157 CGGGTAGTTCCGGAGAATCATTAAT
1 CGGGAAGCTCATAAGAGCCATTAAT
* * *
109941182 CAGAAAGCTCATAAGAGCCATTTAT
1 CGGGAAGCTCATAAGAGCCATTAAT
* *** *
109941207 TGGGAAGCTCCGGAGAGCTATTAAT
1 CGGGAAGCTCATAAGAGCCATTAAT
*
109941232 CGGGACGCTCATAAGAGC
1 CGGGAAGCTCATAAGAGC
109941250 TGTGGTGTGT
Statistics
Matches: 117, Mismatches: 44, Indels: 10
0.68 0.26 0.06
Matches are distributed among these distances:
23 3 0.03
24 30 0.26
25 83 0.71
26 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCATTAAT
Found at i:109942749 original size:16 final size:15
Alignment explanation
Indices: 109942697--109942751 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 15
109942687 ATAAAAAAAG
109942697 AAAAATATTAAAATATT
1 AAAAATA-TAAAATA-T
109942714 AAAAATATAAAACTTAT
1 AAAAATATAAAA--TAT
*
109942731 AAATATTATAAAATAT
1 AAA-AATATAAAATAT
109942747 AAAAA
1 AAAAA
109942752 AATCTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 1 0.03
16 11 0.33
17 11 0.33
18 10 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:109944771 original size:10 final size:11
Alignment explanation
Indices: 109944749--109944776 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
109944739 ATTAAAGTGC
109944749 TTTTATAATTT
1 TTTTATAATTT
109944760 TTTTATAATTT
1 TTTTATAATTT
109944771 TTTTAT
1 TTTTAT
109944777 GATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:109950654 original size:64 final size:64
Alignment explanation
Indices: 109950574--109950702 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
109950564 AGAATCTAAC
109950574 TCAGACAAATTAAAAAAAGTTTAAGTCCTTGGGAGATTCTTGTATTATAGGAATTTGATCAAAT
1 TCAGACAAATTAAAAAAAGTTTAAGTCCTTGGGAGATTCTTGTATTATAGGAATTTGATCAAAT
*
109950638 TCAGACAAATTAAAAAAAGTTTAAGTCCTTGGGAGATTCTTGTGTTATAGGAATTTGATCAAAT
1 TCAGACAAATTAAAAAAAGTTTAAGTCCTTGGGAGATTCTTGTATTATAGGAATTTGATCAAAT
109950702 T
1 T
109950703 AATCCATCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (64 bp):
TCAGACAAATTAAAAAAAGTTTAAGTCCTTGGGAGATTCTTGTATTATAGGAATTTGATCAAAT
Found at i:109952958 original size:169 final size:169
Alignment explanation
Indices: 109952655--109952960 Score: 429
Period size: 169 Copynumber: 1.8 Consensus size: 169
109952645 TGTATACCAT
* *
109952655 TGAATTTGTTAAGCATTTCATAGATCATTAGCATTGGAAGTTATGTCACATACGTTGTATATGAA
1 TGAATTTGTTAAGCATTTCATAGATCATTAGCATTGGAAGTTATGTCACATACATTGCATATGAA
* * * *
109952720 TACATGTTATCGGTGTTGGTTTCAGAATTATATTTGATGTATCAACTTGGTTATTGATCTCTACA
66 TACATGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGATATTAATCTCTACA
109952785 TTCATATAACCATTGTTGTTGTTTATACGGTTTTCTGAC
131 TTCATATAACCATTGTTGTTGTTTATACGGTTTTCTGAC
* * * *
109952824 TGAA-TTGTTCAGCATTTCATAGATCAATTA-CTATTGGATGTTATGTCACGTATATTGCATAT-
1 TGAATTTGTTAAGCATTTCATAGATC-ATTAGC-ATTGGAAGTTATGTCACATACATTGCATATG
* * * *
109952886 AAGTACTTGTCATCGGTATTGGTTTGAGAATTATTTTTGATGTATCAATTTGGATATTAATCTCT
64 AA-TACATGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGATATTAATCTCT
*
109952951 GCATTCATAT
128 ACATTCATAT
109952961 GATAATTGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
168 23 0.19
169 96 0.81
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (169 bp):
TGAATTTGTTAAGCATTTCATAGATCATTAGCATTGGAAGTTATGTCACATACATTGCATATGAA
TACATGTCATCGGTATTGGTTTCAGAATTATATTTGATGTATCAACTTGGATATTAATCTCTACA
TTCATATAACCATTGTTGTTGTTTATACGGTTTTCTGAC
Found at i:109954118 original size:3 final size:3
Alignment explanation
Indices: 109954112--109954155 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
109954102 TCATCATCAT
* * *
109954112 CAC CAC CAC CAC CAC CAT CAC CAC CAC CAT CAC CAT CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
109954156 TAGTGCTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.59, G:0.00, T:0.07
Consensus pattern (3 bp):
CAC
Found at i:109954132 original size:18 final size:18
Alignment explanation
Indices: 109954109--109954155 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
109954099 TAATCATCAT
109954109 CATCACCACCACCACCAC
1 CATCACCACCACCACCAC
*
109954127 CATCACCACCACCATCAC
1 CATCACCACCACCACCAC
109954145 CATCACCACCA
1 CATCACCACCA
109954156 TAGTGCTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.57, G:0.00, T:0.09
Consensus pattern (18 bp):
CATCACCACCACCACCAC
Found at i:109954189 original size:6 final size:6
Alignment explanation
Indices: 109954180--109954205 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
109954170 CTCCTGCAGT
109954180 TGCACC TGCACC TGCACC TGCACC TG
1 TGCACC TGCACC TGCACC TGCACC TG
109954206 AAGCTCATTC
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:0.46, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCACC
Found at i:109965500 original size:58 final size:59
Alignment explanation
Indices: 109965435--109965548 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
109965425 GCAGTTAATG
* *
109965435 AATCAAATATTTATCCAAATATA-TTTTCGGGTTTTATCATTTTATTCATATCTTTATT
1 AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATCATTTCATTCATATCTTTATT
* * *
109965493 AATCAAATATTTGTCCAAATATATTTTTCGGGCTTTATTATTTCATTCATGTCTTT
1 AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATCATTTCATTCATATCTTT
109965549 TATAATATCG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 22 0.44
59 28 0.56
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (59 bp):
AATCAAATATTTATCCAAATATATTTTTCGGGCTTTATCATTTCATTCATATCTTTATT
Found at i:109968724 original size:29 final size:30
Alignment explanation
Indices: 109968669--109968734 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
109968659 GTACTTGAAC
* * *
109968669 TATTCTTTTATCAGTTTAGTCCTTTTACTT
