Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 4 of 23
Found at i:438220 original size:14 final size:14
Alignment explanation
Indices: 438190--438228 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
438180 ATTATAATAT
438190 ATTATTATATATTAA
1 ATTATTAT-TATTAA
*
438205 ATTATTATTTTTAA
1 ATTATTATTATTAA
*
438219 ATTTTTATTA
1 ATTATTATTA
438229 AGATGTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTATTATTAA
Found at i:438633 original size:15 final size:14
Alignment explanation
Indices: 438607--438734 Score: 92
Period size: 15 Copynumber: 9.3 Consensus size: 14
438597 TTTTAAATGG
*
438607 ATTATTATATTATT
1 ATTATTAAATTATT
438621 ATATATTAAATTATT
1 AT-TATTAAATTATT
* *
438636 ATTTAATAATTTATT
1 A-TTATTAAATTATT
438651 ATTATTAAATAATAATT
1 ATTATTAAAT--T-ATT
*
438668 ATTTTTAAATTATT
1 ATTATTAAATTATT
438682 A-TA-T--ATTA--
1 ATTATTAAATTATT
*
438690 AATATTAAATTATT
1 ATTATTAAATTATT
*
438704 ATATATTAAATTTTT
1 AT-TATTAAATTATT
438719 ATT-TTAAATT-TT
1 ATTATTAAATTATT
438731 ATTA
1 ATTA
438735 AGATGTCAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
8 1 0.01
9 2 0.02
10 5 0.05
12 10 0.11
13 8 0.09
14 15 0.16
15 37 0.40
16 2 0.02
17 12 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTAAATTATT
Found at i:438694 original size:7 final size:7
Alignment explanation
Indices: 438672--438714 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
438662 ATAATTATTT
438672 TTAAATTA
1 TTAAA-TA
*
438680 TTATATA
1 TTAAATA
438687 TTAAATA
1 TTAAATA
438694 TTAAATTA
1 TTAAA-TA
*
438702 TTATATA
1 TTAAATA
438709 TTAAAT
1 TTAAAT
438715 TTTTATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 20 0.67
8 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TTAAATA
Found at i:438697 original size:22 final size:22
Alignment explanation
Indices: 438672--438714 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
438662 ATAATTATTT
438672 TTAAATTATTATATATTAAATA
1 TTAAATTATTATATATTAAATA
438694 TTAAATTATTATATATTAAAT
1 TTAAATTATTATATATTAAAT
438715 TTTTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAATTATTATATATTAAATA
Found at i:439082 original size:505 final size:507
Alignment explanation
Indices: 438190--439116 Score: 1799
Period size: 505 Copynumber: 1.8 Consensus size: 507
438180 ATTATAATAT
438190 ATTATTATATATTAAATTATTATTTTTAAATTTTTATTAAGATGTCAATATATTATTAACCTTTA
1 ATTATTATATATTAAATTATTATTTTTAAATTTTTATTAAGATGTCAATATATTATTAACCTTTA
438255 AATTGATTATTAAATAGTTATTCTGTTGTTTCCTCCTAATGCCTACTCTGCCCTCGCCTCCACCT
66 AATTGATTATTAAATAGTTATTCTGTTGTTTCCTCCTAATGCCTACTCTGCCCTCGCCTCCACCT
438320 GTGTCATCACCACACAGTCAGTCCCCAATTCGTTTTGTCTTACCATAAGTTGCTTAAATCTACGA
131 GTGTCATCACCACACAGTCAGTCCCCAATTCGTTTTGTCTTACCATAAGTTGCTTAAATCTACGA
438385 GGATAGGGGAAAAATGGTAGGAACACCGAATTTTACCTTTCACTACTTCACTCTGTTTGGTTGCT
196 GGATAGGGGAAAAATGGTAGGAACACCGAATTTTACCTTTCACTACTTCACTCTGTTTGGTTGCT
438450 TAGAAATTAAACAAAAGTCGATGTCTAAGTGACGGATCAGTAGTTTAATGCAATTGTGTTTCTCT
261 TAGAAATTAAACAAAAGTCGATGTCTAAGTGACGGATCAGTAGTTTAATGCAATTGTGTTTCTCT
438515 CTCTCTTTTCCTTCAATTTTCCTTTATTGTTTTTGGAATGAATTTGCTTGATTTGTAGCTTGTAT
326 CTCTCTTTTCCTTCAATTTTCCTTTATTGTTTTTGGAATGAATTTGCTTGATTTGTAGCTTGTAT
438580 TAGCTTCTTTTTTTTTTTTTTAAATGGATTATTATATTATTATATATTAAATTATTATTTAATAA
391 TAGCTTC-TTTTTTTTTTTTTAAATGGATTATTATATTATTATATATTAAATTATTATTTAATAA
438645 TTTATTATTATTAAATAATAATTATTTTTAAATTATTATATATTAAATATTAA
455 TTTATTATTATTAAATAATAATTATTTTTAAATTATTATATATTAAATATTAA
*
438698 ATTATTATATATTAAATTTTTA-TTTTAAA-TTTTATTAAGATGTCAATATATTATTAACCTTTA
1 ATTATTATATATTAAATTATTATTTTTAAATTTTTATTAAGATGTCAATATATTATTAACCTTTA
438761 AATTGATTAGTTAAATAGTTATTCTGTTGTTTCCTCCTAATGCCTACTCTGCCCTCGCCTCCACC
66 AATTGATTA-TTAAATAGTTATTCTGTTGTTTCCTCCTAATGCCTACTCTGCCCTCGCCTCCACC
438826 TGTGTCATCACCACACAGTCAGTCCCCAATTCGTTTTGTCTTACCATAAGTTGCTTAAATCTACG
130 TGTGTCATCACCACACAGTCAGTCCCCAATTCGTTTTGTCTTACCATAAGTTGCTTAAATCTACG
438891 AGGATAGGGG-AAAATGGTAGGAACACCGAA-TTTACCTTTCACTACTTCACTCTGTTTGGTTGC
195 AGGATAGGGGAAAAATGGTAGGAACACCGAATTTTACCTTTCACTACTTCACTCTGTTTGGTTGC
438954 TTAGAAATTAAACAAAAGTCGATGTCTAAGTGACGGATCAGTAGTTTAATGCAATTGTGTTTCTC
260 TTAGAAATTAAACAAAAGTCGATGTCTAAGTGACGGATCAGTAGTTTAATGCAATTGTGTTTCTC
439019 TCTCTCTTTTCCTTCAATTTTCCTTTATTGTTTTTGGAATGAATTTGCTTGATTTGTAGCTTGTA
325 TCTCTCTTTTCCTTCAATTTTCCTTTATTGTTTTTGGAATGAATTTGCTTGATTTGTAGCTTGTA
439084 TTAGCTTCTTTTTTTTTTTTTAAATGGATTATT
390 TTAGCTTCTTTTTTTTTTTTTAAATGGATTATT
439117 TTTTCAACAC
Statistics
Matches: 417, Mismatches: 1, Indels: 6
0.98 0.00 0.01
Matches are distributed among these distances:
504 25 0.06
505 171 0.41
506 63 0.15
507 137 0.33
508 21 0.05
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (507 bp):
ATTATTATATATTAAATTATTATTTTTAAATTTTTATTAAGATGTCAATATATTATTAACCTTTA
AATTGATTATTAAATAGTTATTCTGTTGTTTCCTCCTAATGCCTACTCTGCCCTCGCCTCCACCT
GTGTCATCACCACACAGTCAGTCCCCAATTCGTTTTGTCTTACCATAAGTTGCTTAAATCTACGA
GGATAGGGGAAAAATGGTAGGAACACCGAATTTTACCTTTCACTACTTCACTCTGTTTGGTTGCT
TAGAAATTAAACAAAAGTCGATGTCTAAGTGACGGATCAGTAGTTTAATGCAATTGTGTTTCTCT
CTCTCTTTTCCTTCAATTTTCCTTTATTGTTTTTGGAATGAATTTGCTTGATTTGTAGCTTGTAT
TAGCTTCTTTTTTTTTTTTTAAATGGATTATTATATTATTATATATTAAATTATTATTTAATAAT
TTATTATTATTAAATAATAATTATTTTTAAATTATTATATATTAAATATTAA
Found at i:441369 original size:13 final size:13
Alignment explanation
Indices: 441353--441379 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
441343 TGATGAAATT
441353 ATATTTTTATTTA
1 ATATTTTTATTTA
441366 ATATTTTTATTTA
1 ATATTTTTATTTA
441379 A
1 A
441380 AATTACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATATTTTTATTTA
Found at i:445449 original size:3 final size:3
Alignment explanation
Indices: 445441--445474 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
445431 AGAGAAGACA
445441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
445475 CCATAATCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:450818 original size:19 final size:20
Alignment explanation
Indices: 450767--450822 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
450757 CTGCCAGTTT
* *
450767 CATGTATCGATACAATCATT
1 CATGTATCGATACAATGATA
* * *
450787 TATGTTTCAATACAATGA-A
1 CATGTATCGATACAATGATA
450806 CATGTATCGATACAATG
1 CATGTATCGATACAATG
450823 TATCAATACA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:461126 original size:20 final size:20
Alignment explanation
Indices: 461101--461154 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
461091 GTTTAAGACA
* **
461101 ATGTATCGATACAATTTTTC
1 ATGTATCGATACAATGTGCC
*
461121 ATGTATTGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
461141 ATGTATCGATACAA
1 ATGTATCGATACAA
461155 ACAGTAGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:461227 original size:19 final size:19
Alignment explanation
Indices: 461183--461238 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
461173 CTACCAGCTT
* **
461183 CATGTATCAATACAATCGTG
1 CATGTATCGATACAAT-GAA
461203 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
461222 CATGTATCGATACAATG
1 CATGTATCGATACAATG
461239 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:461241 original size:13 final size:13
Alignment explanation
Indices: 461223--461249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
461213 TACAATGAAC
461223 ATGTATCGATACA
1 ATGTATCGATACA
461236 ATGTATCGATACA
1 ATGTATCGATACA
461249 A
1 A
461250 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:465868 original size:11 final size:12
Alignment explanation
Indices: 465852--465880 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
465842 TTTTCGAAAA
465852 GAAAATTTCAT-
1 GAAAATTTCATG
465863 GAAAATTTCATG
1 GAAAATTTCATG
465875 GAAAAT
1 GAAAAT
465881 GTTTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (12 bp):
GAAAATTTCATG
Found at i:467799 original size:52 final size:52
Alignment explanation
