Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 3 of 23
Found at i:305442 original size:13 final size:13
Alignment explanation
Indices: 305424--305449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
305414 TACAGCAAGT
305424 ATGTATCGATACA
1 ATGTATCGATACA
305437 ATGTATCGATACA
1 ATGTATCGATACA
305450 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:306400 original size:13 final size:13
Alignment explanation
Indices: 306382--306407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306372 CAATTTTTTG
306382 TGTATCGATACAT
1 TGTATCGATACAT
306395 TGTATCGATACAT
1 TGTATCGATACAT
306408 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:306419 original size:32 final size:33
Alignment explanation
Indices: 306362--306425 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
306352 TACAAGCCAA
**
306362 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
306395 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
306426 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:306970 original size:72 final size:73
Alignment explanation
Indices: 306800--306996 Score: 197
Period size: 73 Copynumber: 2.7 Consensus size: 73
306790 AGATCCTAAC
* * * ** *
306800 AAAACATATTTAAATTTCTACAAATAAAAATAAATTATACCATTAAAAA-TTAAATTCATATTTG
1 AAAACACATTTAAACTTCTACAAATAAAAATAAATTATA-CATTAAAAATTTTAACACATATATG
*
306864 TATATCCAA
65 CATATCCAA
* * *
306873 AAAACACATTTAAACTTTTATAAATAAAAATAAATTATACTTTAAAAATTTTAACACATATAAT-
1 AAAACACATTTAAACTTCTACAAATAAAAATAAATTATACATTAAAAATTTTAACACATAT-ATG
306937 CATA-CTCAA
65 CATATC-CAA
* * **
306946 AAATA-A-ATTTAAACTTCTACAAATAAAGATAAATAATACCCTAAAAATTTT
1 AAA-ACACATTTAAACTTCTACAAATAAAAATAAATTATACATTAAAAATTTT
306997 TAAATACAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
72 48 0.46
73 54 0.52
74 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (73 bp):
AAAACACATTTAAACTTCTACAAATAAAAATAAATTATACATTAAAAATTTTAACACATATATGC
ATATCCAA
Found at i:308303 original size:11 final size:12
Alignment explanation
Indices: 308263--308297 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
308253 CGAAAATACC
308263 AAGAAAATCAAG
1 AAGAAAATCAAG
*
308275 AATAAAATC-AG
1 AAGAAAATCAAG
308286 AAGAAAATCAAG
1 AAGAAAATCAAG
308298 CAAAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.66, C:0.09, G:0.14, T:0.11
Consensus pattern (12 bp):
AAGAAAATCAAG
Found at i:309750 original size:16 final size:17
Alignment explanation
Indices: 309731--309762 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
309721 TTTTTATTTT
309731 ATTTAATAAT-AAAAAA
1 ATTTAATAATGAAAAAA
309747 ATTTAATAATGAAAAA
1 ATTTAATAATGAAAAA
309763 GATGATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTTAATAATGAAAAAA
Found at i:312331 original size:33 final size:33
Alignment explanation
Indices: 312287--312353 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
312277 ATAGTAACCC
* * *
312287 ATGTATCGATACAAAAAATATTATATCGATACA
1 ATGTATAGATACAAAAAACAATATATCGATACA
* *
312320 ATGTATAGATACAAAGAACAATGTATCGATACA
1 ATGTATAGATACAAAAAACAATATATCGATACA
312353 A
1 A
312354 AGAACATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (33 bp):
ATGTATAGATACAAAAAACAATATATCGATACA
Found at i:312342 original size:20 final size:20
Alignment explanation
Indices: 312317--312372 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
312307 TTATATCGAT
*
312317 ACAATGTATAGATACAAAGA
1 ACAATGTATCGATACAAAGA
312337 ACAATGTATCGATACAAAGA
1 ACAATGTATCGATACAAAGA
*
312357 ACATTGTATCGATACA
1 ACAATGTATCGATACA
312373 TCTAGGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (20 bp):
ACAATGTATCGATACAAAGA
Found at i:314586 original size:33 final size:33
Alignment explanation
Indices: 314549--314615 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
314539 TTCAACGATT
314549 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
314582 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
314615 T
1 T
314616 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:314587 original size:13 final size:13
Alignment explanation
Indices: 314569--314593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
314559 CATAAAATGT
314569 TGTATCGATACAA
1 TGTATCGATACAA
314582 TGTATCGATACA
1 TGTATCGATACA
314594 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:314674 original size:13 final size:13
Alignment explanation
Indices: 314656--314680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
314646 ATTACTCAAA
314656 TGTATCGATACAT
1 TGTATCGATACAT
314669 TGTATCGATACA
1 TGTATCGATACA
314681 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:314782 original size:52 final size:52
Alignment explanation
Indices: 314689--314816 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
314679 CACTGATCTT
*
314689 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
314740 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
314792 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
314817 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:320500 original size:21 final size:21
Alignment explanation
Indices: 320476--320532 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
320466 AAAAAATTTA
320476 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
320497 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
320518 AATGTATCGATACAT
1 AATGTATCGATACAT
320533 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:320612 original size:19 final size:19
Alignment explanation
Indices: 320588--320655 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
320578 AATTCAACAA
320588 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
320607 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
320622 --TATATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
320639 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
320656 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:320633 original size:32 final size:32
Alignment explanation
Indices: 320592--320652 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
320582 CAACAATTTG
*
320592 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGTATTGTATCGATACAATA
320624 TATCGATACATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
320653 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATA
Found at i:320713 original size:13 final size:13
Alignment explanation
Indices: 320695--320721 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
320685 CATTTTTCTG
320695 TGTATCGATACAT
1 TGTATCGATACAT
320708 TGTATCGATACAT
1 TGTATCGATACAT
320721 T
1 T
320722 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:323292 original size:51 final size:51
Alignment explanation
Indices: 323232--323402 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
323222 TTATTTCTGA
* * *
323232 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * *
323283 GGGGATACTCCAACCCC-AGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
323336 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
323388 GAGGATACTCCAACC
1 GGGGATACTCCAACC
323403 TTGTTATTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
50 1 0.01
51 35 0.36
52 18 0.19
53 31 0.32
54 12 0.12
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:323436 original size:28 final size:28
Alignment explanation
Indices: 323385--323466 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
323375 ATTTTTCACA
* *
323385 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
323413 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
323441 -T-GAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
323467 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 40 0.89
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:327905 original size:70 final size:69
Alignment explanation
Indices: 327831--328083 Score: 380
Period size: 70 Copynumber: 3.6 Consensus size: 69
327821 AAAAAATCCA
*
327831 ATTCTCATGTACAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGA
1 ATTCTCA-GTATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGA
327896 ATCTG
65 ATCTG
* *
327901 ATTCTCAGATATAATTAATGCAGTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGA
1 ATTCTCAG-TATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGA
327966 ATCTG
65 ATCTG
* * *
327971 ATTCTCAGGTATAATTCATGCATTAGTCTAATCCTTGTAGTCTTTATTTTTTTCTATAAAAAAGA
1 ATTCTCA-GTATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGA
**
328036 ATCCA
65 ATCTG
* *
328041 ATTCTCAAATATAATTCACGCATTAGTCTAATCCTTGCAGTCT
1 ATTCTC-AGTATAATTCATGCATTAGTCTAATCCTTGCAGTCT
328084 GATATTTACA
Statistics
Matches: 167, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
69 1 0.01
70 164 0.98
71 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (69 bp):
ATTCTCAGTATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAA
TCTG
Found at i:328137 original size:91 final size:91
Alignment explanation
Indices: 328009--328363 Score: 431
Period size: 91 Copynumber: 4.0 Consensus size: 91
327999 TAATCCTTGT
* *
328009 AGTCTTTATTTTTTTCTATAAAAAAGAATCCAATTCTCAAATATAATTCACGCATTAGTCTAATC
1 AGTCTTTATTTTTTTCTATAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATC
* * *
328074 CTTGCAGTCTGATATTTACAATCAATC
66 CTTACAGTCTAACATTTACAATC-ATC
* * *
328101 AGTCTTTCTTTTTTTCAAT-AAAAAAAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATC
1 AGTCTTTATTTTTTTCTATAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATC
* *
328165 CTTACAGTCTAATATTTAC-AT--TT
66 CTTACAGTCTAACATTTACAATCATC
* ** * *
328188 AGTC--AATTTTTTTCTATAAAAAAAAAT-TGATTATCAGATATAATTCATGCATTAGTCTAATC
1 AGTCTTTATTTTTTTCTATAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATC
328250 CTTACAGTCTAACATTTACAATCAGTC
66 CTTACAGTCTAACATTTACAATCA-TC
* ** *
328277 A-ACTTT-TCTTTTTTACTATAAAAAAAAATCTGATTCTCAAATATAATTAATGCATTAGTCTAA
1 AGTCTTTAT-TTTTTT-CTATAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAA
*
328340 TCCTTACAGTCTGACATTTACAAT
64 TCCTTACAGTCTAACATTTACAAT
328364 TGATTTTCAA
Statistics
Matches: 231, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
85 60 0.26
