Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 17 of 218
Found at i:5946857 original size:6 final size:6
Alignment explanation
Indices: 5946846--5946873 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
5946836 GTGGGTGAAC
5946846 GGTGAT GGTGAT GGTGAT GGTGAT GGTG
1 GGTGAT GGTGAT GGTGAT GGTGAT GGTG
5946874 CTAGGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.54, T:0.32
Consensus pattern (6 bp):
GGTGAT
Found at i:5947642 original size:34 final size:34
Alignment explanation
Indices: 5947599--5947664 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
5947589 AAATACTAAT
* *
5947599 ATGTTTAAAATTTTCATCTTAATCTTTTACTTAA
1 ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
*
5947633 ATGTTTAAAATTTTTATCTTAATATTCTACTT
1 ATGTTTAAAATTTTCATCTTAATATTCTACTT
5947665 CAATCCATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (34 bp):
ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
Found at i:5955135 original size:24 final size:24
Alignment explanation
Indices: 5955103--5955161 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
5955093 TTTATCTACA
*
5955103 TATGTATATATATT-TATATTTTTT
1 TATGAATAT-TATTCTATATTTTTT
*
5955127 TATGAATATTTTTCTATATTTTTT
1 TATGAATATTATTCTATATTTTTT
*
5955151 TAATAAATATT
1 T-ATGAATATT
5955162 TTTGTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 19 0.63
25 8 0.27
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (24 bp):
TATGAATATTATTCTATATTTTTT
Found at i:5955163 original size:24 final size:24
Alignment explanation
Indices: 5955117--5955164 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5955107 TATATATATT
*
5955117 TATATTTTTTTATGAATATTTTTC
1 TATATTTTTTTATAAATATTTTTC
5955141 TATATTTTTTTAATAAATATTTTT
1 TATATTTTTTT-ATAAATATTTTT
5955165 GTATTTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTTTTATAAATATTTTTC
Found at i:5955557 original size:15 final size:15
Alignment explanation
Indices: 5955534--5955568 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5955524 TTTTTATGCC
*
5955534 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
5955549 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
5955564 ATTGT
1 ATTGT
5955569 AGCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:5955575 original size:15 final size:15
Alignment explanation
Indices: 5955542--5955575 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5955532 CCATTGATGT
* *
5955542 ATTTATTATTGTTGT
1 ATTTATTATTGTAGC
5955557 ATTTATTATTGTAGC
1 ATTTATTATTGTAGC
5955572 ATTT
1 ATTT
5955576 GTACATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.62
Consensus pattern (15 bp):
ATTTATTATTGTAGC
Found at i:5958290 original size:21 final size:23
Alignment explanation
Indices: 5958261--5958303 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
5958251 AAATCATAAA
*
5958261 ACAAGATTTTG-AAAGAAGAAAT
1 ACAAGATTTAGAAAAGAAGAAAT
5958283 ACAA-ATTTAGAAAAGAAGAAA
1 ACAAGATTTAGAAAAGAAGAAA
5958304 GAGCGAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.05, G:0.16, T:0.19
Consensus pattern (23 bp):
ACAAGATTTAGAAAAGAAGAAAT
Found at i:5965300 original size:61 final size:61
Alignment explanation
Indices: 5965205--5965327 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
5965195 ATCAACTATG
5965205 CCCAGAAGTGCCACAAATGCCAAATTATGGGGATAAAATGCACGCACCTCCTTCACCTCTT
1 CCCAGAAGTGCCACAAATGCCAAATTATGGGGATAAAATGCACGCACCTCCTTCACCTCTT
5965266 CCCAGAAGTGCCACAAATGCCAAATTATGGGGATAAAATGCACGCACCTCCTTCACCTCTT
1 CCCAGAAGTGCCACAAATGCCAAATTATGGGGATAAAATGCACGCACCTCCTTCACCTCTT
5965327 C
1 C
5965328 ATGTTATAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (61 bp):
CCCAGAAGTGCCACAAATGCCAAATTATGGGGATAAAATGCACGCACCTCCTTCACCTCTT
Found at i:5967541 original size:131 final size:131
Alignment explanation
Indices: 5967253--5967882 Score: 1014
Period size: 131 Copynumber: 4.8 Consensus size: 131
5967243 GCTAAAAAAT
* *
5967253 AGTAGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
5967318 TTGGTAGGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
5967382 GAA
129 GAA
* *
5967385 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTTTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
5967450 TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
66 TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
5967515 A
131 A
5967516 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
5967581 TTGGTAGGAAGCGGATCGAAGACTAGATCTTGTCTTCCCATATTAGTGGCGAAGTAAATCGAAGA
66 TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
5967646 A
131 A
* * * *
5967647 AGCAGATTTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * *
5967712 TTGGTAAGAAATGGATTGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
5967776 GAA
129 GAA
* *
5967779 AGTTGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
5967844 TTGGTAGGAAGTGGATCGAAGAAGC-AGATCTTGCCTTCC
66 TTGGTAGGAAGTGGATCGAAG-A-CTAGATCTTGTCTTCC
5967883 TGCACCGACA
Statistics
Matches: 461, Mismatches: 31, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
130 1 0.00
131 246 0.53
132 212 0.46
133 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
A
Found at i:5967743 original size:263 final size:262
Alignment explanation
Indices: 5967253--5967882 Score: 1041
Period size: 263 Copynumber: 2.4 Consensus size: 262
5967243 GCTAAAAAAT
* *
5967253 AGTAGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
5967318 TTGGTAGGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAA
*
5967382 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTTTCTTCCT
129 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCT
* * *
5967447 ATATTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
194 ATATTGGTAAGAAATGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
5967512 AGAA
259 AGAA
5967516 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
5967581 TTGGTAGGAAGCGGATCGAAGACTAGATCTTGTCTTCCCATATTAGTGGCGAAGTAAATCGAAGA
66 TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAAGA
* *
5967646 AAGCAGATTTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
131 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
*
5967711 ATTGGTAAGAAATGGATTGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
196 ATTGGTAAGAAATGGATCGAAGACT--AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
5967775 AGAA
259 AGAA
* *
5967779 AGTTGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATA
1 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
5967844 TTGGTAGGAAGTGGATCGAAGAAGC-AGATCTTGCCTTCC
66 TTGGTAGGAAGTGGATCGAAG-A-CTAGATCTTGTCTTCC
5967883 TGCACCGACA
Statistics
Matches: 345, Mismatches: 17, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
261 1 0.00
262 120 0.35
263 208 0.60
264 15 0.04
265 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (262 bp):
AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAAGA
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTAT
ATTGGTAAGAAATGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AA
Found at i:5968380 original size:45 final size:44
Alignment explanation
Indices: 5968263--5968420 Score: 128
Period size: 44 Copynumber: 3.6 Consensus size: 44
5968253 ACATCTAGTA
* * * * * *
5968263 TTATCTCCCTGAAGTTGCAGTGCAGCAGACTAAG-TAAGCAAGTT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGAT-GGCAAATC
*
5968307 TTATC-CTCCTGAAGTTGCAAT-GAGGCAGATTGAAGATGGCAAATC
1 TTATCTCT-CTGAAGTTGCAGTGGA-GCAGATT-AAGATGGCAAATC
*
5968352 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA-A-GCCAATAATC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGATGGC-A-AATC
* * *
5968396 CTATCTCACTAAAGTTGCAGTGGAG
1 TTATCTCTCTGAAGTTGCAGTGGAG
5968421 TGGATTAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 51 0.54
45 32 0.34
46 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAATC
Found at i:5968445 original size:44 final size:44
Alignment explanation
Indices: 5968348--5968433 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
5968338 GAAGATGGCA
* * *
5968348 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCACTAAAGTTGCAGTGGAGCAGATTAAAACCAAT
* **
5968392 AATCCTATCTCACTAAAGTTGCAGTGGAGTGGATTAAAACCA
1 AATCTTATCTCACTAAAGTTGCAGTGGAGCAGATTAAAACCA
5968434 CAGATCTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCACTAAAGTTGCAGTGGAGCAGATTAAAACCAAT
Found at i:5968528 original size:45 final size:45
Alignment explanation
Indices: 5968478--5968563 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
5968468 ATCATATCGG
* * *
5968478 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGTAA
1 GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGTAA
*
5968523 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACCCAAGAAA
1 GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAA
5968564 TCAAATCCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (45 bp):
GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGTAA
Found at i:5968581 original size:45 final size:46
Alignment explanation
Indices: 5968485--5968582 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 46
5968475 CGGGTCTTAT
* * * *
5968485 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGTAAGTCTTATC
1 CTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGTAAATCCTATC
*
5968531 C-CCCTGAAATTGCAGTGGGGCAGACCCAAGAAA-TCAAATCCTA-C
1 CTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGT-AAATCCTATC
5968575 CTCCCTGA
1 CTCCCTGA
5968583 CATTATAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 3 0.07