Indices: 467683--467819 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 52
467673 TACCTGCATG
* *
467683 TATCGATACATTAAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATA
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATA
* *
467735 TATCGATTCAATGAAGAATTTATCGATACATTTGGGTC-AAAACCCAGAATA
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATA
* * *
467786 GCTGT-GATACAATGAAAAATGTATAGATACATTT
1 --TATCGATACAATGAAGAATGTATCGATACATTT
467820 TCATTCCATA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 13 0.18
52 59 0.80
53 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (52 bp):
TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATA
Found at i:467915 original size:20 final size:20
Alignment explanation
Indices: 467875--467928 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
467865 CATTTCAGAC
*
467875 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTCACTT
467895 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTCA-CTT
*
467915 ATTGTGTCGATACA
1 A-TGTATCGATACA
467929 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:475377 original size:158 final size:158
Alignment explanation
Indices: 475080--475394 Score: 497
Period size: 158 Copynumber: 2.0 Consensus size: 158
475070 AGCATGCATA
* *
475080 CTATTTCTATCATTGCAAAACTAAATCTATTATCATGCATACTATTTAGATGATAATGGACTTTT
1 CTATTTCTATCATTGCAAAACTAAATCTACTATCATGCATACTACTTAGATGATAATGGACTTTT
* *
475145 ATCTAATACAATTTCCTCAGGCCATCAAAGGAAATTGCTTGGTCAATTCTTAGGTGATTACAAAT
66 ATCTAATACAATTTCCTCAGGACATCAAAGGAAATTGCTTGGTCAATTCTTAGGTGATTACAAAC
*
475210 AAAAATTTCATAAGCTTCTTGCAATCTT
131 AAAAATTTCATAAGCTTCTTACAATCTT
* ** *
475238 CTATTTCTATCATTGCAAAAGTAAATCTACTATCATGCATACTACTTCTATGATTATGGACTTTT
1 CTATTTCTATCATTGCAAAACTAAATCTACTATCATGCATACTACTTAGATGATAATGGACTTTT
* *
475303 ATCTAATACAATTTCCT-TGAGACATCAAAGGAAATTGCTTGGTTAATTCTTAGGTGATTACAAA
66 ATCTAATACAATTTCCTCAG-GACATCAAAGGAAATTGCTTGGTCAATTCTTAGGTGATTACAAA
**
475367 CAAAGTTTTCATAAGCTTCTTACAATCT
130 CAAAAATTTCATAAGCTTCTTACAATCT
475395 ATTAGGCTTC
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 1 0.01
158 142 0.99
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (158 bp):
CTATTTCTATCATTGCAAAACTAAATCTACTATCATGCATACTACTTAGATGATAATGGACTTTT
ATCTAATACAATTTCCTCAGGACATCAAAGGAAATTGCTTGGTCAATTCTTAGGTGATTACAAAC
AAAAATTTCATAAGCTTCTTACAATCTT
Found at i:490872 original size:14 final size:15
Alignment explanation
Indices: 490855--490903 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
490845 GTCAAAAGTT
*
490855 AAAACACAAAAA-AA
1 AAAAAACAAAAACAA
490869 AAAAAACAAAAACAA
1 AAAAAACAAAAACAA
* *
490884 AAAAAA-ACACACAA
1 AAAAAACAAAAACAA
490898 AAAAAA
1 AAAAAA
490904 GTGCAAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAACAA
Found at i:490883 original size:20 final size:20
Alignment explanation
Indices: 490855--490900 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
490845 GTCAAAAGTT
490855 AAAACACAAAAAAAAAAAAAC
1 AAAA-ACAAAAAAAAAAAAAC
* *
490876 AAAAACAAAAAAAAACACAC
1 AAAAACAAAAAAAAAAAAAC
490896 AAAAA
1 AAAAA
490901 AAAGTGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAAAAC
Found at i:490911 original size:32 final size:33
Alignment explanation
Indices: 490855--490923 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
490845 GTCAAAAGTT
490855 AAAACACAAAAAAAAAAAAACAAAAACAAAA-A
1 AAAACACAAAAAAAAAAAAACAAAAACAAAATA
* *** *
490887 AAAACACACAAAAAAAAGTGCAAAAGCAAAATA
1 AAAACACAAAAAAAAAAAAACAAAAACAAAATA
490920 AAAA
1 AAAA
490924 AGGGAACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (33 bp):
AAAACACAAAAAAAAAAAAACAAAAACAAAATA
Found at i:492219 original size:30 final size:30
Alignment explanation
Indices: 492184--492774 Score: 558
Period size: 30 Copynumber: 19.0 Consensus size: 30
492174 TCTTCAAATC
**
492184 TCTCTTCTCAAAGTCCATAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
492214 TCTCTTTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
* * *
492246 TCTTTTTTCTTCAAAGTCCATGACTCAATGGCA
1 TC--TCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
492279 TCACTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
492309 TCTTTTCTTCAAAGTCCACGACTTAGTGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
492341 TCTCTTCTCAAAGT-CACGACTCAGTGGCAA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGC-A
* * * *
492371 TCTCATCTCAAAGTCTATGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
492401 TCT-TGTCCCAAAGTCCAAGACTCAGTGGCA
1 TCTCT-TCTCAAAGTCCACGACTCAGTGGCA
* * * *
492431 TCTTTTCTTCAAAGCCCACGACTCATTGACAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
*
492463 TCTCTTCTCAAAGTCCACGACTCAGGGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
492493 TCTTTTTTCTTCAAAGTCCACAATTCAATGGCA
1 TC--TCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
492526 TCTCTTTTCTAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
492556 TTTTTTCTTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
492587 TCCTTTTCTTCCAAGTCCACGACTCAGTCGCA
1 T-CTCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
492619 TCCTTTTTTTCAAAGTCCACGACTCAGTGGCA
1 T-C-TCTTCTCAAAGTCCACGACTCAGTGGCA
* *
492651 TCTCTTCCCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
492681 TCTTTTCTTCAAAGTCCATGACTCAGTGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
**
492713 TCTCTTCTCAAAGTCCACGACTTGGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
492743 TCTC-TCTTCCTAAAGTCCACAACTCCGTGGCA
1 TCTCTTC-T-C-AAAGTCCACGACTCAGTGGCA
492775 CCCTTTTAAG
Statistics
Matches: 463, Mismatches: 75, Indels: 44
0.80 0.13 0.08
Matches are distributed among these distances:
29 2 0.00
30 148 0.32
31 141 0.30
32 123 0.27
33 48 0.10
34 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:492359 original size:61 final size:61
Alignment explanation
Indices: 492191--492774 Score: 654
Period size: 61 Copynumber: 9.4 Consensus size: 61
492181 ATCTCTCTTC
**
492191 TCAAAGTCCATAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGCATC--TTTTCT
* * * *
492256 TCAAAGTCCATGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
492317 TCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGT-CACGACTCAGTGGCAATCTCATC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * * *
492378 TCAAAGTCTATGACTTAGTGGCATCT-TGTCCCAAAGTCCAAGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
492439 TCAAAGCCCACGACTCATTGACAATCTCTTCTCAAAGTCCACGACTCAGGGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATC--TTTTCT
* * * * * * *
492503 TCAAAGTCCACAATTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
492564 TCAAAGTCCATGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTCGCATCCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCAT-CTCTTC-TCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
* *
492628 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** *
492689 TCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTGGTGGCATC-TCTCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
492750 TCCTAAAGTCCACAACTCCGTGGCA
1 T-C-AAAGTCCACGACTCAGTGGCA
492775 CCCTTTTAAG
Statistics
Matches: 443, Mismatches: 61, Indels: 33
0.82 0.11 0.06
Matches are distributed among these distances:
59 1 0.00
60 18 0.04
61 146 0.33
62 104 0.23
63 99 0.22
64 51 0.12
65 24 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (61 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:492566 original size:125 final size:125
Alignment explanation
Indices: 492191--492767 Score: 695
Period size: 125 Copynumber: 4.6 Consensus size: 125
492181 ATCTCTCTTC
**
492191 TCAAAGTCCATAACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTC--TTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTC
** *
492255 TTCAAAGTCCATGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
64 TTCAAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