1 TATTCTTGTATCAATTTAGTCCATTTACTT
*
109968699 TATTCTTGT-TCAATTTGGTCCATTTACTT
1 TATTCTTGTATCAATTTAGTCCATTTACTT
109968728 TCATTCT
1 T-ATTCT
109968735 ATATAGCTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.17, C:0.18, G:0.08, T:0.58
Consensus pattern (30 bp):
TATTCTTGTATCAATTTAGTCCATTTACTT
Found at i:109970970 original size:19 final size:19
Alignment explanation
Indices: 109970946--109970982 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
109970936 GTATATAACT
109970946 AAGTTTTCAAACAACATTA
1 AAGTTTTCAAACAACATTA
*
109970965 AAGTTTTCAAACATCATT
1 AAGTTTTCAAACAACATT
109970983 GTTACAGTCT
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:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
AAGTTTTCAAACAACATTA
Found at i:109975929 original size:122 final size:122
Alignment explanation
Indices: 109975757--109975981 Score: 346
Period size: 122 Copynumber: 1.8 Consensus size: 122
109975747 TTCATGGATC
* * *
109975757 AATGCTGCAATGGGAGAATTTAACCTAAAACAAATATGTATTTTCATGGATCAATAATATCGAAT
1 AATGCTGCAATGGGAGAAATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGAAA
109975822 TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
66 TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
* * *
109975879 AATGCTGCAATGGGAGAAGAATTACCCCAAAACAAATATGTA-TTTC-TGGATCAATAATTTTGA
1 AATGCTGCAATGGGAG-A-AATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGA
* *
109975942 AATACCCCAACACAAATTCATTGTTGTTCAAATGAATCCC
64 AATACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCC
109975982 TCAAATCAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
122 68 0.73
123 5 0.05
124 20 0.22
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (122 bp):
AATGCTGCAATGGGAGAAATTAACCCAAAACAAATATGTATTTTCATGGATCAATAATATCGAAA
TACCCCAAAACAAATTCATGGTTGTTCAAATGAATCCCCTCTTAACGGCATCAAATA
Found at i:109979183 original size:22 final size:22
Alignment explanation
Indices: 109979139--109979183 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
109979129 TGGGACAAAG
* **
109979139 AAAAACTTAAATATCAATTTGA
1 AAAAACTTAAATACCAAACTGA
*
109979161 AAAAACTTAGATACCAAACTGA
1 AAAAACTTAAATACCAAACTGA
109979183 A
1 A
109979184 CATTAAATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAAACTTAAATACCAAACTGA
Found at i:109979841 original size:21 final size:21
Alignment explanation
Indices: 109979817--109979857 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109979807 AATTTTTTAC
109979817 CTTAAACAC-AAAACTTTAAAT
1 CTTAAAC-CTAAAACTTTAAAT
*
109979838 CTTAAACCTTAAACTTTAAA
1 CTTAAACCTAAAACTTTAAA
109979858 CTTTAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
CTTAAACCTAAAACTTTAAAT
Found at i:109979844 original size:14 final size:15
Alignment explanation
Indices: 109979827--109979866 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
109979817 CTTAAACACA
109979827 AAACTTTAAATC-TT
1 AAACTTTAAATCTTT
*
109979841 AAACCTTAAA-CTTT
1 AAACTTTAAATCTTT
109979855 AAACTTTAAATC
1 AAACTTTAAATC
109979867 CCGAACCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (15 bp):
AAACTTTAAATCTTT
Found at i:109981289 original size:60 final size:61
Alignment explanation
Indices: 109981215--109981348 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 61
109981205 TAAAAACCCT
* *
109981215 AAAATTCAAGCCCTAATACAAGAACAATTATCAAATTCAGAGA-CTAA-TTCAAACAAAAAA-
1 AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCA-AGACCTAACTT-AAACAAAAAAG
* *** * * *
109981275 ATAATTCAAACCCTAATGTGAGAATAGTTGCCAAATTCAAGACCTAACTTAAACAAAAAAG
1 AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCAAGACCTAACTTAAACAAAAAAG
109981336 AAAATTCAAACCC
1 AAAATTCAAACCC
109981349 AATGTAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 3 0.05
60 44 0.72
61 14 0.23
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.21
Consensus pattern (61 bp):
AAAATTCAAACCCTAATACAAGAACAATTACCAAATTCAAGACCTAACTTAAACAAAAAAG
Found at i:109981353 original size:60 final size:59
Alignment explanation
Indices: 109981246--109981375 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 59
109981236 GAACAATTAT
* * * *
109981246 CAAATTCAGAGACTAATTCAAACAAAAAAATAATTCAAACCCTAATGTGAGAATAGTTGC
1 CAAATTCA-AGACTAATTCAAACAAAAAAAAAATTCAAACCCTAATGTAAAAATAGTTAC
109981306 CAAATTCAAGACCTAACTT-AAACAAAAAAGAAAATTCAAACCC-AATGTAAAAATAGTTAC
1 CAAATTCAAGA-CTAA-TTCAAACAAAAAA-AAAATTCAAACCCTAATGTAAAAATAGTTAC
*
109981366 CAAGTTCAAG
1 CAAATTCAAG
109981376 CCCCCAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
59 3 0.05
60 45 0.73
61 14 0.23
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.22
Consensus pattern (59 bp):
CAAATTCAAGACTAATTCAAACAAAAAAAAAATTCAAACCCTAATGTAAAAATAGTTAC
Found at i:109988915 original size:2 final size:2
Alignment explanation
Indices: 109988908--109988936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
109988898 TGGTGTTAAA
109988908 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
109988937 TTGTTAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:109989371 original size:85 final size:85
Alignment explanation
Indices: 109989236--109989457 Score: 218
Period size: 85 Copynumber: 2.6 Consensus size: 85
109989226 GATGTAATCG
* * *** * * * *
109989236 AATCGAATCGAGCCAAATTTAATTAATAACAAATAAATTACATAGGTAGTTATTC-GATTA-TTA
1 AATCGAGTAGAGCCAAATTTAATTAATAA-GGGTAAATTATATTGATAGTTATTCAG-TTACTGA
*
109989299 -GATTTATCACAGAAGATACAAA
64 TGATTTATCACA-AAAATACAAA
* *
109989321 AATTGAGTCA-AGCCAAATTTAATTAATAATGGGTAAATTATATTTATAGTTATTCAGTTACTGA
1 AATCGAGT-AGAGCCAAATTTAATTAATAA-GGGTAAATTATATTGATAGTTATTCAGTTACTGA