45 41 0.91
46 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
CTCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGTAAATCCTATC
Found at i:5970128 original size:24 final size:24
Alignment explanation
Indices: 5970085--5970131 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5970075 TATATATATT
* * *
5970085 TATATTTTTTTATGACTATTTTTC
1 TATATTTTTTAATAAATATTTTTC
5970109 TATATTTTTTAATAAATATTTTT
1 TATATTTTTTAATAAATATTTTT
5970132 GTATTTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TATATTTTTTAATAAATATTTTTC
Found at i:5970536 original size:15 final size:15
Alignment explanation
Indices: 5970513--5970554 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
5970503 TTTTTATGTC
*
5970513 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
5970528 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
5970543 ATTGTAGTATTT
1 ATTGTTGTATTT
5970555 GTACATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:5974021 original size:13 final size:13
Alignment explanation
Indices: 5974003--5974028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5973993 ATAAAATAAG
5974003 AAAGTGATTTGAA
1 AAAGTGATTTGAA
5974016 AAAGTGATTTGAA
1 AAAGTGATTTGAA
5974029 TTTTGTAAAC
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:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAGTGATTTGAA
Found at i:5984266 original size:7 final size:6
Alignment explanation
Indices: 5984242--5984289 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
5984232 ATTATTTCCC
*
5984242 TTTTTA TTTTT- TTATTTA TTGTTTA TTTATTA TTTCTA TTTTTA TTTT
1 TTTTTA TTTTTA TT-TTTA TT-TTTA TTT-TTA TTTTTA TTTTTA TTTT
5984290 AAAAAATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 2 0.06
6 20 0.56
7 14 0.39
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:5991314 original size:20 final size:20
Alignment explanation
Indices: 5991270--5991317 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
5991260 TTATTTCCAG
*
5991270 CAGACCC-AAAACCTAACAC
1 CAGACCCAAAAAACTAACAC
5991289 CA-ACCCAAAAAACTAA-ACC
1 CAGACCCAAAAAACTAACA-C
5991308 CAGACCCAAA
1 CAGACCCAAA
5991318 TGGCCCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.52, C:0.40, G:0.04, T:0.04
Consensus pattern (20 bp):
CAGACCCAAAAAACTAACAC
Found at i:5992457 original size:3 final size:3
Alignment explanation
Indices: 5992449--5992522 Score: 130
Period size: 3 Copynumber: 24.3 Consensus size: 3
5992439 AGCAATTTTA
5992449 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
5992497 TAT TAT TAT TAT ATAT CAT TAT TAT T
1 TAT TAT TAT TAT -TAT TAT TAT TAT T
5992523 CTCATTATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5992616 original size:28 final size:29
Alignment explanation
Indices: 5992552--5992616 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
5992542 TATATTTGCT
5992552 TATGTA-ATTTTAAATATGTGTCTTATTA
1 TATGTATATTTTAAATATGTGTCTTATTA
* *
5992580 TAT-TAATATTATTATATATTTG-CTTA-TA
1 TATGT-ATATT-TTAAATATGTGTCTTATTA
5992608 TATGTATAT
1 TATGTATAT
5992617 ACATATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 1 0.03
28 13 0.42
29 8 0.26
30 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
TATGTATATTTTAAATATGTGTCTTATTA
Found at i:5992863 original size:17 final size:17
Alignment explanation
Indices: 5992824--5992863 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5992814 TGCACATTTT
*
5992824 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
5992841 TATATATTTATATAATA
1 TTTATATGTATATAATA
5992858 TTTATA
1 TTTATA
5992864 CGCGTTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:5994801 original size:19 final size:19
Alignment explanation
Indices: 5994777--5994823 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5994767 AACGTCTCTT
*
5994777 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
5994796 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
5994815 TATGCATTA
1 TTTGCATTA
5994824 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:5996021 original size:17 final size:18
Alignment explanation
Indices: 5995999--5996045 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
5995989 AATGAAAATG
5995999 AAAAAAATCAAAAATATA
1 AAAAAAATCAAAAATATA
5996017 AAAAACAA--AAAAATATA
1 AAAAA-AATCAAAAATATA
5996034 AAAAAAATCAAA
1 AAAAAAATCAAA
5996046 GTCAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 8 0.31
19 2 0.08
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAAAATCAAAAATATA
Found at i:5996933 original size:12 final size:12
Alignment explanation
Indices: 5996916--5996971 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
5996906 TGACTCGTAC
5996916 AAAAAAATGATG
1 AAAAAAATGATG
* *
5996928 AAAAAAAAGAAG
1 AAAAAAATGATG
5996940 AAAAAAA--ATG
1 AAAAAAATGATG
5996950 -AAAAAATGAATG
1 AAAAAAATG-ATG
5996962 AAAAAAATGA
1 AAAAAAATGA
5996972 AAAATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.16
10 2 0.05
12 21 0.57
13 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (12 bp):
AAAAAAATGATG
Found at i:5996943 original size:9 final size:10
Alignment explanation
Indices: 5996929--5996975 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
5996919 AAAATGATGA
*
5996929 AAAAAAAGAAG
1 AAAAAAA-ATG
5996940 AAAAAAAATG
1 AAAAAAAATG
5996950 AAAAAATGAATG
1 AAAAAA--AATG
5996962 -AAAAAAATG
1 AAAAAAAATG
5996971 AAAAA
1 AAAAA
5996976 TGAAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 12 0.38
12 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:5996988 original size:21 final size:21
Alignment explanation
Indices: 5996929--5996991 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
5996919 AAAATGATGA
* *
5996929 AAAAAAAGAAGAAAAAAAATG
1 AAAAAATGAAAAAAAAAAATG
**
5996950 AAAAAATGAATGAAAAAAATG
1 AAAAAATGAAAAAAAAAAATG
5996971 -AAAAATGAAAAAATAAAAATG
1 AAAAAATGAAAAAA-AAAAATG
5996992 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAAAATGAAAAAAAAAAATG
Found at i:5996991 original size:34 final size:32
Alignment explanation
Indices: 5996917--5996989 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 32
5996907 GACTCGTACA
*
5996917 AAAAAATGATGAAAAAAAAGAAGAAAAAAAAT
1 AAAAAATGATGAAAAAAAAGAAAAAAAAAAAT
*
5996949 GAAAAAATGAATGAAAAAAATGAAAAATGAAAAAAT
1 -AAAAAATG-ATGAAAAAAAAGAAAAA--AAAAAAT
5996985 AAAAA
1 AAAAA
5996990 TGGAGAGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 8 0.23
34 15 0.43
35 5 0.14
36 7 0.20
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (32 bp):
AAAAAATGATGAAAAAAAAGAAAAAAAAAAAT
Found at i:5998459 original size:175 final size:175
Alignment explanation
Indices: 5998168--5998727 Score: 895
Period size: 175 Copynumber: 3.2 Consensus size: 175
5998158 GTTCATTATA
* *
5998168 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** * *
5998233 ATTACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
** * **
5998298 ACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT
* *
5998343 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
5998408 ATTACAGCGGAGCAGATTGAAGATGGCAATCCTATCTCATTGAGATTACAGTGGAGTGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
**
5998473 ATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT
*
5998518 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
5998583 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGTGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
*
5998648 ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT
** * *
5998693 CAAATCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGA
5998728 TTGAAGTTAG
Statistics
Matches: 355, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 355 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT
Found at i:5998718 original size:129 final size:129
Alignment explanation
Indices: 5998567--5998892 Score: 483
Period size: 129 Copynumber: 2.5 Consensus size: 129
5998557 AGAATTTCAG
*
5998567 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* *
5998632 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAA
66 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
*
5998696 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* * *
5998761 AGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
66 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
* * * * ** * *
5998825 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGAT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTGAGAT
5998889 TACA
63 TACA
5998893 GCGGAGCAGA
Statistics
Matches: 178, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
128 1 0.01
129 155 0.87
130 1 0.01
131 21 0.12
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (129 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
Found at i:5998877 original size:175 final size:175
Alignment explanation
Indices: 5998696--5999031 Score: 564
Period size: 175 Copynumber: 1.9 Consensus size: 175
5998686 ATCGTGTCAA
*
5998696 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * * * *
5998761 AGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
* *
5998826 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATTTCAG
5998871 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
5998936 AGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
*
5999001 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
131 TCTTATCTCCCTGAGATTACAGCGGAACAGA
5999032 TTGAAGCTAG
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 149 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
TCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATTTCAG
Found at i:5999022 original size:85 final size:84
Alignment explanation
Indices: 5998744--5999033 Score: 276
Period size: 85 Copynumber: 3.4 Consensus size: 84
5998734 TTAGTAATCC
** *
5998744 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAAGATCTTATCTCTCTGAAGTTACAGCA
* **
5998809 GAGTAGATCGCGTCAGGTCT
65 GAGAAGATCGAATCAGGTCT
* * ** ** *
5998829 TATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTG-AGATTACA
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TAAAGATCTTATCTCTCTGAAG-TTACA
* * * * * *
5998893 GCGGAGCAGATTGAAGCTAGTAATCC
62 GCAGAGAAGATCGAATC-AG--GTCT
* * *
5998919 TATCTCCCTGAGATTACAGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAA-GATCTTATCTCTCTGAAGTTACAGCA
*
5998984 GAGAAGATCGTATCAGGTCT
65 GAGAAGATCGAATCAGGTCT
*
5999004 TATCTCCCTGAGATTACAGCGGAGCAGATT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT
5999034 GAAGCTAGTA
Statistics
Matches: 159, Mismatches: 37, Indels: 18
0.74 0.17 0.08
Matches are distributed among these distances:
85 54 0.34
86 4 0.03
87 36 0.23
88 35 0.22
89 3 0.02
90 27 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAG
AGAAGATCGAATCAGGTCT
Found at i:5999024 original size:129 final size:129
Alignment explanation
Indices: 5998867--5999130 Score: 483
Period size: 129 Copynumber: 2.0 Consensus size: 129
5998857 CCGAAGAATT
*
5998867 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * *
5998932 TTACAGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
5998996 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
5999061 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
5999125 TCAGGT
1 TCAGGT
5999131 TTTACCTCAC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (129 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
Found at i:5999096 original size:44 final size:43
Alignment explanation
Indices: 5998172--5999120 Score: 375
Period size: 44 Copynumber: 21.7 Consensus size: 43
5998162 ATTATACAGG
** *
5998172 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-ATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA-AG--GA
* * * *
5998218 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAAGATGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGG--A
* * * *
5998262 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* * * * * *
5998306 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-CACCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * **
5998347 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * * *
5998393 TCTTATCTCCCTGAAATTACAGCGGAGCAGATTG-AAGATGGCAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGG--A
* ** ** * *
5998437 TCCTATCTCATTGAGATTACAGTGGAGTGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* *** * * ***
5998481 TCTTATCTCTCTGA-AGTTACAACAGAGTAGATCGCGTC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * **
5998522 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * *
5998568 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA-TAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACAAG-GA
* * * ** * *
5998612 TCCTATCTCCTTGAGATTACAATGGAGTGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* * * * ***
5998656 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTGTCAA--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* *** *
5998697 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* ** * * *
5998741 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* ** * * ***
5998785 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCGTC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * **
5998826 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * * *
5998872 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* * * *
5998916 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTTAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* * * * * *
5998960 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTATC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * * *
5999001 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* * *
5999045 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAC-AAGGA
* * *
5999089 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
5999121 CGCATCAGGT
Statistics
Matches: 660, Mismatches: 184, Indels: 120
0.68 0.19 0.12
Matches are distributed among these distances:
41 133 0.20
42 22 0.03
43 11 0.02
44 342 0.52
45 21 0.03
46 131 0.20
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGGA
Found at i:5999155 original size:304 final size:304
Alignment explanation
Indices: 5998388--5999130 Score: 1270
Period size: 304 Copynumber: 2.4 Consensus size: 304
5998378 CCGAAGAATT
* * * **
5998388 TCAGATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGATGGCAATCCTATCTCATTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
5998453 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
5998518 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
5998583 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGTGGATTAAA
196 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
* * *
5998648 ATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* *
5998692 TCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
5998757 TTACAGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
5998822 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * *
5998887 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTTAA
196 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
5998952 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
* *
5998996 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* ** * *
5999061 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
5999126 CAGGT
131 CAGGT
5999131 TTTACCTCAC
Statistics
Matches: 413, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
304 413 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (304 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
Found at i:5999181 original size:129 final size:129
Alignment explanation
Indices: 5998867--5999186 Score: 424
Period size: 129 Copynumber: 2.5 Consensus size: 129
5998857 CCGAAGAATT
* * * * * * *
5998867 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTACCTCACTGAGATTACAGCGGAGCACATTAAAGCCAATAATCCTATCTCCCTGAGA
* * *
5998932 TTACAGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
* * * * * *
5998996 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTACCTCACTGAGATTACAGCGGAGCACATTAAAGCCAATAATCCTATCTCCCTGAGA
*
5999061 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
* * * * * **
5999125 TCAGGTTTTACCTCACTGTGGTTACAGTGGAGTACATTAAAGCCAATAATTTTATCTCCCTG
1 TCAGGTCTTACCTCACTGAGATTACAGCGGAGCACATTAAAGCCAATAATCCTATCTCCCTG
5999187 GTTGGCAGTG
Statistics
Matches: 173, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 173 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
TCAGGTCTTACCTCACTGAGATTACAGCGGAGCACATTAAAGCCAATAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
Found at i:5999691 original size:20 final size:20
Alignment explanation
Indices: 5999647--5999694 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
5999637 TTATTTCCAG
*
5999647 CAGACCC-AAAACCTAACAC
1 CAGACCCAAAAAACTAACAC
5999666 CA-ACCCAAAAAACTAA-ACC
1 CAGACCCAAAAAACTAACA-C
5999685 CAGACCCAAA
1 CAGACCCAAA
5999695 TGGCCCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.52, C:0.40, G:0.04, T:0.04
Consensus pattern (20 bp):
CAGACCCAAAAAACTAACAC
Found at i:6000952 original size:28 final size:29
Alignment explanation
Indices: 6000888--6000952 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
6000878 TATATTTACT
6000888 TATGTA-ATTTTAAATATGTGTCTTATTA
1 TATGTATATTTTAAATATGTGTCTTATTA
* *
6000916 TAT-TAATATTATTATATATTTG-CTTA-TA
1 TATGT-ATATT-TTAAATATGTGTCTTATTA
6000944 TATGTATAT
1 TATGTATAT
6000953 ACATATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 1 0.03
28 13 0.42
29 8 0.26
30 9 0.29
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
TATGTATATTTTAAATATGTGTCTTATTA
Found at i:6022008 original size:425 final size:425
Alignment explanation
Indices: 6021218--6022055 Score: 1667
Period size: 425 Copynumber: 2.0 Consensus size: 425
6021208 CTGAACCAAG
6021218 CAGTTTTAAAGAAGAGGCTGAAGCTCAGCAAGGGTGGAAGCAAGCAATGGCTGAGGAGATAAGCA
1 CAGTTTTAAAGAAGAGGCTGAAGCTCAGCAAGGGTGGAAGCAAGCAATGGCTGAGGAGATAAGCA
6021283 TGATTGAGAAGAACCAGACTTGGGAATTGGTTGAAAGACCAGTCAAAAGAAAGGTTATTTGAGTG
66 TGATTGAGAAGAACCAGACTTGGGAATTGGTTGAAAGACCAGTCAAAAGAAAGGTTATTTGAGTG
6021348 AAATGGGTGTATAAAGCCAAGCAAAATGCTGATGGAAGTTTGAACAATCTGAAAACAAGGCTGGT
131 AAATGGGTGTATAAAGCCAAGCAAAATGCTGATGGAAGTTTGAACAATCTGAAAACAAGGCTGGT
6021413 TGTCAAGGGGTTCAGTCAGAAGTATGGCCTGGACTACCTGGAGACCTTTGGACCAGTGGCCAGGC
196 TGTCAAGGGGTTCAGTCAGAAGTATGGCCTGGACTACCTGGAGACCTTTGGACCAGTGGCCAGGC
6021478 TCGACACCATCAAACTACTGATTGCCTTAGCAGCACAGCTCGAATGGAAAATCCATCAACTCAAT
261 TCGACACCATCAAACTACTGATTGCCTTAGCAGCACAGCTCGAATGGAAAATCCATCAACTCAAT
6021543 GTGAAGTCAGCCTTTCTGAATGGATTCCTTAATGAAGACATCTATATTGAACAACCATAGGGGTT
326 GTGAAGTCAGCCTTTCTGAATGGATTCCTTAATGAAGACATCTATATTGAACAACCATAGGGGTT
6021608 TGAGGTAGCTGGCAAAGAGCACAATTGAGAAGAAC
391 TGAGGTAGCTGGCAAAGAGCACAATTGAGAAGAAC
6021643 CAGTTTTAAAGAAGAGGCTGAAGCTCAGCAAGGGTGGAAGCAAGCAATGGCTGAGGAGATAAGCA
1 CAGTTTTAAAGAAGAGGCTGAAGCTCAGCAAGGGTGGAAGCAAGCAATGGCTGAGGAGATAAGCA
*
6021708 TGATTGAGAAGAACCAGACTTGGGAATTGGTTGAAAGACTAGTCAAAAGAAAGGTTATTTGAGTG