492317 TCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGT-CACGACTCAGTGGCAATC--TCATC-
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTTTCT
* ** * * *
492378 TCAAAGTCTATGACTTAGTGGCATCT-TGTCCCAAAGTCCAAGACTCAGTGGCATCTTTTCT
65 TCAAAGTCCACAACTCAATGGCATCTCT-TCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
492439 TCAAAGCCCACGACTCATTGACAATCTCTTCTCAAAGTCCACGACTCAGGGGCATCTTTTTTCTT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTT
* ** * * *
492504 CAAAGTCCACAATTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATTTTTTCT
66 CAAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
492564 TCAAAGTCCATGACTCAGTGGC-ATCCTTTTCTTCCAAGTCCACGACTCAGTCGCATCCTTTTT-
1 TCAAAGTCCACGACTCAGTGGCAAT-CTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTTTC
* * *
492627 TTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCTTTTCT
64 TTCAAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** * * *
492689 TCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTGGTGGCATCTCTCTTCCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTT
492754 -AAAGTCCACAACTC
66 CAAAGTCCACAACTC
492768 CGTGGCACCC
Statistics
Matches: 384, Mismatches: 55, Indels: 26
0.83 0.12 0.06
Matches are distributed among these distances:
121 1 0.00
122 91 0.24
123 16 0.04
124 56 0.15
125 166 0.43
126 49 0.13
127 5 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (125 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTT
CAAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:492906 original size:372 final size:370
Alignment explanation
Indices: 492191--492933 Score: 815
Period size: 372 Copynumber: 2.0 Consensus size: 370
492181 ATCTCTCTTC
* *
492191 TCAAAGTCCATAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCT
1 TCAAAGTCCATAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTCGCATCCTTTTTCT
*
492256 TCAAAGTCCATGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
66 TCAAAGTCCACGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
*
492321 AGTCCACGACTTAGTGGCAATCTCTTCTCAAAGTCACGACTCAGTGGCAATCTCATCTCAAAGTC
131 AGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCACGACTCAGTGGCAATCTCATCTCAAAGTC
* ** * * ** *
492386 TATGACTTAGTGGCATCTTGTCCCAAAGTCCAAGACTCAGTGGCATCTTTTCTTCAAAGCCCACG
196 CACAACTCAGTGGCACCTTGT--CAAAGTCCAAGACTCAGTGGCATCCCTTCTT-AAAGCCCACA
* * * * *
492451 ACTCATTGACAATCTCTTCTCAAAGTCCACGACTCAGGGGCATCTTTTTTCTTCAAAGTCCACAA
258 ACTCAGTGACAATCTCTTCTCAAAGTCCACAACTCAGGGGCACCTTGTTCCTTCAAAGTCCACAA
* * * *
492516 TTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATTTTTTCT
323 CTCAATGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATTTTTTCT
* *
492564 TCAAAGTCCATGACTCAGTGGCATC-CTTTTCTTCCAAGTCCACGACTCAGTCGCATCCTTTTT-
1 TCAAAGTCCATAACTCAGTGGCATCTCTTTTC-TCAAAGTCCACGACTCAGTCGCATCCTTTTTC
* * *
492627 TTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCTTTTCTTCA
65 TTCAAAGTCCACGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
* **
492692 AAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTGGTGGC-ATCTC-TCTTCCTA
130 AAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGT-CACGACTCAGTGGCAATCTCATC-T-C-A
* * * **
492755 AAGTCCACAACTCCGTGGCACCCTT-T-TAAGTCCACA-ACTCCGTGGCA-CCCTT-TT-AATTC
191 AAGTCCACAACTCAGTGGCA-CCTTGTCAAAGTCCA-AGACTCAGTGGCATCCCTTCTTAAAGCC
* * * ** * * * * **
492814 CACAACTCCGTGGC-ATCTTTTTCCTTTTAAGTCTATAACTCCGTGGCACCTTGTTCCTTTTAAG
254 CACAACTCAGTGACAATC-TCTT-C-TCAAAGTCCACAACTCAGGGGCACCTTGTTCCTTCAAAG
** * * *
492878 TCCACAACTCTGTGGCCCCTTTTCTTTTCAAAGTCCACAACTCCGTGGCATTTTTT
316 TCCACAACTCAATGG---CATCTCTTTTCAAAGTCCACAACTCAGTGGCATTTTTT
492934 TTCTTTTTAA
Statistics
Matches: 307, Mismatches: 50, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
366 3 0.01
367 16 0.05
368 1 0.00
369 41 0.13
370 3 0.01
371 19 0.06
372 139 0.45
373 65 0.21
374 17 0.06
375 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (370 bp):
TCAAAGTCCATAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTCGCATCCTTTTTCT
TCAAAGTCCACGACTCAATGGCATCACTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
AGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCACGACTCAGTGGCAATCTCATCTCAAAGTC
CACAACTCAGTGGCACCTTGTCAAAGTCCAAGACTCAGTGGCATCCCTTCTTAAAGCCCACAACT
CAGTGACAATCTCTTCTCAAAGTCCACAACTCAGGGGCACCTTGTTCCTTCAAAGTCCACAACTC
AATGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATTTTTTCT
Found at i:493029 original size:129 final size:130
Alignment explanation
Indices: 492813--493056 Score: 325
Period size: 129 Copynumber: 1.9 Consensus size: 130
492803 CCTTTTAATT
* * * *
492813 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCTATAACTCCGTGGCACCTTGTTCCTTTTAAG
1 CCACAACACCGTGGCATCTTTTTCCTTTTAAGTCCACAACTACGTGGCACC----TCCTTTTAAG
* *
492878 TCCACAACTCTGTGGC-CCCTTTT-CTTTTCAAAGTCCACAACTCCGTGGCATTTTTTTTCTTTT
62 TCCACAACTCTGAGGCACCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCATTTTTTTTCTTTT
492941 TAAAGC
125 TAAAGC
*
492947 CCACAACACCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATGTGGCA-C-CCTTTTAAGTCC
1 CCACAACACCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTACGTGGCACCTCCTTTTAAGTCC
*
493010 ACAACTCTGAGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
65 ACAACTCTGAGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
493057 CCTTGTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
129 44 0.44
130 5 0.05
131 5 0.05
134 16 0.16
135 29 0.29
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (130 bp):
CCACAACACCGTGGCATCTTTTTCCTTTTAAGTCCACAACTACGTGGCACCTCCTTTTAAGTCCA
CAACTCTGAGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATTTTTTTTCTTTTTAAAGC
Found at i:493030 original size:27 final size:27
Alignment explanation
Indices: 492971--493023 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
492961 CACTCTTTTT
*
492971 CCTTTTAAGTCCACAACTATGTGGCAC
1 CCTTTTAAGTCCACAACTATGAGGCAC
*
492998 CCTTTTAAGTCCACAACTCTGAGGCA
1 CCTTTTAAGTCCACAACTATGAGGCA
493024 TCTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTATGAGGCAC
Found at i:493069 original size:129 final size:126
Alignment explanation
Indices: 492776--493190 Score: 314
Period size: 129 Copynumber: 3.2 Consensus size: 126
492766 TCCGTGGCAC
** *
492776 CCTTTTAAGTCCACAACTCCGTGGCAC----CC-TTTTAATTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTTTTCCTTTTTAAGCCCACAACACCGTGGCATCTTTTT
* * * *
492836 CCTTTTAAGTCTATAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCCCCTTTT
66 CCTTTTAAGTCCACAACTACGTGGCACC----TCCTTTTAAGTCCACAACTCTGAGGCCCCTTTT
* *
492901 -CTTTTCAAAGTCCACAACTCCGTGGCATTTTTTTTCTTTTTAAAGCCCACAACACCGTGGCACT
1 CCTTTT--AAGTCCACAACTCCGTGGCA--CTTTTCCTTTTT-AAGCCCACAACACCGTGGCA-T
* * *
492965 CTTTTTCCTTTTAAGTCCACAACTATGTGGCA-C-CCTTTTAAGTCCACAACTCTGAGGCATCTT
60 CTTTTTCCTTTTAAGTCCACAACTACGTGGCACCTCCTTTTAAGTCCACAACTCTGAGGC-CCCT
493028 TTT
124 TTT
* *
493031 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCC-TTTTAA-CTCCACAACTCCGTGG--TGCC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTT-TTCCTTTTTAAGC-CCACAACACCGTGGCAT-CT
* ** * * * * * * *
493092 TTTTCTTTTTAAGTCCATGACTCCATGGCACCCTTTTCCCTTTTAAGCCCACACCTCCGTGGCAT
62 TTTTCCTTTTAAGTCCACAACTACGTGGCA-CC---T-CCTTTTAAGTCCACAACTCTGAGGC-C
493157 CCTTTT
121 CCTTTT
* *
493163 CTCTTGTAAGTCCACAACTCCATGGCAC
1 C-CTTTTAAGTCCACAACTCCGTGGCAC
493191 CTTTAAGTCC
Statistics
Matches: 236, Mismatches: 30, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
124 6 0.03
125 25 0.11
126 21 0.09
127 16 0.07
128 6 0.03
129 47 0.20
130 5 0.02
131 5 0.02
132 31 0.13
133 27 0.11
134 18 0.08
135 29 0.12
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (126 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTTTTCCTTTTTAAGCCCACAACACCGTGGCATCTTTTT
CCTTTTAAGTCCACAACTACGTGGCACCTCCTTTTAAGTCCACAACTCTGAGGCCCCTTTT
Found at i:493115 original size:32 final size:32
Alignment explanation
