Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 21 of 25
Found at i:3203706 original size:52 final size:52
Alignment explanation
Indices: 3203621--3203745 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
3203611 ATATGAAAAG
* *
3203621 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3203673 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
3203725 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3203746 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:3203858 original size:13 final size:13
Alignment explanation
Indices: 3203840--3203864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3203830 ACAAAAAATA
3203840 TGTATCGATACAT
1 TGTATCGATACAT
3203853 TGTATCGATACA
1 TGTATCGATACA
3203865 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:3203860 original size:32 final size:33
Alignment explanation
Indices: 3203819--3203884 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
3203809 AGTAGCTTAA
3203819 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
3203851 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
3203884 A
1 A
3203885 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:3207679 original size:7 final size:8
Alignment explanation
Indices: 3207664--3207716 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
3207654 TTGATTTTTT
3207664 AAATAAAA
1 AAATAAAA
3207672 AAATAAAA
1 AAATAAAA
*
3207680 AAAT-AAT
1 AAATAAAA
3207687 AAATAAAA
1 AAATAAAA
*
3207695 AATTAATAAA
1 AAAT-A-AAA
*
3207705 AAATCAAA
1 AAATAAAA
3207713 AAAT
1 AAAT
3207717 TTTATCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
7 6 0.16
8 24 0.65
9 1 0.03
10 6 0.16
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:3207692 original size:15 final size:15
Alignment explanation
Indices: 3207672--3207704 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3207662 TTAAATAAAA
3207672 AAATAAAAAAATAAT
1 AAATAAAAAAATAAT
*
3207687 AAATAAAAAATTAAT
1 AAATAAAAAAATAAT
3207702 AAA
1 AAA
3207705 AAATCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:3207708 original size:11 final size:11
Alignment explanation
Indices: 3207665--3207708 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
3207655 TGATTTTTTA
*
3207665 AATAAAAAAAT
1 AATAAAAAATT
* *
3207676 AAAAAAATAATA
1 AATAAAA-AATT
3207688 AATAAAAAATT
1 AATAAAAAATT
3207699 AATAAAAAAT
1 AATAAAAAAT
3207709 CAAAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AATAAAAAATT
Found at i:3208321 original size:64 final size:64
Alignment explanation
Indices: 3208216--3208344 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
3208206 AGCTTCCATT
* *
3208216 AACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACTCCGGTAGTAGCTCTAGC
1 AACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCGGTAGTAGCTCCAGC
* * * *
3208280 AACGACAGCATCCACCAATAGCAGCAGCATCTTCCAGCCCACAAACACTGGTAGTAGCTCCAGC
1 AACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCGGTAGTAGCTCCAGC
3208344 A
1 A
3208345 GCTTCTAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.34, C:0.36, G:0.16, T:0.14
Consensus pattern (64 bp):
AACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCGGTAGTAGCTCCAGC
Found at i:3208395 original size:74 final size:74
Alignment explanation
Indices: 3208274--3208471 Score: 200
Period size: 74 Copynumber: 2.7 Consensus size: 74
3208264 CGGTAGTAGC
* * * * * * *
3208274 TCTAGCAACGACAGCATCCACCAATAGCAGCAGCATCTTCCAGCCCACAAACACTGGTAGTAGCT
1 TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCGGCAGCAGCT
*
3208339 CCAGCAGCT
66 CCAGCAACT
* * *
3208348 TCTAGTAATGACAACATCCACCAATAATAGCAGCAGCTTCCAGCCCACGAACACCGGCAGCAGCT
1 TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCGGCAGCAGCT
*
3208413 TCAGCAACT
66 CCAGCAACT
* * * * * ** *
3208422 TCCAGTAGCGAGAGCATCCACCAA-AAGAAATAGTAGCTTCCAGCCCACAA
1 TCTAGTAACGACAACATCCACCAATAA-CAGCAGCAGCTTCCAGCCCACAA
3208472 GCACTTCAGT
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
73 2 0.02
74 99 0.98
ACGTcount: A:0.34, C:0.33, G:0.17, T:0.16
Consensus pattern (74 bp):
TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCGGCAGCAGCT
CCAGCAACT
Found at i:3211281 original size:17 final size:17
Alignment explanation
Indices: 3211259--3211294 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3211249 AATTCGAGAA
3211259 CCGACTAGAGGTTTGAC
1 CCGACTAGAGGTTTGAC
3211276 CCGACTAGAGGTTTGAC
1 CCGACTAGAGGTTTGAC
3211293 CC
1 CC
3211295 TAACTGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (17 bp):
CCGACTAGAGGTTTGAC
Found at i:3215751 original size:19 final size:20
Alignment explanation
Indices: 3215710--3215757 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
3215700 AAGCTAATGC
*
3215710 ATCGATACATTTTGGGATGT
1 ATCGATACATATTGGGATGT
*
3215730 ATCGATACATATTGTG-TGT
1 ATCGATACATATTGGGATGT
3215749 ATCGATACA
1 ATCGATACA
3215758 AACAGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATCGATACATATTGGGATGT
Found at i:3215849 original size:20 final size:21
Alignment explanation
Indices: 3215799--3215850 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
3215789 GCCAATGACC
*
3215799 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
* *
3215820 AGTATTGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
3215840 TGTATCGATAC
1 TGTATCGATAC
3215851 TGTGCAATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:3215883 original size:20 final size:20
Alignment explanation
Indices: 3215860--3215900 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3215850 CTGTGCAATC
*
3215860 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
3215880 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
3215900 T
1 T
3215901 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:3216433 original size:22 final size:22
Alignment explanation
Indices: 3216406--3216450 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
3216396 TTTTCTTTTC
3216406 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
3216428 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
3216450 T
1 T
3216451 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:3217855 original size:21 final size:21
Alignment explanation
Indices: 3217824--3217875 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
3217814 GCTGCTAGTG
**
3217824 TGGGGGCTGCCCGGTTGCGACT
1 TGGGGG-TGCCCGGACGCGACT
3217846 TGGGGGTG-CCGGACGCGACT
1 TGGGGGTGCCCGGACGCGACT
3217866 TGGTGGGTGC
1 TGG-GGGTGC
3217876 TATCCAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.23, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGACGCGACT
Found at i:3218332 original size:13 final size:13
Alignment explanation
Indices: 3218311--3218359 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
3218301 AAACCCTTTG
3218311 TATCGATACACTA
1 TATCGATACACTA
* * *
3218324 TATCTATACAATG
1 TATCGATACACTA
*
3218337 TATCGATACACTG
1 TATCGATACACTA
*
3218350 CATCGATACA
1 TATCGATACA
3218360 ACTTATCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:3218366 original size:26 final size:26
Alignment explanation
Indices: 3218309--3218360 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3218299 ATAAACCCTT
* *
3218309 TGTATCGATACACTATATCTATACAA
1 TGTATCGATACACTACATCGATACAA
*
3218335 TGTATCGATACACTGCATCGATACAA
1 TGTATCGATACACTACATCGATACAA
3218361 CTTATCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (26 bp):
TGTATCGATACACTACATCGATACAA
Found at i:3222588 original size:13 final size:13
Alignment explanation
Indices: 3222570--3222595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3222560 AATTTTTTTG
3222570 TGTATCGATACAT
1 TGTATCGATACAT
3222583 TGTATCGATACAT
1 TGTATCGATACAT
3222596 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:3223283 original size:39 final size:39
Alignment explanation
Indices: 3223227--3223330 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 39
3223217 TTTTATTTCT
*
3223227 CCCTTAATCAAAATAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAAT-AAAGTAATTTTAACAAATTCGTACATTCTCC
3223267 CCCTTAATAAAGTAATTCACGCATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATAAAG----T-A---ATTTTAACAAATTCGTACATTCTCC
3223314 CCCTTAATAAAGTAATT
1 CCCTTAATAAAGTAATT
3223331 CATATCAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
39 6 0.11
40 8 0.15
42 1 0.02
43 2 0.04
44 1 0.02
47 37 0.67
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (39 bp):
CCCTTAATAAAGTAATTTTAACAAATTCGTACATTCTCC
Found at i:3223293 original size:47 final size:47
Alignment explanation
Indices: 3223242--3223332 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
3223232 AATCAAAATA
3223242 ATTTTAACAAATTCGTACATTCTCCCCCTTAATAAAGTAATTCACGC
1 ATTTTAACAAATTCGTACATTCTCCCCCTTAATAAAGTAATTCACGC
3223289 ATTTTAACAAATTCGTACATTCTCCCCCTTAATAAAGTAATTCA
1 ATTTTAACAAATTCGTACATTCTCCCCCTTAATAAAGTAATTCA
3223333 TATCAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (47 bp):
ATTTTAACAAATTCGTACATTCTCCCCCTTAATAAAGTAATTCACGC
Found at i:3223320 original size:25 final size:25
Alignment explanation
Indices: 3223245--3223320 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
3223235 CAAAATAATT
3223245 TTAACAAATTCGTACATTCTCCCCC
1 TTAACAAATTCGTACATTCTCCCCC
* * ***
3223270 TTAATAAA---GTA-ATTCACGCATT
1 TTAACAAATTCGTACATTCTC-CCCC
3223292 TTAACAAATTCGTACATTCTCCCCC
1 TTAACAAATTCGTACATTCTCCCCC
3223317 TTAA
1 TTAA
3223321 TAAAGTAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
25 15 0.42
26 5 0.14
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
TTAACAAATTCGTACATTCTCCCCC
Found at i:3234443 original size:19 final size:20
Alignment explanation
Indices: 3234398--3234449 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3234388 TTACAAGCTA
*
3234398 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
3234418 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
3234438 -TGTATCGATACA
1 ATGTATCGATACA
3234450 AACGGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:3244218 original size:20 final size:20
Alignment explanation
Indices: 3244193--3244286 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
3244183 TTTTAACAAG
3244193 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