86 11 0.05
87 5 0.02
88 1 0.00
89 3 0.01
90 8 0.03
91 73 0.32
92 70 0.30
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (91 bp):
AGTCTTTATTTTTTTCTATAAAAAAAAATCCAATTCTCAAATATAATTCATGCATTAGTCTAATC
CTTACAGTCTAACATTTACAATCATC
Found at i:328332 original size:177 final size:177
Alignment explanation
Indices: 328016--328361 Score: 489
Period size: 177 Copynumber: 2.0 Consensus size: 177
328006 TGTAGTCTTT
* * *
328016 ATTTTTTTCTATAAAAAAGAATCCAATTCTCAAATATAATTCACGCATTAGTCTAATCCTTGCAG
1 ATTTTTTTCTATAAAAAAAAATCCAATTATCAAATATAATTCACGCATTAGTCTAATCCTTACAG
* * * * *
328081 TCTGATATTTACAATCAATCAGTCTTTCTTTTTTTCAATAAAAAAAATCCAATTCTCAGATATAA
66 TCTAACATTTACAATCAATCACTCTTTCTTTTTTACAATAAAAAAAATCCAATTCTCAAATATAA
* *
328146 TTCATGCATTAGTCTAATCCTTACAGTCTAATATTTACATTTAGTCA
131 TTAATGCATTAGTCTAATCCTTACAGTCTAACATTTACATTTAGTCA
** * *
328193 ATTTTTTTCTATAAAAAAAAAT-TGATTATCAGATATAATTCATGCATTAGTCTAATCCTTACAG
1 ATTTTTTTCTATAAAAAAAAATCCAATTATCAAATATAATTCACGCATTAGTCTAATCCTTACAG
* * **
328257 TCTAACATTTACAATCAGTCAACT-TTTCTTTTTTACTATAAAAAAAAATCTGATTCTCAAATAT
66 TCTAACATTTACAATCAATC-ACTCTTTCTTTTTTACAAT-AAAAAAAATCCAATTCTCAAATAT
*
328321 AATTAATGCATTAGTCTAATCCTTACAGTCTGACATTTACA
129 AATTAATGCATTAGTCTAATCCTTACAGTCTAACATTTACA
328362 ATTGATTTTC
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
176 66 0.45
177 82 0.55
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (177 bp):
ATTTTTTTCTATAAAAAAAAATCCAATTATCAAATATAATTCACGCATTAGTCTAATCCTTACAG
TCTAACATTTACAATCAATCACTCTTTCTTTTTTACAATAAAAAAAATCCAATTCTCAAATATAA
TTAATGCATTAGTCTAATCCTTACAGTCTAACATTTACATTTAGTCA
Found at i:328395 original size:57 final size:57
Alignment explanation
Indices: 328307--328420 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
328297 AAAAAAAATC
328307 TGATTCTCAAATATAATTAATGCATTAGTCTAATCCTTACAGTCTGACATTTACAAT
1 TGATTCTCAAATATAATTAATGCATTAGTCTAATCCTTACAGTCTGACATTTACAAT
* * ** * *
328364 TGATTTTCAAATATAATTCATGCATTAGTCTAATTTTTACAGTTTGATATTTACAAT
1 TGATTCTCAAATATAATTAATGCATTAGTCTAATCCTTACAGTCTGACATTTACAAT
328421 CAATCAACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (57 bp):
TGATTCTCAAATATAATTAATGCATTAGTCTAATCCTTACAGTCTGACATTTACAAT
Found at i:328522 original size:94 final size:94
Alignment explanation
Indices: 328361--328533 Score: 283
Period size: 94 Copynumber: 1.8 Consensus size: 94
328351 TGACATTTAC
* * * * *
328361 AATTGATTTTCAAATATAATTCATGCATTAGTCTAATTTTTACAGTTTGATATTTACAATCAATC
1 AATTGATTCTCAAATATAATTCATGCATTAGTCTAATTCTTACAGTCTAACATTTACAATCAATC
328426 AACTTTTCTTTTTTTTTTTTATAAAAAAG
66 AACTTTTCTTTTTTTTTTTTATAAAAAAG
* *
328455 AATTGATTCTCAGATATAATTCATGCATTAGTCTAATTCTTGCAGTCTAACATTTACAATCAATC
1 AATTGATTCTCAAATATAATTCATGCATTAGTCTAATTCTTACAGTCTAACATTTACAATCAATC
328520 AACTTTTCTTTTTT
66 AACTTTTCTTTTTT
328534 CAATGAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (94 bp):
AATTGATTCTCAAATATAATTCATGCATTAGTCTAATTCTTACAGTCTAACATTTACAATCAATC
AACTTTTCTTTTTTTTTTTTATAAAAAAG
Found at i:330266 original size:16 final size:15
Alignment explanation
Indices: 330245--330275 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
330235 TCGATACATC
330245 ACTGTTCATCACTGTT
1 ACTGTTCAT-ACTGTT
330261 ACTGTTCATACTGTT
1 ACTGTTCATACTGTT
330276 CACGTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (15 bp):
ACTGTTCATACTGTT
Found at i:331577 original size:13 final size:13
Alignment explanation
Indices: 331559--331584 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
331549 TACAGCAAGT
331559 ATGTATCGATACA
1 ATGTATCGATACA
331572 ATGTATCGATACA
1 ATGTATCGATACA
331585 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:335603 original size:13 final size:13
Alignment explanation
Indices: 335585--335611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
335575 ATATTATGCT
335585 TTGTATCGATACA
1 TTGTATCGATACA
335598 TTGTATCGATACA
1 TTGTATCGATACA
335611 T
1 T
335612 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:335694 original size:13 final size:13
Alignment explanation
Indices: 335676--335705 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
335666 GATACATGGG
*
335676 ACATTGTATCGAT
1 ACATTGTATAGAT
335689 ACATTGTATAGAT
1 ACATTGTATAGAT
335702 ACAT
1 ACAT
335706 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATAGAT
Found at i:335703 original size:33 final size:33
Alignment explanation
Indices: 335660--335726 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
335650 CTAAGTGAAA
* *
335660 TGTATCGATACATG-GGACATTGTATCGATACAT
1 TGTATAGATACATGAAGA-ATTGTATCGATACAT
*
335693 TGTATAGATACATGAAGAATTGTATTGATACAT
1 TGTATAGATACATGAAGAATTGTATCGATACAT
335726 T
1 T
335727 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATAGATACATGAAGAATTGTATCGATACAT
Found at i:337274 original size:3 final size:3
Alignment explanation
Indices: 337259--337305 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
337249 AACCGTCAAA
* * *
337259 GAT GAT GAA GAT GAT GAT GAT GAA GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
337306 GGTTGACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:337279 original size:15 final size:15
Alignment explanation
Indices: 337259--337305 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
337249 AACCGTCAAA
337259 GATGATGAAGATGAT
1 GATGATGAAGATGAT
337274 GATGATGAAGATGAT
1 GATGATGAAGATGAT
337289 GATGATGATA-ATGAT
1 GATGATGA-AGATGAT
337304 GA
1 GA
337306 GGTTGACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 30 0.97
16 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (15 bp):
GATGATGAAGATGAT
Found at i:339415 original size:79 final size:78
Alignment explanation
Indices: 339209--339437 Score: 271
Period size: 79 Copynumber: 2.9 Consensus size: 78
339199 TGGGGATAAC
* * * * *
339209 AACAGGGCTGGAGTATCCCCGATTATGAAAAATCGGTGTTCTGGAAATAAAATCAGGTTTGTAGT
1 AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGTT-TAGAAATAAAATCGGGGTTGGAGT
*
339274 ATCCCCTCGGAAAT
65 ATCCCCTCGAAAAT
* * *
339288 AACAGGGTTGGAGTATCGCTGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAG
1 AACAGGGTTGGAGTATCCCCGATTATGA-AAAATCGGTGTTTAG-AAATAAAATCGGGGTTGGAG
339352 TATCCCCTCGAAAAT
64 TATCCCCTCGAAAAT
* * * * ***
339367 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTG-TTTAGAAATAAAATCGGGGTTGGAGT
339432 ATCCCC
65 ATCCCC
339438 GATTGTGAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 120 0.94
80 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (78 bp):
AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTAGAAATAAAATCGGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:339436 original size:51 final size:51
Alignment explanation
Indices: 339369--339488 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
339359 TCGAAAATAA
** * * *
339369 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTACAAATAAAGC
* * *
339420 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTACAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTACAAATAAAGC
*
339471 CAGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
339489 TCGAAAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTACAAATAAAGC
Found at i:339513 original size:158 final size:157
Alignment explanation
Indices: 339341--339674 Score: 399
Period size: 158 Copynumber: 2.1 Consensus size: 157
339331 AAAATAAAAT
339341 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATG
1 CGGGGTTGGAGTATCCCC-CGAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT-A-G
** * * *
339405 C-TTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTACAAATAA
63 CGTTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTATGGAG-AATCAATATTTTACAAATAA
** * *
339468 AGTCAGGGTTGGAGTATCCCCTC-GAAAATAA
127 AACCAAGGTTGGAATATCCCCTCTG-AAATAA
*
339499 CGGGGTTGGAGTAT-CCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTTTGAAAAATTAGCG
1 CGGGGTTGGAGTATCCCCCGA-GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGCG
* * *** * *
339563 TTTTGGAAATAAAATCGGAGTTGAAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAA
65 -TTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTATGGAGAATCAATATTTTACAAATAAAA
*
339628 CCAAGGTTGGAATATCTCCTCTGAAATAA
129 CCAAGGTTGGAATATCCCCTCTGAAATAA
*
339657 TGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
339675 AATTGTGAAA
Statistics
Matches: 150, Mismatches: 19, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
156 5 0.03
157 4 0.03
158 134 0.89
159 7 0.05
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (157 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGCGT
TTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTATGGAGAATCAATATTTTACAAATAAAACC
AAGGTTGGAATATCCCCTCTGAAATAA
Found at i:339545 original size:28 final size:30
Alignment explanation
Indices: 339473--339547 Score: 122
Period size: 28 Copynumber: 2.6 Consensus size: 30
339463 AATAAAGTCA
339473 GGGTTGGAGTATCCCC--TCGAAAATAACG
1 GGGTTGGAGTATCCCCGATCGAAAATAACG
339501 GGGTTGGAGTATCCCCGAT-G-AAATAACG
1 GGGTTGGAGTATCCCCGATCGAAAATAACG
339529 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
339548 TTTGAAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 43 0.96
29 1 0.02
30 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (30 bp):
GGGTTGGAGTATCCCCGATCGAAAATAACG
Found at i:339617 original size:51 final size:51
Alignment explanation
Indices: 339531--339627 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
339521 AAATAACGGG
* * *
339531 GTTGGAGTATCCCCGATTTTGAAAAATTAGCGTTTTGGAAATAAAATCGGA
1 GTTGAAGTATCCCCGATTATGAAAAATTAGCGTTTTAGAAATAAAATCGGA
* * * *
339582 GTTGAAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAA
1 GTTGAAGTATCCCCGATTATGAAAAATTAGCGTTTTAGAAATAAAA
339628 CCAAGGTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTATGAAAAATTAGCGTTTTAGAAATAAAATCGGA
Found at i:339670 original size:79 final size:78
Alignment explanation
Indices: 339582--339801 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 78
339572 TAAAATCGGA
* * * * * * *
339582 GTTGAAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAACCAAGGTTGGAATATCTCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACC-AGGTTGGAGTATCCCC