Indices: 492755--493194 Score: 390
Period size: 33 Copynumber: 13.8 Consensus size: 32
492745 TCTCTTCCTA
492755 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
492782 AAGTCCACAACTCCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
492809 AATTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
* *
492842 AAGTCTATAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
492875 AAGTCCACAACTCTGTGGCCCCTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
** *
492906 CAAAGTCCACAACTCCGTGGCATTTTTTTTCTTTTT
1 --AAGTCCACAACTCCGTGGCA--CCTTTTCCTTTT
* *
492942 AAAGCCCACAACACCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
**
492977 AAGTCCACAACTATGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
493004 AAGTCCACAACTCTGAGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
493037 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* ** *
493070 AACTCCACAACTCCGTGGTGCCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
** *
493102 AAGTCCATGACTCCATGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTT
* * *
493136 AAGCCCACACCTCCGTGGCATCCTTTTCTCTTGT
1 AAGTCCACAACTCCGTGGCA-CCTTTTC-CTTTT
*
493170 AAGTCCACAACTCCATGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
493195 AAGTCCAATA
Statistics
Matches: 338, Mismatches: 51, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
27 70 0.21
31 5 0.01
32 30 0.09
33 134 0.40
34 63 0.19
35 32 0.09
36 4 0.01
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:493267 original size:49 final size:49
Alignment explanation
Indices: 493191--494220 Score: 847
Period size: 49 Copynumber: 21.8 Consensus size: 49
493181 TCCATGGCAC
* * *
493191 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
493240 CTTTAAGACCGATGTCGCTGGCCTTGAATCAGCACATTGG------CA-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
493282 C---AAGCCCAATATCGCTGGCCTTGAATCAGCATAATGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * * *
493328 TTTTAAGACCGATGTCGTTGGCCTTAAATCAGCACATTAGCACCTTAACCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT---CAT
* * * *
493380 CTTTAA-ATCCAATGTCGCCGACCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * * *
493429 CTTTAAGTCCGATATCGTTGGCCTTGAATAAGCATATTGGCA-CTTTAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
493477 ATTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGG------CA-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
493519 C---AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGTAACTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
493565 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
493613 CTTTAAGACCAATGTC-CTTGGCCTTGAATCAGCATATTGGCACCTT-AT
1 CTTTAAGACCAATGTCGC-TGGCCTTGAATCAGCATATTGGCACCTTCAT
493661 CTTTAAGACCAATGTC-CTTGGCCTTGAATCAGCATATTGGCACCTT-AT
1 CTTTAAGACCAATGTCGC-TGGCCTTGAATCAGCATATTGGCACCTTCAT
*
493709 CTTTAAGACCAATGTCCCTGGCCTTGAATCAGCATATTGG------CA-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
493751 C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGC--
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-CAT
* *
493796 CTTTAAGACCATTGTCGCTGGCCTTGAATCAACATATTGGCA-----A-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
493839 ----AAG-CTCAATATCTCTGGCCTTGAATCAGCAGATTGGCACCTTCAT
1 CTTTAAGAC-CAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
493884 CTTTAAGACCGATGTCGTTGGCCTTGAATCAACACATTGGCACCTTAACCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT---CAT
* * * *
493936 CTTTAAGTCCAATGTCG-TCGACCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCATATTGGCACCTTCAT
* ** *
493985 CTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTT-AT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTCAT
*
494034 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * * **
494083 CTTTAAGTCTGATATCGTTGGCCTTGAATCAGCATATTGGCATTTTTAACATT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CA-T
* * ** * *
494136 CCTT-AGCCCAATGTCGCTGGCCTTGTGTCAGCACATTGGCA--TTCTT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * * *
494182 CTTCAATTCTAATGTCGCTAGCCTTGAATCAGCACATTG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTG
494221 TCATTCTTCG
Statistics
Matches: 802, Mismatches: 116, Indels: 128
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.00
39 125 0.16
42 2 0.00
43 4 0.00
44 1 0.00
45 5 0.01
46 5 0.01
47 30 0.04
48 207 0.26
49 298 0.37
50 6 0.01
51 2 0.00
52 112 0.14
53 4 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:493309 original size:88 final size:89
Alignment explanation
Indices: 493194--494124 Score: 639
Period size: 88 Copynumber: 10.0 Consensus size: 89
493184 ATGGCACCTT
* *
493194 TAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
*
493259 GGCCTTGAATCAGCACATTGGCAC
66 GGCCTTGAATCAGCATATTGGCAC
* * *
493283 -AAGCCCAATATCGCTGGCCTTGAATCAGCATAATGGCACCTTCATTTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
* * *
493347 GGCCTTAAATCAGCACATTAGCACC
66 GGCCTTGAATCAGCATATTGGCA-C
* * * *
493372 TTAA-CCATCTTTAAATCCAATGTCGCCGACCTTGAATCAGCACATTGGCATCTTCATCTTTAAG
1 -TAAGCC--C----AAT---A--TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
* * * *
493436 TCCGATATCGTTGGCCTTGAATAAGCATATTGGCAC
54 ACCGATGTCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * * * *
493472 TTTATATTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGG------CA-C---AAGCCCA
1 --------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCG
* *
493527 ATATCGCTGGCCTTGAATCAACATATTGGTAACTTCATC
58 ATGTCGCTGGCCTTGAATCAGCATATTGG------CA-C
* *
493566 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTC-
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCG
493629 CTTGGCCTTGAATCAGCATATTGGCACCTTATC
64 C-TGGCCTTGAATCAGCATATTGG---C--A-C
* * *
493662 TTTAAGACCAATGTC-CTTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTC
1 --TAAGCCCAATATCGC-TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTC
*
493725 CCTGGCCTTGAATCAGCATATTGGCAC
63 GCTGGCCTTGAATCAGCATATTGGCAC
493752 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGC--CTTTAAGACC-ATTGTCG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTTTAAGACCGA-TGTCG
*
493813 CTGGCCTTGAATCAACATATTGGCA-
64 CTGGCCTTGAATCAGCATATTGGCAC
* * * * *
493838 AAAGCTCAATATCTCTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
* *
493903 GGCCTTGAATCAACACATTGGCACC
66 GGCCTTGAATCAGCATATTGGCA-C
* * *
493928 TTAA-CCATCTTTAAGTCCAAT-GTCGTCGACCTTGAATCAGCACATTGGCATCTTCATCTTTAA
1 -TAAGCC--C---AA-T---ATCG-C-T-GGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
* * *
493991 GTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTTATC
53 GACCGATGTCGCTGGCCTTGAATCAGCATATTGG---C---A-C
* * * * * *
494035 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTGATATCG
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCG
*
494100 TTGGCCTTGAATCAGCATATTGGCA
64 CTGGCCTTGAATCAGCATATTGGCA
494125 TTTTTAACAT
Statistics
Matches: 695, Mismatches: 71, Indels: 149
0.76 0.08 0.16
Matches are distributed among these distances:
86 2 0.00
87 146 0.21
88 153 0.22
89 2 0.00
90 5 0.01
91 7 0.01
92 3 0.00
93 4 0.01
94 4 0.01
95 4 0.01
96 89 0.13
97 54 0.08
98 65 0.09
99 5 0.01
100 4 0.01
101 127 0.18
102 3 0.00
103 1 0.00
104 3 0.00
106 1 0.00
107 7 0.01
108 5 0.01
109 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (89 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
GGCCTTGAATCAGCATATTGGCAC
Found at i:493499 original size:48 final size:48
Alignment explanation
Indices: 493287--493837 Score: 496
Period size: 48 Copynumber: 11.7 Consensus size: 48
493277 TGGCACAAGC
* * * *
493287 CCAATATCGCTGGCCTTGAATCAGCATAATGGCACCTTCATTTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGA
* * * * * *
493336 CCGATGTCGTTGGCCTTAAATCAGCACATTAGCACCTTAACCATCTTTAA-A
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTT---TATCTTTAAGA
* * * * *
493387 TCCAATGTCGCCGACCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 -CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGA
* * * * *
493437 CCGATATCGTTGGCCTTGAATAAGCATATTGGCACTTTATATTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
* * * *
493485 CCAATGTCGTTGGCCTTGAATTAGCACATTGG--C---A-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
* * * * *
493524 CCAATATCGCTGGCCTTGAATCAACATATTGGTAACTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGG-CACTTTATCTTTAAGA
* *
493573 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
*
493621 CCAATGTC-CTTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATGTCGC-TGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
*
493669 CCAATGTC-CTTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATGTCGC-TGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
* *
493717 CCAATGTCCCTGGCCTTGAATCAGCATATTGG--C---A-C---AAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
* * **
493756 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
* *
493804 CCATTGTCGCTGGCCTTGAATCAACATATTGGCA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
493838 AAAGCTCAAT
Statistics
Matches: 424, Mismatches: 52, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
39 63 0.15
41 1 0.00
42 2 0.00
43 2 0.00
45 2 0.00
46 3 0.01
47 1 0.00
48 208 0.49
49 102 0.24
51 1 0.00
52 39 0.09
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (48 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGA
Found at i:493771 original size:39 final size:39
Alignment explanation
Indices: 493717--493877 Score: 151
Period size: 39 Copynumber: 3.9 Consensus size: 39
493707 ATCTTTAAGA
* *
493717 CCAATGTCCCTGGCCTTGAATCAGCATATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
*
493756 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGC
* * * *
493804 CCATTGTCGCTGGCCTTGAATCAACATATTGGCAAAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
* * *
493843 TCAATATCTCTGGCCTTGAATCAGCAGATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
493878 CTTCATCTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
39 63 0.64
45 1 0.01
48 34 0.35
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAGC
Found at i:493817 original size:87 final size:85
Alignment explanation
Indices: 493679--493926 Score: 352
Period size: 87 Copynumber: 2.8 Consensus size: 85
493669 CCAATGTCCT
* * *
493679 TGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCAT
1 TGGCCTTGAATCAGCATATTGGCACCTT-CCTTTAAGACC-ATGTCGCTGGCCTTGAATCAACAT
493744 ATTGGCACAAGCCCAATATCGC
64 ATTGGCACAAGCCCAATATCGC
493766 TGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGACCATTGTCGCTGGCCTTGAATCAACAT
1 TGGCCTTGAATCAGCATATTGGCACCTT-CCTTTAAGACCA-TGTCGCTGGCCTTGAATCAACAT
* * *
493831 ATTGGCAAAAGCTCAATATCTC
64 ATTGGCACAAGCCCAATATCGC
* *
493853 TGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAACA
1 TGGCCTTGAATCAGCATATTGGCACCTTC--CTTTAAGACC-ATGTCGCTGGCCTTGAATCAACA
*
493918 CATTGGCAC
63 TATTGGCAC
493927 CTTAACCATC
Statistics
Matches: 146, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
86 2 0.01
87 105 0.72
88 38 0.26
89 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (85 bp):
TGGCCTTGAATCAGCATATTGGCACCTTCCTTTAAGACCATGTCGCTGGCCTTGAATCAACATAT
TGGCACAAGCCCAATATCGC
Found at i:494153 original size:150 final size:148
Alignment explanation
Indices: 493839--494220 Score: 423
Period size: 150 Copynumber: 2.6 Consensus size: 148
493829 ATATTGGCAA
* * * * *
493839 AAGCTCAATATCTCTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTG
* *
493904 GCCTTGAATCAACACATTGGCACCTTAACCATCTTTAAGTCCAATGTCGTCGACCTTGAATCAGC
66 GCCTTGAATCAGCACATTGGCACCTT-A-CATCTTTAAGTCCAATATCGTCGACCTTGAATCAGC
*
493969 ACATTGGCATCTTCATCTTT
129 ACATTGGCATCTTCATCCTT
* ** *
493989 AAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTT-ATCTTTAAGACCAATGTCGCT
1 AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTCATCTTTAAGACCAATGTCGCT
** * *
494053 GGCCTTGAATCAGCACATTGGCACCTT-CATCTTTAAGTCTGATATCGTTGGCCTTGAATCAGCA
65 GGCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATCGTCGACCTTGAATCAGCA
* *
494117 TATTGGCATTTTTAACATTCCTT
130 CATTGGCA-TCTT--CA-TCCTT
* ** * * ** * *
494140 -AGCCCAATGTCGCTGGCCTTGTGTCAGCACATTGGCA--TTCTTCTTCAATTCTAATGTCGCTA
1 AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTG
494202 GCCTTGAATCAGCACATTG
66 GCCTTGAATCAGCACATTG
494221 TCATTCTTCG
Statistics
Matches: 196, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
147 41 0.21
148 38 0.19
150 111 0.57
151 6 0.03
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (148 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATCGTCGACCTTGAATCAGCAC
ATTGGCATCTTCATCCTT
Found at i:495086 original size:20 final size:20
Alignment explanation
Indices: 495061--495166 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
495051 CTGCCAAGAA
495061 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
495081 AATGTATCGATACATTAATC
1 AATGTATCGATACATTATTC
**
495101 TTTGTATCGATACATTTGGGAATTTTACCC
1 AATGTATCGATACA-TT----A--TT---C
495131 AAATGTATCGATACATTATTC
1 -AATGTATCGATACATTATTC
495152 AATGTATCGATACAT
1 AATGTATCGATACAT
495167 GCAGGCAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
20 46 0.67
21 3 0.04
24 2 0.03
25 1 0.01
26 1 0.01
27 1 0.01
30 3 0.04
31 12 0.17
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:495365 original size:18 final size:18
Alignment explanation
Indices: 495342--495385 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
495332 CAAACTCATT
*
495342 GGCTGCTATGGCTTCCAA
1 GGCTGCCATGGCTTCCAA
495360 GGCTGCCATGGCTTCCAA
1 GGCTGCCATGGCTTCCAA
495378 GGCTGCCA
1 GGCTGCCA
495386 AACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.23
Consensus pattern (18 bp):
GGCTGCCATGGCTTCCAA
Found at i:500311 original size:20 final size:20
Alignment explanation
Indices: 500286--500341 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
500276 CTGCCAAGGA
500286 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
500306 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
500326 AATGTATCAATACATT
1 AATGTATCGATACATT
500342 GTATCGATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:507969 original size:52 final size:53
Alignment explanation
Indices: 507835--507969 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 53
507825 GATGAAATAA
* * * *
507835 CGAGGTTGGAGTATCCTCGATTGTG-TAAAATTGGTGTTTTTGAAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAGAAAATTGGTGTTTTTGAAAATAAAAC
*
507887 CG-GAGTTGGAGTATCCCCGATTA-AAGGAAAATTGGTG-TTTTGAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATTATGA-GAAAATTGGTGTTTTTGAAAATAAAAC
507939 CGAGGTTGGAGTATCCCCGATTATGAGAAAA
1 CGAGGTTGGAGTATCCCCGATTATGAGAAAA
507970 CAATATTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
51 1 0.01
52 59 0.82
53 12 0.17
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (53 bp):
CGAGGTTGGAGTATCCCCGATTATGAGAAAATTGGTGTTTTTGAAAATAAAAC
Found at i:508053 original size:27 final size:27
Alignment explanation
Indices: 507991--508067 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
507981 AAATAAAGCT
*
507991 GGGGTTGGAGTATCCCCTCGAAG-GTAAC
1 GGGGTTGGAGTAT-CCC-CGATGAGTAAC
* *
508019 GAGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAGTAAC
*
508046 GGGGTTGGAGTATCCCCAATGA
1 GGGGTTGGAGTATCCCCGATGA
508068 AAAATTGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.09
27 27 0.63
28 12 0.28
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAGTAAC
Found at i:508082 original size:103 final size:103
Alignment explanation
Indices: 507975--508165 Score: 285
Period size: 103 Copynumber: 1.9 Consensus size: 103
507965 GAAAACAATA
* ** * * * *
507975 TTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTC-GAAGGTAACGAGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAA-ATAACGAGGTTGGAATATCCCCGAT