3244213 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
3244233 ATGTATTGATACATTCATAC
1 ATGTATCGATACATTGAAAA
3244253 ATGTATCGATACATT-AAAGA
1 ATGTATCGATACATTGAAA-A
*
3244273 ATGTATCAATACAT
1 ATGTATCGATACAT
3244287 CTAGGTAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 2 0.03
20 61 0.97
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:3244237 original size:40 final size:40
Alignment explanation
Indices: 3244193--3244286 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
3244183 TTTTAACAAG
* *
3244193 ATGTATCGATACATTGAAAAATGTATCGATACATTGAAGA
1 ATGTATCGATACATTCAAAAATGTATCGATACATTAAAGA
* * *
3244233 ATGTATTGATACATTCATACATGTATCGATACATTAAAGA
1 ATGTATCGATACATTCAAAAATGTATCGATACATTAAAGA
*
3244273 ATGTATCAATACAT
1 ATGTATCGATACAT
3244287 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (40 bp):
ATGTATCGATACATTCAAAAATGTATCGATACATTAAAGA
Found at i:3245296 original size:28 final size:29
Alignment explanation
Indices: 3245239--3245734 Score: 647
Period size: 28 Copynumber: 17.5 Consensus size: 29
3245229 CATTAACTTG
* *
3245239 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245268 TCTGGGCTTTG-AAGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245296 TGCGGGCTTTGAAAGG-GTACCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245324 TGTGGGCTTTGAAAGGA-TGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245352 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245381 TGTGGGCTTTGAAAGG-GTGCCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245409 TGTGGGCTTTGGAAGGA-TGCCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
3245437 TGTGGACTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
3245466 TATGCGCATTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245494 TGTGGGCTTTGGAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245523 TGTGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
3245551 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245579 TGTGGGCTTTGAAAAGAGTGCCACGGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
3245608 TGTGAGCTTTGAAAGGA-TGCCATTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245636 TGTGGGCTTTGAAAAGAGTACCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
3245665 TGTGGGCTTTGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
3245693 TGTGGGCTTTGAAATGA-TGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
3245721 TGTGGGCTTT-AAAG
1 TGTGGGCTTTGAAAG
3245735 AGATGAACGT
Statistics
Matches: 408, Mismatches: 50, Indels: 20
0.85 0.10 0.04
Matches are distributed among these distances:
27 3 0.01
28 269 0.66
29 136 0.33
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACT
Found at i:3245382 original size:85 final size:86
Alignment explanation
Indices: 3245239--3245734 Score: 684
Period size: 85 Copynumber: 5.8 Consensus size: 86
3245229 CATTAACTTG
* * * * *
3245239 TGTGGGCTTTGAAAAGAGTGCCATTGACTTCTGGGCTTTG-AAGGAGTGCCACTAACTTGCGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
*
3245303 TTTGAAAGGGTACCACTGACT
66 TTTGAAAGGGTGCCACTGACT
* *
3245324 TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
*
3245388 TTTGAAAGGGTGCCATTGACT
66 TTTGAAAGGGTGCCACTGACT
* * * * *
3245409 TGTGGGCTTTGGAAGGA-TGCCATTGACTTGTGGACTTTGAAAAGAGTGCCACTAACTTATGCGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
* *
3245473 ATTGAAAGAGTGCCACTGACT
66 TTTGAAAGGGTGCCACTGACT
* *
3245494 TGTGGGCTTTGGAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
3245558 TTTGAAAGGGTGCCACTGACT
66 TTTGAAAGGGTGCCACTGACT
* * * * *
3245579 TGTGGGCTTTGAAAAGAGTGCCACGGACTTGTGAGCTTTGAAAGGA-TGCCATTAACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
* *
3245643 TTTGAAAAGAGTACCACTGACT
66 TTTG-AAAGGGTGCCACTGACT
* *
3245665 TGTGGGCTTTGAAAGG-GTGCCACTAACTTGTGGGCTTTGAAATGA-TGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
3245728 TTT-AAAG
66 TTTGAAAG
3245735 AGATGAACGT
Statistics
Matches: 366, Mismatches: 41, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
83 4 0.01
84 19 0.05
85 290 0.79
86 53 0.14
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
TTTGAAAGGGTGCCACTGACT
Found at i:3245487 original size:142 final size:142
Alignment explanation
Indices: 3245239--3245730 Score: 693
Period size: 142 Copynumber: 3.5 Consensus size: 142
3245229 CATTAACTTG
* * * * *
3245239 TGTGGGCTTTGAAAAGAGTGCCATTGACTTCTGGGCTTTG-AAGGAGTGCCACTAACTTGCGGGC
1 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGC
* * *
3245303 TTTG-AAAGGGTACCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAA
64 TTTGAAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAA
3245367 GAGTGCCACTGACT
129 GAGTGCCACTGACT
* * * * * *
3245381 TGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGGAAGGATGCCATTGACTTGTGGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* * * * * * *
3245446 TGAAAAGAGTGCCACTAACTTATGCGCATTGAAA-GAGTGCCACTGACTTGTGGGCTTTGGAAGG
66 TGAAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAG
3245510 AGTGCCACTGACT
130 AGTGCCACTGACT
* *
3245523 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* *
3245588 TGAAAAGAGTGCCACGGACTTGTGAGCTTTGAAAGGATGCCATTAACTTGTGGGCTTTGAAAAGA
66 TGAAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
*
3245653 GTACCACTGACT
131 GTGCCACTGACT
*
3245665 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
3245730 T
66 T
3245731 AAAGAGATGA
Statistics
Matches: 312, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
141 46 0.15
142 264 0.85
143 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (142 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
TGAAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
GTGCCACTGACT
Found at i:3249948 original size:52 final size:52
Alignment explanation
Indices: 3249870--3250018 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 52
3249860 CGAAATATGA
*
3249870 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
*
3249922 AAATTTGCCTGTATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
* * *
3249974 AAATTTGTCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTACAT-AGTGTATCGATACA
3250019 ATGTATCAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 3 0.03
52 87 0.97
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
Found at i:3250108 original size:19 final size:19
Alignment explanation
Indices: 3250084--3250148 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
3250074 AGCGATACAT
3250084 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3250103 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
3250116 TGTATCGATA-AAACACTTA
1 TGTATCGATACAAA-ACTTA
3250135 TGTATCGATACAAA
1 TGTATCGATACAAA
3250149 TCGTTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 2 0.05
18 1 0.03
19 21 0.55
20 3 0.08
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3250117 original size:32 final size:32
Alignment explanation
Indices: 3250076--3250146 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
3250066 AGCTTCGTAG
3250076 CGATACATTGTATCGATACAAA-ACTTATGTAT
1 CGATACATTGTATCGATA-AAACACTTATGTAT
3250108 CGATACATTGTATCGATAAAACACTTATGTAT
1 CGATACATTGTATCGATAAAACACTTATGTAT
3250140 CGATACA
1 CGATACA
3250147 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATAAAACACTTATGTAT
Found at i:3251023 original size:49 final size:49
Alignment explanation
Indices: 3250936--3251736 Score: 784
Period size: 49 Copynumber: 16.8 Consensus size: 49
3250926 AGAAGTAGGC
* * *
3250936 GCCAATATGCTGATTTAAGGCCAGTGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * * * * *
3250985 GCCAATGTGCTGATTCAAGGCTAGCGACAATAGTCTTAAAGATGACAAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAGGT
* *
3251036 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
1 -GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGT
* * * *
3251089 ACCAATATGCTGATTCAAGCCCAGCGATATTGGACTTAAAAATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* *
3251138 GCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* *
3251187 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGT
*
3251239 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * * **
3251282 GCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* *
3251331 GCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * ** *
3251374 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* *
3251423 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * * * *
3251466 GCCAATGTGCTGATTCATGGCCAACGACATTGGTCTGAAAGATG-AGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* *
3251514 GCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * * * *
3251557 GCCAATGTGTTGATTCAAGGTCAGTGACATTGGTCTTAAAGAT-AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * *
3251605 GCCAATATGCTGATTTAAGGCCAGTGATATTGGACTT----A--AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * * **
3251648 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAAAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
* * *
3251697 ACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
3251737 AGAAGATGCC
Statistics
Matches: 628, Mismatches: 87, Indels: 74
0.80 0.11 0.09
Matches are distributed among these distances:
43 182 0.29
44 2 0.00
45 2 0.00
47 5 0.01
48 71 0.11
49 240 0.38
51 4 0.01
52 119 0.19
53 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT
Found at i:3251053 original size:52 final size:49
Alignment explanation
Indices: 3250836--3251736 Score: 753
Period size: 49 Copynumber: 18.8 Consensus size: 49
3250826 AAAAGGATGT
* * * * * *
3250836 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGAAG-AA-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * * **
3250883 CAATGTGTTGATTCAAGGCCAACGACAATGGGTTTTGAAA-ATGAGAAGTAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGAC-ATTGGACTT-AAAGATGA-AAGT----GC
* * * *
3250938 CAATATGCTGATTTAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * * *
3250987 CAATGTGCTGATTCAAGGCTAGCGACAATAGTCTTAAAGATGACAAAGTCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGT-GC
*
3251039 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAG-GCAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGTG--C