* *
109989385 TGATTTGTTACAAAAATACAAA
64 TGATTTATCACAAAAATACAAA
* * *
109989407 AATCGAGTAGAGACGAATTTAATTAATTAGGGTAAATTATATTGATAGTTA
1 AATCGAGTAGAGCCAAATTTAATTAATAAGGGTAAATTATATTGATAGTTA
109989458 CACTAAACTA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
85 68 0.61
86 35 0.31
87 9 0.08
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (85 bp):
AATCGAGTAGAGCCAAATTTAATTAATAAGGGTAAATTATATTGATAGTTATTCAGTTACTGATG
ATTTATCACAAAAATACAAA
Found at i:109994457 original size:11 final size:12
Alignment explanation
Indices: 109994430--109994456 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
109994420 AATTTCTAAT
109994430 AAAATTATTAAA
1 AAAATTATTAAA
109994442 AAAATTATTAAA
1 AAAATTATTAAA
109994454 AAA
1 AAA
109994457 TACTATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTATTAAA
Found at i:109994522 original size:3 final size:3
Alignment explanation
Indices: 109994516--109994558 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
109994506 ATCCCTCAAC
109994516 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
109994559 AGGAAGAGCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:109995774 original size:21 final size:20
Alignment explanation
Indices: 109995749--109995789 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
109995739 ATTCGATATT
109995749 TTATTGATAAAAGAAAAAATA
1 TTATTGA-AAAAGAAAAAATA
* *
109995770 TTATTTAAAAATAAAAAATA
1 TTATTGAAAAAGAAAAAATA
109995790 CAAATCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TTATTGAAAAAGAAAAAATA
Found at i:109996534 original size:22 final size:23
Alignment explanation
Indices: 109996491--109996536 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
109996481 AAATATTGAA
* *
109996491 TTTTATAAAAAAATAGATATATT
1 TTTTATAAAAAAATACAAATATT
*
109996514 TTTTA-AAAAAAATTCAAATATT
1 TTTTATAAAAAAATACAAATATT
109996536 T
1 T
109996537 AACAGATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTATAAAAAAATACAAATATT
Found at i:109998004 original size:52 final size:52
Alignment explanation
Indices: 109997927--109998039 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 52
109997917 TTTTTTAATG
* * * * * * **
109997927 TTTAGAATTAGAAATAAATTGATAAATTTTGTAAATATTGAGGGTTAAATTT
1 TTTAAAATTAGAAATAAAATAATAAATCTTATAAACATTGAGGCCTAAATTT
* *
109997979 TTTATAATTAGAATTAAAATAATAAATCTTATAAACATTGAGGCCTAAATTT
1 TTTAAAATTAGAAATAAAATAATAAATCTTATAAACATTGAGGCCTAAATTT
*
109998031 GTTAAAATT
1 TTTAAAATT
109998040 TTTAAGTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.41
Consensus pattern (52 bp):
TTTAAAATTAGAAATAAAATAATAAATCTTATAAACATTGAGGCCTAAATTT
Found at i:110000846 original size:41 final size:41
Alignment explanation
Indices: 110000800--110000900 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 41
110000790 TCGACCTCGA
*
110000800 GTCGATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
* ** * *
110000840 ATTCGATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
*
110000879 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
110000901 ACTATTACTT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
38 17 0.37
39 13 0.28
40 4 0.09
41 12 0.26
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
Found at i:110000909 original size:39 final size:39
Alignment explanation
Indices: 110000802--110000936 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
110000792 GACCTCGAGT
* * *
110000802 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
110000843 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
110000881 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
110000920 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
110000937 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 3 0.04
41 15 0.20
42 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:110001061 original size:18 final size:18
Alignment explanation
Indices: 110001038--110001078 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
110001028 GAAAAAAAAA
110001038 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
110001056 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
110001074 AGAAA
1 AGAAA
110001079 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:110001194 original size:3 final size:3
Alignment explanation
Indices: 110001188--110001237 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
110001178 GATGAAAGAA
* *
110001188 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
110001236 AA
1 AA
110001238 AGTATAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:110001624 original size:20 final size:20
Alignment explanation
Indices: 110001601--110001638 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110001591 GTTATTAAGT
110001601 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
110001621 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
110001639 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:110003772 original size:15 final size:13
Alignment explanation
Indices: 110003730--110003773 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 13
110003720 ATAAATAATA
110003730 AATATTTTTATAT
1 AATATTTTTATAT
110003743 AATATTTTTAAATAT
1 AATATTTTT--ATAT
110003758 ATATATTTTGTATAT
1 A-ATATTTT-TATAT
110003773 A
1 A
110003774 GAAATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.33
15 10 0.37
16 7 0.26
17 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
AATATTTTTATAT
Found at i:110003782 original size:30 final size:30
Alignment explanation
Indices: 110003721--110003783 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