508039 GATTAACGGGGTTGGAGTATCCCCAATGAAAAATTGATG
65 GATTAACGGGGTTGGAGTATCCCCAATGAAAAATTGATG
* *
508078 TTTTAGAAATAAAACCAGAGTTAGAGTGTCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATG
1 TTTTAGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAATATCCCCGATG
508143 ATTAACGGGGTTGGAGTATCCCC
66 ATTAACGGGGTTGGAGTATCCCC
508166 TCGGAAATAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 75 0.96
104 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (103 bp):
TTTTAGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAATATCCCCGATG
ATTAACGGGGTTGGAGTATCCCCAATGAAAAATTGATG
Found at i:508149 original size:27 final size:27
Alignment explanation
Indices: 508118--508223 Score: 158
Period size: 27 Copynumber: 3.9 Consensus size: 27
508108 CCCTCAGAAA
*
508118 TAACGGGGTTGGAATATCCCCGATGAT
1 TAACGGGGTTGGAGTATCCCCGATGAT
*** *
508145 TAACGGGGTTGGAGTATCCCCTCGGAAA
1 TAACGGGGTTGGAGTATCCCCGATG-AT
508173 TAACGGGGTTGGAGTATCCCCGATGAT
1 TAACGGGGTTGGAGTATCCCCGATGAT
508200 TAACGGGGTTGGAGTATCCCCGAT
1 TAACGGGGTTGGAGTATCCCCGAT
508224 TGTGAAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 46 0.67
28 23 0.33
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (27 bp):
TAACGGGGTTGGAGTATCCCCGATGAT
Found at i:508191 original size:55 final size:55
Alignment explanation
Indices: 508101--508220 Score: 213
Period size: 55 Copynumber: 2.2 Consensus size: 55
508091 ACCAGAGTTA
*
508101 GAGTGTCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGATTAACGGGGTTG
1 GAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGATTAACGGGGTTG
* *
508156 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTG
1 GAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGATTAACGGGGTTG
508211 GAGTATCCCC
1 GAGTATCCCC
508221 GATTGTGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (55 bp):
GAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGATTAACGGGGTTG
Found at i:508289 original size:54 final size:51
Alignment explanation
Indices: 508207--508329 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
508197 GATTAACGGG
* *
508207 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG---TTTTGAAAATAAAATCGGA
508261 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
508312 GTGGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
508330 GCGGAGAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
51 34 0.53
53 1 0.02
54 29 0.45
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:510700 original size:13 final size:13
Alignment explanation
Indices: 510682--510707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
510672 CAAAGAATAG
510682 ATGTATCGATACA
1 ATGTATCGATACA
510695 ATGTATCGATACA
1 ATGTATCGATACA
510708 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:510704 original size:34 final size:33
Alignment explanation
Indices: 510661--510727 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
510651 AACTTCCTAG
*
510661 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
* *
510695 ATGTATCGATACACAGAAAAATGTATTGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
510728 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:510891 original size:15 final size:16
Alignment explanation
Indices: 510871--510903 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
510861 TTGTAGAATG
510871 TGATTTTT-TTTTTTT
1 TGATTTTTATTTTTTT
510886 TGATTTTTGATTTTTTT
1 TGATTTTT-ATTTTTTT
510903 T
1 T
510904 TCCTTCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TGATTTTTATTTTTTT
Found at i:511655 original size:55 final size:54
Alignment explanation
Indices: 511571--512072 Score: 612
Period size: 55 Copynumber: 9.0 Consensus size: 54
511561 ATAAGGTGCA
* *
511571 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
511626 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
511681 TCCTGCTCTTTGAGGAATGGAAAATGCCACCAACTTGTGTGGGATTTGAATGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
511736 TCCTGCTCTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
511791 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
511846 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * ** *
511901 TCCTACTCTTTGAAGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
511960 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
** *
512021 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
512073 AAAAGGCATC
Statistics
Matches: 393, Mismatches: 35, Indels: 39
0.84 0.07 0.08
Matches are distributed among these distances:
54 30 0.08
55 254 0.65
56 13 0.03
59 25 0.06
60 51 0.13
61 20 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:513068 original size:1 final size:1
Alignment explanation
Indices: 513064--513150 Score: 57
Period size: 1 Copynumber: 87.0 Consensus size: 1
513054 TTTTCTTCTC
* * * * * * * * * *
513064 TTTTTTTTTTCTCTTTTTTCTTTGTTTTGTTTTTTGTTTTTTTTTTGTTTTATTTTTTTTGTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* **
513129 TTTCTTTTTTGGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
513151 GAAAAAGAAT
Statistics
Matches: 62, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:513080 original size:12 final size:11
Alignment explanation
Indices: 513062--513138 Score: 66
Period size: 12 Copynumber: 6.7 Consensus size: 11
513052 ATTTTTCTTC
513062 TCTTTTTTTTT
1 TCTTTTTTTTT
513073 TCTCTTTTTTCTT
1 TCT-TTTTTT-TT
*
513086 TGTTTTGTTTTT
1 TCTTTT-TTTTT
*
513098 TGTTTTTTTTT
1 TCTTTTTTTTT
*
513109 TGTTTTATTTTT
1 TCTTTT-TTTTT
* *
513121 T-TTGTTGTTT
1 TCTTTTTTTTT
513131 TCTTTTTT
1 TCTTTTTT
513139 GGTTTTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.09
11 21 0.38
12 23 0.41
13 7 0.12
ACGTcount: A:0.01, C:0.06, G:0.08, T:0.84
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:513082 original size:25 final size:25
Alignment explanation
Indices: 513053--513146 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
513043 CTTAAGCAGA
513053 TTTTTCTTCTCTTTT-TTTTTTCTCT
1 TTTTTCTT-TCTTTTGTTTTTTCTCT
* *
513078 TTTTTCTTTGTTTTGTTTTTTGT-T
1 TTTTTCTTTCTTTTGTTTTTTCTCT
* * * *
513102 TTTTT-TTTGTTTTATTTTTTTTGT
1 TTTTTCTTTCTTTTGTTTTTTCTCT
*
513126 TGTTTTCTTT-TTTGGTTTTTT
1 T-TTTTCTTTCTTTTGTTTTTT
513147 TTTTGAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 15 0.25
24 13 0.22
25 28 0.47
26 3 0.05
ACGTcount: A:0.01, C:0.07, G:0.09, T:0.83
Consensus pattern (25 bp):
TTTTTCTTTCTTTTGTTTTTTCTCT
Found at i:513091 original size:11 final size:11
Alignment explanation
Indices: 513064--513151 Score: 74
Period size: 10 Copynumber: 8.0 Consensus size: 11
513054 TTTTCTTCTC
*
513064 TTTTTTTTTTC
1 TTTTTTTTTTG
513075 TCTTTTTTCTTTG
1 T-TTTTTT-TTTG
513088 TTTTGTTTTTTG
1 TTTT-TTTTTTG
513100 TTTTTTTTTTG
1 TTTTTTTTTTG
*
513111 -TTTTATTTT-
1 TTTTTTTTTTG
* *
513120 TTTTGTTGTT-
1 TTTTTTTTTTG
* *
513130 TTCTTTTTTGG
1 TTTTTTTTTTG
513141 TTTTTTTTTTG
1 TTTTTTTTTTG
513152 AAAAAGAATG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
10 20 0.33
11 17 0.28
12 17 0.28
13 7 0.11
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:513091 original size:23 final size:23
Alignment explanation
Indices: 513053--513121 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
513043 CTTAAGCAGA
* *
513053 TTTTTCTTCTCTTTTTTTTTTCTCT
1 TTTTTCTT-TGTTTTATTTTT-TCT
* *
513078 TTTTTCTTTGTTTTGTTTTTTGT
1 TTTTTCTTTGTTTTATTTTTTCT
*
513101 TTTTTTTTTGTTTTATTTTTT
1 TTTTTCTTTGTTTTATTTTTT
513122 TTGTTGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 21 0.54
24 10 0.26
25 8 0.21
ACGTcount: A:0.01, C:0.09, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTGTTTTATTTTTTCT
Found at i:513108 original size:40 final size:39
Alignment explanation
Indices: 513064--513150 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
513054 TTTTCTTCTC
* * * * *
513064 TTTTTTTTTTCTCTTTTTTCT-TTGTTTTGTTTTTTGTT