* * * *
3251091 CAATATGCTGATTCAAGCCCAGCGATATTGGACTTAAAAATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * *
3251140 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* *
3251189 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-A-AA-GTGC
*
3251241 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G---GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * *
3251284 TAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA-GTGC
* *
3251333 TAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G---GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * **
3251376 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* *
3251425 CAATATGCTGATTCAAGGCCAACGATATTGGACTT-AA-A-G---GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * * * *
3251468 CAATGTGCTGATTCATGGCCAACGACATTGGTCTGAAAGATG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* *
3251516 CAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-G---GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * * * *
3251559 CAATGTGTTGATTCAAGGTCAGTGACATTGGTCTTAAAGAT-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * *
3251607 CAATATGCTGATTTAAGGCCAGTGATATTGGACTT-AA-A-G---GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * * * *
3251650 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-AAAAGGTAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA-GTGC
* *
3251699 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
3251737 AGAAGATGCC
Statistics
Matches: 700, Mismatches: 105, Indels: 96
0.78 0.12 0.11
Matches are distributed among these distances:
43 169 0.24
44 10 0.01
45 6 0.01
46 3 0.00
47 28 0.04
48 76 0.11
49 232 0.33
50 8 0.01
51 9 0.01
52 121 0.17
53 6 0.01
54 10 0.01
55 22 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
Found at i:3251295 original size:43 final size:43
Alignment explanation
Indices: 3251234--3251736 Score: 484
Period size: 43 Copynumber: 11.0 Consensus size: 43
3251224 AAAGATGAAG
3251234 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
3251277 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------A
*
3251326 AAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
3251369 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
*
3251412 AAGAAAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
1 AAG------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * * *
3251461 AAGGTGCCAATGTGCTGATTCATGGCCAACGACATTGGTCTGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT--TA
*
3251506 GATGAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTA
1 -A--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * * *
3251552 AAGGTGCCAATGTGTTGATTCAAGGTCAGTGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A
* *
3251599 TAAGGTGCCAATATGCTGATTTAAGGCCAGTGATATTGGACTTA
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
3251643 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------A
* *
3251692 AAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
3251735 AA
1 AA
3251737 AGAAGATGCC
Statistics
Matches: 381, Mismatches: 51, Indels: 56
0.78 0.10 0.11
Matches are distributed among these distances:
43 188 0.49
44 1 0.00
45 2 0.01
46 2 0.01
47 1 0.00
48 70 0.18
49 117 0.31
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:3251372 original size:92 final size:92
Alignment explanation
Indices: 3251090--3251736 Score: 940
Period size: 92 Copynumber: 7.0 Consensus size: 92
3251080 GACAAAGGCA
* * * * * *
3251090 CCAATATGCTGATTCAAGCCCAGCGATATTGGACTTAAA-AATGAAGGTGCCAATGTGCTGATTC
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAA-AAAGGTGCCAATATGCTGATTC
* *
3251154 AAGGCCAACGACATTGGACTTAAAGATGAAGGTG
65 AAGGCCAGCGATATTGGACTT----A--AAGGTG
3251188 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGAAGGTGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--AA-AAGGTGCCAATATGCTGAT
3251253 TCAAGGCCAGCGATATTGGACTTAAAGGTG
63 TCAAGGCCAGCGATATTGGACTTAAAGGTG
* *
3251283 CTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCTAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
3251348 AGGCCAGCGATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
*
3251375 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAAGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
*
3251440 AGGCCAACGATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
* * * ** *
3251467 CCAATGTGCTGATTCATGGCCAACGACATTGGTCTGAAAG-ATGAGGTGCCAATATGCTGATTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
3251531 AGGCCAGCGATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
* * * * *
3251558 CCAATGTGTTGATTCAAGGTCAGTGACATTGGTCTTAAAG-ATAAGGTGCCAATATGCTGATTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
*
3251622 AGGCCAGTGATATTGGACTTAAAGGTG
66 AGGCCAGCGATATTGGACTTAAAGGTG
* *
3251649 CCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAAAAAGGTACCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
*
3251714 AGGCCAGCGATATTGGGCTTAAA
66 AGGCCAGCGATATTGGACTTAAA
3251737 AGAAGATGCC
Statistics
Matches: 505, Mismatches: 39, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
91 165 0.33
92 215 0.43
93 2 0.00
95 46 0.09
97 1 0.00
98 35 0.07
99 1 0.00
101 40 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGGTG
Found at i:3251805 original size:33 final size:32
Alignment explanation
Indices: 3251768--3251898 Score: 129
Period size: 33 Copynumber: 4.0 Consensus size: 32
3251758 TGGGCTTTTG
3251768 AAAAGGAGAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGA-AAAGATGCCACGGAGTTGTGGACTT
* *
3251801 AAAAGGAACAAGGTGCCACGAAGTTGTGGACTTT
1 AAAAGGAA-AAGATGCCACGGAGTTGTGGAC-TT
* * * *
3251835 AAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTT
1 -AAAAGGAAAAGATGCCACGGAGTTGTGGACTT
** * *
3251868 TGAA-GAAAAGATGCCACTGAGTCGTGGACTT
1 AAAAGGAAAAGATGCCACGGAGTTGTGGACTT
3251899 TGAAAAGAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
31 22 0.27
32 3 0.04
33 29 0.35
34 21 0.26
35 7 0.09
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.20
Consensus pattern (32 bp):
AAAAGGAAAAGATGCCACGGAGTTGTGGACTT
Found at i:3251848 original size:34 final size:34
Alignment explanation
Indices: 3251776--3251906 Score: 121
Period size: 34 Copynumber: 4.0 Consensus size: 34
3251766 TGAAAAGGAG
* *
3251776 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGATGCCACGAAGTTGTGGACTTTAAAAAGAA
* *
3251809 CAAGGTGCCACGAAGTTGTGGACTTTAAAAAGAA
1 AAAGATGCCACGAAGTTGTGGACTTTAAAAAGAA
* * *
3251843 AAAGGTGCCAC-AGAGTTGTGGGCTTT--GAAG-A
1 AAAGATGCCACGA-AGTTGTGGACTTTAAAAAGAA
* *
3251874 AAAGATGCCACTG-AGTCGTGGACTTTGAAAAGA
1 AAAGATGCCAC-GAAGTTGTGGACTTTAAAAAGA
3251907 GATTGCCACT
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
31 22 0.28
32 3 0.04
33 24 0.30
34 31 0.39
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.21
Consensus pattern (34 bp):
AAAGATGCCACGAAGTTGTGGACTTTAAAAAGAA
Found at i:3251883 original size:31 final size:31
Alignment explanation
Indices: 3251776--3252039 Score: 209
Period size: 30 Copynumber: 8.4 Consensus size: 31
3251766 TGAAAAGGAG
* **
3251776 AAAGATGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGATGCCACTGAGTTGTGGACTTTGAA-GA
* *
3251808 ACAAGGTGCCAC-GAAGTTGTGGACTTTAAAAAGAA
1 A-AAGATGCCACTG-AGTTGTGGACTTT--GAAG-A
* * *
3251843 AAAGGTGCCACAGAGTTGTGGGCTTTGAAGA
1 AAAGATGCCACTGAGTTGTGGACTTTGAAGA
*
3251874 AAAGATGCCACTGAGTCGTGGACTTTGAA-A
1 AAAGATGCCACTGAGTTGTGGACTTTGAAGA
* *
3251904 AGAGATTGCCACTTAGTTGTGGACTTTG--GA
1 AAAGA-TGCCACTGAGTTGTGGACTTTGAAGA
* *
3251934 AGAGATTGCCATTGAGTTGTGGACTTTG-AGA
1 AAAGA-TGCCACTGAGTTGTGGACTTTGAAGA
* * *
3251965 CAAGATGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGATGCCACTGAGTTGTGGACTTTGAAG-A
* **
3251997 AAGAGATGCGACTGAGTCATGGACTTTG--GA
1 AA-AGATGCCACTGAGTTGTGGACTTTGAAGA
3252027 AAGAGATGCCACT
1 AA-AGATGCCACT
3252040 AACAAAATGA
Statistics
Matches: 197, Mismatches: 23, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
30 64 0.32
31 54 0.27
32 7 0.04
33 43 0.22
34 23 0.12
35 6 0.03
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (31 bp):
AAAGATGCCACTGAGTTGTGGACTTTGAAGA
Found at i:3251895 original size:65 final size:67
Alignment explanation
Indices: 3251776--3251906 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 67
3251766 TGAAAAGGAG
* * *
3251776 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAAG
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAGATGCCACGAAGTCGTGGACTTTAAAAAG
3251841 AA
66 AA
* * ** *
3251843 AAAGGTGCCACAGAGTTGTGGGCTTTGAA-GAA-AAGATGCCACTG-AGTCGTGGACTTTGAAAA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAGATGCCAC-GAAGTCGTGGACTTTAAAAA
3251905 GA
65 GA
3251907 GATTGCCACT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
65 27 0.49
66 4 0.07
67 24 0.44
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.21
Consensus pattern (67 bp):
AAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAGATGCCACGAAGTCGTGGACTTTAAAAAG
AA
Found at i:3252232 original size:16 final size:16
Alignment explanation
Indices: 3252199--3252243 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
3252189 TTTTTTGCTA
**
3252199 TTTTTTTCTTGGTT-T
1 TTTTTTTCTTTTTTAT
*
3252214 TTTTTTTGTTTTTTAT
1 TTTTTTTCTTTTTTAT
3252230 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
3252244 TTGTTTGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.02, C:0.04, G:0.07, T:0.87
Consensus pattern (16 bp):
TTTTTTTCTTTTTTAT
Found at i:3252232 original size:18 final size:18
Alignment explanation
Indices: 3252211--3252245 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3252201 TTTTTCTTGG
3252211 TTTTTTTT-TTGTTTTTTA
1 TTTTTTTTCTT-TTTTTTA
3252229 TTTTTTTTCTTTTTTTT
1 TTTTTTTTCTTTTTTTT
3252246 GTTTGGTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.91
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTTA
Found at i:3252241 original size:15 final size:14
Alignment explanation
Indices: 3252199--3252245 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
3252189 TTTTTTGCTA
3252199 TTTTTTTCTTGGTTTT
1 TTTTTTTCTT--TTTT
3252215 TTTTTTGT-TTTTTAT