**
339647 TCTG-AAATAATGGG
65 TC-GAAAATAACAGG
* * * * *
339661 GTTGGAGTATCCCCAATTGTGAAAAACTAGTGTTTTGGGAATAAAATCAGGATTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCAGG-TTGGAGTATCCCC
339726 TCGAAAATAACAGG
65 TCGAAAATAACAGG
* *
339740 ATTGGAGTATCCCCGATTATGAAAAATTAATG-TTTGGAAATAAAACCGAGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACC-AGGTTGGAGTATCC
339802 TCGAGATGAA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
78 28 0.24
79 89 0.76
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCAGGTTGGAGTATCCCCT
CGAAAATAACAGG
Found at i:342799 original size:45 final size:44
Alignment explanation
Indices: 342700--342934 Score: 214
Period size: 45 Copynumber: 5.3 Consensus size: 44
342690 AAATGCATCT
* * * *
342700 TGCTCTTTGAGGACAAA-AGAAAAAGA-AAAATAAAGTGCATCA
1 TGCTCTTTGAGGACAAAGAGGAAAAGAGGAAATAAAGTGCGTCC
* *
342742 TGCTATTTGAGGACAAAGAGGAAAATGAGGAAATGAAGTGCGTCC
1 TGCTCTTTGAGGACAAAGAGGAAAA-GAGGAAATAAAGTGCGTCC
* * * * *
342787 TGCTCTGTGAGGACAAAAGGGGAAAATAAGGAAATGGAACGT--GTCA
1 TGCTCTTTGAGGAC-AAAGAGGAAAA-GAGGAAAT--AAAGTGCGTCC
*
342833 TGCTCTTTGAGGACAAAG-GAGAAAA-AGAAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAGAG-GAAAAGAGGAAATAAAGTGCGTCC
* *
342876 TACACTTTGAGGACAAA-AGGGAAAAGAAGGAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAGA-GGAAAAG-AGGAAATAAAGTGCGTCC
*
342921 TACTCTTTGAGGAC
1 TGCTCTTTGAGGAC
342935 TAGAAGGTGC
Statistics
Matches: 159, Mismatches: 21, Indels: 23
0.78 0.10 0.11
Matches are distributed among these distances:
41 4 0.03
42 16 0.10
43 35 0.22
44 4 0.03
45 63 0.40
46 34 0.21
48 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (44 bp):
TGCTCTTTGAGGACAAAGAGGAAAAGAGGAAATAAAGTGCGTCC
Found at i:342896 original size:89 final size:89
Alignment explanation
Indices: 342739--342909 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 89
342729 ATAAAGTGCA
* * * *
342739 TCATGCTATTTGAGGACAAAGAGGAAAATGAGGAAATGAAGTGCGTCCTGCTCTGTGAGGACAAA
1 TCATGCTATTTGAGGACAAAGAGGAAAA-GAGAAAATAAAGTGCGTCCTACACTGTGAGGACAAA
*
342804 AGGGGAAAATAAGGAAATGGAACGTG
65 A-GGGAAAAGAAGGAAATGGAACGTG
* *
342830 TCATGCTCTTTGAGGACAAAG-GAGAAAA-AGAAAATAAAGTGCGTCCTACACTTTGAGGACAAA
1 TCATGCTATTTGAGGACAAAGAG-GAAAAGAGAAAATAAAGTGCGTCCTACACTGTGAGGACAAA
342893 AGGGAAAAGAAGGAAAT
65 AGGGAAAAGAAGGAAAT
342910 AAAGTGCGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 15 0.21
89 31 0.43
90 1 0.01
91 25 0.35
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.18
Consensus pattern (89 bp):
TCATGCTATTTGAGGACAAAGAGGAAAAGAGAAAATAAAGTGCGTCCTACACTGTGAGGACAAAA
GGGAAAAGAAGGAAATGGAACGTG
Found at i:343058 original size:62 final size:60
Alignment explanation
Indices: 342910--343420 Score: 669
Period size: 62 Copynumber: 8.5 Consensus size: 60
342900 AGAAGGAAAT
* *
342910 AAAGTGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
342972 AAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
* *
343034 AAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
343094 GAAGGCATCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
343155 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT-GAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
343214 GAAGGCGTCCTACTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
343268 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
343329 AAAGGCGTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
343391 AAAAGCATCCTGCTCTTTGAGGACTAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGG
343421 GTGAAAGGAG
Statistics
Matches: 395, Mismatches: 41, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
54 23 0.06
55 27 0.07
59 54 0.14
60 83 0.21
61 94 0.24
62 111 0.28
63 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:343502 original size:100 final size:101
Alignment explanation
Indices: 343333--343515 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 101
343323 AAAGGAAAAG
* * *
343333 GCGTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAAGCA
1 GCGTCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCA
343398 TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
66 TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
* * *
343434 GCGTCCTACTTTTTGAGGACTA-AAAAGTGCCACCAACTTATGTGGGCTTTAAGAGGAAAAGGCG
1 GCGTCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCA
343498 TCCTGCTCTTTGAGGACT
66 TCCTGCTCTTTGAGGACT
343516 GGAAGGTGCC
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 55 0.72
101 21 0.28
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (101 bp):
GCGTCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCA
TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
Found at i:343512 original size:61 final size:60
Alignment explanation
Indices: 343434--343860 Score: 611
Period size: 61 Copynumber: 7.0 Consensus size: 60
343424 AAAGGAGAGA
* * * * * *
343434 GCGTCCTACTTTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
343495 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
343556 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* ** *
343617 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTCATGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
*
343678 GCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
343738 GCTTCCTGCTCTTTGAAGACTGAAGGTGCCGCCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
* * *
343799 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA
343861 AAAGACGTCT
Statistics
Matches: 335, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
60 79 0.24
61 219 0.65
62 2 0.01
63 35 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:343730 original size:121 final size:122
Alignment explanation
Indices: 343434--343860 Score: 660
Period size: 121 Copynumber: 3.5 Consensus size: 122
343424 AAAGGAGAGA
* * * * *
343434 GCGTCCTACTTTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
343499 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
66 CCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
*
343556 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
343621 CCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTCATGTGGGCTTTGAAAAGAAAAAG
66 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* * *
343678 GCGTCATGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCTT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
343742 CCTGCTCTTTGAAGACTGAAGGTGCCGCCAACTCGTGTGGGCTTTGAAAAGAAAAAG
66 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
* *
343799 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA
343861 AAAGACGTCT
Statistics
Matches: 281, Mismatches: 20, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
121 140 0.50
122 108 0.38
123 24 0.09
124 9 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (122 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
Found at i:350158 original size:31 final size:28
Alignment explanation
Indices: 350134--350205 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
350124 AAAATAAAAT
350134 CGGGATTGGAGTATCCCCTCGAAAATAA
1 CGGGATTGGAGTATCCCCTCGAAAATAA
*
350162 CGGGGTTGGAGTAT-CCC-CGATGAAATAA
1 CGGGATTGGAGTATCCCCTCGA--AAATAA
350190 CGAGG-TTGGAGTATCC
1 CG-GGATTGGAGTATCC
350206 TCAATTATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 30 0.77
29 3 0.08
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGATTGGAGTATCCCCTCGAAAATAA
Found at i:350255 original size:51 final size:51
Alignment explanation
Indices: 350194--350307 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
350184 AAATAACGAG
* *
350194 GTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
* * * * *
350245 GTTGGAGTATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
*
350296 GTTTGAGTATCC
1 GTTGGAGTATCC
350308 CCTCAGAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
Found at i:350332 original size:79 final size:78
Alignment explanation
Indices: 350245--350466 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 78
350235 TAAAATCGGA
* * *
350245 GTTGGAGTATCCTCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTTGAGTATCCCC
1 GTTGGAGTATCC-CGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTTGAGTATCCCC
* *
350310 TCAGAAATGACGGG
65 TCAGAAATAACGCG
* * * * *
350324 GTTGGAGTATCCCCAATTGTGAAAAACTAGTGTTTTGGGAATAAAATCGGGG-TTGAAGTATCCC
1 GTTGGAGTAT-CCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTTG-AGTATCCC
* *
350388 TTTAGAAATAACGCG
64 CTCAGAAATAACGCG
* * * *
350403 ATTGGAGTATCCCTGATTATGAAAAATTGATG-TTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCC-GATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTTGAGTATCCCC
350467 GAGATGAAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 31 0.26
79 84 0.72
80 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTTGAGTATCCCCT
CAGAAATAACGCG
Found at i:352580 original size:20 final size:20
Alignment explanation
Indices: 352555--352609 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
352545 AAAATACTTG
*
352555 AATGTATCGATACATTGCAA-
1 AATGTATCGATACAATG-AAC
352575 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
352595 AATGTATCAATACAA
1 AATGTATCGATACAA
352610 ATTGTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:353313 original size:41 final size:41
Alignment explanation
Indices: 353223--353323 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
353213 GTCTCACTTT
* * *
353223 TTGAGGACAAAGG-AAAAGAGAATGAAATGGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCCTGCTCC
* * *
353263 TTGAAGACAAAGGAAGAAAGAAAAGGAAA-GTGTCCTGCTTC
1 TTGAGGACAAAGGAA-AAAGAAAAGGAAATGGGTCCTGCTCC
353304 TTGAGGACAAAGTGAAAAAG
1 TTGAGGACAAAG-GAAAAAG
353324 TGTACGTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 12 0.24
41 25 0.49
42 14 0.27
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCCTGCTCC
Found at i:353463 original size:46 final size:43
Alignment explanation
Indices: 353330--353464 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 43
353320 AAAGTGTACG
**
353330 TCCTACTTTTCGAGGAC-AAAGGAAAAAAGGGAAACGAAA-TGCA