66 TGATTGAGAAGAACCAGACTTGGGAATTGGTTGAAAGACCAGTCAAAAGAAAGGTTATTTGAGTG
6021773 AAATGGGTGTATAAAGCCAAGCAAAATGCTGATGGAAGTTTGAACAATCTGAAAACAAGGCTGGT
131 AAATGGGTGTATAAAGCCAAGCAAAATGCTGATGGAAGTTTGAACAATCTGAAAACAAGGCTGGT
6021838 TGTCAAGGGGTTCAGTCAGAAGTATGGCCTGGACTACCTGGAGACCTTTGGACCAGTGGCCAGGC
196 TGTCAAGGGGTTCAGTCAGAAGTATGGCCTGGACTACCTGGAGACCTTTGGACCAGTGGCCAGGC
6021903 TCGACACCATCAAACTACTGATTGCCTTAGCAGCACAGCTCGAATGGAAAATCCATCAACTCAAT
261 TCGACACCATCAAACTACTGATTGCCTTAGCAGCACAGCTCGAATGGAAAATCCATCAACTCAAT
6021968 GTGAAGTCAGCCTTTCTGAATGGATTCCTTAATGAAGACATCTATATTGAACAACCATAGGGGTT
326 GTGAAGTCAGCCTTTCTGAATGGATTCCTTAATGAAGACATCTATATTGAACAACCATAGGGGTT
6022033 TGAGGTAGCTGGCAAAGAGCACA
391 TGAGGTAGCTGGCAAAGAGCACA
6022056 TGGTGTACAA
Statistics
Matches: 412, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
425 412 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (425 bp):
CAGTTTTAAAGAAGAGGCTGAAGCTCAGCAAGGGTGGAAGCAAGCAATGGCTGAGGAGATAAGCA
TGATTGAGAAGAACCAGACTTGGGAATTGGTTGAAAGACCAGTCAAAAGAAAGGTTATTTGAGTG
AAATGGGTGTATAAAGCCAAGCAAAATGCTGATGGAAGTTTGAACAATCTGAAAACAAGGCTGGT
TGTCAAGGGGTTCAGTCAGAAGTATGGCCTGGACTACCTGGAGACCTTTGGACCAGTGGCCAGGC
TCGACACCATCAAACTACTGATTGCCTTAGCAGCACAGCTCGAATGGAAAATCCATCAACTCAAT
GTGAAGTCAGCCTTTCTGAATGGATTCCTTAATGAAGACATCTATATTGAACAACCATAGGGGTT
TGAGGTAGCTGGCAAAGAGCACAATTGAGAAGAAC
Found at i:6033598 original size:41 final size:41
Alignment explanation
Indices: 6033513--6033598 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
6033503 TTCTGAGACC
*
6033513 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTCG
1 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
* * *
6033554 TTTTCCTAATTATATAAGGAGTGGATTATAAATTATATTAG
1 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
6033595 TTTT
1 TTTT
6033599 TAGTTTTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (41 bp):
TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
Found at i:6035166 original size:26 final size:26
Alignment explanation
Indices: 6035137--6035191 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
6035127 AACACACCAA
* * *
6035137 TATCGCAGCAAAACTGCCAGTAATAG
1 TATCACAGCAAAACTGCCAATAACAG
*
6035163 TATCACAGCAAAGCTGCCAATAACAG
1 TATCACAGCAAAACTGCCAATAACAG
6035189 TAT
1 TAT
6035192 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAACTGCCAATAACAG
Found at i:6035356 original size:28 final size:27
Alignment explanation
Indices: 6035324--6035401 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
6035314 AACCTACCTC
*
6035324 TAGGGGTATAATGGTTATTTCTA-TTTAT
1 TAGGGGTATAATGGTTATTT-TACTCT-T
* * *
6035352 TAGGGGTAAAATAGTCATTTTACTCTT
1 TAGGGGTATAATGGTTATTTTACTCTT
**
6035379 TAGGGGTATTTTGGTTATTTTAC
1 TAGGGGTATAATGGTTATTTTAC
6035402 CTATTTTGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (27 bp):
TAGGGGTATAATGGTTATTTTACTCTT
Found at i:6045959 original size:45 final size:46
Alignment explanation
Indices: 6045903--6046014 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 46
6045893 TGTACTCACC
* * **
6045903 GCCAGAGGCAGATTCCATCTGC-GTGCTATTTGTTGTGT-ATCCACA
1 GCCAAAGGCAGATTTCATCTGCTG-GCTAAATGTTGTGTAATCCACA
* * *
6045948 GCCAAAGGCAGATTTCATTTACTGGTTAAATGTTGTGTAATCCACA
1 GCCAAAGGCAGATTTCATCTGCTGGCTAAATGTTGTGTAATCCACA
*
6045994 GTCAAAGGCAGATTTCATCTG
1 GCCAAAGGCAGATTTCATCTG
6046015 TAAGATTTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 29 0.53
46 26 0.47
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (46 bp):
GCCAAAGGCAGATTTCATCTGCTGGCTAAATGTTGTGTAATCCACA
Found at i:6046027 original size:45 final size:44
Alignment explanation
Indices: 6045931--6046031 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 44
6045921 CTGCGTGCTA
* *
6045931 TTTGTTGTGT-ATCCACAGCCAAAGGCAGATTTCATTTACTGGT
1 TTTGTTGTGTAATCCACAGCCAAAGGCAGATTTCATTTACAGAT
* *
6045974 TAAATGTTGTGTAATCCACAGTCAAAGGCAGATTTCATCTGTA-AGAT
1 T--TTGTTGTGTAATCCACAGCCAAAGGCAGATTTCAT-T-TACAGAT
6046021 TTTGTTGTGTA
1 TTTGTTGTGTA
6046032 CCCATAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.02
45 17 0.35
46 24 0.50
47 4 0.08
48 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (44 bp):
TTTGTTGTGTAATCCACAGCCAAAGGCAGATTTCATTTACAGAT
Found at i:6046711 original size:352 final size:352
Alignment explanation
Indices: 6046067--6046767 Score: 1384
Period size: 352 Copynumber: 2.0 Consensus size: 352
6046057 TGCAGAATTT
6046067 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
*
6046132 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCTCATTATGGTGTATAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTATAGCGGTGAGGTAGGATCGTTT
6046197 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6046262 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6046327 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6046392 CACATTGGATGTCATAGCATACTCACA
326 CACATTGGATGTCATAGCATACTCACA
6046419 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
*
6046484 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTATAGCGGTGAGGTAGGATCGTTT
6046549 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6046614 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6046679 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6046744 CACATTGGATGTCATAGCATACTC
326 CACATTGGATGTCATAGCATACTC
6046768 TTCTTTTAAT
Statistics
Matches: 347, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 347 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (352 bp):
TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTATAGCGGTGAGGTAGGATCGTTT
TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
CACATTGGATGTCATAGCATACTCACA
Found at i:6047290 original size:18 final size:18
Alignment explanation
Indices: 6047259--6047294 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6047249 CTCATTGTTG
6047259 CCATCCTGAACGAATCAA
1 CCATCCTGAACGAATCAA
* *
6047277 CCATCTTGAGCGAATCAA
1 CCATCCTGAACGAATCAA
6047295 TCTGCGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (18 bp):
CCATCCTGAACGAATCAA
Found at i:6050108 original size:43 final size:43
Alignment explanation
Indices: 6049953--6050092 Score: 244
Period size: 43 Copynumber: 3.3 Consensus size: 43
6049943 CGCCGCGAAA
* *
6049953 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCCAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
6049996 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
6050039 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
6050082 AAACGCCGCTA
1 AAACGCCGCTA
6050093 TAAATATAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:6055447 original size:41 final size:41
Alignment explanation
Indices: 6055386--6055544 Score: 203
Period size: 41 Copynumber: 3.9 Consensus size: 41
6055376 AGATTTTATT
* *
6055386 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGAGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
* **
6055427 ATTAGCGGAGCTTTTCCAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGAGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
* * * *
6055468 ATTAGCGGTGCTTTTTCAAAAACACTGCTAAAGGTACGAGC
1 ATTAGCGGAGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
* *
6055509 ATTAGC-GACGCTTTCCCAAAAATGCCGCTAAAGGTA
1 ATTAGCGGA-GCTTTTCCAAAAACGCCGCTAAAGGTA
6055545 GGGGTGAGCA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.01
41 100 0.99
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
ATTAGCGGAGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
Found at i:6055528 original size:82 final size:82
Alignment explanation
Indices: 6055386--6055542 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 82
6055376 AGATTTTATT
* *
6055386 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGAGCTTTTCCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGTACGAGCATTAGCGGAGCTTTCCCAAAAACG
*
6055451 CTGCTAAAGGCCCGAGC
66 CCGCTAAAGGCCCGAGC
* * *
6055468 ATTAGCGGTGCTTTTTCAAAAACACTGCTAAAGGTACGAGCATTAGC-GACGCTTTCCCAAAAAT
1 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGTACGAGCATTAGCGGA-GCTTTCCCAAAAAC
6055532 GCCGCTAAAGG
65 GCCGCTAAAGG
6055543 TAGGGGTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 2 0.03
82 66 0.97
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGTACGAGCATTAGCGGAGCTTTCCCAAAAACG
CCGCTAAAGGCCCGAGC
Found at i:6056555 original size:21 final size:21
Alignment explanation
Indices: 6056521--6056560 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6056511 GGGGAAAGTG
*
6056521 GGAAAGAGTAAAAGTTTTGAA
1 GGAAAGAGTAAAAGGTTTGAA
6056542 GGAAA-AGTAGAAAGGTTTG
1 GGAAAGAGTA-AAAGGTTTG
6056561 GGAATTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
GGAAAGAGTAAAAGGTTTGAA
Found at i:6056695 original size:9 final size:9
Alignment explanation
Indices: 6056678--6056708 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6056668 TTGAGTTGAT
6056678 TCGAATAAC
1 TCGAATAAC
*
6056687 TCGATTAAC
1 TCGAATAAC
6056696 TCGAATAAC
1 TCGAATAAC
6056705 TCGA
1 TCGA
6056709 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6056837 original size:41 final size:41
Alignment explanation
Indices: 6056779--6056988 Score: 323
Period size: 41 Copynumber: 5.1 Consensus size: 41
6056769 TCACCCCTAA
*
6056779 CTAAAGGTA-CGAGCATTAGCGGCGCTTTTCCAAAAACGCCG
1 CTAAAGG-ACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
* *
6056820 TTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
1 CTAAAGGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
* * *
6056861 CTAAAGGCCCGAGCATTAGTGGCGCTTTTCCAAAAACGCCG