1 TTTTTT-TCTTTTT-T
3252230 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
3252244 TT
1 TT
3252246 GTTTGGTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.25
15 12 0.43
16 8 0.29
17 1 0.04
ACGTcount: A:0.02, C:0.04, G:0.06, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:3266352 original size:21 final size:21
Alignment explanation
Indices: 3266319--3266363 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3266309 TTGCAAGTTG
*
3266319 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3266341 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3266361 AAA
1 AAA
3266364 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3268187 original size:15 final size:15
Alignment explanation
Indices: 3268167--3268197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3268157 TAAAAATGTC
*
3268167 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3268182 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3268197 C
1 C
3268198 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3270281 original size:13 final size:13
Alignment explanation
Indices: 3270263--3270289 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3270253 ACATTTTTCT
3270263 TTGTATCGATACA
1 TTGTATCGATACA
3270276 TTGTATCGATACA
1 TTGTATCGATACA
3270289 T
1 T
3270290 GGTGATTATT
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:3276099 original size:20 final size:20
Alignment explanation
Indices: 3276074--3276147 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
3276064 TTTTAACTAG
*
3276074 ATGTATTGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* *
3276094 ATGTATCGATACATTCATA-C
1 ATGTATCGATACATTGA-AGA
*
3276114 ATGTATCAATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
3276134 ATATATCGATACAT
1 ATGTATCGATACAT
3276148 CTGGGTACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:3277357 original size:20 final size:19
Alignment explanation
Indices: 3277333--3277407 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
3277323 ACACACCCAG
*
3277333 ATGTATCGATACATGCTACT
1 ATGTATCGATACATG-TACA
* *
3277353 TTGTATCGATACATGTTCA
1 ATGTATCGATACATGTACA
*
3277372 ATGTATCGATACATGGACAA
1 ATGTATCGATACATGTAC-A
3277392 ATTGTATCGATACATG
1 A-TGTATCGATACATG
3277408 AAATTGGCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.36
20 16 0.34
21 14 0.30
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATGTACA
Found at i:3277555 original size:52 final size:52
Alignment explanation
Indices: 3277488--3277606 Score: 229
Period size: 52 Copynumber: 2.3 Consensus size: 52
3277478 TACATGAAGA
*
3277488 AATGTATCGATACATAGCTTGTAATGGCTATAAACGGCTAGAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTAGAATTTCAAATC
3277540 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTAGAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTAGAATTTCAAATC
3277592 AATGTATCGATACAT
1 AATGTATCGATACAT
3277607 TATGAATTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTAGAATTTCAAATC
Found at i:3283712 original size:13 final size:13
Alignment explanation
Indices: 3283694--3283719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3283684 ACAACATTCC
3283694 TTGTATCGATACA
1 TTGTATCGATACA
3283707 TTGTATCGATACA
1 TTGTATCGATACA
3283720 ATGGGAACTA
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):
TTGTATCGATACA
Found at i:3285579 original size:18 final size:19
Alignment explanation
Indices: 3285547--3285585 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3285537 ATAATTTTTT
*
3285547 TATAAAAAGGGGGAGAAGA
1 TATAAAAAGGAGGAGAAGA
3285566 TATAAAAA-GAGGAGAAGA
1 TATAAAAAGGAGGAGAAGA
3285584 TA
1 TA
3285586 ATCGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.13
Consensus pattern (19 bp):
TATAAAAAGGAGGAGAAGA
Found at i:3285614 original size:19 final size:19
Alignment explanation
Indices: 3285590--3285658 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
3285580 AAGATAATCG
3285590 TTTAAGGGGGAGAAT-TTCT
1 TTTAA-GGGGAGAATATTCT
* * *
3285609 TTTAAGAGGAG-ATAATCG
1 TTTAAGGGGAGAATATTCT
*
3285627 TTTAAGGGGGAAAATATT-T
1 TTTAA-GGGGAGAATATTCT
3285646 TTTAAGGGGAGAA
1 TTTAAGGGGAGAA
3285659 AAACGAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 2 0.05
18 19 0.49
19 14 0.36
20 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (19 bp):
TTTAAGGGGAGAATATTCT
Found at i:3285630 original size:18 final size:18
Alignment explanation
Indices: 3285581--3285632 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
3285571 AAAGAGGAGA
*
3285581 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAA-GAGG
* *
3285600 AGA-ATTTCTTTTAAGAGG
1 AGATA-ATCGTTTAAGAGG
3285618 AGATAATCGTTTAAG
1 AGATAATCGTTTAAG
3285633 GGGGAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (18 bp):
AGATAATCGTTTAAGAGG
Found at i:3285631 original size:37 final size:37
Alignment explanation
Indices: 3285581--3285657 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
3285571 AAAGAGGAGA
*
3285581 AGATAATCGTTTAAGGGGGAGAAT-TTCTTTTAAGAGG
1 AGATAATCGTTTAAGGGGGAAAATATT-TTTTAAGAGG
*
3285618 AGATAATCGTTTAAGGGGGAAAATATTTTTTAAGGGG
1 AGATAATCGTTTAAGGGGGAAAATATTTTTTAAGAGG
3285655 AGA
1 AGA
3285658 AAAACGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (37 bp):
AGATAATCGTTTAAGGGGGAAAATATTTTTTAAGAGG
Found at i:3286216 original size:13 final size:13
Alignment explanation
Indices: 3286198--3286224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3286188 ACTTGCTACT
3286198 TTGTATCGATACA
1 TTGTATCGATACA
3286211 TTGTATCGATACA
1 TTGTATCGATACA
3286224 T
1 T
3286225 GTTCAATGTA
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:3286236 original size:19 final size:21
Alignment explanation
Indices: 3286210--3286265 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
3286200 GTATCGATAC
**
3286210 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
3286230 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
3286250 ATTGTATCGATACATG
1 ATTGTATCGATACATG
3286266 AAATTGCCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:3286336 original size:33 final size:32
Alignment explanation
Indices: 3286294--3286357 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
3286284 CTATCACTAT
3286294 TTGTATCGATACATG-GTACAATGTATCGATAAA
1 TTGTATCGATACATGAG-A-AATGTATCGATAAA
3286327 TTGTATCGATACATGAAGAAATGTATCGATA
1 TTGTATCGATACATG-AGAAATGTATCGATA
3286358 CATAGCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATAAA
Found at i:3287489 original size:20 final size:19
Alignment explanation
Indices: 3287444--3287495 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
3287434 TGTATCTATA
*
3287444 CATTGTATCGATACATGCT
1 CATTGTATCGATACATACT
3287463 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
*
3287482 CAATTGTATGGATA
1 C-ATTGTATCGATA
3287496 TATGAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:3290199 original size:21 final size:20
Alignment explanation
Indices: 3290169--3290207 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
3290159 CACATTTTTA
3290169 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
3290189 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
3290208 AGGTCCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:3290462 original size:173 final size:173
Alignment explanation
Indices: 3290173--3290533 Score: 668
Period size: 173 Copynumber: 2.1 Consensus size: 173
3290163 TTTTTATCTA
*
3290173 AATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCTAACAGTCAAAAATTTTGAATTTC
1 AATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCAACAGTCAAAAATTTTGAATTTC
3290238 AATAATTTGAATCGATACAAACAGTAAATGTATCGATACATAAGTGTTGTAATGATACAATGTAT
66 AATAATTTGAATCGATACAAACAGTAAATGTATCGATACATAAGTGTTGTAATGATACAATGTAT
3290303 CGCTACAAAGCTACTACCAAGAAAATGTATCGATAAATTATTC
131 CGCTACAAAGCTACTACCAAGAAAATGTATCGATAAATTATTC
3290346 AATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCAACAGTCAAAAATTTTGAATTTC
1 AATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCAACAGTCAAAAATTTTGAATTTC
*
3290411 AATAATTTGTATCGATACAAACAGTAAATGTATCGATACATAAGTGTTGTAATGATACAATGTAT
66 AATAATTTGAATCGATACAAACAGTAAATGTATCGATACATAAGTGTTGTAATGATACAATGTAT
* * * *
3290476 TGCTACAAAGCTACTGCCAAGGAAATGTATCGATACATTATTC
131 CGCTACAAAGCTACTACCAAGAAAATGTATCGATAAATTATTC
3290519 AATGTATCGATACAT
1 AATGTATCGATACAT
3290534 GCAGGCAATT
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 182 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (173 bp):
AATGTATCGATACATTTCTAGAATGTATCGATACAAGGTCCCAACAGTCAAAAATTTTGAATTTC
AATAATTTGAATCGATACAAACAGTAAATGTATCGATACATAAGTGTTGTAATGATACAATGTAT
CGCTACAAAGCTACTACCAAGAAAATGTATCGATAAATTATTC
Found at i:3296596 original size:28 final size:28
Alignment explanation
Indices: 3296564--3296640 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
3296554 GAAATAAAGC
* **
3296564 CGGGGTTGGAGTATCCCC-TTGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
*
3296592 CGGGGTTGGTGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
3296620 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
3296641 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:3296620 original size:107 final size:107
Alignment explanation
Indices: 3296490--3296757 Score: 385
Period size: 107 Copynumber: 2.5 Consensus size: 107
3296480 AAAATCGGGA
* * *
3296490 TTGGAGTATCCCCTCA-GAAATAACGAGGTTGGGGTATCCCCAATTATGAGAAATCAATATTTTG
1 TTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTG
* * *
3296554 GAAATAAAGCCGGGGTTGGAGTATCCCCTTGGAGGTAACGGGG
65 GAAATAAAGCCGAGGTTGGAGTATCCCCTCGGAGGTAACAGGG
* * * *
3296597 TTGGTGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATCAATATTTTGG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGG
3296662 AAATAAAGCCGAGGTTGGAGTATCCCCTCGGAGGTAACAGGG
66 AAATAAAGCCGAGGTTGGAGTATCCCCTCGGAGGTAACAGGG
* * * * *
3296704 TTGGAGTATCCCCTATGAAATAACGAGGTCGGAGTATCCTCGATTGTGAAAAAT
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAAT
3296758 TGGTGTTTTT
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
106 1 0.01
107 146 0.99
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (107 bp):
TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGG
AAATAAAGCCGAGGTTGGAGTATCCCCTCGGAGGTAACAGGG
Found at i:3296727 original size:28 final size:28
Alignment explanation
Indices: 3296671--3296742 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
3296661 GAAATAAAGC
* **
3296671 CGAGGTTGGAGTATCCCCTCGGAGGTAA
1 CGAGGTTGGAGTATCCCCTAGGAAATAA
*
3296699 C-AGGGTTGGAGTATCCCCTATGAAATAA
1 CGA-GGTTGGAGTATCCCCTAGGAAATAA
*
3296727 CGAGGTCGGAGTATCC
1 CGAGGTTGGAGTATCC
3296743 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCTAGGAAATAA
Found at i:3296881 original size:51 final size:51
Alignment explanation
Indices: 3296734--3296950 Score: 211
Period size: 51 Copynumber: 4.2 Consensus size: 51
3296724 TAACGAGGTC
* * * * * ***
3296734 GGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAAAGTT
1 GGAGTATCCCCGATTATGAAAAATTAGTG-TTTTAGAAATAAAACCGGGGTT
* * *
3296786 GGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTT
1 GGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTAG-AAATAAAACCGGGGTT
* * *
3296838 GGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACTGGGGTT
1 GGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTT
* * * * * *
3296889 GGAGTATCCCCGATTATGACAAATAAATATTTTAGGAATAAAGCCGGGGTT
1 GGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTT
*
3296940 AGAGTATCCCC
1 GGAGTATCCCC
3296951 TCGGAGGTAA
Statistics
Matches: 138, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
51 82 0.59
52 45 0.33
53 11 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTT
Found at i:3296931 original size:262 final size:263
Alignment explanation
Indices: 3296623--3297125 Score: 830
Period size: 262 Copynumber: 1.9 Consensus size: 263
3296613 GAAATAACGA
* * * *
3296623 GGTTGGAGTATCCTCGATTGTGAAAAATCAATATTTTGGAAATAAAGCCGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATAAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCCC
*
3296688 CTCGGAGGTAACAGGGTTGGAGTATCCCCTATGAAATAACGAGGTCGGAGTATCCTCGATTGTGA
66 CTCGGAGGTAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTCGGAGTATCCTCGATTGTGA
3296753 AAAATTGGTGTTTTTGGAAATAAAATCAAAGTTGGAGTATCCCCGATT-AAAGGAAAATTGGTGT
131 AAAATTGGTGTTTTTGGAAATAAAATCAAAGTTGGAGTATCCCCGATTAAAAGGAAAATTGGTGT
*
3296817 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
196 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAAC
3296882 TGG
261 TGG
* *
3296885 GGTTGGAGTATCCCCGATTATGACAAATAAATATTTTAGG-AATAAAGCCGGGGTTAGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATAAATATTTT-GGAAATAAAGCCGAGGTTAGAGTATCC
** *
3296949 CCTCGGAGGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
65 CCTCGGAGGTAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTCGGAGTATCCTCGATTGTG
* *
3297014 AAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCTCGATTAAAAGGAAAATTGGTG
130 AAAAATTGGTGTTTTTGGAAATAAAATCAAAGTTGGAGTATCCCCGATTAAAAGGAAAATTGGTG
* * * *
3297079 TTTTGAGAATAAAATCGGGGTTGGAGTATCCCCGATTATGAACAATT
195 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAATT
3297126 GAGAAACTTA
Statistics
Matches: 222, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
262 163 0.73
263 59 0.27
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (263 bp):
GGTTGGAGTATCCCCGATTATGAAAAATAAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCCC
CTCGGAGGTAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTCGGAGTATCCTCGATTGTGA
AAAATTGGTGTTTTTGGAAATAAAATCAAAGTTGGAGTATCCCCGATTAAAAGGAAAATTGGTGT
TTTGAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAAC
TGG
Found at i:3297052 original size:52 final size:51
Alignment explanation
Indices: 3296993--3297126 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 51
3296983 AAATAACGAG
*
3296993 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTG-GAAATAAAATCAGA
1 GTTGGAGTATCCTCGATTATGAAAAATTGGTG-TTTTGAG-AATAAAATCAGA
* * * *
3297045 GTTGGAGTATCCTCGATTAAAAGGAAAATTGGTGTTTTGAGAATAAAATCGGG
1 GTTGGAGTATCCTCGATT--ATGAAAAATTGGTGTTTTGAGAATAAAATCAGA
* *
3297098 GTTGGAGTATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCTCGATTATGAAAAATTG
3297127 AGAAACTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
51 8 0.11
52 18 0.26
53 32 0.46
54 12 0.17
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAGAATAAAATCAGA
Found at i:3297102 original size:53 final size:53
Alignment explanation
Indices: 3296734--3297116 Score: 164
Period size: 52 Copynumber: 7.3 Consensus size: 53
3296724 TAACGAGGTC
** **
3296734 GGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCAAAGTT
1 GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATCAGGGTT
* * * * *
3296786 GGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAACCGGGGTT
1 GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATCAGGGTT
* * ** * * *
3296838 GGAGTATCCCCAATT-GTGAAAAATTAGTG-TTTTAGAAATAAAA-CTGGGGTT
1 GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATC-AGGGTT
* * * *** * * ** *
3296889 GGAGTATCCCCGATT-ATGACAAATAAATATTTTAGG-AATAAAGCCGGGGTT
1 GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATCAGGGTT
* * * *** * **** * *
3296940 AGAGTATCCCCTCGGAGGTAATG--GGGTTGGAGTATCCCCG--ATGAAATAACGAGGTT
1 GGAGTAT--CCTC-GA-TTAAAGAAAAATTGGTGT-TTTTGGAAATAAAATCA-G-GGTT
** *
3296996 GGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTT
1 GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATCAGGGTT
* *
3297048 GGAGTATCCTCGATTAAAAGGAAAATTGGTG-TTTT-GAGAATAAAATCGGGGTT
1 GGAGTATCCTCGATT-AAAGAAAAATTGGTGTTTTTGGA-AATAAAATCAGGGTT
*
3297101 GGAGTATCCCCGATTA
1 GGAGTATCCTCGATTA
3297117 TGAACAATTG
Statistics
Matches: 247, Mismatches: 65, Indels: 38
0.71 0.19 0.11
Matches are distributed among these distances:
50 1 0.00
51 71 0.29
52 74 0.30
53 54 0.22
54 30 0.12
55 4 0.02
56 13 0.05
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (53 bp):
GGAGTATCCTCGATTAAAGAAAAATTGGTGTTTTTGGAAATAAAATCAGGGTT
Found at i:3298291 original size:17 final size:19
Alignment explanation
Indices: 3298253--3298291 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3298243 CAACATTCAG
3298253 GAAACACAAAATATGTCAT
1 GAAACACAAAATATGTCAT
*
3298272 GAAAGACAAAA-ATG-CAT
1 GAAACACAAAATATGTCAT
3298289 GAA
1 GAA
3298292 CCAAGATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.15
Consensus pattern (19 bp):
GAAACACAAAATATGTCAT
Found at i:3310690 original size:31 final size:29
Alignment explanation
Indices: 3310647--3310715 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
3310637 GATGGCTACT
* *
3310647 TTCTCTTTTTTTTATTTTCTTACTACTTCGA
1 TTCTATTTTTTTT-GTTTC-TACTACTTCGA
* *
3310678 TTCTATTTTTTTTGTTTCTGCTATTTCGA
1 TTCTATTTTTTTTGTTTCTACTACTTCGA
*
3310707 TTCTGTTTT
1 TTCTATTTT
3310716 CCTTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
30 4 0.12
31 12 0.36
ACGTcount: A:0.10, C:0.16, G:0.07, T:0.67
Consensus pattern (29 bp):
TTCTATTTTTTTTGTTTCTACTACTTCGA
Found at i:3310744 original size:39 final size:39
Alignment explanation
Indices: 3310683--3310764 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
3310673 TTCGATTCTA
*
3310683 TTTTTTTTGTTTCTGCTATTTCGATTCTGT-TTTCCTTT
1 TTTTTTTTGTTTCTGCTATTTCGATTCTCTCTTTCCTTT
* * *
3310721 TTTTTTTTCGTTTTTGCTGTTTCGATTCTCTCTTTTCTTT
1 TTTTTTTT-GTTTCTGCTATTTCGATTCTCTCTTTCCTTT
3310761 TTTT
1 TTTT
3310765 CGCTGCAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 8 0.21
39 19 0.50
40 11 0.29
ACGTcount: A:0.04, C:0.16, G:0.10, T:0.71
Consensus pattern (39 bp):
TTTTTTTTGTTTCTGCTATTTCGATTCTCTCTTTCCTTT
Found at i:3310983 original size:29 final size:29
Alignment explanation
Indices: 3310948--3311003 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
3310938 TTTCATTTTG
*
3310948 CAGCAGTTGTTTCGTTGGTGTCTTCATTA
1 CAGCAGTTGTTTCCTTGGTGTCTTCATTA
**
3310977 CAGCAGTTGTTTCCTTTTTGTCTTCAT
1 CAGCAGTTGTTTCCTTGGTGTCTTCAT
3311004 CGCTACAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (29 bp):
CAGCAGTTGTTTCCTTGGTGTCTTCATTA
Found at i:3311016 original size:29 final size:29
Alignment explanation
Indices: 3310984--3311042 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
3310974 TTACAGCAGT
3310984 TGTTTCCTTTTTGTCTTCATCGCTACAGC
1 TGTTTCCTTTTTGTCTTCATCGCTACAGC
* *
3311013 TGTTTCTTTTTTGTCTTCATTGCTACAGC
1 TGTTTCCTTTTTGTCTTCATCGCTACAGC
3311042 T
1 T
3311043 TAATTGCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.10, C:0.24, G:0.14, T:0.53
Consensus pattern (29 bp):
TGTTTCCTTTTTGTCTTCATCGCTACAGC
Found at i:3311269 original size:5 final size:5
Alignment explanation
Indices: 3311254--3311284 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
3311244 ATGCATGAAA
*
3311254 GCAAT GAAAT GCAAT GCAAT GCAAT GCAAT G
1 GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT G
3311285 TTTTTGACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (5 bp):
GCAAT
Found at i:3311269 original size:10 final size:10
Alignment explanation
Indices: 3311244--3311284 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
3311234 TGTGAAATGC
3311244 ATGC-ATGAA
1 ATGCAATGAA
3311253 A-GCAATGAA
1 ATGCAATGAA
*
3311262 ATGCAATGCA
1 ATGCAATGAA
*
3311272 ATGCAATGCA
1 ATGCAATGAA
3311282 ATG
1 ATG
3311285 TTTTTGACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 2 0.07
9 7 0.24
10 20 0.69
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (10 bp):
ATGCAATGAA
Found at i:3312494 original size:31 final size:31
Alignment explanation
Indices: 3312408--3312500 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
3312398 AGGCCACACG
* *
3312408 AGTTGGTGGCACCCT-AGTCAAAGCCTGCACA
1 AGTTGGCGGCA-CCTGAGTCAAAGCCCGCACA
* * * * *
3312439 AGCTAGCGACACTTGAGTCTAAGCCCGCACA
1 AGTTGGCGGCACCTGAGTCAAAGCCCGCACA
* *
3312470 AGTTGGCGGCACCTGAGCCAAAGCCCACACA
1 AGTTGGCGGCACCTGAGTCAAAGCCCGCACA
3312501 CGCTAATGGC
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 2 0.04
31 45 0.96
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (31 bp):
AGTTGGCGGCACCTGAGTCAAAGCCCGCACA
Found at i:3312768 original size:31 final size:31
Alignment explanation
Indices: 3312721--3312802 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
3312711 GCCTTAGAAT
*
3312721 GTCAAAGCCTACACAAGCTGGCAGCA-CTCGA