110003711 AAGTAAATAA
*
110003721 TAAATAATAAATATTTTTATATAATATTTT
1 TAAATAATAAATATTTTTATATAATAATTT
*
110003751 TAAAT-ATATATATTTTGTATATAGA-AATTT
1 TAAATAATAAATATTTT-TATATA-ATAATTT
110003781 TAA
1 TAA
110003784 GTTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 18 0.62
31 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TAAATAATAAATATTTTTATATAATAATTT
Found at i:110009474 original size:39 final size:38
Alignment explanation
Indices: 110009428--110009527 Score: 155
Period size: 39 Copynumber: 2.6 Consensus size: 38
110009418 GCTCTGATGA
110009428 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAG-ACTTATGT
*
110009467 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGACTTATGT
* **
110009505 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
110009528 AGATCACGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 27 0.48
39 29 0.52
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (38 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGACTTATGT
Found at i:110010831 original size:12 final size:12
Alignment explanation
Indices: 110010814--110010839 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
110010804 TATTTGAGTC
110010814 AACTCAAATAAG
1 AACTCAAATAAG
110010826 AACTCAAATAAG
1 AACTCAAATAAG
110010838 AA
1 AA
110010840 ATTTTGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (12 bp):
AACTCAAATAAG
Found at i:110011002 original size:18 final size:19
Alignment explanation
Indices: 110010969--110011019 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
110010959 TCTCTCTTAA
110010969 CAAAAATTACAAAAAAAAAT
1 CAAAAATT-CAAAAAAAAAT
*
110010989 CAAAAATT-AAAAAAAATT
1 CAAAAATTCAAAAAAAAAT
*
110011007 TAAAAATTCAAAA
1 CAAAAATTCAAAA
110011020 TATTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 16 0.57
19 4 0.14
20 8 0.29
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (19 bp):
CAAAAATTCAAAAAAAAAT
Found at i:110011012 original size:19 final size:18
Alignment explanation
Indices: 110010979--110011033 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
110010969 CAAAAATTAC
* *
110010979 AAAAAAAAATCAAAAATT
1 AAAAAAAATTTAAAAATT
110010997 AAAAAAAATTTAAAAATT
1 AAAAAAAATTTAAAAATT
* * *
110011015 CAAAATATTTATAAAAATT
1 AAAAAAAATT-TAAAAATT
110011034 CTAAAATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 23 0.74
19 8 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAAAAATTTAAAAATT
Found at i:110011041 original size:27 final size:26
Alignment explanation
Indices: 110010982--110011039 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
110010972 AAATTACAAA
*
110010982 AAAAAATCAAAAATTAAAAAAAATTT
1 AAAAATTCAAAAATTAAAAAAAATTT
* *
110011008 AAAAATTCAAAATATTTATAAAAATTCT
1 AAAAATTCAAAA-ATTAAAAAAAATT-T
110011036 AAAA
1 AAAA
110011040 TTTGTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 11 0.41
28 5 0.19
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAAATTCAAAAATTAAAAAAAATTT
Found at i:110012585 original size:18 final size:18
Alignment explanation
Indices: 110012551--110012585 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110012541 TTTATAATTA
*
110012551 TATATATTATGTTATTTT
1 TATATATTATGTAATTTT
*
110012569 TATATATTTTGTAATTT
1 TATATATTATGTAATTT
110012586 AGAACACGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:110014400 original size:4 final size:4
Alignment explanation
Indices: 110014387--110014439 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
110014377 AACAAACAAC
* * *
110014387 CACT CAACT CACT CACT CACT CACT CACT C-CTT CACT CGCT CGCT CGCT
1 CACT C-ACT CACT CACT CACT CACT CACT CAC-T CACT CACT CACT CACT
110014436 CACT
1 CACT
110014440 TCCATTGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
3 1 0.02
4 38 0.86
5 5 0.11
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.26
Consensus pattern (4 bp):
CACT
Found at i:110015332 original size:170 final size:174
Alignment explanation
Indices: 110015124--110015456 Score: 487
Period size: 176 Copynumber: 1.9 Consensus size: 174
110015114 CATCATCAAC
110015124 ATCATCATCTTTTTGTTGGATTTCTTTTGGTAGCTTTCGGAAATTAAGTTCTGTTGAAATCTGC-
1 ATCATCATCTTTTTGTTGGATTTCTTTTGGTAGCTTTCGGAAATTAAGTTCTGTTGAAATCTGCA
* * *
110015188 A-T-TGC-T-CTCTGTTAATATTTGAATACCTTGTATATTAGATCGCAAATATGTGGATATGTTT
66 ATTCTGCATCCTCTGTTAA-ATTTGAATACCTTGGATATTAGATCGCAAATATCTGGATATATTT
*
110015249 AGTATTTCGATCTGAAGCATCGCATATTCACTCGATGTTTTCTTT
130 AGTATTTAGATCTGAAGCATCGCATATTCACTCGATGTTTTCTTT
* *
110015294 ATCATCATCTTTTTGTTGGATTTCTTTTGGTGGCTTTCGGAAATTAAGTTTTGTTGAAATCTGCA
1 ATCATCATCTTTTTGTTGGATTTCTTTTGGTAGCTTTCGGAAATTAAGTTCTGTTGAAATCTGCA
* * * *
110015359 ATTCTTCATTGCCTCTGTTAAATTTGAATTCCTTGGATATTAGATCGCAAATCTCTGTATATATT
66 ATTCTGCA-T-CCTCTGTTAAATTTGAATACCTTGGATATTAGATCGCAAATATCTGGATATATT
* * *
110015424 TAGTATTTAGATCTGAATCATTGCATTTTCACT
129 TAGTATTTAGATCTGAAGCATCGCATATTCACT
110015457 TTACTTTTTT
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
170 62 0.43
171 1 0.01
172 1 0.01
173 2 0.01
175 1 0.01
176 67 0.47
177 9 0.06
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (174 bp):
ATCATCATCTTTTTGTTGGATTTCTTTTGGTAGCTTTCGGAAATTAAGTTCTGTTGAAATCTGCA
ATTCTGCATCCTCTGTTAAATTTGAATACCTTGGATATTAGATCGCAAATATCTGGATATATTTA
GTATTTAGATCTGAAGCATCGCATATTCACTCGATGTTTTCTTT
Found at i:110017967 original size:18 final size:20
Alignment explanation
Indices: 110017930--110017969 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
110017920 TAACTTCAAG
110017930 TTATTTTGAATTACTTTTAAT
1 TTATTTTGAA-TACTTTTAAT
110017951 TTATTTTGAA-A-TTTTAAT
1 TTATTTTGAATACTTTTAAT