1 CTAAAGGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
*
6056902 CTAAAGGATCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
1 CTAAAGGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
* *
6056943 CTAAAGGATCGAGCATTAGCGGCACTTTTTCAAAAACGCCG
1 CTAAAGGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
6056984 CTAAA
1 CTAAA
6056989 TTCCCCCAAA
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
41 157 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
CTAAAGGACCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
Found at i:6057163 original size:40 final size:40
Alignment explanation
Indices: 6057028--6057163 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
6057018 TGGGCTTAGG
* * *
6057028 TTTTTTGCGGCGCTTTTTGGAAAA-CACCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTTGCAAAAGCGCCGCTAATGCTTGA
* * * * *
6057067 ATTTTAGCGGCG-TTTTCCAAAATGAGCCGTTAATGCTCGA
1 TTTTTAGCGGCGTTTTTGCAAAA-GCGCCGCTAATGCTTGA
* * *
6057107 TCTTTAGCGGCATTTTTGTAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGCTTGA
*
6057147 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
6057164 TTATCCAAAC
Statistics
Matches: 74, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 8 0.11
39 20 0.27
40 38 0.51
41 8 0.11
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGCTTGA
Found at i:6057551 original size:22 final size:22
Alignment explanation
Indices: 6057509--6057551 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6057499 TTTTTTAATA
* *
6057509 GATCTAATATCTCTATCATATT
1 GATCTAAAATCTATATCATATT
6057531 GATCTAAAATACTATAT-ATAT
1 GATCTAAAAT-CTATATCATAT
6057552 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (22 bp):
GATCTAAAATCTATATCATATT
Found at i:6057793 original size:15 final size:15
Alignment explanation
Indices: 6057773--6057802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6057763 TACGTATGTT
*
6057773 ATATTATATACTATA
1 ATATTATATAATATA
6057788 ATATTATATAATATA
1 ATATTATATAATATA
6057803 GTAGAAGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTATATAATATA
Found at i:6058124 original size:19 final size:19
Alignment explanation
Indices: 6058074--6058115 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6058064 CTAGTAATAC
* *
6058074 ATTAACATATTATTAAAAT
1 ATTAATATATTAATAAAAT
*
6058093 TTTAATATATTAATAAAAT
1 ATTAATATATTAATAAAAT
6058112 ATTA
1 ATTA
6058116 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAATATATTAATAAAAT
Found at i:6066812 original size:40 final size:39
Alignment explanation
Indices: 6066768--6066906 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
6066758 ACACAACAGT
6066768 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGT-ATAAA
* * *
6066808 TTGGCACCCAGTGTCTCATCGGCTAAATCGAAG--TAAA
1 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTATAAA
* * *
6066845 TTGGCACCCACTGCCTCATCGAATTAATTCGAAATAGTAAA
1 TTGGCACCCAGTGCCTCATCGGA-TAATTCGAAGTA-TAAA
* * *
6066886 TTGACACCCAATGTCTCATCG
1 TTGGCACCCAGTGCCTCATCG
6066907 ACTCGAAGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 23 0.28
38 8 0.10
40 30 0.36
41 22 0.27
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (39 bp):
TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTATAAA
Found at i:6067108 original size:24 final size:24
Alignment explanation
Indices: 6067063--6067109 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6067053 TATATATACC
6067063 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
6067087 AATTC-ATCATATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
6067110 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:6070044 original size:10 final size:10
Alignment explanation
Indices: 6070031--6070086 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
6070021 TTATTATTTT
6070031 TAATTTTTAA
1 TAATTTTTAA
*
6070041 TAATTTTTTA
1 TAATTTTTAA
* *
6070051 CAATTTCTAA
1 TAATTTTTAA
6070061 TAAATTTTATAA
1 T-AATTTT-TAA
6070073 -AATTTTTAA
1 TAATTTTTAA
6070082 TAATT
1 TAATT
6070087 ATTATTTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 3 0.08
10 26 0.70
11 5 0.14
12 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:6070091 original size:21 final size:20
Alignment explanation
Indices: 6070032--6070091 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
6070022 TATTATTTTT
* *
6070032 AATTTTTAATAATTTTTTAC
1 AATTTTTAATAATTTTATAA
*
6070052 AATTTCTAATAAATTTTATAA
1 AATTTTTAAT-AATTTTATAA
6070073 AATTTTTAATAATTATTAT
1 AATTTTTAATAATT-TTAT
6070092 TTTTGTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAATAATTTTATAA
Found at i:6070183 original size:16 final size:17
Alignment explanation
Indices: 6070150--6070189 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6070140 AAATTATATA
*
6070150 TATATTTATACATATTT
1 TATATTTACACATATTT
*
6070167 TATATTTACA-ATTTTT
1 TATATTTACACATATTT
6070183 TATATTT
1 TATATTT
6070190 TTAATGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTACACATATTT
Found at i:6081838 original size:16 final size:16
Alignment explanation
Indices: 6081805--6081838 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6081795 TCAGGATGTT
* *
6081805 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6081821 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6081837 AA
1 AA
6081839 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:6084660 original size:21 final size:21
Alignment explanation
Indices: 6084634--6084674 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6084624 AGACGAGCAA
* *
6084634 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6084655 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6084675 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6086612 original size:16 final size:16
Alignment explanation
Indices: 6086579--6086612 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6086569 GGAGATTGTT
* *
6086579 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6086595 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6086611 AA
1 AA
6086613 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:6097072 original size:35 final size:35
Alignment explanation
Indices: 6097026--6097108 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
6097016 CAATGAAACA
* *
6097026 ATATCAAACATATAGAATTAAGTATGTTACATATC
1 ATATCATACATACAGAATTAAGTATGTTACATATC
6097061 ATATCATACATACAGAATTAAGTATGTTACATATC
1 ATATCATACATACAGAATTAAGTATGTTACATATC
6097096 ATA-CATACATACA
1 ATATCATACATACA
6097109 TACATACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 10 0.22
35 36 0.78
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (35 bp):
ATATCATACATACAGAATTAAGTATGTTACATATC
Found at i:6097104 original size:4 final size:4
Alignment explanation
Indices: 6097088--6097862 Score: 1514
Period size: 4 Copynumber: 192.8 Consensus size: 4
6097078 TTAAGTATGT
6097088 TACA TATCA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097137 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097185 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097233 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097281 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097329 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097377 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097425 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097473 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097521 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097569 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097617 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097665 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097713 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097761 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6097809 TACA TACA TACA TACA TACA TACA TACA TACA TACAA TCACA TATCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TAC-A T-ACA TA-CA TACA
6097860 TAC
1 TAC
6097863 TTAATAAAGT
Statistics
Matches: 767, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
4 753 0.98
5 12 0.02
6 2 0.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:6104719 original size:42 final size:42
Alignment explanation
Indices: 6104665--6104804 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 42
6104655 TAGATAAAAC
6104665 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
1 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
* * * *
6104707 ATTTGTAGATAAAATTGCAACTAGGTGGTGGATGCACAACAT
1 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
* * * * *
6104749 ATTTGCAAATAAAACTG-TCATTGGGTTATGGATGCACAACAG
1 ATTTGCAGATAAAATTGCT-ACTGGGTTGTGGATGCACAACAT
6104791 ATTTGCAGATAAAA
1 ATTTGCAGATAAAA
6104805 CAACCACTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (42 bp):
ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
Found at i:6106711 original size:91 final size:90
Alignment explanation
Indices: 6106555--6106719 Score: 222
Period size: 91 Copynumber: 1.8 Consensus size: 90
6106545 ACACTCTATT
* * * * *** *
6106555 TTGTGGATGAACCACTAGTGTTGCAGGTTAATACGCTGTTAGTAGTTATGAATACACAACTGGTT
1 TTGTGGATAAACCACTAGTCTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGTT
*
6106620 TGCGGATAATAATTGCCAGTATAAA
66 TGCAGATAATAATTGCCAGTATAAA
* *
6106645 TTGTGGATAAACCACTAGTTCTTGCAAGTTAATACACTACCAGTAGTTGTGAATTCACAACAGGT
1 TTGTGGATAAACCACTAG-TCTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGT
6106710 TTGCAGATAA
65 TTGCAGATAA