1 GTCAAAGCCCACACAAGCTGGCAGCATCT-GA
* *
3312752 GTCTAAA-CCCACACAAGTTGGCGGCATCTGA
1 GTC-AAAGCCCACACAAGCTGGCAGCATCTGA
3312783 GTCAAAGCCCACACAAGCTG
1 GTCAAAGCCCACACAAGCTG
3312803 ATGGCACCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
30 3 0.07
31 36 0.82
32 5 0.11
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.15
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGCTGGCAGCATCTGA
Found at i:3312821 original size:149 final size:149
Alignment explanation
Indices: 3312424--3313021 Score: 648
Period size: 149 Copynumber: 4.0 Consensus size: 149
3312414 TGGCACCCTA
* * * * * *
3312424 GTCAAAGCCTGCACAAGCTAGC-GACACTTGAGTCTAAGCCCGCACAAGTTGGCGGCACCTGAGC
1 GTCAAAGCCTACACAAGCTGGCAG-CACTCGAGTCTAAACCCACACAAGTTGGCGGCACCTGAGT
* * * * * * *
3312488 CAAAGCCCACACACGCTAATGGCACTTAAGTTTGAGTCAAATCCAAATTAGTTGGTAGCTGTCTA
65 CAAAGCCCACACAAGCTGATGGCACCTAAGTCTGAGTCAAGTCCAAATTAGTTGGCACCTGTCTA
* *
3312553 AAGAGGTCAAGCCTTAAAAT
130 AGGAGGTCAAGCCTTAGAAT
* * * ** * * * *
3312573 GTCACAG-CTCACACAAGTTGGCGGCACT-GAGTCTATGCTCACACAAGTTGGTGACATCTGAGT
1 GTCAAAGCCT-ACACAAGCTGGCAGCACTCGAGTCTAAACCCACACAAGTTGGCGGCACCTGAGT
* * * * * *
3312636 CAAAGCCCACATAAGCTGGTGCCACCTAAGTCTGAGTCAAGTCCACATTAGTTGGCGCCTATCTA
65 CAAAGCCCACACAAGCTGATGGCACCTAAGTCTGAGTCAAGTCCAAATTAGTTGGCACCTGTCTA
3312701 AGGAGGTCAAGCCTTAGAAT
130 AGGAGGTCAAGCCTTAGAAT
*
3312721 GTCAAAGCCTACACAAGCTGGCAGCACTCGAGTCTAAACCCACACAAGTTGGCGGCATCTGAGTC
1 GTCAAAGCCTACACAAGCTGGCAGCACTCGAGTCTAAACCCACACAAGTTGGCGGCACCTGAGTC
* *
3312786 AAAGCCCACACAAGCTGATGGCACCTAAGTTTGAGTCAAGTCCAAATTAGTTGGCACCCGTCTAA
66 AAAGCCCACACAAGCTGATGGCACCTAAGTCTGAGTCAAGTCCAAATTAGTTGGCACCTGTCTAA
3312851 GGAGGTCAAGCCTTAGAAT
131 GGAGGTCAAGCCTTAGAAT
* * * * * * *
3312870 GTTAAAGCCCACACAAGCTGGTTGCACCAAAGTCTGAGTC-AAA-GCTCACAAGCTGGCGGCACC
1 GTCAAAGCCTACACAAGCT-G--GCAGC--ACTC-GAGTCTAAACCCACACAAGTTGGCGGCACC
* * * * * * * * *
3312933 CGAGTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGAGTTAAGTCCACATTAGCTAGCACCT
60 TGAGTCAAAGCCCACACAAGCTGATGGCACCTAAGTCTGAGTCAAGTCCAAATTAGTTGGCACCT
3312998 GTCTAAGGAGGTCAAGCCTTAGAA
125 GTCTAAGGAGGTCAAGCCTTAGAA
3313022 AACCAAAACC
Statistics
Matches: 378, Mismatches: 61, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
148 122 0.32
149 145 0.38
150 2 0.01
152 4 0.01
153 94 0.25
154 6 0.02
155 5 0.01
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (149 bp):
GTCAAAGCCTACACAAGCTGGCAGCACTCGAGTCTAAACCCACACAAGTTGGCGGCACCTGAGTC
AAAGCCCACACAAGCTGATGGCACCTAAGTCTGAGTCAAGTCCAAATTAGTTGGCACCTGTCTAA
GGAGGTCAAGCCTTAGAAT
Found at i:3312973 original size:37 final size:37
Alignment explanation
Indices: 3312870--3312977 Score: 115
Period size: 31 Copynumber: 3.1 Consensus size: 37
3312860 GCCTTAGAAT
* *
3312870 GTTAAAGCCCACACAAGCTGGTTGCACCAAAGTCTGA
1 GTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGA
* * *
3312907 GTCAAAG--CTCACAAGCTGGCGGCA-C-----CCGA
1 GTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGA
3312936 GTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGA
1 GTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGA
3312973 GTTAA
1 GTTAA
3312978 GTCCACATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
29 9 0.16
31 15 0.27
32 1 0.02
34 1 0.02
35 14 0.25
37 15 0.27
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (37 bp):
GTTAAAGCCCACACAAGCTGGTGGCACCAAAGTCCGA
Found at i:3313689 original size:59 final size:59
Alignment explanation
Indices: 3313574--3313706 Score: 167
Period size: 59 Copynumber: 2.3 Consensus size: 59
3313564 TACATGCCTA
* **
3313574 AAATGTATCAATACAAAACTACCCTACATTTTGGAAAGGAAATGCATCAATACATAAGT
1 AAATGTATCAATACAAAACTACCCTACATTCTAAAAAGGAAATGCATCAATACATAAGT
* * * ** *
3313633 GAATGTATCAATACAAAACTACCCTGCATTCTAAAAAGGAAATGTATGGATGCATAAGT
1 AAATGTATCAATACAAAACTACCCTACATTCTAAAAAGGAAATGCATCAATACATAAGT
* *
3313692 AAATGCATCGATACA
1 AAATGTATCAATACA
3313707 TTCACTGTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (59 bp):
AAATGTATCAATACAAAACTACCCTACATTCTAAAAAGGAAATGCATCAATACATAAGT
Found at i:3317195 original size:64 final size:64
Alignment explanation
Indices: 3317086--3317225 Score: 199
Period size: 64 Copynumber: 2.2 Consensus size: 64
3317076 GCTGCTCCAA
* * *
3317086 TAGCTTCCAGCAATGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACTCCGGTAG
1 TAGC-TCCAGCAACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCAGTAG
* * * * *
3317151 TAGCTCTAGCAACGACAGCATCCACCAATAGCAGCAGCATCTTCCAGCCCACAAACACTAGTAG
1 TAGCTCCAGCAACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCAGTAG
3317215 TAGCTCCAGCA
1 TAGCTCCAGCA
3317226 GCTTCTAGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 62 0.94
65 4 0.06
ACGTcount: A:0.34, C:0.36, G:0.15, T:0.16
Consensus pattern (64 bp):
TAGCTCCAGCAACGACAACATCCACCAACAGCAGCAGCATCTTCCAACCCACAAACACCAGTAG
Found at i:3317276 original size:74 final size:74
Alignment explanation
Indices: 3317155--3317352 Score: 200
Period size: 74 Copynumber: 2.7 Consensus size: 74
3317145 CGGTAGTAGC
* * * * * *
3317155 TCTAGCAACGACAGCATCCACCAATAGCAGCAGCATCTTCCAGCCCACAAACACTAGTAGTAGCT
1 TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCAGCAGTAGCT
*
3317220 CCAGCAGCT
66 CCAGCAACT
* * * *
3317229 TCTAGTAATGACAACATCCACCAATAATAGCAGCAGCTTCCAGCCCACGAACACCGGCAGTAGCT
1 TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCAGCAGTAGCT
*
3317294 TCAGCAACT
66 CCAGCAACT
* * *** ** *
3317303 TCGAGTAGCGAGTGCATCCACCAA-AAGCAATAGTAGCTTCCAGCCCACAA
1 TCTAGTAACGACAACATCCACCAATAA-CAGCAGCAGCTTCCAGCCCACAA
3317353 GCACTTCAGT
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
73 2 0.02
74 98 0.98
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (74 bp):
TCTAGTAACGACAACATCCACCAATAACAGCAGCAGCTTCCAGCCCACAAACACCAGCAGTAGCT
CCAGCAACT
Found at i:3324616 original size:19 final size:20
Alignment explanation
Indices: 3324571--3324622 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3324561 TTACAAGCTA
*
3324571 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
3324591 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
3324611 -TGTATCGATACA
1 ATGTATCGATACA
3324623 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:3324711 original size:20 final size:21
Alignment explanation
Indices: 3324664--3324716 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3324654 GCCAATGACC
*
3324664 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
3324685 AGTATCGATACATT-TAGT-CA
1 TGTATCGATACATTCT-GTACA
3324705 TGTATCGATACA
1 TGTATCGATACA
3324717 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:3324722 original size:13 final size:13
Alignment explanation
Indices: 3324704--3324728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3324694 ACATTTAGTC
3324704 ATGTATCGATACA
1 ATGTATCGATACA
3324717 ATGTATCGATAC
1 ATGTATCGATAC
3324729 TGTGCAATCT
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:3325311 original size:22 final size:22
Alignment explanation
Indices: 3325284--3325328 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
3325274 TTTTCTTTTC
3325284 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
3325306 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
3325328 T
1 T
3325329 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:3326733 original size:21 final size:21
Alignment explanation
Indices: 3326702--3326753 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
3326692 GCTGCTAGTG
*
3326702 TGGGGGCTGCCCGGTTACGACC
1 TGGGGG-TGCCCGGTCACGACC
*
3326724 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCACGACC
3326744 TGGTGGGTGC
1 TGG-GGGTGC
3326754 TGCCTGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.27, G:0.48, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCACGACC
Found at i:3327413 original size:8 final size:8
Alignment explanation
Indices: 3327400--3327425 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3327390 AACATCATTC
3327400 ATCACAAA
1 ATCACAAA
3327408 ATCACAAA
1 ATCACAAA
3327416 ATCACAAA
1 ATCACAAA
3327424 AT
1 AT
3327426 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:3329689 original size:19 final size:19
Alignment explanation
Indices: 3329632--3329689 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
3329622 TACAAGCCAA
*
3329632 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAAG-TTTGG
*
3329652 TGTATCGATACATA-CTTGG
1 TGTATCGATACA-AGTTTGG
*
3329671 TGTATTGATACAAGTTTGG
1 TGTATCGATACAAGTTTGG
3329690 CTACTGCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
20 12 0.38
21 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (19 bp):
TGTATCGATACAAGTTTGG
Found at i:3332207 original size:13 final size:13
Alignment explanation
Indices: 3332189--3332214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3332179 ATAATCACCC
3332189 TGTATCGATACAA
1 TGTATCGATACAA
3332202 TGTATCGATACAA
1 TGTATCGATACAA
3332215 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3333649 original size:34 final size:35
Alignment explanation
Indices: 3333611--3333677 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3333601 CCTTACAACA
3333611 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3333645 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3333678 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3334154 original size:13 final size:13
Alignment explanation
Indices: 3334136--3334161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3334126 CAATTTTTTG
3334136 TGTATCGATACAT
1 TGTATCGATACAT
3334149 TGTATCGATACAT
1 TGTATCGATACAT
3334162 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:3334173 original size:32 final size:33
Alignment explanation
Indices: 3334116--3334179 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3334106 TATAAGCCAA
**
3334116 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
3334149 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3334180 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:3336103 original size:13 final size:13
Alignment explanation
Indices: 3336085--3336109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3336075 ACTGAAGCAA