110017969 T
1 T
110017970 GTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
21 10 0.53
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TTATTTTGAATACTTTTAAT
Found at i:110017994 original size:28 final size:29
Alignment explanation
Indices: 110017944--110018000 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
110017934 TTTGAATTAC
110017944 TTTTAATTTATTTTGAAATTTTA-ATTGT
1 TTTTAATTTATTTTGAAATTTTATATTGT
110017972 TTTTAATTTA-TTT-AAATAATTTATATTGT
1 TTTTAATTTATTTTGAAAT--TTTATATTGT
110018001 AATTTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 3 0.12
28 14 0.54
29 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTAATTTATTTTGAAATTTTATATTGT
Found at i:110018587 original size:27 final size:28
Alignment explanation
Indices: 110018519--110018590 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
110018509 AAAATTCAAA
* *
110018519 AAAAATATAAAAAATTATTTTAAAAATT
1 AAAAATATTAAAAATTATTATAAAAATT
*
110018547 AAAAATCATT-AAAATTATTAT-AAAGTT
1 AAAAAT-ATTAAAAATTATTATAAAAATT
*
110018574 ATAAATATTAAAAATTA
1 AAAAATATTAAAAATTA
110018591 ATTAAATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 3 0.08
27 17 0.45
28 16 0.42
29 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAAATATTAAAAATTATTATAAAAATT
Found at i:110024369 original size:46 final size:47
Alignment explanation
Indices: 110024055--110024355 Score: 428
Period size: 47 Copynumber: 6.5 Consensus size: 47
110024045 TGATGTCATA
* * * *
110024055 GTATCTTTCAACTATGGTTTTACTCGTTTT-CTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
*
110024101 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
* *
110024148 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCTTGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
* *
110024195 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCTTGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
** * * *
110024242 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
* * *
110024288 GTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
110024334 GTATCTTTCAACCATGGTCTTA
1 GTATCTTTCAACCATGGTCTTA
110024356 CACATTCTAT
Statistics
Matches: 238, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 106 0.45
47 132 0.55
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
Found at i:110036769 original size:15 final size:15
Alignment explanation
Indices: 110036746--110036783 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
110036736 TTCTGACAAA
110036746 TACAAAACCGAACAC
1 TACAAAACCGAACAC
* *
110036761 TATAAAACCGAACCC
1 TACAAAACCGAACAC
110036776 TACAAAAC
1 TACAAAAC
110036784 ACTCAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.32, G:0.05, T:0.11
Consensus pattern (15 bp):
TACAAAACCGAACAC
Found at i:110039914 original size:54 final size:54
Alignment explanation
Indices: 110039828--110039931 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
110039818 ACGGAAATAT
* *
110039828 GTTAAAAAACCGATTTAACGCTCACACCCAAATCTGAATAGCGTAGTTAAAGTA
1 GTTAAAAAACCGATTTAACGCTCACACCCAAATCCGAATAACGTAGTTAAAGTA
* * * *
110039882 GTTAAAAAACC-ATTTTAGCGCTCATACTCAAATCCGAATAACTTAGTTAA
1 GTTAAAAAACCGA-TTTAACGCTCACACCCAAATCCGAATAACGTAGTTAA
110039932 GAATCCTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 42 0.98
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (54 bp):
GTTAAAAAACCGATTTAACGCTCACACCCAAATCCGAATAACGTAGTTAAAGTA
Found at i:110040085 original size:99 final size:101
Alignment explanation
Indices: 110039931--110040115 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 101
110039921 AACTTAGTTA
110039931 AGAATCCTCCAAAAAGAACTATCATTGAAACAAACCCCAAAAAGGCAATTCGTTAAAAACCAGTA
1 AGAATCCTCCAAAAAGAACTATCATTGAAACAAACCCCAAAAAGGCAATTCGTTAAAAACCAGTA
*
110039996 TTCAACACTCACATTCGAATCTGAATAACATTTTTT
66 TTCAACACTCACACTCGAATCTGAATAACATTTTTT
* * *
110040032 AGAATCCTCCAAAGA-AACTATCATTGAAACAAACCCC-CAAAGGCAATTCGTTAAAAACCGGTA
1 AGAATCCTCCAAAAAGAACTATCATTGAAACAAACCCCAAAAAGGCAATTCGTTAAAAACCAGTA
* *
110040095 TTTAACGCTCACACTCGAATC
66 TTCAACACTCACACTCGAATC
110040116 CAAATGAATC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 42 0.54
100 22 0.28
101 14 0.18
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (101 bp):
AGAATCCTCCAAAAAGAACTATCATTGAAACAAACCCCAAAAAGGCAATTCGTTAAAAACCAGTA
TTCAACACTCACACTCGAATCTGAATAACATTTTTT
Found at i:110040300 original size:97 final size:97
Alignment explanation
Indices: 110040183--110040373 Score: 242
Period size: 97 Copynumber: 2.0 Consensus size: 97
110040173 TAAATAAACA
* *
110040183 CTCACACTCAAATCCAAATAAC-CTAGTTAAAAGAATCCTACAAAGAAACTATCAATAAAAAACT
1 CTCACACTCAAATCCAAATAACTC-AGTCAAAAGAATCCTACAAAGAAACTATAAATAAAAAACT
** * *
110040247 ATCATGCAAT-ATGTTTAAAACTGATATTCATCC
65 ATCACCCAATGA-GTTAAAAACCGATATTCATCC
* * * * * *
110040280 CTCACACTCGAATCCGAATAATTCAGTCAAAAGAATCCTCCAAAGAAACTATAAATCAAAATCTA
1 CTCACACTCAAATCCAAATAACTCAGTCAAAAGAATCCTACAAAGAAACTATAAATAAAAAACTA
110040345 TCACCCAATGAGTTAAAAACCGATATTCA
66 TCACCCAATGAGTTAAAAACCGATATTCA
110040374 ACTTCGAATA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
97 78 0.98
98 2 0.03
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (97 bp):
CTCACACTCAAATCCAAATAACTCAGTCAAAAGAATCCTACAAAGAAACTATAAATAAAAAACTA
TCACCCAATGAGTTAAAAACCGATATTCATCC
Found at i:110077148 original size:13 final size:14
Alignment explanation
Indices: 110077130--110077158 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
110077120 CTAAATAGCT
110077130 AACTTTTTT-TTAA
1 AACTTTTTTATTAA
110077143 AACTTTTTTATTAA
1 AACTTTTTTATTAA
110077157 AA
1 AA