6106720 AAGCTACCAG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
90 17 0.27
91 46 0.73
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (90 bp):
TTGTGGATAAACCACTAGTCTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGTT
TGCAGATAATAATTGCCAGTATAAA
Found at i:6106730 original size:91 final size:88
Alignment explanation
Indices: 6106554--6106775 Score: 220
Period size: 91 Copynumber: 2.5 Consensus size: 88
6106544 GACACTCTAT
* * * * *** *
6106554 TTTGTGGATGAACCACTAGTGTTGCAGGTTAATACGCTGTTAGTAGTTATGAATACACAACTGGT
1 TTTGTGGATAAACCACTAGTTTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGT
* * *
6106619 TTGCGGATAATAATTGCCAGT-A
66 TTGCAGATAATAACTACCAGTGA
* *
6106641 TAAATTGTGGATAAACCACTAGTTCTTGCAAGTTAATACACTACCAGTAGTTGTGAATTCACAAC
1 T---TTGTGGATAAACCACTAGTT-TTGCAAGTTAATACACTACCAGTAGTTATGAATACACAAC
6106706 AGGTTTGCAGATAA-AAGCTACCAGTGA
62 AGGTTTGCAGATAATAA-CTACCAGTGA
* *
6106733 TTTATGGATAAACCACCAGTGTTTGCAA-TTAA-A-ACTACCAGTA
1 TTTGTGGATAAACCACTAGT-TTTGCAAGTTAATACACTACCAGTA
6106776 CTTCCTCCTT
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
86 10 0.09
87 2 0.02
88 4 0.04
89 23 0.20
90 21 0.19
91 51 0.45
92 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (88 bp):
TTTGTGGATAAACCACTAGTTTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGT
TTGCAGATAATAACTACCAGTGA
Found at i:6108012 original size:24 final size:23
Alignment explanation
Indices: 6107985--6108032 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6107975 ATAACAATAC
* *
6107985 GCAGAAAATTCTGCCAGTAAAAAT
1 GCAGAAAA-GCTGCCAATAAAAAT
*
6108009 GCAGACAAGCTGCCAATAAAAAT
1 GCAGAAAAGCTGCCAATAAAAAT
6108032 G
1 G
6108033 TGATAAATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (23 bp):
GCAGAAAAGCTGCCAATAAAAAT
Found at i:6117832 original size:13 final size:13
Alignment explanation
Indices: 6117816--6117840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6117806 ACTTTTCCTT
6117816 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
6117829 AAAAAGAAAAAA
1 AAAAAGAAAAAA
6117841 CATGGCCTGA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:6118299 original size:28 final size:32
Alignment explanation
Indices: 6118236--6118312 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 32
6118226 AAAATTAAAT
6118236 AAATAAAATAATATATAAAATTATTAAATATTA
1 AAATAAAATAATATATAAAATTATTAAATA-TA
* *
6118269 AAATAATATAATATA-AATATT-TTAAA-A-A
1 AAATAAAATAATATATAAAATTATTAAATATA
6118297 AAATTAAAAATAATAT
1 AAA-T-AAAATAATAT
6118313 GAGTGGGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.10
29 1 0.03
30 10 0.26
31 5 0.13
32 5 0.13
33 14 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATAAAATAATATATAAAATTATTAAATATA
Found at i:6128008 original size:17 final size:17
Alignment explanation
Indices: 6127986--6128031 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
6127976 TAATTAGAAT
6127986 TTTCTTTCCTCTCCCTA
1 TTTCTTTCCTCTCCCTA
* * *
6128003 TTTCTTCCCTCT-CTTT
1 TTTCTTTCCTCTCCCTA
6128019 TTTCTTTCCTCTC
1 TTTCTTTCCTCTC
6128032 ATTTACATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCTTTCCTCTCCCTA
Found at i:6130335 original size:30 final size:31
Alignment explanation
Indices: 6130299--6130366 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
6130289 TTAATATATA
6130299 TTATAAAAAT-AGAATA-AAAAGTTT-AAAATT
1 TTATAAAAATCA-AA-ACAAAAGTTTAAAAATT
*
6130329 TTATAAAATTCAAAACAAAAGTTTAAAAATT
1 TTATAAAAATCAAAACAAAAGTTTAAAAATT
6130360 TTATAAA
1 TTATAAA
6130367 TTAGTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 1 0.03
30 19 0.56
31 14 0.41
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (31 bp):
TTATAAAAATCAAAACAAAAGTTTAAAAATT
Found at i:6130400 original size:15 final size:15
Alignment explanation
Indices: 6130382--6130410 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6130372 AATTTTTTAA
6130382 TTATATAATATAAAT
1 TTATATAATATAAAT
6130397 TTATATAATATAAA
1 TTATATAATATAAA
6130411 ATATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATAATATAAAT
Found at i:6145335 original size:38 final size:38
Alignment explanation
Indices: 6145254--6145339 Score: 104
Period size: 38 Copynumber: 2.2 Consensus size: 38
6145244 ATTATTGATG
* *
6145254 CATGTTCAACATGTTTACTATTTATTGTTGAACCGAATA
1 CATGTT-AACATGTTTACTAGTTACTGTTGAACCGAATA
*
6145293 CATGTTAAGCATGTTTACT-GTTACTGTTGAACTGAACT-
1 CATGTTAA-CATGTTTACTAGTTACTGTTGAACCGAA-TA
6145331 CATGTTAAC
1 CATGTTAAC
6145340 CAAGTTCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 1 0.02
38 24 0.57
39 17 0.40
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (38 bp):
CATGTTAACATGTTTACTAGTTACTGTTGAACCGAATA
Found at i:6145410 original size:34 final size:33
Alignment explanation
Indices: 6145367--6145444 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
6145357 TTATGATCTA
*
6145367 TATAAGCATGATAATTGCTACTGTATTGA-CTCGT
1 TATAAGCATG-TAATTGCTACCGTATTGATCT-GT
*
6145401 TATAAGCATGTTATTGCTACCGTATTGATCTGT
1 TATAAGCATGTAATTGCTACCGTATTGATCTGT
*
6145434 TGTAAGCATGT
1 TATAAGCATGT
6145445 CATATTGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 28 0.70
34 12 0.30
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (33 bp):
TATAAGCATGTAATTGCTACCGTATTGATCTGT
Found at i:6145571 original size:45 final size:45
Alignment explanation
Indices: 6145520--6145615 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
6145510 CCAGCGTTTT
* ** *
6145520 ATCCACAACGTACTAGCAGGTTTTATCTACACTGATGGATAGTTC
1 ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
* *
6145565 ATCCACAACGTATTAGCAGCTTTTATCTACACAAACGGATGGTTC
1 ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
6145610 ATCCAC
1 ATCCAC
6145616 CAATATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
Found at i:6145670 original size:21 final size:21
Alignment explanation
Indices: 6145631--6145670 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6145621 TATTTTCATC
**
6145631 ATTAGCAGTTCATTTACAATG
1 ATTAGCAGTTCATCCACAATG
*
6145652 ATTAGTAGTTCATCCACAA
1 ATTAGCAGTTCATCCACAA
6145671 AGTAGTGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
ATTAGCAGTTCATCCACAATG
Found at i:6147642 original size:16 final size:15
Alignment explanation
Indices: 6147623--6147658 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
6147613 TCACAAACCT
6147623 TTTTCCTTTTTCTTCA
1 TTTTCCTTTTT-TTCA
*
6147639 TTTTCCTTTTTTTCT
1 TTTTCCTTTTTTTCA
6147654 TTTTC
1 TTTTC
6147659 TACTCAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCCTTTTTTTCA
Found at i:6147990 original size:48 final size:49
Alignment explanation
Indices: 6147919--6148017 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
6147909 AAATAAATAC
6147919 ATTCTTTCTTAGTCCATTTTCTCTTTTTC-TTCTCTCTCTTTAACTCAA
1 ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTCTCTCTCTTTAACTCAA
6147967 ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTTCTCTCTCTTTAACTCAA
1 ATTCTTTCTTAGTCCATTTTCTCTTTTTC-TTTCTCTCTCTTTAACTCAA
6148017 A
1 A
6148018 AGACTCTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 29 0.59
50 20 0.41
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (49 bp):
ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTCTCTCTCTTTAACTCAA
Found at i:6150090 original size:24 final size:24
Alignment explanation
Indices: 6150062--6150114 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
6150052 TTTCTAGAAG
6150062 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
* *
6150086 ATTTAGTATTTATTAGTATAGTTT
1 ATTTAGTATTTATTAGTATAATAT
6150110 ATTTA
1 ATTTA
6150115 ACTCACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:6153996 original size:21 final size:22
Alignment explanation
Indices: 6153967--6154013 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6153957 CAGAAGGAGT
*
6153967 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6153989 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6154010 GAGT
1 GAGT
6154014 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6157441 original size:20 final size:20
Alignment explanation
Indices: 6157377--6157441 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
6157367 TATTTTTATA
6157377 ATTTTTAATAGATTTATTAAGT
1 ATTTTTAATA-ATTTATTAA-T
* *
6157399 -TGTTT-ATAGTTT-TTAAT
1 ATTTTTAATAATTTATTAAT
* *
6157416 AATTTTAATATTTTATTAAT
1 ATTTTTAATAATTTATTAAT
6157436 ATTTTT
1 ATTTTT
6157442 CTAGTAATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 9 0.26
20 13 0.38
21 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
ATTTTTAATAATTTATTAAT
Found at i:6157465 original size:19 final size:19
Alignment explanation
Indices: 6157436--6157472 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6157426 TTTTATTAAT
6157436 ATTTTTCTAGTAATGTTTTG
1 ATTTTTCTAGTAAT-TTTTG
6157456 ATTTTT-TAGTAATTTTT
1 ATTTTTCTAGTAATTTTT
6157473 AATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTTTTCTAGTAATTTTTG
Found at i:6157559 original size:80 final size:83
Alignment explanation
Indices: 6157467--6157653 Score: 247
Period size: 87 Copynumber: 2.2 Consensus size: 83
6157457 TTTTTTAGTA
*
6157467 ATTTTTAATAAAAATTTTAAGTCTTCTAT-AA-A-TTTTATTTTTAATTTCTTTCT-AATAGTTT
1 ATTTTTAATAAAAATTTTAAGTCTTCTATAAATATTTTTATTTTTAATTTATTT-TAAATAGTTT
6157528 TTGAATTTATAATAATTTT
65 TTGAATTTATAATAATTTT
* *
6157547 ATTTTTAATAAAAATTTTAAGTCTTCTATAAACTTTATTTTTTATTTTTTATTTATTTTAAATAT
1 ATTTTTAATAAAAATTTTAAGTCTTCTATAAA---TA-TTTTTATTTTTAATTTATTTTAAATAG
6157612 TTTTTGAATTTATAATAATTTT
62 TTTTTGAATTTATAATAATTTT
* *
6157634 GTTTTTAATAATGAATTTTA