3336085 TGTATCGATACAT
1 TGTATCGATACAT
3336098 TGTATCGATACA
1 TGTATCGATACA
3336110 ATCTGGAAAA
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:3339343 original size:34 final size:35
Alignment explanation
Indices: 3339305--3339371 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3339295 CCTTACAACA
3339305 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3339339 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3339372 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3339848 original size:13 final size:13
Alignment explanation
Indices: 3339830--3339855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3339820 CAATTTTTTG
3339830 TGTATCGATACAT
1 TGTATCGATACAT
3339843 TGTATCGATACAT
1 TGTATCGATACAT
3339856 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:3339867 original size:32 final size:33
Alignment explanation
Indices: 3339810--3339873 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3339800 TATAAGCCAA
**
3339810 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
3339843 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3339874 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:3341196 original size:15 final size:15
Alignment explanation
Indices: 3341176--3341206 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3341166 ATTTCGTTTG
*
3341176 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3341191 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3341206 G
1 G
3341207 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3345805 original size:28 final size:28
Alignment explanation
Indices: 3345765--3345869 Score: 167
Period size: 28 Copynumber: 3.8 Consensus size: 28
3345755 TTTTGGAGAT
3345765 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
3345793 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
*
3345821 AATAACGGGGTTGGAGTATCCCCGATG-A
1 AATAACGGGGTTGGAGTATCCCC-TTGAA
* *
3345849 AATAACGAGGTTGGAATATCC
1 AATAACGGGGTTGGAGTATCC
3345870 TCGAGCGTGA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
28 71 0.97
29 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCTTGAA
Found at i:3345959 original size:53 final size:53
Alignment explanation
Indices: 3345895--3346028 Score: 214
Period size: 53 Copynumber: 2.5 Consensus size: 53
3345885 TGGTGTTTTT
*
3345895 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCATTTTGA
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCATTTCGA
* * **
3345948 AAAATAAAACCGGGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGA
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCATTTCGA
*
3346001 AAAATAAAACCGTGGTTGGAGTATCCCC
1 AAAATAAAACCGGGGTTGGAGTATCCCC
3346029 TCGGAGGTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (53 bp):
AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCATTTCGA
Found at i:3346054 original size:28 final size:28
Alignment explanation
Indices: 3346014--3346110 Score: 149
Period size: 28 Copynumber: 3.5 Consensus size: 28
3346004 ATAAAACCGT
3346014 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
3346042 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
*** **
3346070 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
3346098 GGTTGGAGTATCC
1 GGTTGGAGTATCC
3346111 TCGATTGTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGGAGGTAACGA
Found at i:3346168 original size:52 final size:51
Alignment explanation
Indices: 3346099--3346219 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
3346089 AAATAACGAG
* * * *
3346099 GTTGGAGTATCCTCGATTGTGAA-AAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-TAAAGAAATTGGTG-TTTTGAAAATAAAACCGGA
*
3346151 GTTGGAGTATCCCCGA-TTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTTAAA-GAAATTGGTGTTTTGAAAATAAAACCGGA
3346202 GTTGGAGTATCCCCGATT
1 GTTGGAGTATCCCCGATT
3346220 ATGATCAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 3 0.05
51 33 0.54
52 25 0.41
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTTAAAGAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:3346208 original size:51 final size:52
Alignment explanation
Indices: 3346122--3346220 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 52
3346112 CGATTGTGAA
* *
3346122 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
*
3346174 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTA
3346221 TGATCAATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 35 0.80
52 9 0.20
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:3347169 original size:18 final size:18
Alignment explanation
Indices: 3347146--3347215 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
3347136 ATTGCTACCT
3347146 GCTGGAGTTGCTGCTCTC
1 GCTGGAGTTGCTGCTCTC
*
3347164 GCTGGAGTTGCTGTTGCAT-
1 GCTGGAGTTGCTGCT-C-TC
* * *
3347183 GCTGGAGCTGCAG-TCGC
1 GCTGGAGTTGCTGCTCTC
3347200 TGCTGGAGTTGCTGCT
1 -GCTGGAGTTGCTGCT
3347216 GTTGTTGCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 1 0.02
18 26 0.63
19 13 0.32
20 1 0.02
ACGTcount: A:0.09, C:0.23, G:0.37, T:0.31
Consensus pattern (18 bp):
GCTGGAGTTGCTGCTCTC
Found at i:3347222 original size:43 final size:43
Alignment explanation
Indices: 3347175--3347259 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
3347165 CTGGAGTTGC
3347175 TGTTGCATGCTGGAGCTGCAGTCGCTGCTGGAGTTGCTGCTGT
1 TGTTGCATGCTGGAGCTGCAGTCGCTGCTGGAGTTGCTGCTGT
* * *
3347218 TGTTGCGTGCTGGAGCTGCAGTCGTTGCTGGAGTTGGTGCTG
1 TGTTGCATGCTGGAGCTGCAGTCGCTGCTGGAGTTGCTGCTG
3347260 CTGCTGGAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.08, C:0.19, G:0.40, T:0.33
Consensus pattern (43 bp):
TGTTGCATGCTGGAGCTGCAGTCGCTGCTGGAGTTGCTGCTGT
Found at i:3347981 original size:50 final size:50
Alignment explanation
Indices: 3347921--3348184 Score: 474
Period size: 50 Copynumber: 5.3 Consensus size: 50
3347911 GCTTTTTTCA
3347921 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * *
3347971 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
3348021 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * *
3348071 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
3348121 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
3348171 TTTCCCATGCATGC
1 TTTCCCATGCATGC
3348185 ATTTTCTATT
Statistics
Matches: 202, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 202 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.44
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:3348215 original size:100 final size:100
Alignment explanation
Indices: 3347921--3348184 Score: 528
Period size: 100 Copynumber: 2.6 Consensus size: 100
3347911 GCTTTTTTCA
3347921 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
3347986 TCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
66 TCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
3348021 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
3348086 TCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
66 TCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
3348121 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGC
3348185 ATTTTCTATT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 164 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.44
Consensus pattern (100 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCATGCATGCC
TCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
Found at i:3348942 original size:62 final size:62
Alignment explanation
Indices: 3348807--3349510 Score: 868
Period size: 62 Copynumber: 11.5 Consensus size: 62
3348797 TGGGGCTTTG
* * * * *
3348807 AAAGGCATCCTACTCTTTGAGAACTGG-AAGGTGCCACCAACTCGTGTGGGCTTTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGC--TTTGAAAAGA
* *
3348870 AAAGACGTCCTGCTCTTTGAGGACTGGAAAAGTTCCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * *
3348932 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-A
* * * *
3348995 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCA-CTAGTTGTGTGGGCTTT-AAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA
* * *
3349053 AAAGGCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAATGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AGA
* * *
3349113 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * * *
3349175 AAAGGCGTCCTGCTCTTTAAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-A
* * *
3349238 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA
* *
3349297 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-G-A
* * *
3349360 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA
* * *
3349419 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
*
3349481 AAAGGCGTCCTGCTCTTTGAGGACCGGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAA
3349511 GGTGAAAGGA
Statistics
Matches: 568, Mismatches: 54, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
58 6 0.01
59 55 0.10
60 150 0.26
62 298 0.52
63 38 0.07
64 21 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
Found at i:3349271 original size:122 final size:121
Alignment explanation
Indices: 3348807--3349500 Score: 959
Period size: 122 Copynumber: 5.7 Consensus size: 121
3348797 TGGGGCTTTG
* * * * * * *
3348807 AAAGGCATCCTACTCTTTGAGAACTGG-AAGGTGCCACCAACTCGTGTGGGCTTTTTGAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGC--TTTGAAAGGAA
* * *
3348871 AAGACGTCCTGCTCTTTGAGGACTGGAAAAGTTCCACCAACTTGTGTGGGCTTTGAAAA-GA
64 AAG-CGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
* * *
3348932 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
* *
3348997 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCA-CTAGTTGTGTGGGCTTTAAAAGGA
65 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
3349053 AAAGGCGTCCTGCTCTTTGAGGA-C-TAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAATGGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAA
* ** *
3349115 AGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
65 A-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
3349175 AAAGGCGTCCTGCTCTTTAAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
*
3349240 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
65 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