110077159 TATTGAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AACTTTTTTATTAA
Found at i:110086925 original size:290 final size:295
Alignment explanation
Indices: 110086252--110086926 Score: 875
Period size: 300 Copynumber: 2.3 Consensus size: 295
110086242 GAGTGTTCAG
* * **
110086252 TTTGAAAGTTAAAAATGGAACAGTTAGGTATTGTTTGGTAAATGATAAGCGATTCTCAATGCGTT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
* *
110086317 TGGTTTCTCATTTTGGAGATTAAGCTTGACTGATTGTTTTCAATAATATATACTACTTATGAGTT
66 TGGTTTCTCATTTTGGAGATTAAGCTTGAATGATTATTTTCAATAATATATACTACTTATGAGTT
*
110086382 AAAGCAATGCTACTTTTTTCCCGTCATTTGACCACTATGAGCTCACTTCCTGTTTGGTTACCGAG
131 AAAGCAATGCTA-TTTTTTCCCATCATTTGACCACTATGAGCTCACTTCCTGTTTGGTTACCGAG
* ** * *
110086447 AAAGTGAAGGAGCATGGAAAGTTGAAACATTGTTTCACCGTGCAAAAGAACCTGGTTTTGTCATC
195 AAAATGAAGGAAAATGGAAAGTTGAAACATTGTTTAACCGTGCAAAAGAACCTGGCTTTGTCATC
*
110086512 TGAGTGTTCGGTAGAGGGTAGTATTTTTGTTTCCATTGTT
260 TGA----TCGGTAGAGGGTAGTATTTTTGTTTCCATTGGT
* * *
110086552 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTTAACGATAAGTAACTCTCAATGCGTT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
* *
110086617 TGGTTTCTTATTTTGGAGATTAAGCTT-AATGAATTATTTTCAATAATATATACTACTTAATGTG
66 TGGTTTCTCATTTTGGAGATTAAGCTTGAATG-ATTATTTTCAATAATATATACTACTT-ATGAG
** * ** *
110086681 TTACGGCAATG-T-TTTCTTT-TCATCATTTGACTTCTATGAGTTCACTTCCTGTTTGGTTACCG
129 TTAAAGCAATGCTATTT-TTTCCCATCATTTGACCACTATGAGCTCACTTCCTGTTTGGTTACCG
* * * * *
110086743 AGAAAATGAAGGAAAATGGAAAGTTGAAATGATTGTTTAACTGTTCACAAGAACCT-GCTTTGTT
193 AGAAAATGAAGGAAAATGGAAAGTTGAAA-CATTGTTTAACCGTGCAAAAGAACCTGGCTTTGTC
*
110086807 ATCTGA-C-TTA-AGGGTAGTATTTTAT-TTT-CATTGGT
257 ATCTGATCGGTAGAGGGTAGTATTTT-TGTTTCCATTGGT
* * *
110086842 TTTGAATGTTAAAAATGGAACGGTTAGGGGTTGTTTGGTAAATGATAAGTAATTCTCAATGCATT
1 TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
**
110086907 TGGTTTCTCAAATTGGAGAT
66 TGGTTTCTCATTTTGGAGAT
110086927 AAGTTTTATT
Statistics
Matches: 331, Mismatches: 39, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
290 82 0.25
291 16 0.05
292 3 0.01
293 1 0.00
298 79 0.24
299 27 0.08
300 110 0.33
301 13 0.04
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (295 bp):
TTTGAATGTTAAAAATGGAACAGTTAGGTGTTGTTTGGTAAATGATAAGTAATTCTCAATGCGTT
TGGTTTCTCATTTTGGAGATTAAGCTTGAATGATTATTTTCAATAATATATACTACTTATGAGTT
AAAGCAATGCTATTTTTTCCCATCATTTGACCACTATGAGCTCACTTCCTGTTTGGTTACCGAGA
AAATGAAGGAAAATGGAAAGTTGAAACATTGTTTAACCGTGCAAAAGAACCTGGCTTTGTCATCT
GATCGGTAGAGGGTAGTATTTTTGTTTCCATTGGT
Found at i:110091478 original size:14 final size:14
Alignment explanation
Indices: 110091456--110091505 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
110091446 TATTTTTTAT
110091456 ATTTTAATAGTTAA
1 ATTTTAATAGTTAA
* * *
110091470 ATTTAAATAATCAA
1 ATTTTAATAGTTAA
* *
110091484 ATTTTAATTGTTTA
1 ATTTTAATAGTTAA
110091498 ATTTTAAT
1 ATTTTAAT
110091506 TTGTCAAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (14 bp):
ATTTTAATAGTTAA
Found at i:110092059 original size:31 final size:30
Alignment explanation
Indices: 110092024--110092084 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
110092014 GAAACAGAAT
*
110092024 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
110092055 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
110092085 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:110093631 original size:39 final size:39
Alignment explanation
Indices: 110093524--110093658 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
110093514 GACCTCGAGT
* * *
110093524 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
110093565 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
110093603 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
110093642 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
110093659 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:110102880 original size:2 final size:2
Alignment explanation
Indices: 110102873--110102903 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
110102863 ATATCAATAG
110102873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110102904 GTGTAGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110106227 original size:20 final size:21
Alignment explanation
Indices: 110106194--110106233 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
110106184 TATAATATTT
110106194 TAAAAAATACAAATTGTATAC
1 TAAAAAATACAAATTGTATAC
* *
110106215 TAAAATATA-AAATTTTATA
1 TAAAAAATACAAATTGTATA
110106234 TTTTTGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAAAATACAAATTGTATAC
Found at i:110107273 original size:15 final size:16
Alignment explanation
Indices: 110107255--110107284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110107245 TTATGTTGGT
110107255 GATT-AATGAAAATTG
1 GATTAAATGAAAATTG
110107270 GATTAAATGAAAATT
1 GATTAAATGAAAATT
110107285 TCAATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (16 bp):
GATTAAATGAAAATTG
Found at i:110107754 original size:51 final size:51
Alignment explanation
Indices: 110107699--110107796 Score: 196
Period size: 51 Copynumber: 1.9 Consensus size: 51
110107689 TCATCAAATC
110107699 AACTCTAAAACCCGAATTAAACATTAAAAAATTAACACAGATACCCGAATT
1 AACTCTAAAACCCGAATTAAACATTAAAAAATTAACACAGATACCCGAATT
110107750 AACTCTAAAACCCGAATTAAACATTAAAAAATTAACACAGATACCCG
1 AACTCTAAAACCCGAATTAAACATTAAAAAATTAACACAGATACCCG
110107797 TTAACAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.51, C:0.22, G:0.06, T:0.20
Consensus pattern (51 bp):
AACTCTAAAACCCGAATTAAACATTAAAAAATTAACACAGATACCCGAATT
Found at i:110113171 original size:238 final size:238