1 TCCTACTTTT-GAGGACAAAAGGAAAAAA-GGAAAATAAAGTGCA
353373 TCCTACTCTTTGAGGACAAAA-G-AAAAAGGAAAATAAAGTGCA
1 TCCTACT-TTTGAGGACAAAAGGAAAAAAGGAAAATAAAGTGCA
353415 TCCTACTATTTGAGGACAAAAGGGAAAAGAAGGAAAATAAAGTGCA
1 TCCTACT-TTTGAGGACAAAA-GGAAAA-AAGGAAAATAAAGTGCA
353461 TCCT
1 TCCT
353465 GTTATTCGTC
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
41 8 0.10
42 29 0.35
43 14 0.17
44 7 0.09
45 3 0.04
46 21 0.26
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (43 bp):
TCCTACTTTTGAGGACAAAAGGAAAAAAGGAAAATAAAGTGCA
Found at i:359406 original size:20 final size:19
Alignment explanation
Indices: 359364--359451 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
359354 ACCCTAAAAA
*
359364 GTATCGATACAT-ATCCAGAT
1 GTATCGATACATGAT-CA-TT
* *
359384 GTATCGATACATTATGCTTT
1 GTATCGATACATGAT-CATT
* *
359404 GTATCAATACATGCTCATT
1 GTATCGATACATGATCATT
359423 GTATCGATACAT-ACTCAATT
1 GTATCGATACATGA-TC-ATT
359443 GTATCGATA
1 GTATCGATA
359452 TATAAAACTG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 16 0.29
20 37 0.66
21 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (19 bp):
GTATCGATACATGATCATT
Found at i:359426 original size:19 final size:20
Alignment explanation
Indices: 359402--359447 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
359392 ACATTATGCT
*
359402 TTGTATCAATACATGCTC-A
1 TTGTATCAATACATACTCAA
*
359421 TTGTATCGATACATACTCAA
1 TTGTATCAATACATACTCAA
359441 TTGTATC
1 TTGTATC
359448 GATATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (20 bp):
TTGTATCAATACATACTCAA
Found at i:359518 original size:13 final size:13
Alignment explanation
Indices: 359500--359529 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
359490 GATACATGGA
359500 ACATTGTATCGAT
1 ACATTGTATCGAT
*
359513 ACATTGTATTGAT
1 ACATTGTATCGAT
359526 ACAT
1 ACAT
359530 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:359526 original size:33 final size:33
Alignment explanation
Indices: 359484--359550 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
359474 CTAAGTGAAA
*
359484 TGTATTGATACATGGAA-CATTGTATCGATACAT
1 TGTATTGATACAT-GAAGAATTGTATCGATACAT
359517 TGTATTGATACATGAAGAATTGTATCGATACAT
1 TGTATTGATACATGAAGAATTGTATCGATACAT
359550 T
1 T
359551 ATGCCCAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATTGATACATGAAGAATTGTATCGATACAT
Found at i:360476 original size:23 final size:23
Alignment explanation
Indices: 360439--360482 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
360429 CTTTAAGGGT
*
360439 GGTGGTGGTAGTAGTGGAGGTGG
1 GGTGGTGGTAGTAGTAGAGGTGG
360462 GGTGGTGGT-GCTAGTAGAGGT
1 GGTGGTGGTAG-TAGTAGAGGT
360483 CAAGGAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.14, C:0.02, G:0.57, T:0.27
Consensus pattern (23 bp):
GGTGGTGGTAGTAGTAGAGGTGG
Found at i:364361 original size:20 final size:20
Alignment explanation
Indices: 364311--364363 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
364301 ACAATAAGAA
* *
364311 AATGTATCGAAACATAAGTG
1 AATGTATCGATACAGAAGTG
*
364331 AATGTATCGATATAGAAGTG
1 AATGTATCGATACAGAAGTG
364351 AATGTATCGATAC
1 AATGTATCGATAC
364364 TGGACCATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAGAAGTG
Found at i:368328 original size:20 final size:20
Alignment explanation
Indices: 368268--368347 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
368258 GAATAGATAC
368268 AAGTTAATGTATCGATACAAT
1 AAGTTAATGTATCGATAC-AT
*
368289 AAGTTAATGTATTGATACAT
1 AAGTTAATGTATCGATACAT
* *
368309 AAGTGAATGTATCGAAACAT
1 AAGTTAATGTATCGATACAT
***
368329 GCTTGTAATGTATCGATAC
1 AAGT-TAATGTATCGATAC
368348 TGGACCATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 20 0.41
21 29 0.59
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (20 bp):
AAGTTAATGTATCGATACAT
Found at i:368898 original size:13 final size:13
Alignment explanation
Indices: 368880--368905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
368870 TACACCAAGT
368880 ATGTATCGATACA
1 ATGTATCGATACA
368893 ATGTATCGATACA
1 ATGTATCGATACA
368906 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:368903 original size:32 final size:33
Alignment explanation
Indices: 368862--368925 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
368852 TAGCCAAACT
**
368862 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
368894 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
368926 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:373138 original size:96 final size:96
Alignment explanation
Indices: 372993--373232 Score: 322
Period size: 96 Copynumber: 2.5 Consensus size: 96
372983 TATTTACGGA
* * * * *
372993 GATATTCCAACCCCATTCTTCTGAGGGGATTCTCCAACCCCATTTTTAAACTTGA-CAAGGTTTA
1 GATATTCCAACCCTATTCTTTTGA-GGGATACTCCAACCCTATTTTTAAACTT-ATCAAGATTTA
* *
373057 AATCTTATTTT-GCTTAAATTGTTATTATCAGG
64 AATCTTATTTTCGCCTAAATTGTCATTATCAGG
373089 GATATTCCAACCCTATTCTTTTGAGGGAATACTCCAACCCTATTTTTAAACTTATCAAGATTTAA
1 GATATTCCAACCCTATTCTTTTGAGGG-ATACTCCAACCCTATTTTTAAACTTATCAAGATTTAA
*
373154 ATCTTATTTTCGCCTAAATTGTCATTATCGGG
65 ATCTTATTTTCGCCTAAATTGTCATTATCAGG
* * * *
373186 GACACTCCAACCCTATTCCTTTGAAGGGATACTCCAACCCTGTTTTT
1 GATATTCCAACCCTATTCTTTTG-AGGGATACTCCAACCCTATTTTT
373233 CAACCAAAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
95 4 0.03
96 64 0.50
97 56 0.44
98 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (96 bp):
GATATTCCAACCCTATTCTTTTGAGGGATACTCCAACCCTATTTTTAAACTTATCAAGATTTAAA
TCTTATTTTCGCCTAAATTGTCATTATCAGG
Found at i:373218 original size:97 final size:96
Alignment explanation
Indices: 372998--373232 Score: 305
Period size: 97 Copynumber: 2.4 Consensus size: 96
372988 ACGGAGATAT
* * * * *
372998 TCCAACCCCATT-CTTCTGAGGGGATTCTCCAACCCCATTTTTAAACTTGACAAGGTTTAAATCT
1 TCCAACCCTATTCCTT-TGAAGGGATACTCCAACCCTATTTTTAAACTTGACAAGATTTAAATCT
* * * *
373062 TATTTTGCTTAAATTGTTATTATCAGGGATAT
65 TATTTTGCCTAAATTGTCATTATCAGGGACAC
*
373094 TCCAACCCTATTCTTTTG-AGGGAATACTCCAACCCTATTTTTAAACTT-ATCAAGATTTAAATC
1 TCCAACCCTATTCCTTTGAAGGG-ATACTCCAACCCTATTTTTAAACTTGA-CAAGATTTAAATC
*
373157 TTATTTTCGCCTAAATTGTCATTATCGGGGACAC
64 TTATTTT-GCCTAAATTGTCATTATCAGGGACAC
*
373191 TCCAACCCTATTCCTTTGAAGGGATACTCCAACCCTGTTTTT
1 TCCAACCCTATTCCTTTGAAGGGATACTCCAACCCTATTTTT
373233 CAACCAAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
95 4 0.03
96 55 0.45
97 58 0.48
98 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (96 bp):
TCCAACCCTATTCCTTTGAAGGGATACTCCAACCCTATTTTTAAACTTGACAAGATTTAAATCTT
ATTTTGCCTAAATTGTCATTATCAGGGACAC
Found at i:377696 original size:79 final size:78
Alignment explanation
Indices: 377594--377971 Score: 357
Period size: 79 Copynumber: 4.8 Consensus size: 78
377584 AAAATCGGGG
* * * * ** *
377594 TGGAGTATCCCCGAGATAAAAAATTTAATATTTTGGAAGTGAAAATAAGGTTGGAGTATCTCCTC
1 TGGAGTATCCTCGAGAT-GAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTC
* * **
377659 AGAAGTGATGGGGT
65 AGAAATAACAGGGT
* * * * *
377673 TGGAGTATCCTCGATGGTGAAAATTTGATATTTTGGAAATAAAAACGGGGTTGGACTATCCCCTT
1 TGGAGTATCCTCGA-GATGAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTC
377738 AGAAATAACAGGGT
65 AGAAATAACAGGGT
* * * * * * *
377752 TAGAGAATCC-CGGATGGTGAAAAATTGATATTTTCGAAATAAAAATGGGATTGGAGTATCCCCT
1 TGGAGTATCCTC-GA-GATGAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCT
* *
377816 CAAAAATAA-TGGGAT
64 CAGAAATAACAGGG-T
* ** * **
377831 TGGAGTATCTTCGAGATGAAAATTTTAATATTTTGGAAATAAAAGCGGGGTTGAAGTATCTTCTC
1 TGGAGTATCCTCGAGATGAAAA-TTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTC
*
377896 -GAAAATAACAAGGT
65 AG-AAATAACAGGGT
* *
377910 TGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAGTAAAAATGGGGTTGGAGTATCCC
1 TGGAGTATCCTCGAGATGAAAA-TTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCC
377972 AAAGATGAAA
Statistics
Matches: 242, Mismatches: 50, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
78 11 0.05
79 226 0.93
80 5 0.02
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (78 bp):
TGGAGTATCCTCGAGATGAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCA
GAAATAACAGGGT
Found at i:377902 original size:158 final size:158
Alignment explanation
Indices: 377600--377971 Score: 403
Period size: 158 Copynumber: 2.4 Consensus size: 158
377590 GGGGTGGAGT
* * * * * * *
377600 ATCCCCGAGAT-AAAAAATTTAATATTTTGGAAGTGAAAATAAGG-TTGGAGTATCTCCTCAGAA
1 ATCCCCGAGATGAAAATA-TTAATATTTTCGAAATAAAAAT-GGGATTGGAGTATCCCCTCAAAA
* * * * * *
377663 GTGATGGGGTTGGAGTATCCTCGATGGTGAAAATTTGATATTTTGGAAATAAAAACGGGGTTGGA
64 ATAATGGGATTGGAGTATCCTCGATGATGAAAATTTAATATTTTGGAAATAAAAACGGGGTTGAA
* *
377728 CTATCCCCTTAGAAATAACAGGGTTAGAGA
129 CTATCCCCTGAGAAATAACAAGGTTAGAGA
* * *
377758 ATCCCGGATGGTGAAAA-ATTGATATTTTCGAAATAAAAATGGGATTGGAGTATCCCCTCAAAAA
1 ATCCCCGA-GATGAAAATATTAATATTTTCGAAATAAAAATGGGATTGGAGTATCCCCTCAAAAA
* *
377822 TAATGGGATTGGAGTATCTTCGA-GATGAAAATTTTAATATTTTGGAAATAAAAGCGGGGTTGAA
65 TAATGGGATTGGAGTATCCTCGATGATGAAAA-TTTAATATTTTGGAAATAAAAACGGGGTTGAA
* ** * *
377886 GTATCTTCTCGA-AAATAACAAGGTTGGAGT
129 CTATCCCCT-GAGAAATAACAAGGTTAGAGA
* * * *
377916 ATCCCCGAGATGAAAATTTTAATATTTTGGAAGTAAAAATGGGGTTGGAGTATCCC
1 ATCCCCGAGATGAAAATATTAATATTTTCGAAATAAAAATGGGATTGGAGTATCCC
377972 AAAGATGAAA
Statistics
Matches: 177, Mismatches: 31, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
157 16 0.09
158 153 0.86
159 4 0.02
160 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (158 bp):
ATCCCCGAGATGAAAATATTAATATTTTCGAAATAAAAATGGGATTGGAGTATCCCCTCAAAAAT
AATGGGATTGGAGTATCCTCGATGATGAAAATTTAATATTTTGGAAATAAAAACGGGGTTGAACT
ATCCCCTGAGAAATAACAAGGTTAGAGA
Found at i:377978 original size:51 final size:50
Alignment explanation
Indices: 377907--378021 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 50
377897 AAAATAACAA
** * * *
377907 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAGTAAAAATGG
1 GGTTGGAGTATCCCAAAGATGAAAATTTTAATATTTT-AAAATAAAAACGG
*
377958 GGTTGGAGTATCCCAAAGATGAAAATTTTATTATTTTAAAATAAAAACGG
1 GGTTGGAGTATCCCAAAGATGAAAATTTTAATATTTTAAAATAAAAACGG
378008 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