3349297 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
*
3349362 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
65 AGCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
3349419 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
3349484 GGCGTCCTGCTCTTTGA
66 -GCGTCCTGCTCTTTGA
3349501 GGACCGGAAA
Statistics
Matches: 517, Mismatches: 39, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
118 6 0.01
119 48 0.09
120 4 0.01
121 51 0.10
122 277 0.54
123 1 0.00
124 75 0.15
125 33 0.06
126 22 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (121 bp):
AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
GCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:3349505 original size:184 final size:182
Alignment explanation
Indices: 3348834--3349510 Score: 952
Period size: 184 Copynumber: 3.7 Consensus size: 182
3348824 TGAGAACTGG
* *
3348834 AAGGTGCCACCAACTCGTGTGGGCTTTTTGAAAA-GAAAAGACGTCCTGCTCTTTGAGGACTGGA
1 AAGGTGCCACCAACTTGTGTGGGC--TTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC--GA
* * * *
3348898 AAAGTTCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAA
61 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAA
3348963 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTTGAAGACTA
126 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTTGAAGACTA
* * * *
3349020 AAGGTGCCA-CTAGTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGT
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACGAAAAGT
* ** *
3349084 GCCACCAGCTTGTGTGGGCTTT-AAATGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGC
66 GCCACCAACTTGTGTGGGCTTTGAAA-GGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGC
* *
3349148 CACCAACTTGTGTGGGCTTTGAAAGG-AAAAGGCGTCCTGCTCTTT-AAGGACCGGA
130 CACCAACTTGTGTGGGCTTTGAAAGGCGAAA-GCGTCCTGCTCTTTGAA-GA-C-TA
* * * * * *
3349203 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAA-GCGTCCTGCTCTTTGAAGACTAAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCCTGCTCTTTGAGGACGAAAAG
* *
3349267 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGC
65 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGC
*
3349332 CACCAACTTGTGTGGGCTTTAAAAGGCGAAAGCGTCCTGCTCTTTGAAGACTA
130 CACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTTGAAGACTA
*
3349385 AAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGA-C-GAAAA
*
3349450 ATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAA
64 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAA
3349511 GGTGAAAGGA
Statistics
Matches: 441, Mismatches: 36, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
180 8 0.02
181 104 0.24
182 54 0.12
183 39 0.09
184 205 0.46
185 22 0.05
186 9 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (182 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACGAAAAGT
GCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCGTCCTGCTCTTTGAAGACTA
Found at i:3351727 original size:19 final size:19
Alignment explanation
Indices: 3351703--3351770 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3351693 AATTCAACAA
3351703 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3351722 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3351737 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3351754 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3351771 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3351742 original size:13 final size:13
Alignment explanation
Indices: 3351724--3351748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3351714 ACATAAGTTT
3351724 TGTATCGATACAA
1 TGTATCGATACAA
3351737 TGTATCGATACA
1 TGTATCGATACA
3351749 TAAGTATTGT
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:3351746 original size:32 final size:32
Alignment explanation
Indices: 3351705--3351767 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3351695 TTCAACAATT
*
3351705 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3351737 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3351768 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3351828 original size:13 final size:13
Alignment explanation
Indices: 3351810--3351835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3351800 CATTTTTCTG
3351810 TGTATCGATACAT
1 TGTATCGATACAT
3351823 TGTATCGATACAT
1 TGTATCGATACAT
3351836 GGATCTTTGT
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:3351832 original size:33 final size:33
Alignment explanation
Indices: 3351790--3351856 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3351780 GCCAAGGAAA
***
3351790 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3351823 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3351856 T
1 T
3351857 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3354386 original size:28 final size:27
Alignment explanation
Indices: 3354319--3354389 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
3354309 CTTCACAATC
* *
3354319 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
3354346 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
3354374 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
3354390 TGACTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:3354434 original size:51 final size:50
Alignment explanation
Indices: 3354374--3354544 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 50
3354364 TTATTTCTGA
* * *
3354374 GGGGATACTCCAACCCTGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
3354425 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
* *
3354478 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
3354530 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3354545 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 33 0.33
52 23 0.23
53 32 0.32
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:3354563 original size:28 final size:28
Alignment explanation
Indices: 3354527--3354608 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
3354517 ATTTTTCACA
*
3354527 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3354555 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3354583 --CGAGGGAACACTCCAACCTTGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3354609 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 40 0.89
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:3367161 original size:28 final size:28
Alignment explanation
Indices: 3367121--3367225 Score: 158
Period size: 28 Copynumber: 3.8 Consensus size: 28
3367111 TTTTGGAGAT
3367121 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
*
3367149 AATAACGGGGTTGGAGTATCCTCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
*
3367177 AATAACGGGGTTGGAGTATCCCCGATG-A
1 AATAACGGGGTTGGAGTATCCCC-TTGAA
* *
3367205 AATAACGAGGTTGGAATATCC
1 AATAACGGGGTTGGAGTATCC
3367226 TCGAGTGTGA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 69 0.97
29 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCTTGAA
Found at i:3367315 original size:53 final size:53
Alignment explanation
Indices: 3367251--3367384 Score: 223
Period size: 53 Copynumber: 2.5 Consensus size: 53
3367241 TGGTGTTTTT
*
3367251 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCGTTTTGA
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCGTTTCGA
* * *
3367304 AAAATAAAACCGGGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGA
1 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCGTTTCGA
*
3367357 AAAATAAAACCGTGGTTGGAGTATCCCC
1 AAAATAAAACCGGGGTTGGAGTATCCCC
3367385 TCGGAGGTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGCGTTTCGA
Found at i:3367410 original size:28 final size:28
Alignment explanation
Indices: 3367370--3367550 Score: 290
Period size: 28 Copynumber: 6.5 Consensus size: 28
3367360 ATAAAACCGT
3367370 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
3367398 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
3367426 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
*
3367454 GGTTGGAGTATCCCCTCGGAGGTAATGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
* *
3367482 GGTTGGAGTATCACCTCAGAGGTAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
*** **
3367510 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCTCGGAGGTAACGA
3367538 GGTTGGAGTATCC
1 GGTTGGAGTATCC
3367551 TCGATTGTGA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 143 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGGAGGTAACGA
Found at i:3367608 original size:52 final size:51
Alignment explanation
Indices: 3367539--3367659 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
3367529 AAATAACGAG
* * *
3367539 GTTGGAGTATCCTCGATTGTGAA-AAATTGGTGTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-TAAAGAAATTGGTG-TTTTGAAAATAAAACCGGA
*
3367591 GTTGGAGTATCCCCGA-TTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTTAAA-GAAATTGGTGTTTTGAAAATAAAACCGGA
3367642 GTTGGAGTATCCCCGATT
1 GTTGGAGTATCCCCGATT
3367660 ATGATCAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.05
51 34 0.55
52 25 0.40
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTTAAAGAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:3367648 original size:51 final size:52
Alignment explanation
Indices: 3367562--3367660 Score: 173
Period size: 51 Copynumber: 1.9 Consensus size: 52
3367552 CGATTGTGAA
*
3367562 AAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
*
3367614 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTA
3367661 TGATCAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 36 0.80
52 9 0.20
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (52 bp):
AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:3368677 original size:31 final size:31
Alignment explanation
Indices: 3368617--3368677 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
3368607 CTGGAGTTGC
*
3368617 TGTTGCATGCTGGAGCTGCAGTCGCTGCTGT
1 TGTTGCATGCTGGAGCTGCAGTCACTGCTGT
* *
3368648 TGTTGCGTGCTGGAGCTGCAGTCATTGCTG
1 TGTTGCATGCTGGAGCTGCAGTCACTGCTG
3368678 GAGTTGGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.10, C:0.21, G:0.36, T:0.33
Consensus pattern (31 bp):
TGTTGCATGCTGGAGCTGCAGTCACTGCTGT
Done.