1 ATTTTTAATAA-AAATTTTA
6157654 GTTTGGGTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
80 29 0.31
81 2 0.02
85 1 0.01
86 1 0.01
87 53 0.57
88 7 0.08
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (83 bp):
ATTTTTAATAAAAATTTTAAGTCTTCTATAAATATTTTTATTTTTAATTTATTTTAAATAGTTTT
TGAATTTATAATAATTTT
Found at i:6159435 original size:19 final size:19
Alignment explanation
Indices: 6159389--6159435 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6159379 ATATGTTTGT
*
6159389 AAAATATTATGAAATTTAAA
1 AAAATATTAT-AAATCTAAA
6159409 AAAA-ATTAT-AATCTAAA
1 AAAATATTATAAATCTAAA
6159426 ATAAATATTA
1 A-AAATATTA
6159436 AAACTAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.33
18 3 0.12
19 9 0.38
20 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATTATAAATCTAAA
Found at i:6165971 original size:22 final size:23
Alignment explanation
Indices: 6165923--6165972 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
6165913 CAAAAAAAAT
* *
6165923 ATAATCATCTAAAAGCTTATTCT
1 ATAATCATCTAAAAGATTATTCG
*
6165946 ATAATCATC-AAAAGATTCTTCG
1 ATAATCATCTAAAAGATTATTCG
6165968 ATAAT
1 ATAAT
6165973 AATTTACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (23 bp):
ATAATCATCTAAAAGATTATTCG
Found at i:6167757 original size:6 final size:6
Alignment explanation
Indices: 6167748--6167781 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6167738 CACTGATCTT
* *
6167748 CCCTTT CCCTTC CTCTTC CCCTTC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCT
6167782 ATCCTTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCCTTC
Found at i:6167771 original size:12 final size:12
Alignment explanation
Indices: 6167745--6167786 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6167735 AGACACTGAT
*
6167745 CTTCC-CTTTCC
1 CTTCCTCTTCCC
6167756 CTTCCTCTTCCC
1 CTTCCTCTTCCC
*
6167768 CTTCCCCTTCCC
1 CTTCCTCTTCCC
6167780 CTATCCT
1 CT-TCCT
6167787 TGACACCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 5 0.19
12 18 0.69
13 3 0.12
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (12 bp):
CTTCCTCTTCCC
Found at i:6167775 original size:18 final size:17
Alignment explanation
Indices: 6167744--6167778 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6167734 TAGACACTGA
*
6167744 TCTTCCCTTTCCCTTCC
1 TCTTCCCTTCCCCTTCC
6167761 TCTTCCCCTTCCCCTTCC
1 TCTT-CCCTTCCCCTTCC
6167779 CCTATCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (17 bp):
TCTTCCCTTCCCCTTCC
Found at i:6174128 original size:13 final size:13
Alignment explanation
Indices: 6174112--6174146 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6174102 ACTAAATTTT
6174112 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
6174125 TCAAAAGCACTTT
1 TCAAAAGCACTTC
6174138 TCAAAAGCA
1 TCAAAAGCA
6174147 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:6177789 original size:3 final size:3
Alignment explanation
Indices: 6177781--6177813 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6177771 TAGTCTTTTG
*
6177781 TTC TTC TTC TTC TTC TTC ATC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6177814 CATGTAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:6182372 original size:23 final size:23
Alignment explanation
Indices: 6182346--6182397 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
6182336 TAGTTGAAAG
* *
6182346 CTGTAATATCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
6182369 CTGTAATACCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
6182392 CAGTAA
1 CTGTAA
6182398 GAAAGTACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:6187710 original size:13 final size:13
Alignment explanation
Indices: 6187692--6187721 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6187682 AGAAGCATTG
6187692 TAATCACTAATTT
1 TAATCACTAATTT
6187705 TAATCACTAATTT
1 TAATCACTAATTT
6187718 TAAT
1 TAAT
6187722 TAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATCACTAATTT
Found at i:6188394 original size:23 final size:23
Alignment explanation
Indices: 6188368--6188411 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6188358 ATAAATTATT
6188368 TTTATTACTTTAAAT-ATAAAACA
1 TTTATTAC-TTAAATCATAAAACA
*
6188391 TTTATTTCTTAAATCATAAAA
1 TTTATTACTTAAATCATAAAA
6188412 TAGAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTATTACTTAAATCATAAAACA
Found at i:6197449 original size:16 final size:16
Alignment explanation
Indices: 6197428--6197459 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6197418 ATTTTGTTGC
*
6197428 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
6197444 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
6197460 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:6197742 original size:51 final size:51
Alignment explanation
Indices: 6197687--6197877 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 51
6197677 CTGGTTCACA
* * *
6197687 TAGTAGCCAGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
6197738 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAAT-CGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CT-ATCCGGTACACG
* * * *
6197789 TAGTAGCCTGCACATAGTACTAGACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
6197839 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
6197878 TTCACTTCCA
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
49 5 0.04
50 39 0.34
51 67 0.58
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:6197852 original size:101 final size:102
Alignment explanation
Indices: 6197685--6197869 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
6197675 TACTGGTTCA
*
6197685 CATAGTAGCCAGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCAGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
6197750 CATAGTACTACACACGTGATCGAAGCTAATCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTAATCGGTACG
* * * *
6197787 CATAGTAGCCTGCACATAGTACTAGACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCAGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
6197850 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
6197870 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCAGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTAATCGGTACG
Found at i:6198004 original size:11 final size:10
Alignment explanation
Indices: 6197980--6198011 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6197970 AATCGGGAAA
6197980 TTTCTCACTT
1 TTTCTCACTT
6197990 TTTCTCACTT
1 TTTCTCACTT
6198000 TTT-TC-CTT
1 TTTCTCACTT
6198008 TTTC
1 TTTC
6198012 ACTAATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.29
9 2 0.10
10 13 0.62
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTCTCACTT
Found at i:6199678 original size:31 final size:30
Alignment explanation
Indices: 6199643--6199702 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6199633 AGAGGTGGGA
*
6199643 TGGGAAGGAAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGGAAATAAAAATTTTAGGGGAAAAG
* * *
6199674 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGAAATAAAAATTTTAGGGGAAAA
6199703 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGGAAATAAAAATTTTAGGGGAAAAG
Found at i:6199949 original size:9 final size:9
Alignment explanation
Indices: 6199937--6199967 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6199927 TTCGAGTTAT
6199937 TCGAATAAC
1 TCGAATAAC
*
6199946 TCGATTAAC
1 TCGAATAAC
6199955 TCGAATAAC
1 TCGAATAAC
6199964 TCGA
1 TCGA
6199968 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6203509 original size:28 final size:28
Alignment explanation
Indices: 6203478--6203534 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
6203468 TGTTTGTTTT
6203478 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
6203506 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
6203534 T
1 T
6203535 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:6203745 original size:14 final size:15
Alignment explanation
Indices: 6203726--6203754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6203716 TCATGAAACT
6203726 TTCACACAT-ATAAA
1 TTCACACATAATAAA
6203740 TTCACACATAATAAA
1 TTCACACATAATAAA
6203755 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:6205541 original size:24 final size:23
Alignment explanation
Indices: 6205472--6205547 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
6205462 CCAATAGGAA
*
6205472 AAGTGATAGTAACACTATGGTGC
1 AAGTGATAGTAGCACTATGGTGC
*** *
6205495 AAGTGATAG-ACGTGTTATAGTGC
1 AAGTGATAGTA-GCACTATGGTGC
*
6205518 AAAGTGATAGTGGCACTATGGTGC
1 -AAGTGATAGTAGCACTATGGTGC
6205542 AAGTGA
1 AAGTGA
6205548 CAGAGGCATT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
22 1 0.03
23 22 0.55
24 17 0.43
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (23 bp):
AAGTGATAGTAGCACTATGGTGC
Found at i:6205555 original size:23 final size:23
Alignment explanation
Indices: 6205514--6205640 Score: 94
Period size: 23 Copynumber: 5.5 Consensus size: 23
6205504 ACGTGTTATA
* *
6205514 GTGCAAAGTGATAGTGGCACTATG
1 GTGC-AAGTGATAGAGGCACTACG
* *
6205538 GTGCAAGTGACAGAGGCATTACG
1 GTGCAAGTGATAGAGGCACTACG
* * * * *
6205561 ATGCAAGTGATTGTGACGCTACG
1 GTGCAAGTGATAGAGGCACTACG
* * *
6205584 ATGCAAGTGACAGAGGCACTACA
1 GTGCAAGTGATAGAGGCACTACG
* *
6205607 GTGCAAG-CAGTAGTGGCACTACG
1 GTGCAAGTGA-TAGAGGCACTACG
*
6205630 GCGCAAGTGAT
1 GTGCAAGTGAT
6205641 TGGCACTTCG
Statistics
Matches: 77, Mismatches: 24, Indels: 5
0.73 0.23 0.05
Matches are distributed among these distances:
22 1 0.01
23 71 0.92
24 5 0.06
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (23 bp):