378022 TGATGGTGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 24 0.41
51 34 0.59
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCAAAGATGAAAATTTTAATATTTTAAAATAAAAACGG
Found at i:378032 original size:51 final size:50
Alignment explanation
Indices: 377907--378042 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 50
377897 AAAATAACAA
* * *
377907 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAGTAAAAATGG
1 GGTTGGAGTAT-CCCGAGATGAAAATTTTAATATTTTGAAAATAAAAACGG
* *
377958 GGTTGGAGTATCCCAAAGATGAAAATTTTATTATTTT-AAAATAAAAACGG
1 GGTTGGAGTATCCC-GAGATGAAAATTTTAATATTTTGAAAATAAAAACGG
* *
378008 GGTTGGAGTATCCCTGATGGTGAAAATTTTGATAT
1 GGTTGGAGTATCCC-GA-GATGAAAATTTTAATAT
378043 GATGAGAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 28 0.38
51 45 0.62
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (50 bp):
GGTTGGAGTATCCCGAGATGAAAATTTTAATATTTTGAAAATAAAAACGG
Found at i:380507 original size:20 final size:20
Alignment explanation
Indices: 380484--380537 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
380474 AATAACCTAG
*
380484 AATGTATCGATATAATGAAA
1 AATGTATCGATACAATGAAA
380504 AATGTATCGATACAATGAAA
1 AATGTATCGATACAATGAAA
* *
380524 AATATATTGATACA
1 AATGTATCGATACA
380538 TTTTCTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAAA
Found at i:387705 original size:20 final size:20
Alignment explanation
Indices: 387680--387742 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
387670 TGAAAAGTAT
387680 CTATAAATTGTGCCCAATGG
1 CTATAAATTGTGCCCAATGG
* *
387700 CTAT-AA--GTG--AAATGTAT
1 CTATAAATTGTGCCCAATG--G
387717 CTATAAATTGTGCCCAATGG
1 CTATAAATTGTGCCCAATGG
387737 CTATAA
1 CTATAA
387743 GTTTCAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
15 4 0.12
17 7 0.22
18 2 0.06
19 2 0.06
20 13 0.41
22 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (20 bp):
CTATAAATTGTGCCCAATGG
Found at i:387720 original size:37 final size:37
Alignment explanation
Indices: 387670--387744 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
387660 CGATACATTA
387670 TGAAAAGTATCTATAAATTGTGCCCAATGGCTATAAG
1 TGAAAAGTATCTATAAATTGTGCCCAATGGCTATAAG
*
387707 TGAAATGTATCTATAAATTGTGCCCAATGGCTATAAG
1 TGAAAAGTATCTATAAATTGTGCCCAATGGCTATAAG
387744 T
1 T
387745 TTCAAATGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (37 bp):
TGAAAAGTATCTATAAATTGTGCCCAATGGCTATAAG
Found at i:389079 original size:46 final size:45
Alignment explanation
Indices: 389027--389182 Score: 143
Period size: 46 Copynumber: 3.4 Consensus size: 45
389017 TTTATTGGTC
**
389027 TTTTGCCTAATTGGATGAAGTTACCAAAAAAAAAACTTCATCAATT
1 TTTTGCCTAATCAGATGAAGTTA-CAAAAAAAAAACTTCATCAATT
** ** * *
389073 TTTTGCCTAATCAGATGAAGTTGACTTAAAATTAA-TCCATTAATT
1 TTTTGCCTAATCAGATGAAGTT-ACAAAAAAAAAACTTCATCAATT
* * * * *
389118 TGTTGCCTAATCAGATGAAGCTAACAAAAGAAAAACTTCACCAATC
1 TTTTGCCTAATCAGATGAAG-TTACAAAAAAAAAACTTCATCAATT
* *
389164 TTTTACCTAATCAAATGAA
1 TTTTGCCTAATCAGATGAA
389183 ATGGACTCAA
Statistics
Matches: 85, Mismatches: 22, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
45 34 0.40
46 50 0.59
47 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (45 bp):
TTTTGCCTAATCAGATGAAGTTACAAAAAAAAAACTTCATCAATT
Found at i:392314 original size:13 final size:13
Alignment explanation
Indices: 392296--392353 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
392286 ACATTTGGTC
392296 ATGTATCGATACA
1 ATGTATCGATACA
392309 ATGTATCGATACA
1 ATGTATCGATACA
392322 TCTTGTATGTATCGATACA
1 ------ATGTATCGATACA
392341 ATGTATCGATACA
1 ATGTATCGATACA
392354 TCTTGTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 26 0.67
19 13 0.33
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:392333 original size:19 final size:19
Alignment explanation
Indices: 392309--392372 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
392299 TATCGATACA
392309 ATGTATCGATACATCTTGT
1 ATGTATCGATACATCTTGT
392328 ATGTATCGATACA------
1 ATGTATCGATACATCTTGT
392341 ATGTATCGATACATCTTGT
1 ATGTATCGATACATCTTGT
392360 ATGTATCGATACA
1 ATGTATCGATACA
392373 AACAGTTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 13 0.33
19 26 0.67
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATCTTGT
Found at i:392337 original size:32 final size:32
Alignment explanation
Indices: 392274--392373 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
392264 CGTTACAAGC
392274 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
392307 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
392339 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
392371 CAA
1 CAA
392374 ACAGTTAAGG
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
32 46 0.70
33 18 0.27
34 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:392460 original size:13 final size:13
Alignment explanation
Indices: 392442--392466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
392432 TACAGTGGTC
392442 ATGTATCGATACA
1 ATGTATCGATACA
392455 ATGTATCGATAC
1 ATGTATCGATAC
392467 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:392484 original size:33 final size:32
Alignment explanation
Indices: 392425--392487 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
392415 ATCTTTGCAA
*
392425 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
392457 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
392488 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:398917 original size:38 final size:38
Alignment explanation
Indices: 398848--398927 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
398838 AGGACAAAAG
* *
398848 AAAAAAAGGAAAATGAAATACGTCCTGCTCTTTGAGGAA
1 AAAAAAAGGAAAATAAAACACGTCCTGCTCTTTG-GGAA
* * *
398887 AAAAAAAGGAAAATAAAACGCGTTCT-CTCTTTGGGAC
1 AAAAAAAGGAAAATAAAACACGTCCTGCTCTTTGGGAA
398924 AAAA
1 AAAA
398928 GGAAAAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 7 0.19
38 7 0.19
39 22 0.61
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (38 bp):
AAAAAAAGGAAAATAAAACACGTCCTGCTCTTTGGGAA
Found at i:399001 original size:45 final size:44
Alignment explanation
Indices: 398921--399007 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
398911 CTCTCTTTGG
398921 GACAAAAGGAAAAGAAAGAATGAAGTGTGTATTGCTCGTTGAAA
1 GACAAAAGGAAAAGAAAGAATGAAGTGTGTATTGCTCGTTGAAA
* * * *
398965 GACAAAAGGGGAAAAGAAGGATTGAA-TGTGTCTTGCTCTTTGA
1 GACAAAA--GGAAAAGAAAGAATGAAGTGTGTATTGCTCGTTGA
399008 GGACAGAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 7 0.19
45 15 0.41
46 15 0.41
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (44 bp):
GACAAAAGGAAAAGAAAGAATGAAGTGTGTATTGCTCGTTGAAA
Found at i:399323 original size:122 final size:127
Alignment explanation
Indices: 399099--399629 Score: 645
Period size: 122 Copynumber: 4.3 Consensus size: 127
399089 GGATAAAGAA
* * *
399099 AAAAAGAATAAAGGTGTCCTACTCTTT-AGGACTAGAAA---TGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAA-AAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGGTGCCACCAACTCGTGTGGGCTTT
* ** *
399160 GAAAAGAAAAAA-A-GTGTCCCTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTTTGGGCTTT
64 GAAAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGTGCCACCAACTCGTGTGGGCTTT
* *
399221 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGGTGCCACCAAC-CGTGTGGGCTTTG-
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGA
*
399284 AAAGAAAAAAG-TGTCTTGCTCTTTGAGGACT-AAA-GGTGCCACCAACTCGTGTGGGCTTT
66 AAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGTGCCACCAACTCGTGTGGGCTTT
* * * * *
399343 GAAAAGAAAAAGGCATCTTGCTCTTTGATGACTAAAAGGGTGCCACCAACTCGTGTGGGCGTTGA
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGA
*
399408 AAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGTGCCACCAACTCATGTGGGGCTTT
66 AAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGTGCCACCAACTCGTGT-GGGCTTT
** *
399471 AAAAAG-AAAAGTTTGTCCTACTCTTTGAGGACTAAAAGGGTG-CACCAACTCGT-T-GGCTTTG
1 AAAAAGAAAAAG-GCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTG
* * *
399532 -AAAGAACAAAGACGTCCTACAT-TTT-AGGACT-AAATGGTGCCACCAACTCGTGTGGGCTTT
65 AAAAGAAAAAAGACGTCTTGC-TCTTTGAGGACTAAAATGGTGCCACCAACTCGTGTGGGCTTT
* * *
399592 AAAAAGAAAAAGAC-TCATGCTTTTTGAGGACTAAAAGG
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
399630 CTAAAGAAGT
Statistics
Matches: 361, Mismatches: 33, Indels: 32
0.85 0.08 0.08
Matches are distributed among these distances:
120 21 0.06
121 31 0.09
122 123 0.34
123 46 0.13
124 41 0.11
125 26 0.07
126 4 0.01
127 33 0.09
128 36 0.10
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (127 bp):
AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTTGA
AAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGTGCCACCAACTCGTGTGGGCTTT
Found at i:399584 original size:249 final size:245
Alignment explanation
Indices: 399137--399629 Score: 665
Period size: 249 Copynumber: 2.0 Consensus size: 245
399127 GGACTAGAAA
* * *
399137 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGTGTCCCTCTTTGAGGACTAAAAGGTGCC
1 TGCCACCAACTCGTGTGGGCGTTGAAAAGAAAAAAAGTCTCCCTCTTTGAGGACTAAAAGGTGCC
* * * * *
399202 ACCAACTCGTTTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGGTGCCAC
66 ACCAACTCATTGGGGCTTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGGTGCCAC
* * *
399267 CAACCGTGTGGGCTTTGAAAGAAAAAAGTGTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTC
131 CAACCGTGTGGGCTTTGAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTC
* * * *
399332 GTGTGGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGATGACTAAAAGGG
196 GTGTGGGCTTTAAAAAGAAAAAGAC-TCATGCTCTTTGAGGACTAAAAGGG
**
399383 TGCCACCAACTCGTGTGGGCGTTGAAAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGGT
1 TGCCACCAACTCGTGTGGGCGTTGAAAAGAAAAAA-A-GTCTCCCTCTTTGAGGACTAAAA-GGT
**
399448 GCCACCAACTCATGTGGGGCTTTAAAAAG-AAAAGTTTGTCCTACTCTTTGAGGACTAAAAGGGT
63 GCCACCAACTCAT-TGGGGCTTTAAAAAGAAAAAG-GCGTCCTACTCTTTGAGGACTAAAAGGGT
*
399512 G-CACCAACTCGT-T-GGCTTTGAAAGAACAAAGACGTCCTACAT-TTT-AGGACTAAATGGTGC
126 GCCACCAAC-CGTGTGGGCTTTGAAAGAAAAAAG-CGTCCTAC-TCTTTGAGGACTAAA-GGTGC
*