1 TTTTTTTTTTTTATTTTTTTTGTTGTTTTCTTTTTTGGT
513102 TTTTTTTTGTTTTATTTTTTTTGTTGTTTTCTTTTTTGGT
1 TTTTTTTT-TTTTATTTTTTTTGTTGTTTTCTTTTTTGGT
513142 TTTTTTTTT
1 TTTTTTTTT
513151 GAAAAAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 8 0.19
39 11 0.26
40 23 0.55
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.85
Consensus pattern (39 bp):
TTTTTTTTTTTTATTTTTTTTGTTGTTTTCTTTTTTGGT
Found at i:513136 original size:17 final size:17
Alignment explanation
Indices: 513079--513138 Score: 79
Period size: 16 Copynumber: 3.6 Consensus size: 17
513069 TTTTTCTCTT
*
513079 TTTTCTTTGTTTTGTT-
1 TTTTCTTTTTTTTGTTG
*
513095 TTTTGTTTTTTTT-TTG
1 TTTTCTTTTTTTTGTTG
*
513111 TTTTATTTTTTTTGTTG
1 TTTTCTTTTTTTTGTTG
513128 TTTTCTTTTTT
1 TTTTCTTTTTT
513139 GGTTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.05
16 23 0.61
17 13 0.34
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTTTTGTTG
Found at i:513147 original size:25 final size:25
Alignment explanation
Indices: 513067--513148 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
513057 TCTTCTCTTT
*
513067 TTTTTTTCTCTTTTTTCTTTGTTT--
1 TTTTTTT-TGTTTTTTCTTTGTTTGA
* * *
513091 TGTTTTTTGTTTTTTTTTTGTTTTA
1 TTTTTTTTGTTTTTTCTTTGTTTGA
*
513116 TTTTTTTTGTTGTTTTCTTT-TTTGG
1 TTTTTTTTGTT-TTTTCTTTGTTTGA
513141 TTTTTTTT
1 TTTTTTTT
513149 TTGAAAAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 14 0.29
24 6 0.12
25 21 0.44
26 7 0.15
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (25 bp):
TTTTTTTTGTTTTTTCTTTGTTTGA
Found at i:513148 original size:17 final size:16
Alignment explanation
Indices: 513067--513147 Score: 69
Period size: 16 Copynumber: 4.9 Consensus size: 16
513057 TCTTCTCTTT
*
513067 TTTTTTTCTCTTTTTTC
1 TTTTTTTGT-TTTTTTC
513084 TTTGTTTTGTTTTTTGT-
1 TTT-TTTTGTTTTTT-TC
513101 TTTTTTT-TTGTTTTAT-
1 TTTTTTTGTT-TTTT-TC
*
513117 TTTTTTTGTTGTTTTC
1 TTTTTTTGTTTTTTTC
*
513133 TTTTTTGGTTTTTTT
1 TTTTTTTGTTTTTTT
513148 TTTGAAAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
15 3 0.06
16 32 0.59
17 13 0.24
18 6 0.11
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTC
Found at i:518355 original size:13 final size:13
Alignment explanation
Indices: 518337--518362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
518327 CAAAGAATAG
518337 ATGTATCGATACA
1 ATGTATCGATACA
518350 ATGTATCGATACA
1 ATGTATCGATACA
518363 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:518359 original size:34 final size:33
Alignment explanation
Indices: 518316--518382 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
518306 AACTTCCTAG
*
518316 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
* *
518350 ATGTATCGATACACAGAAAAATGTATTGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
518383 TTTTCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:518438 original size:19 final size:19
Alignment explanation
Indices: 518414--518486 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
518404 AGCGATACAT
518414 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
518433 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
518452 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
518473 TGTATCGATACAAA
1 TGTATCGATACAAA
518487 TTATTGGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.65
20 3 0.07
21 13 0.28
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:527315 original size:29 final size:28
Alignment explanation
Indices: 527282--527548 Score: 267
Period size: 28 Copynumber: 9.4 Consensus size: 28
527272 CCTCACCTTC
*
527282 CAAAGCCCACAAGTTAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTT
* *
527311 AAAAGCCTACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CCTTTT
* *
527340 CAAAGCCCACAAGTTAATGGCAACC--TT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
* *
527367 CAGAAGCCCACAAGTCAGTGGCATCTTCT
1 CA-AAGCCCACAAGTCAGTGGCACCTTTT
*
527396 CAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
*
527424 CAAAGCCCACAAGTCAGTGGAAACC--TT
1 CAAAGCCCACAAGTCAGTGG-CACCTTTT
* *
527451 CAGAAGCCCACAAGTTAGTGATGC-CCTCTT
1 CA-AAGCCCACAAGTCAGTG--GCACCTTTT
* *
527481 CAAAGCCCACAAGTTAGTGGCACCTCTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
* *
527509 CAAAGCCCATAAGGCAGTGGCAACC-TTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
527537 CAAAAGCCCACA
1 C-AAAGCCCACA
527549 CAAGTTGGTG
Statistics
Matches: 204, Mismatches: 21, Indels: 26
0.81 0.08 0.10
Matches are distributed among these distances:
27 12 0.06
28 107 0.52
29 79 0.39
30 6 0.03
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTT
Found at i:527437 original size:113 final size:111
Alignment explanation
Indices: 527278--527548 Score: 307
Period size: 113 Copynumber: 2.4 Consensus size: 111
527268 CACTCCTCAC
* * * * * *
527278 CTTC-CAAAGCCCACAAGTTAGTGGCACCCTTTTAAAAGCCTACAAGTCAGTGGCACCCTTTTCA
1 CTTCTCAAAGCCCACAAGTCAGTGGCA-ACTTTTCAAAGCCCACAAGTCAGTGGAAACC--TTCA
527342 -AAGCCCACAAGTTAATG-GCAAC-CTTCAGAAGCCCACAAGTCAGTGGCA
63 GAAGCCCACAAGTTAATGAGC-ACTCTTCA-AAGCCCACAAGTCAGTGGCA
*
527390 TCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGAAACCTTCAGA
1 -CTTCTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAGCCCACAAGTCAGTGGAAACCTTCAGA
* * *
527455 AGCCCACAAGTTAGTGATGCCCTCTTCAAAGCCCACAAGTTAGTGGCA
65 AGCCCACAAGTTAATGA-GCACTCTTCAAAGCCCACAAGTCAGTGGCA
* * * *
527503 CCTCTTCAAAGCCCATAAGGCAGTGGCAACCTTTCAAAAGCCCACA
1 CTTC-TCAAAGCCCACAAGTCAGTGGCAACTTTTC-AAAGCCCACA
527549 CAAGTTGGTG
Statistics
Matches: 137, Mismatches: 14, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
111 4 0.03
112 19 0.14
113 76 0.55
114 38 0.28
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (111 bp):
CTTCTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAGCCCACAAGTCAGTGGAAACCTTCAGAA
GCCCACAAGTTAATGAGCACTCTTCAAAGCCCACAAGTCAGTGGCA
Found at i:527622 original size:43 final size:43
Alignment explanation
Indices: 527570--527706 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
527560 CATCTTTTTC
527570 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
527613 TAAGTCCAATGTTGTCGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA----C--CTT
* *
527662 TAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
527705 TA
1 TA
527707 TCATCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
43 40 0.51
45 1 0.01
47 1 0.01
49 36 0.46
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (43 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:527682 original size:49 final size:49
Alignment explanation
Indices: 527629--527850 Score: 232
Period size: 49 Copynumber: 4.5 Consensus size: 49
527619 CAATGTTGTC
* *
527629 GGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCGCT
1 GGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAACCCAATATCGCT
* * * *
527678 GGCCTTGAATCAGCATATTGGCACCTTTATCATCTTCAAGCCCAATATTGCT
1 GGCCTTGAATCAGCACATTGGCA--TCT-TCATCTTCAAACCCAATATCGCT
* * * ** *
527730 AGCC-TGAATCAGCATATTGGCACCGGCATCTTCAAGA-CCAATGTCGCT
1 GGCCTTGAATCAGCACATTGGCATCTTCATCTTCAA-ACCCAATATCGCT
* * * * *
527778 GGCCTTGAATTAGTACATTGGCATCTTCATCTTTAAACCCAATGTCGTT
1 GGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAACCCAATATCGCT
*
527827 GGCCTTGAATCAACACATTGGCAT
1 GGCCTTGAATCAGCACATTGGCAT
527851 TATTCTCATC
Statistics
Matches: 141, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
48 22 0.16
49 77 0.55
51 20 0.14
52 22 0.16
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
GGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAACCCAATATCGCT
Found at i:527860 original size:149 final size:143
Alignment explanation
Indices: 527591--527866 Score: 358
Period size: 149 Copynumber: 1.9 Consensus size: 143
527581 TCGTTGGCCT
* *
527591 TGAATCAGCATATTGGCACCTTTAAGTCCAATGTTGTCGGCCTTGAATCAGCACATTGGCATCTT
1 TGAATCAGCATATTGGCACCTTTAAGACCAATGTCGTCGGCCTTGAATCAGCACATTGGCATCTT
* * * *