Alignment explanation
Indices: 110112571--110113241 Score: 833
Period size: 238 Copynumber: 2.8 Consensus size: 238
110112561 CATATACTAT
* *
110112571 TCTTTCTACATATGACAAGTTGACAACGAAACAATATATTAACTCCCAGACTCATCCCCTTCCTA
1 TCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
* * * *
110112636 TACTTATAACGAACATAAAAAGCCACGAATTCTGCTTCGCTCATCTTAGAATTGCAAACTCGAAG
66 TACTTATAATGAACATAAAAAACCA-GAATTCTCCTTCGCCCATCTTAGAATTGCAAACTCGAAG
*
110112701 TGCACTCAGAGACAGGCAATTATTGAATAT-A--ATACAACCTTAACACCTACAAA-GGAGAATA
130 TGCACTCAGAGACAGGCAATTATTGAATATAACCATACAACCTTAACACCTACAAAGGGAAAATA
* * * * *
110112762 ATAACGGTTCTATATCACGATGCGAACCTTTCAGCCAACATATATGA
195 AGAAAGGTTCTAAAACACGATGAGAACCTTTCAGCCAAC--A-ATGA
* * *
110112809 TTCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTTCCACACTCGTCTCCTTCCT
1 -TCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCT
* * * *
110112874 ATACTTATAACT-AACATAAAAGTAA-CA-AATTCTCCTTCGCCTATCTCAAAATGGCAAACTCG
65 ATACTTATAA-TGAACATAAAA--AACCAGAATTCTCCTTCGCCCATCTTAGAATTGCAAACTCG
*
110112936 AAGTGCACTCAGAGACGGGCAATTATTGAATATAACCATACAACCTTAACACCTACAAAGGGAAA
127 AAGTGCACTCAGAGACAGGCAATTATTGAATATAACCATACAACCTTAACACCTACAAAGGGAAA
* ** *
110113001 ATAAAGGAAAGGCTT-TAAAACATGATGAGAACCTTTTGGTCAAC-AT-A
192 AT-AA-GAAAGG-TTCTAAAACACGATGAGAACCTTTCAGCCAACAATGA
* * * * *
110113048 -CTTTCCACATATGACAAGCTGATAACGAAACAATACATTAACTCCCAGACTTGTCCCCCTCCTA
1 TCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
110113112 TACTTATAATGAACATAAAAAACCATGAATTCTCCTTCGCCCATCTTAGAATTGCAAACTCGAAG
66 TACTTATAATGAACATAAAAAACCA-GAATTCTCCTTCGCCCATCTTAGAATTGCAAACTCGAAG
* * * * * *
110113177 TGCAATCAGAGACAGGTAACTATTGAACATATCCATACAACCTTAACACCTACAGAGGAGAAAAT
130 TGCACTCAGAGACAGGCAATTATTGAATATAACCATACAACCTTAACACCTACAAAGG-GAAAAT
110113242 TAATGGTTCT
Statistics
Matches: 374, Mismatches: 43, Indels: 30
0.84 0.10 0.07
Matches are distributed among these distances:
235 2 0.01
236 3 0.01
237 74 0.20
238 146 0.39
239 86 0.23
240 4 0.01
241 23 0.06
242 6 0.02
243 2 0.01
244 26 0.07
245 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (238 bp):
TCTTTCCACATATGACAAGTTGACAACGAAACAATATATTAACTCCCAGACTCGTCCCCTTCCTA
TACTTATAATGAACATAAAAAACCAGAATTCTCCTTCGCCCATCTTAGAATTGCAAACTCGAAGT
GCACTCAGAGACAGGCAATTATTGAATATAACCATACAACCTTAACACCTACAAAGGGAAAATAA
GAAAGGTTCTAAAACACGATGAGAACCTTTCAGCCAACAATGA
Found at i:110116720 original size:5 final size:5
Alignment explanation
Indices: 110116710--110116744 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
110116700 ATTTAACATT
*
110116710 TAAAA TAAAA TAAAA CAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
110116745 AGAAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:110116755 original size:20 final size:20
Alignment explanation
Indices: 110116711--110116758 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
110116701 TTTAACATTT
*
110116711 AAAATAAAATAAAACAAAAT
1 AAAATAAAATAAAACAAAAC
110116731 AAAATAAAATAAAA-AGAAAC
1 AAAATAAAATAAAACA-AAAC
*
110116751 CAAATAAA
1 AAAATAAA
110116759 TACTAACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAATAAAATAAAACAAAAC
Found at i:110118418 original size:22 final size:23
Alignment explanation
Indices: 110118390--110118438 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
110118380 TATGAAATTA
* *
110118390 ATGTCACTTGCATGTG-ATGTTT
1 ATGTCACTTGCATATGTATGTTG
*
110118412 ATGTCACTTTCATATGTATGTTG
1 ATGTCACTTGCATATGTATGTTG
110118435 ATGT
1 ATGT
110118439 ATTTTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (23 bp):
ATGTCACTTGCATATGTATGTTG
Found at i:110118451 original size:24 final size:23
Alignment explanation
Indices: 110118419--110118465 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
110118409 TTTATGTCAC
110118419 TTTCATATGTAT-GTTGATGTATT
1 TTTCATATGT-TCGTTGATGTATT
*
110118442 TTTCATTATGTTCTTTGATGTATT
1 TTTCA-TATGTTCGTTGATGTATT
110118466 GACAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (23 bp):
TTTCATATGTTCGTTGATGTATT
Found at i:110118572 original size:16 final size:16
Alignment explanation
Indices: 110118551--110118583 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110118541 CTAAATTAAT
110118551 TAATTT-TTTATGAAAA
1 TAATTTATTTAT-AAAA
110118567 TAATTTATTTATAAAA
1 TAATTTATTTATAAAA
110118583 T
1 T
110118584 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TAATTTATTTATAAAA
Found at i:110118960 original size:20 final size:21
Alignment explanation
Indices: 110118921--110118962 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
110118911 GAATAACAAA
110118921 AATAACCCTTTCATTTTTTTTAT
1 AATAACCCTTTCA--TTTTTTAT
110118944 AATAACCCTTTCATTTTTT
1 AATAACCCTTTCATTTTTT
110118963 TATCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (21 bp):
AATAACCCTTTCATTTTTTAT
Found at i:110123485 original size:30 final size:29
Alignment explanation
Indices: 110123425--110123485 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
110123415 AAACTTAAAG
* *
110123425 TTTAGTCCCTATACTTTTATTTTTAGAAA
1 TTTAGTCCCTATACTTTTAATTTCAGAAA
*
110123454 TTTAGTCCCTTTACTTTTTAGATTTCA-AAA
1 TTTAGTCCCTATAC-TTTTA-ATTTCAGAAA
110123484 TT
1 TT
110123486 AATGTCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.48
30 10 0.37
31 4 0.15
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (29 bp):
TTTAGTCCCTATACTTTTAATTTCAGAAA
Found at i:110123859 original size:20 final size:20
Alignment explanation
Indices: 110123836--110123874 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110123826 TAACAAAAGA
110123836 AAAAAGAAAAAATATTAAAT
1 AAAAAGAAAAAATATTAAAT