399572 CACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACTCATGCTTTTTGAGGACTAAAAGG
187 CACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACTCATGCTCTTTGAGGACTAAAAGG
399630 CTAAAGAAGT
Statistics
Matches: 217, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
246 33 0.15
247 1 0.00
248 67 0.31
249 73 0.34
250 43 0.20
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (245 bp):
TGCCACCAACTCGTGTGGGCGTTGAAAAGAAAAAAAGTCTCCCTCTTTGAGGACTAAAAGGTGCC
ACCAACTCATTGGGGCTTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGGTGCCAC
CAACCGTGTGGGCTTTGAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTC
GTGTGGGCTTTAAAAAGAAAAAGACTCATGCTCTTTGAGGACTAAAAGGG
Found at i:399624 original size:61 final size:62
Alignment explanation
Indices: 399137--399626 Score: 558
Period size: 61 Copynumber: 8.0 Consensus size: 62
399127 GGACTAGAAA
* * * *
399137 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAAGTGTCC--CTCTTTGAGGACTAAAAGG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGA-CGTCCTGCTCTTTGAGGACTAAAGGG
* *
399198 TGCCACCAACTCGTTTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTA-AAGGG
* *
399261 TGCCACCAAC-CGTGTGGGCTTTG-AAAGAAAAA-AGTGTCTTGCTCTTTGAGGACTAAA-GG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGA-CGTCCTGCTCTTTGAGGACTAAAGGG
* * * *
399320 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGATGACTAAAAGGG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTGAGGACT-AAAGGG
* * *
399383 TGCCACCAACTCGTGTGGGCGTTGAAAAGAAAAAAGACGTCTTGCTCTTTGAGGACTAAAATGG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGACGTCCTGCTCTTTGAGGACT-AAAGGG
* * ** *
399447 TGCCACCAACTCATGTGGGGCTTTAAAAAG-AAAAGTTTGTCCTACTCTTTGAGGACTAAAAGGG
1 TGCCACCAACTCGTGT-GGGCTTTGAAAAGAAAAAG-ACGTCCTGCTCTTTGAGGACT-AAAGGG
* *
399511 TG-CACCAACTCGT-T-GGCTTTG-AAAGAACAAAGACGTCCTACAT-TTT-AGGACTAAATGG
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAA-AAAGACGTCCTGC-TCTTTGAGGACTAAAGGG
* * *
399569 TGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGAC-TCATGCTTTTTGAGGACTAAA
1 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAA
399627 AGGCTAAAGA
Statistics
Matches: 373, Mismatches: 35, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
58 7 0.02
59 34 0.09
60 44 0.12
61 112 0.30
62 36 0.10
63 59 0.16
64 70 0.19
65 11 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (62 bp):
TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAGGG
Found at i:401022 original size:29 final size:29
Alignment explanation
Indices: 400975--401032 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
400965 ATTCTTGGAC
*
400975 AGTTTTCTTGTTTGGCCCCCCAAATGTGGG
1 AGTTTTCTTGTTTGCCCCCCCAAA-GTGGG
* *
401005 AGTTTT-TTGTTTTCCCCCCCCAAGTGGG
1 AGTTTTCTTGTTTGCCCCCCCAAAGTGGG
401033 GGTGATCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (29 bp):
AGTTTTCTTGTTTGCCCCCCCAAAGTGGG
Found at i:402768 original size:37 final size:37
Alignment explanation
Indices: 402691--402768 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
402681 AGATATTAAA
**
402691 AAATAAATATAATTAATTTGGTCAAAACATTTTTTGT
1 AAATAAATATAATTAATTTACTCAAAACATTTTTTGT
402728 AAATAAAT-TAATTTAATTTACTCACAAA-ATTATTTT-T
1 AAATAAATATAA-TTAATTTACTCA-AAACATT-TTTTGT
402765 AAAT
1 AAAT
402769 TGAGTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 3 0.08
37 26 0.72
38 7 0.19
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
AAATAAATATAATTAATTTACTCAAAACATTTTTTGT
Found at i:406063 original size:51 final size:52
Alignment explanation
Indices: 405952--406101 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 52
405942 CCCGAAATAT
*
405952 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCGGG
1 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATAGGG
** *
406004 GAAAATTTGCCTGCATGTATCGATACATTTTATA-TGTATCGATACATATGG
1 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATAGGG
* * ** *
406055 GTAAATTTGCCTACATGTATCGATACAAAGATTAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACA
406102 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 42 0.49
52 44 0.51
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATAGGG
Found at i:406108 original size:13 final size:13
Alignment explanation
Indices: 406090--406114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
406080 CAAAGATTAG
406090 TGTATCGATACAA
1 TGTATCGATACAA
406103 TGTATCGATACA
1 TGTATCGATACA
406115 TTGAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:406196 original size:13 final size:13
Alignment explanation
Indices: 406178--406202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
406168 AAAAAAAATA
406178 TGTATCGATACAT
1 TGTATCGATACAT
406191 TGTATCGATACA
1 TGTATCGATACA
406203 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:407092 original size:55 final size:52
Alignment explanation
Indices: 406992--407276 Score: 242
Period size: 43 Copynumber: 5.7 Consensus size: 52
406982 GAAAAGTGAT
* * * * * * **
406992 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
407046 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
407099 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
407142 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
407192 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
407239 CAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
407277 GGCTTAAAAG
Statistics
Matches: 197, Mismatches: 24, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
43 38 0.19
44 1 0.01
46 1 0.01
47 2 0.01
48 37 0.19
49 38 0.19
51 1 0.01
52 32 0.16
53 6 0.03
54 5 0.03
55 36 0.18
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:407137 original size:173 final size:167
Alignment explanation
Indices: 406816--407143 Score: 419
Period size: 173 Copynumber: 1.9 Consensus size: 167
406806 GATGAGGATA
*
406816 AAAAGTGATAAAAGGACCAATACGTTGATTCACGACCACAATATTGGGTTTAAAGATGAGAAAAA
1 AAAAGTGATAAAAGGACCAATACGTTGATTCACGACCACAATATTGGGCTTAAAGATGAGAAAAA
* * *
406881 GGATAAAATAGCCAATATGCGGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
66 GGATAAAATAGCCAATATGCGGCCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCTGAT
406946 TCAAGGCCAGCGATATTGGACTTAAGATGAAGATGAG
131 TCAAGGCCAGCGATATTGGACTTAAGATGAAGATGAG
* * * *
406983 AAAAGTGATAAAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAAGTGATAAA-AGGACCAATACGTTGATTCACGACC-ACAATATTGGGCTTAAAGATGAGAAA
** * ** *
407047 AAGGATGTCAATGTGCTGAT-T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAA
64 AAGGAT-AAAAT-AGCCAATATGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAA
*
407110 TATGCTGATTCAAGGCCAGCTATATTGGACTTAA
122 TATGCTGATTCAAGGCCAGCGATATTGGACTTAA
407144 AGGTGCCAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
167 31 0.23
168 33 0.24
169 4 0.03
170 25 0.18
173 44 0.32
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (167 bp):
AAAAGTGATAAAAGGACCAATACGTTGATTCACGACCACAATATTGGGCTTAAAGATGAGAAAAA
GGATAAAATAGCCAATATGCGGCCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAGATGAAGATGAG
Found at i:407160 original size:43 final size:44
Alignment explanation
Indices: 407098--407287 Score: 247
Period size: 43 Copynumber: 4.1 Consensus size: 44
407088 TTAAAGATGG
407098 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
407142 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
407185 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
407234 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 -AA---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
407282 AAAAGG
1 AAAAGG
407288 AGACGCCACC
Statistics
Matches: 127, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
43 40 0.31
44 6 0.05
45 1 0.01
46 1 0.01
47 2 0.02
48 37 0.29
49 35 0.28
50 2 0.02
51 1 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:407235 original size:92 final size:95
Alignment explanation
Indices: 407045--407284 Score: 333
Period size: 95 Copynumber: 2.5 Consensus size: 95
407035 AAAGATGAGA
* * *
407045 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG-AAAGATGCCAA
*
407110 TATGCTGATTCAAGGCCAGCTATATTGGACTT
64 TATGCTGATTCAAGGCCAGCGATATTGGACTT
*
407142 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGAT-G-AAGATGCCAATA
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGATGCCAATA
407204 TGCTGATTCAAGGCCAGCGATATTGGACTT
66 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
407234 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 -AA---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
407285 AGGAGACGCC
Statistics
Matches: 129, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
92 40 0.31
94 2 0.02
95 41 0.32
96 5 0.04
97 41 0.32
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (95 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAGATGCCAATA
TGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:407361 original size:28 final size:28
Alignment explanation
Indices: 407304--407427 Score: 135
Period size: 28 Copynumber: 4.3 Consensus size: 28
407294 CACCAACTTG
*
407304 TGTGGGCTTTTGAGAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTGA-AGG-TTGCCACT-GACT
* *
407333 TGTGTGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
407361 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
407389 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
407419 TGTGGGCTT
1 TGTGGGCTT
407428 AAAAAGAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.04
28 43 0.52
29 13 0.16
30 23 0.28
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:407412 original size:30 final size:30
Alignment explanation
Indices: 407330--407645 Score: 163
Period size: 30 Copynumber: 10.6 Consensus size: 30
407320 GTTTGCATCA
* * *
407330 ACTTGTGTGCTTTTG--AAGGTTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
407358 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
407386 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** * *
407416 ACTTGTGGGCTTAAAAAGAAAAAGAGTGCTA-TAG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACT-G
* * * * *
407450 AGTTGTGAG-TTTACAAAAGAAAAAAGAGTGCCACGG
1 ACTTGTGGGCTTT-----TG--AAAAGGGTGCCACTG