GTGCAAGTGATAGAGGCACTACG
Found at i:6205566 original size:47 final size:46
Alignment explanation
Indices: 6205472--6205639 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
6205462 CCAATAGGAA
* * * * ** *
6205472 AAGTGATAGTAACACTATGGTGCAAGTGATAGACGTGTTATAGTGC
1 AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
* *
6205518 AAAGTGATAGTGGCACTATGGTGCAAGTGACAGAGGCATTAC-GATGC
1 -AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAG-TGC
* * * *
6205565 AAGTGATTGTGACGCTACGATGCAAGTGACAGAGGCACTACAGTGC
1 AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
* * *
6205611 AAG-CAGTAGTGGCACTACGGCGCAAGTGA
1 AAGTGA-TAGTGACACTACGGTGCAAGTGA
6205640 TTGGCACTTC
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 60 0.61
47 38 0.38
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (46 bp):
AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
Found at i:6208618 original size:84 final size:84
Alignment explanation
Indices: 6208477--6208632 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
6208467 GACTTGTACA
* * *
6208477 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGA-AGCGG
6208541 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* *
6208561 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGATGCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGAAGCG
6208624 GTCTTACAC
64 GTCTTACAC
6208633 GAAAACACAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAAGCGGT
CTTACACAAATCAAATACG
Found at i:6208627 original size:43 final size:42
Alignment explanation
Indices: 6208477--6208641 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
6208467 GACTTGTACA
** * *
6208477 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
6208520 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
6208561 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
* * *
6208604 ATGCCAACGTCCCAGATGCGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
6208642 TATTGAACTC
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.29
42 6 0.06
43 62 0.61
44 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:6211936 original size:63 final size:64
Alignment explanation
Indices: 6211817--6211939 Score: 160
Period size: 63 Copynumber: 1.9 Consensus size: 64
6211807 TAATAGCATA
* * **
6211817 AAAAAAGATGTTTAAATGACAAATATACCCTTTAATAGAATTTTTGTGAATGTATAAAAATCCC
1 AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGAATTTTTGTAAAAATATAAAAATCCC
* * *
6211881 AAAAAA-ATATTTAAATGACCATTATACCCTTTAATA-ATTTTTTTGTAAAAATATAAAAA
1 AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGA-ATTTTTGTAAAAATATAAAAA
6211940 AACTAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 1 0.02
63 44 0.86
64 6 0.12
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (64 bp):
AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGAATTTTTGTAAAAATATAAAAATCCC
Found at i:6214452 original size:19 final size:19
Alignment explanation
Indices: 6214428--6214465 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6214418 TTAATGTGCG
* *
6214428 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
6214447 AATATATATATATATGTGT
1 AATATATATATATATGTGT
6214466 GTGGATCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:6214742 original size:41 final size:41
Alignment explanation
Indices: 6214680--6214937 Score: 399
Period size: 41 Copynumber: 6.3 Consensus size: 41
6214670 GTTTGGAATT
* *
6214680 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
6214721 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
6214762 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
6214803 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * * *
6214844 GGTGATATGAATCAGGTTATAAACCTAGTAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
6214885 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
6214926 GGTGATCCGAAT
1 GGTGATCTGAAT
6214938 ATGATGAATT
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 195 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:6214817 original size:82 final size:82
Alignment explanation
Indices: 6214680--6214931 Score: 486
Period size: 82 Copynumber: 3.1 Consensus size: 82
6214670 GTTTGGAATT
*
6214680 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
6214745 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
6214762 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
6214827 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
6214844 GGTGATATGAATCAGGTTATAAACCTAGTAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
6214909 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
6214926 GGTGAT
1 GGTGAT
6214932 CCGAATATGA
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 168 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:6218011 original size:62 final size:61
Alignment explanation
Indices: 6217944--6218059 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 61
6217934 GAAAAAATGT
* * *
6217944 TCAAATGACAAATGTACCCTTTAATAGA-TTTTTTGTGAAAGTATAAAAATAAAAATAAATAC
1 TCAAATGACAAATATACCCTTTAATA-ATTTTTTTGTAAAAATATAAAAA-AAAAATAAATAC
* * *
6218006 TCAAATGACCACTATACTCTTTAATAATTTTTTTGTAAAAATATAAAAAAAAAA
1 TCAAATGACAAATATACCCTTTAATAATTTTTTTGTAAAAATATAAAAAAAAAA
6218060 CTAGAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 6 0.13
62 41 0.87
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (61 bp):
TCAAATGACAAATATACCCTTTAATAATTTTTTTGTAAAAATATAAAAAAAAAATAAATAC
Found at i:6218661 original size:19 final size:20
Alignment explanation
Indices: 6218628--6218665 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6218618 TATGAAATTG
*
6218628 GTTTGTTTTTGTTTAACATT
1 GTTTGTTTTTATTTAACATT
6218648 GTTT-TTTTTATTTAACAT
1 GTTTGTTTTTATTTAACAT
6218666 GGATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (20 bp):
GTTTGTTTTTATTTAACATT
Found at i:6218672 original size:19 final size:19
Alignment explanation
Indices: 6218633--6218672 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6218623 AATTGGTTTG
* * *
6218633 TTTTTGTTTAACATTGTTT
1 TTTTTATTTAACATGGATT
6218652 TTTTTATTTAACATGGATT
1 TTTTTATTTAACATGGATT
6218671 TT
1 TT
6218673 ATATATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTATTTAACATGGATT
Found at i:6227172 original size:25 final size:24
Alignment explanation
Indices: 6227144--6227326 Score: 93
Period size: 25 Copynumber: 7.3 Consensus size: 24
6227134 CAGCTCTTAT
*
6227144 GAGCGTTCCGATATTTGGCTCTCAC
1 GAGC-TTCCGATACTTGGCTCTCAC
*
6227169 GAGCTTCCCGATACTTGGCTCTCAT
1 GAGCTT-CCGATACTTGGCTCTCAC
* * * *
6227194 GAGCTTCCCAACACTTGGATCTCAT
1 GAGCTT-CCGATACTTGGCTCTCAC
* * **
6227219 GAGCTTATCGATTA-ATGGCTCTCTT
1 GAGCTT-CCGA-TACTTGGCTCTCAC
* *
6227244 GAGCTTCCCATTA-TATGGCTATCAC
1 GAGCTTCCGA-TACT-TGGCTCTCAC
* * *
6227269 GACCTTCCCAATA-TATGGCTCTCAT
1 GAGCTT-CCGATACT-TGGCTCTCAC
* * *
6227294 GAGCTTCCCGATATTTGGCTCGCAT
1 GAGCTT-CCGATACTTGGCTCTCAC
6227319 GAGCTTCC
1 GAGCTTCC
6227327 TGTTTATGGC
Statistics
Matches: 128, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
24 9 0.07
25 114 0.89
26 5 0.04
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (24 bp):
GAGCTTCCGATACTTGGCTCTCAC
Found at i:6227217 original size:50 final size:48
Alignment explanation
Indices: 6227158--6227326 Score: 149
Period size: 50 Copynumber: 3.4 Consensus size: 48
6227148 GTTCCGATAT
6227158 TTGGCTCTCACGAGCTTCCCGATACTTGGCTCTCATGAGCTTCCCAACA
1 TTGGCTCTCACGAGCTTCCCGATA-TTGGCTCTCATGAGCTTCCCAACA
* * ** * * **
6227207 CTTGGATCTCATGAGCTTATCGATTAATGGCTCTCTTGAGCTTCCCATTA
1 -TTGGCTCTCACGAGCTTCCCGA-TATTGGCTCTCATGAGCTTCCCAACA
* * * * *
6227257 TATGGCTATCACGACCTTCCCAATATATGGCTCTCATGAGCTTCCCGATA
1 T-TGGCTCTCACGAGCTTCCCGATAT-TGGCTCTCATGAGCTTCCCAACA
* *
6227307 TTTGGCTCGCATGAGCTTCC
1 -TTGGCTCTCACGAGCTTCC
6227327 TGTTTATGGC
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
49 3 0.03
50 86 0.93
51 3 0.03
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (48 bp):
TTGGCTCTCACGAGCTTCCCGATATTGGCTCTCATGAGCTTCCCAACA
Found at i:6227313 original size:75 final size:74
Alignment explanation
Indices: 6227136--6227326 Score: 192
Period size: 75 Copynumber: 2.5 Consensus size: 74
6227126 ACACACCACA
* * * * *
6227136 GCTCTTATGAGCGTTCCGATATTTGGCTCTCACGAGCTTCCCGATACTTGGCTCTCATGAGCTTC
1 GCTCTCATGAGC-TTCCGATATTTGGCTCTCATGAGCTTCCCGATACTTGGCTATCACGACCTTC
6227201 CCAACACTTG
65 CCAACACTTG
* * * *
6227211 GATCTCATGAGCTTATCGAT-TAATGGCTCTCTTGAGCTTCCC-ATTA-TATGGCTATCACGACC
1 GCTCTCATGAGCTT-CCGATAT-TTGGCTCTCATGAGCTTCCCGA-TACT-TGGCTATCACGACC
*
6227273 TTCCCAATA-TATG
62 TTCCCAACACT-TG
*
6227286 GCTCTCATGAGCTTCCCGATATTTGGCTCGCATGAGCTTCC
1 GCTCTCATGAGCTT-CCGATATTTGGCTCTCATGAGCTTCC
6227327 TGTTTATGGC
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
74 6 0.06
75 87 0.93
76 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (74 bp):
GCTCTCATGAGCTTCCGATATTTGGCTCTCATGAGCTTCCCGATACTTGGCTATCACGACCTTCC
CAACACTTG
Found at i:6227361 original size:49 final size:49
Alignment explanation
Indices: 6227282--6227379 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
6227272 CTTCCCAATA
* ** * *
6227282 TATGGCTCTCATGAGCTTCCCGATATTTGGCTCGCATGAGCTTCCTGTT
1 TATGGCTCTCATAAGCTTCCAAATAATTGGCTCGCAAGAGCTTCCTGTT
6227331 TATGGCTCGT-ATAAGCTTCCAAATAATTGGCTCGCAAGAGCTTCCTGTT
1 TATGGCTC-TCATAAGCTTCCAAATAATTGGCTCGCAAGAGCTTCCTGTT
6227380 ATACAGCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (49 bp):
TATGGCTCTCATAAGCTTCCAAATAATTGGCTCGCAAGAGCTTCCTGTT
Done.