* * *
110123856 AAAAATAACATATATTAAA
1 AAAAAGAAAAAATATTAAA
110123875 AAATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAAGAAAAAATATTAAAT
Found at i:110128358 original size:21 final size:21
Alignment explanation
Indices: 110128332--110128372 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110128322 AGACGAGCAA
* *
110128332 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
110128353 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
110128373 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:110133648 original size:9 final size:9
Alignment explanation
Indices: 110133634--110133755 Score: 52
Period size: 9 Copynumber: 12.8 Consensus size: 9
110133624 TTGGCCTCTC
110133634 TAAAAAAAT
1 TAAAAAAAT
110133643 T-AAAAAAT
1 TAAAAAAAT
*
110133651 TCAAAATAATT
1 T-AAAA-AAAT
**
110133662 TTTAAAAA-
1 TAAAAAAAT
*
110133670 TAAAAATAT
1 TAAAAAAAT
* *
110133679 TTATAAAAT
1 TAAAAAAAT
**
110133688 TCTAAAAAT
1 TAAAAAAAT
110133697 TATAAAAAAT
1 TA-AAAAAAT
110133707 TCAAAAAAAAGT
1 T--AAAAAAA-T
110133719 TCAAAATAACA-
1 T-AAAA-AA-AT
110133730 TATAAAAAAT
1 TA-AAAAAAT
*
110133740 TTAAAAAAT
1 TAAAAAAAT
110133749 TAAAAAA
1 TAAAAAA
110133756 TTTATAGAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 24
0.66 0.14 0.19
Matches are distributed among these distances:
8 13 0.16
9 30 0.36
10 16 0.19
11 18 0.22
12 5 0.06
13 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:110133694 original size:19 final size:19
Alignment explanation
Indices: 110133632--110133703 Score: 53
Period size: 19 Copynumber: 3.9 Consensus size: 19
110133622 GATTGGCCTC
* * *
110133632 TCTAAAAAAATTAAAAAAT
1 TCTAAAATATTTATAAAAT
* *
110133651 TC-AAAATAATTTTTAAAAA
1 TCTAAAAT-ATTTATAAAAT
*
110133670 T-AAAAATATTTATAAAAT
1 TCTAAAATATTTATAAAAT
110133688 TCTAAAA-A-TTATAAAA
1 TCTAAAATATTTATAAAA
110133704 AATTCAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 8 0.19
18 15 0.36
19 19 0.45
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TCTAAAATATTTATAAAAT
Found at i:110133713 original size:18 final size:19
Alignment explanation
Indices: 110133642--110133714 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
110133632 TCTAAAAAAA
110133642 TTAAAAAATTCAAAATAATT
1 TTAAAAAATTCAAAA-AATT
*
110133662 TTTAAAAA-T--AAAAATAT
1 TTAAAAAATTCAAAAAAT-T
* *
110133679 TTATAAAATTCTAAAAATT
1 TTAAAAAATTCAAAAAATT
*
110133698 ATAAAAAATTCAAAAAA
1 TTAAAAAATTCAAAAAA
110133715 AAGTTCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
16 3 0.07
17 10 0.23
18 1 0.02
19 16 0.37
20 13 0.30
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAAATTCAAAAAATT
Found at i:110133714 original size:19 final size:18
Alignment explanation
Indices: 110133635--110133759 Score: 78
Period size: 17 Copynumber: 6.6 Consensus size: 18
110133625 TGGCCTCTCT
*
110133635 AAAAAAATTAAAAAATTC
1 AAAAAATTTAAAAAATTC
*
110133653 AAAATAATTTTTAAAAA-T-
1 AAAA-AA-TTTAAAAAATTC
*
110133671 AAAAATATTTATAAAATTC
1 AAAAA-ATTTAAAAAATTC
*
110133690 TAAAAATTATAAAAAATTC
1 AAAAAATT-TAAAAAATTC
*
110133709 AAAAAAAAGTTCAAAATAACATAT-
1 --AAAAAA-TT-TAAA-AA-AT-TC
110133733 AAAAAATTTAAAAAATT-
1 AAAAAATTTAAAAAATTC
110133750 AAAAAATTTA
1 AAAAAATTTA
110133760 TAGAATAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
17 19 0.22
18 15 0.18
19 18 0.21
20 10 0.12
21 7 0.08
22 11 0.13
23 2 0.02
24 2 0.02
25 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAAATTTAAAAAATTC
Found at i:110133870 original size:16 final size:16
Alignment explanation
Indices: 110133849--110133879 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110133839 TTGAATAAGC
110133849 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
110133865 TTTCAAATTTATATG
1 TTTCAAATATATATG
110133880 CTTCAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:110149746 original size:18 final size:19
Alignment explanation
Indices: 110149676--110149757 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
110149666 ATATAATAAC
*
110149676 TATAAAAATATAAAAATT-
1 TATAAAAATATTAAAATTA
* *
110149694 TA-CAAAGTATTAAAA--A
1 TATAAAAATATTAAAATTA
* *
110149710 CATAAACAATTATTCAAATT-
1 TATAAA-AA-TATTAAAATTA
*
110149730 TATTAAAATATTAAAATTA
1 TATAAAAATATTAAAATTA
110149749 TATAAAAAT
1 TATAAAAAT
110149758 CTAAATAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 13
0.66 0.16 0.19
Matches are distributed among these distances:
16 1 0.02
17 12 0.26
18 12 0.26
19 17 0.37
20 4 0.09
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (19 bp):
TATAAAAATATTAAAATTA
Found at i:110149807 original size:19 final size:19
Alignment explanation
Indices: 110149749--110149811 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
110149739 ATTAAAATTA
* *
110149749 TATAAAAATCTAAATAAAA
1 TATAAAAATATAAATAAAT
* * *
110149768 TCTAAAAACTTGTAAA-GAAT
1 TATAAAAA--TATAAATAAAT
110149788 TATAAAAATATAAATAAAT
1 TATAAAAATATAAATAAAT
110149807 TATAA
1 TATAA
110149812 TAAAATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 9 0.26
21 5 0.15
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
TATAAAAATATAAATAAAT
Found at i:110152123 original size:10 final size:10
Alignment explanation
Indices: 110152087--110152122 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
110152077 GGGTTCAAAA
110152087 TATTATTTTC
1 TATTATTTTC
110152097 TATTATTTTC
1 TATTATTTTC
110152107 TA-T-TTTTC
1 TATTATTTTC
110152115 TATT-TTTT
1 TATTATTTT
110152123 TTAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.28
9 6 0.24
10 12 0.48
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (10 bp):
TATTATTTTC
Done.