* * * * *
407486 AGTTGTGGACTTTGGAAAA-GATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
407515 AC-T-TGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
407543 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
***
407570 ACTTGTGGGCTTTTGAAAAAAATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
***
407600 ACTTGTGGGC-TTTGAAAAATATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
407629 ACTTGTGGACTTTTGAA
1 ACTTGTGGGCTTTTGAA
407646 GGGTGAGGAA
Statistics
Matches: 230, Mismatches: 35, Indels: 44
0.74 0.11 0.14
Matches are distributed among these distances:
27 33 0.14
28 53 0.23
29 38 0.17
30 59 0.26
32 1 0.00
33 4 0.02
34 17 0.07
35 2 0.01
36 20 0.09
37 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:407510 original size:29 final size:29
Alignment explanation
Indices: 407471--407641 Score: 161
Period size: 29 Copynumber: 5.9 Consensus size: 29
407461 TACAAAAGAA
* * *
407471 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
407501 AAAAGATGCCACCGAC-T-TGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
407528 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
407557 -AAGGTTGCCACTGACTTGTGGGCTTTTGA
1 AAAAGATGCCACTGACTTGTGGGC-TTTGG
* *
407586 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
407615 AAAATATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
407642 TGAAGGGTGA
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
27 30 0.25
28 15 0.13
29 40 0.34
30 33 0.28
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:407579 original size:57 final size:59
Alignment explanation
Indices: 407468--407636 Score: 166
Period size: 57 Copynumber: 2.9 Consensus size: 59
407458 GTTTACAAAA
* * * * * *
407468 GAAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGAC-T-TGGGCTTCG
1 GAAAAAA-A-TGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGGGCTTCG
*** * ** **
407527 GAAAAGGGTGCCACTGATTTGTGGGCTTTG-AAGGT-TGCCACTGACTTGTGGGCTTTT
1 GAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGGGCTTCG
407584 GAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGG
1 GAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGG
407637 ACTTTTGAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
55 9 0.10
56 3 0.03
57 52 0.59
58 3 0.03
59 21 0.24
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (59 bp):
GAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGGGCTTCG
Found at i:411028 original size:52 final size:52
Alignment explanation
Indices: 410943--411067 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
410933 ATATGAAAAG
* *
410943 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
410995 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
411047 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
411068 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:411080 original size:52 final size:51
Alignment explanation
Indices: 410943--411087 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
410933 ATATGAAAAG
*
410943 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
410995 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
411047 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
411088 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:411094 original size:13 final size:13
Alignment explanation
Indices: 411076--411100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
411066 CAAAGATCAG
411076 TGTATCGATACAA
1 TGTATCGATACAA
411089 TGTATCGATACA
1 TGTATCGATACA
411101 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:411183 original size:13 final size:13
Alignment explanation
Indices: 411165--411189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
411155 CAAAAAAATA
411165 TGTATCGATACAT
1 TGTATCGATACAT
411178 TGTATCGATACA
1 TGTATCGATACA
411190 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:411185 original size:33 final size:33
Alignment explanation
Indices: 411143--411209 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
411133 AGTAGCTTAA
411143 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
411176 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
411209 A
1 A
411210 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:412626 original size:1 final size:1
Alignment explanation
Indices: 412620--412718 Score: 90
Period size: 1 Copynumber: 99.0 Consensus size: 1
412610 CTTTTGTTTG
* * * * * * * *
412620 TTTTTTTTGTTTGTTTTTTTTGTTTTTTTTTGTTTTTGTTTTTGTTTTTTTTTGTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
412685 TTTGTTTTGTTTTGTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
412719 GTGGAGGACG
Statistics
Matches: 74, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:412636 original size:10 final size:10
Alignment explanation
Indices: 412616--412720 Score: 101
Period size: 10 Copynumber: 10.5 Consensus size: 10
412606 GACCCTTTTG
412616 TTTGTTT-TT
1 TTTGTTTGTT
412625 TTTGTTTGTT
1 TTTGTTTGTT
412635 TTT-TTTGTT
1 TTTGTTTGTT
*
412644 TTTTTTTGTT
1 TTTGTTTGTT
412654 TTTGTTTTTGTT
1 TTTG--TTTGTT
*
412666 TTTTTTTG-T
1 TTTGTTTGTT
*
412675 TTTGTTTTTT
1 TTTGTTTGTT
412685 TTTGTTT-TGT
1 TTTGTTTGT-T
*
412695 TTTGTTTTTTT
1 TTTG-TTTGTT
*
412706 TTTGTTTTTT
1 TTTGTTTGTT
412716 TTTGT
1 TTTGT
412721 GGAGGACGCC
Statistics
Matches: 84, Mismatches: 4, Indels: 15
0.82 0.04 0.15
Matches are distributed among these distances:
9 24 0.29
10 42 0.50
11 8 0.10
12 10 0.12
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTGTTTGTT
Found at i:412651 original size:36 final size:34
Alignment explanation
Indices: 412611--412720 Score: 152
Period size: 36 Copynumber: 3.2 Consensus size: 34
412601 ATCCGGACCC
412611 TTTTGTTTGTTTTTTTTGTTTGTTTTTTTTGTTTTT
1 TTTTGTTTGTTTTTTTTG-TT-TTTTTTTTGTTTTT
*
412647 TTTTGTTT-TTGTTTTTG-TTTTTTTTTGTTTTGT
1 TTTTGTTTGTTTTTTTTGTTTTTTTTTTGTTTT-T
*
412680 TTTTTTTTGTTTTGTTTTGTTTTTTTTTTGTTTTT
1 TTTTGTTTGTTTT-TTTTGTTTTTTTTTTGTTTTT
412715 TTTTGT
1 TTTTGT
412721 GGAGGACGCC
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.20
33 9 0.14
34 3 0.05
35 19 0.29
36 22 0.33
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (34 bp):
TTTTGTTTGTTTTTTTTGTTTTTTTTTTGTTTTT
Found at i:412664 original size:31 final size:31
Alignment explanation
Indices: 412611--412720 Score: 127
Period size: 32 Copynumber: 3.5 Consensus size: 31
412601 ATCCGGACCC
* *
412611 TTTTGTTTGTTTTTTTTGTTTGTTTTTTTTGT
1 TTTTTTTTGTTTTTGTT-TTTGTTTTTTTTGT
412643 TTTTTTTTGTTTTTGTTTTTGTTTTTTTTTGT
1 TTTTTTTTGTTTTTGTTTTTG-TTTTTTTTGT
*
412675 TTTGTTTT-TTTTTG-TTTTGTTTTGTTTT-T
1 TTTTTTTTGTTTTTGTTTTTGTTTT-TTTTGT
*
412704 TTTTTGTTTTTTTTTGT
1 TTTTT-TTTGTTTTTGT
412721 GGAGGACGCC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
29 9 0.13
30 12 0.17
31 16 0.23
32 32 0.46
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (31 bp):
TTTTTTTTGTTTTTGTTTTTGTTTTTTTTGT
Found at i:412679 original size:46 final size:46
Alignment explanation
Indices: 412611--412720 Score: 156
Period size: 46 Copynumber: 2.4 Consensus size: 46
412601 ATCCGGACCC
* *
412611 TTTTGTTTGTTTT-TTTTGTTTGT-TTTTTTTGT-TTTT-TTTTGTT
1 TTTTTTTTGTTTTTTTTTGTTT-TGTTTTTTTTTGTTTTGTTTTGTT
412654 TTTGTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTGTTTTGTTTTGTT
1 TTT-TTTTTGTTTTTTTTTGTTTTGTTTTTTTTTGTTTTGTTTTGTT
412701 TTTTTTTTGTTTTTTTTTGT
1 TTTTTTTTGTTTTTTTTTGT
412721 GGAGGACGCC
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
43 3 0.05
44 10 0.17
45 16 0.27
46 21 0.35
47 10 0.17
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (46 bp):
TTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTGTTTTGTTTTGTT
Found at i:426567 original size:52 final size:51
Alignment explanation
Indices: 426489--426637 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
426479 CGAAATATGA
426489 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* *
426541 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
**
426593 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
426638 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:426644 original size:13 final size:13
Alignment explanation
Indices: 426626--426650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
426616 CAAAGATCAG
426626 TGTATCGATACAA
1 TGTATCGATACAA
426639 TGTATCGATACA
1 TGTATCGATACA
426651 TTGAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:426730 original size:13 final size:13
Alignment explanation
Indices: 426712--426736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
426702 ACAAAAAAAA
426712 TGTATCGATACAT
1 TGTATCGATACAT
426725 TGTATCGATACA
1 TGTATCGATACA
426737 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:428713 original size:24 final size:25
Alignment explanation
Indices: 428681--428727 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
428671 ATGTAGCCAC
*
428681 CATGGCTTTCTTCTTT-AGTTTGCT
1 CATGCCTTTCTTCTTTAAGTTTGCT
428705 CATGCCTTTCTTCTTTAAGTTTG
1 CATGCCTTTCTTCTTTAAGTTTG
428728 GACAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.11, C:0.21, G:0.15, T:0.53
Consensus pattern (25 bp):
CATGCCTTTCTTCTTTAAGTTTGCT
Found at i:432659 original size:21 final size:21
Alignment explanation
Indices: 432635--432685 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
432625 CTACAATTTG
432635 TATCGATACAACAAGTGAATA
1 TATCGATACAACAAGTGAATA
* * *
432656 TATCGATAC-ATAAGTGCATG
1 TATCGATACAACAAGTGAATA
432676 TATCGATACA
1 TATCGATACA
432686 TGTTTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACAACAAGTGAATA
Found at i:432679 original size:20 final size:20
Alignment explanation
Indices: 432633--432706 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
432623 TTCTACAATT
*
432633 TGTATCGATACAACAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
* *
432654 TATATCGATACATAAGTGCA
1 TGTATCGATACATAAGTGAA
***
432674 TGTATCGATACATGTTTGAAA
1 TGTATCGATACATAAGTG-AA
432695 TGTATCGATACA
1 TGTATCGATACA
432707 GGATCATGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.48
21 23 0.52
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:434755 original size:22 final size:21
Alignment explanation
Indices: 434706--434758 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
434696 CCTGCTAGAT
434706 AATTTT-TTCAAAATTTTCAA
1 AATTTTCTTCAAAATTTTCAA
434726 ACATTTTTCTTC-AAATTTTCATGA
1 A-A-TTTTCTTCAAAATTTTCA--A
434750 AATTTTCTT
1 AATTTTCTT
434759 GCGAAAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 20 0.71
23 4 0.14
24 2 0.07
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTTTCTTCAAAATTTTCAA
Found at i:435232 original size:97 final size:97
Alignment explanation
Indices: 435122--435303 Score: 217
Period size: 97 Copynumber: 1.9 Consensus size: 97
435112 TGGGGAAACC
* *
435122 CCAACACCATTC-TTCCA-AAGGAATACTTCGA-CTCTGTTTTTAAACTTGTTAAGATTTAAATT
1 CCAACACCATTCTTTCCAGAA--AATACTTCAACCT-TGTTTTTAAACTTGTTAAGATTTAAATC
435184 TTATTCTCACCTAAATTGTCATCGCCAGGGACACT
63 TTATTCTCACCTAAATTGTCATCGCCAGGGACACT
* * * * ** *
435219 CCAACCCCATTCTTTCGAGAAAATACTTTAACCTTTTTTTTTTACTTGTTACGATTTAAATCTTA
1 CCAACACCATTCTTTCCAGAAAATACTTCAACCTTGTTTTTAAACTTGTTAAGATTTAAATCTTA
* *
435284 TTTTCGCCTAAATTGTCATC
66 TTCTCACCTAAATTGTCATC
435304 ATCGAGGATA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 63 0.89
98 6 0.08
99 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (97 bp):
CCAACACCATTCTTTCCAGAAAATACTTCAACCTTGTTTTTAAACTTGTTAAGATTTAAATCTTA
TTCTCACCTAAATTGTCATCGCCAGGGACACT
Found at i:437848 original size:18 final size:18
Alignment explanation
Indices: 437818--437879 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
437808 TCAAGTACAT
*
437818 TTAAAATATTTAATATAA
1 TTAAAATAATTAATATAA
*
437836 TTATAATAATTAATA-ATA
1 TTAAAATAATTAATATA-A
* *
437854 TTAAAATAATAAATATTA
1 TTAAAATAATTAATATAA
437872 TTAAAATA
1 TTAAAATA
437880 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAATAATTAATATAA
Found at i:437891 original size:16 final size:16
Alignment explanation
Indices: 437867--437927 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
437857 AAATAATAAA
*
437867 TATTATTAAAATATTT
1 TATTTTTAAAATATTT
437883 TATTTTT-AAATA---
1 TATTTTTAAAATATTT
*
437895 CATTTATTAAAATATTAT
1 TATTT-TTAAAATATT-T
437913 TA-TTTTAAAATATTT
1 TATTTTTAAAATATTT
437928 ATTAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
12 4 0.11
13 2 0.06
14 5 0.14
15 6 0.17
16 16 0.44
17 2 0.06
18 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTAAAATATTT
Found at i:437902 original size:29 final size:28
Alignment explanation
Indices: 437869--437941 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 28
437859 ATAATAAATA
437869 TTATTAAAATATT-TTATTTTTAAATACAT
1 TTATTAAAATATTATTA-TTTTAAA-ACAT
*
437898 TTATTAAAATATTATTATTTTAAAATAT
1 TTATTAAAATATTATTATTTTAAAACAT
437926 TTATTAAAATATTATT
1 TTATTAAAATATTATT
437942 TAAATATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 19 0.45
29 20 0.48
30 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATTAAAATATTATTATTTTAAAACAT
Found at i:437927 original size:40 final size:39
Alignment explanation
Indices: 437883--437973 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
437873 TAAAATATTT
437883 TATTT-TTAAATACATTTATTAAAATA-TTATTATTTTAAAA
1 TATTTATTAAA-ACA-TTATTAAAATATTTA-TATTTTAAAA
* * *
437923 TATTTATTAAAATATTATTTAAATATTTATATTTTTAAA
1 TATTTATTAAAACATTATTAAAATATTTATATTTTAAAA
*
437962 TATACTATTAAA
1 TAT-TTATTAAA
437974 TATTATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
39 22 0.50
40 17 0.39
41 5 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (39 bp):
TATTTATTAAAACATTATTAAAATATTTATATTTTAAAA
Found at i:437936 original size:28 final size:29
Alignment explanation
Indices: 437864--437941 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
437854 TTAAAATAAT
437864 AAATA-TTATTAAAATATT-TTATTTTTA
1 AAATATTTATTAAAATATTATTATTTTTA
*
437891 AATACATTTATTAAAATATTATTA-TTTTA
1 AA-ATATTTATTAAAATATTATTATTTTTA
437920 AAATATTTATTAAAATATTATT
1 AAATATTTATTAAAATATTATT
437942 TAAATATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
27 2 0.04
28 21 0.46
29 20 0.43
30 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATATTTATTAAAATATTATTATTTTTA
Found at i:437960 original size:28 final size:29
Alignment explanation
Indices: 437922--437977 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
437912 TTATTTTAAA
*
437922 ATATTTATTAAA-ATATTATTTAAATATTT
1 ATATTTATTAAATATACTA-TTAAATATTT
437951 ATATTT-TTAAATATACTATTAAATATT
1 ATATTTATTAAATATACTATTAAATATT
437978 ATTTTAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
ATATTTATTAAATATACTATTAAATATTT
Found at i:437965 original size:12 final size:12
Alignment explanation
Indices: 437883--438149 Score: 68
Period size: 12 Copynumber: 21.8 Consensus size: 12
437873 TAAAATATTT
437883 TATTTTTAAATA
1 TATTTTTAAATA
*
437895 CATTTATTAAAATA
1 TATTT-TT-AAATA
437909 TTATTATTTTAAA-A
1 -TA-T-TTTTAAATA
437923 TATTTATTAAA-A
1 TATTT-TTAAATA
437935 TATTATTTAAATATTTA
1 TATT-TTT-AA-A--TA
437952 TATTTTTAAATA
1 TATTTTTAAATA
* *
437964 TACTATTAAATA
1 TATTTTTAAATA
*
437976 T-TATTTT-AACA
1 TAT-TTTTAAATA
*
437987 T-TTATT--ATA
1 TATTTTTAAATA
* *
437996 TATTATTAAAAA
1 TATTTTTAAATA
* *
438008 TAATATT-AATA
1 TATTTTTAAATA
438019 T-TTTATTAAATA
1 TATTT-TTAAATA
*
438031 TTATTATTAAA-A
1 -TATTTTTAAATA
438043 TA-TTTT-AAT-
1 TATTTTTAAATA
438052 T-TTTTTAAATA
1 TATTTTTAAATA
* *
438063 CTATTATGAAA-A
1 -TATTTTTAAATA
438075 TATTTTT-AATA
1 TATTTTTAAATA
438086 TATTATTTAATATTGTA
1 TATT-TTTAA-A---TA
438103 TATATTATTAAATA
1 TAT-TT-TTAAATA
*
438117 GTATTATTAAA-A
1 -TATTTTTAAATA
438129 TA-TTTT-AATA
1 TATTTTTAAATA
438139 TATTATTTAAA
1 TATT-TTTAAA
438150 CAGATTTGAA
Statistics
Matches: 193, Mismatches: 22, Indels: 79
0.66 0.07 0.27
Matches are distributed among these distances:
9 12 0.06
10 23 0.12
11 28 0.15
12 55 0.28
13 27 0.14
14 14 0.07
15 9 0.05
16 6 0.03
17 14 0.07
18 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:437984 original size:40 final size:40
Alignment explanation
Indices: 437904--438032 Score: 115
Period size: 39 Copynumber: 3.2 Consensus size: 40
437894 ACATTTATTA
* *
437904 AAATA-TTATTATTTTAAAATAT-TTATTAAAATATTA-TTT
1 AAATATTTA-TATTTTTAAATATAATATT-AAATATTATTTT
*
437943 AAATATTTATATTTTTAAATATACTATTAAATATTATTTT
1 AAATATTTATATTTTTAAATATAATATTAAATATTATTTT
* *
437983 AACATTTATTATATATTATTAAAAATAATATT-AATATT-TTATT
1 AA-A--TATT-TATATTTTTAAATATAATATTAAATATTATT-TT
438026 AAATATT
1 AAATATT
438033 ATTATTAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 15
0.79 0.05 0.15
Matches are distributed among these distances:
39 25 0.32
40 16 0.21
41 1 0.01
42 3 0.04
43 14 0.18
44 18 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (40 bp):
AAATATTTATATTTTTAAATATAATATTAAATATTATTTT
Found at i:438054 original size:32 final size:32
Alignment explanation
Indices: 437925--438099 Score: 123
Period size: 33 Copynumber: 5.4 Consensus size: 32
437915 TTTTAAAATA
*
437925 TTTATTAAA-A-TATTATTTAAATA-TTT-AT
1 TTTATTAAATATTATTATTAAAATATTTTAAT
* *
437953 ATTT-TTAAATA-TACTATTAAATATTATTTTAACA
1 -TTTATTAAATATTATTATTAAA-A-TATTTTAA-T
* *
437987 TTTATTATATATTATTA--AAAATAATATTAATAT
1 TTTATTAAATATTATTATTAAAAT-AT-TTTA-AT
438020 TTTATTAAATATTATTATTAAAATATTTTAAT
1 TTTATTAAATATTATTATTAAAATATTTTAAT
* * *
438052 TTTTTTAAATACTATTATGAAAATATTTTTAAT
1 TTTATTAAATATTATTATTAAAATA-TTTTAAT
*
438085 ATATTATTTAATATT
1 -T-TTATTAAATATT
438100 GTATATATTA
Statistics
Matches: 115, Mismatches: 15, Indels: 26
0.74 0.10 0.17
Matches are distributed among these distances:
28 5 0.04
29 12 0.10
30 1 0.01
31 3 0.03
32 30 0.26
33 36 0.31
34 10 0.09
35 18 0.16
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (32 bp):
TTTATTAAATATTATTATTAAAATATTTTAAT
Found at i:438084 original size:67 final size:65
Alignment explanation
Indices: 437957--438099 Score: 146
Period size: 67 Copynumber: 2.1 Consensus size: 65
437947 ATTTATATTT
* * * * * *
437957 TTAAATA-TACTATTAAATATTATTTTAACATTTATTATATATTATTA-AAAATAATATTAATAT
1 TTAAATATTATTATTAAA-A-TATTTTAA-TTTTTTTAAATA-TATTATAAAATATTTTTAATAT
438020 TTTA
62 TTTA
*
438024 TTAAATATTATTATTAAAATATTTTAATTTTTTTAAATACTATTATGAAAATATTTTTAATATAT
1 TTAAATATTATTATTAAAATATTTTAATTTTTTTAAATA-TATTAT-AAAATATTTTTAATATTT
438089 TA
64 TA
*
438091 TTTAATATT
1 TTAAATATT
438100 GTATATATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
65 14 0.22
66 8 0.12
67 33 0.52
68 9 0.14
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (65 bp):
TTAAATATTATTATTAAAATATTTTAATTTTTTTAAATATATTATAAAATATTTTTAATATTTTA
Found at i:438107 original size:19 final size:18
Alignment explanation
Indices: 438083--438145 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
438073 AATATTTTTA
438083 ATATATTATTTAATATTGT
1 ATATATTA-TTAATATTGT
*
438102 ATATATTATTAA-ATAGT
1 ATATATTATTAATATTGT
* *
438119 AT-TATTA-AAATATTTT
1 ATATATTATTAATATTGT
438135 AATATATTATT
1 -ATATATTATT
438146 TAAACAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
17 8 0.23
18 9 0.26
19 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATATATTATTAATATTGT
Found at i:438112 original size:97 final size:98
Alignment explanation
Indices: 437920--438132 Score: 215
Period size: 97 Copynumber: 2.2 Consensus size: 98
437910 TATTATTTTA
* *
437920 AAATA-TTTATTAAA-A-TATTATTTAAATATTTATATTTTTAAATATACTATTAAATATTATTT
1 AAATATTTTATTAAATATTATTATTAAAATATTTATATTTTTAAATATACTATGAAATATTATTT
* *
437982 TAACATTTATTATATATTATTAAAAATAATATT
66 TAACATATATTATATAATATTAAAAATAATATT
* *
438015 -AATATTTTATTAAATATTATTATTAAAATATTTTAATTTTTTTAAATACTATTATGAAA-A-TA
1 AAATATTTTATTAAATATTATTATTAAAATA-TTT-ATATTTTTAAATA-TACTATGAAATATTA
* * ** * *
438077 TTTTTA-ATATATTATTTAATATTGTATATATTATT
63 TTTTAACATATATTATATAATATTAAAAATAATATT
*
438112 AAATAGTATTATTAAAATATT
1 AAATA-TTTTATT-AAATATT
438133 TTAATATATT
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
94 4 0.04
95 9 0.09
96 1 0.01
97 34 0.35
98 14 0.15
99 19 0.20
100 15 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (98 bp):
AAATATTTTATTAAATATTATTATTAAAATATTTATATTTTTAAATATACTATGAAATATTATTT
TAACATATATTATATAATATTAAAAATAATATT
Done.