527656 CATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTCAAGCCC
66 CATCTTTAAACCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTTATCATCTGCAAGCCC
527721 AATATTGCTAGCC
131 AATATTGCTAGCC
* *
527734 TGAATCAGCATATTGGCACCGGCATCTTCAAGACCAATGTCG-CTGGCCTTGAATTAGTACATTG
1 TGAATCAGCATATTGGCA-C--C-T-TT-AAGACCAATGTCGTC-GGCCTTGAATCAGCACATTG
* * * *
527798 GCATCTTCATCTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-TTATTCTCATCT
59 GCATCTTCATCTTTAAACCCAATATCGCTGGCCTTGAATCAACACATTGGCACCT-TTATCATCT
527862 GCAAG
123 GCAAG
527867 TCTAATGTCA
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
143 18 0.16
144 1 0.01
146 1 0.01
147 1 0.01
148 4 0.04
149 88 0.78
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (143 bp):
TGAATCAGCATATTGGCACCTTTAAGACCAATGTCGTCGGCCTTGAATCAGCACATTGGCATCTT
CATCTTTAAACCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTTATCATCTGCAAGCCC
AATATTGCTAGCC
Found at i:528685 original size:33 final size:33
Alignment explanation
Indices: 528642--528707 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
528632 GCTAAGGAAA
*
528642 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATAGATACATTGA-TCAATGTATCGATACAT
**
528675 TGTATAGATACATTGATCTTTGTATCGATACAT
1 TGTATAGATACATTGATCAATGTATCGATACAT
528708 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATAGATACATTGATCAATGTATCGATACAT
Found at i:533205 original size:50 final size:51
Alignment explanation
Indices: 533119--533261 Score: 218
Period size: 50 Copynumber: 2.8 Consensus size: 51
533109 TATCAAGATA
* *
533119 TATCAATACATCGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATG
1 TATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATG
* *
533170 TATCGATACATTG-AAAATGTATCGATAGATTTGGGT-AAAAGACAGAATG
1 TATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATG
*
533219 TATCGATACATTGAAAAATGAATCGATACATCTGGGTACAAAA
1 TATCGATACATTGAAAAATGTATCGATACATCTGGGTA-AAAA
533262 TGTGACTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
49 26 0.32
50 41 0.50
51 11 0.13
52 4 0.05
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATG
Found at i:534241 original size:33 final size:30
Alignment explanation
Indices: 534196--534779 Score: 134
Period size: 29 Copynumber: 20.3 Consensus size: 30
534186 CCAGCGACAT
* *
534196 TGGG-TTTAGA-AGGGTTACCGCCAACTTGTG
1 TGGGCTTTAGAGAAGGTTACCACCAAC-T-TG
*
534226 TGGGCTTTAGAGAAGGTTGCCACCAACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * *** * *
534256 TGGGCTTTA-A-AAGGATGCCATTGATTTA
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
*
534284 TGGGCTTT-GA-AAGGGTACCACCAACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * *
534312 TGGGCTTCA-A-AAGGGTGCCACTAACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* *
534340 TGGGCTTT-GA-AAGGCTT-CCACTAACTTA
1 TGGGCTTTAGAGAAGG-TTACCACCAACTTG
* *
534368 TGGGCTTT-GAGAGAGGTTGCCACCGACTTATG
1 TGGGCTTTAGAGA-AGGTTACCACCAAC-T-TG
** ** *
534400 TGGGC-TT--A-AAGGGGAGCCACTGACTTA
1 TGGGCTTTAGAGAAGGTTA-CCACCAACTTG
* * *
534427 TGGGCTTT-GAGAAGGATGCCACTAACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * **
534456 TGGGCTTT-GAGAAGGATGCCACTGACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* ** **** *
534485 TGGGCTTT-GAGAAGGATGGCGTTGACTCG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * **
534514 TGGGCTTT-GAAAAGGATGCCACTGACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * ***
534543 TGGGCTTT-GAGAA-GATGCCATTGACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * *
534571 TGGGCTTT-GAGAAGGATGCCACTAACTTA
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * ** *
534600 TGGGCTTT-GAAAAGGATGCCACTGACATG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * * ** *
534629 TAGGCTTT-CA-AAGGATGCCACTGACTTA
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * *
534657 TGGGCTTT-GAGAAGGATGCCACTAACATG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * * *
534686 TGGGCTTTA-A-AAGGATGCCACTAACCTA
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * *
534714 TGGGCTTT-GAGAAGGATGCCACTAACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
* * * **
534743 TAGGCTTT-GA-AAGGATGCCACTGACTTG
1 TGGGCTTTAGAGAAGGTTACCACCAACTTG
534771 TGGGCTTTA
1 TGGGCTTTA
534780 AAAGGATGCC
Statistics
Matches: 463, Mismatches: 70, Indels: 43
0.80 0.12 0.07
Matches are distributed among these distances:
27 6 0.01
28 194 0.42
29 206 0.44
30 29 0.06
31 10 0.02
32 18 0.04
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (30 bp):
TGGGCTTTAGAGAAGGTTACCACCAACTTG
Found at i:534447 original size:29 final size:29
Alignment explanation
Indices: 534224--534836 Score: 622
Period size: 28 Copynumber: 21.4 Consensus size: 29
534214 CGCCAACTTG
* **
534224 TGTGGGCTTTAGAGAAGGTTGCCACCAACT
1 TGTGGGCTTT-GAGAAGGATGCCACTGACT
* * *
534254 TGTGGGCTTT-AAAAGGATGCCATTGATT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * * **
534282 TATGGGCTTTGA-AAGGGTACCACCAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * * *
534310 TGTGGGC-TTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534338 TGTGGGCTTTGA-AAGGCTTCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534366 TATGGGCTTTGAGAGAGGTTGCCACCGACTT
1 TGTGGGCTTTGAGA-AGGATGCCACTGAC-T
** *
534397 ATGTGGGCTTAAAG-GGGA-GCCACTGACT
1 -TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534425 TATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
534454 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* **
534483 TGTGGGCTTTGAGAAGGATGGCGTTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534512 CGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
534541 TGTGGGCTTTGAGAA-GATGCCATTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
534569 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534598 TATGGGCTTTGAAAAGGATGCCACTGACA
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534627 TGTAGGCTTTCA-AAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534655 TATGGGCTTTGAGAAGGATGCCACTAACA
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534684 TGTGGGCTTT-AAAAGGATGCCACTAACC
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534712 TATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
*
534741 TGTAGGCTTTGA-AAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534769 TGTGGGCTTT-AAAAGGATGCCATTGA-T
1 TGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534796 ATGTGGGCTTT-AAAAGGATGCCACTAACA
1 -TGTGGGCTTTGAGAAGGATGCCACTGACT
534825 TGTGGGCTTTGA
1 TGTGGGCTTTGA
534837 AAAAGGTCGT
Statistics
Matches: 489, Mismatches: 78, Indels: 33
0.81 0.13 0.05
Matches are distributed among these distances:
27 15 0.03
28 234 0.48
29 207 0.42
30 22 0.04
31 1 0.00
32 10 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAGAAGGATGCCACTGACT
Found at i:534604 original size:57 final size:57
Alignment explanation
Indices: 534224--534836 Score: 648
Period size: 57 Copynumber: 10.7 Consensus size: 57
534214 CGCCAACTTG
* * * * *
534224 TGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGGGCTTT-AAAAGGATGCCATTGATT
1 TGTGGGCTTT-GA-AAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * * * * * * *
534282 TATGGGCTTTGAAAGGGTACCACCAACTTGTGGGC-TTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * * * *
534338 TGTGGGCTTTGAAAGGCTTCCACTAACTTATGGGCTTTGAGAGAGGTTGCCACCGACTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGA-AGGATGCCACTGAC-T
* * *
534397 ATGTGGGC-TT-AAAGGGGA-GCCACTGACTTATGGGCTTTGAGAAGGATGCCACTAACT
1 -TGTGGGCTTTGAAA--GGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * **
534454 TGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGGCGTTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534512 CGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAGAA-GATGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * *
534569 TGTGGGCTTTGAGAAGGATGCCACTAACTTATGGGCTTTGAAAAGGATGCCACTGACA
1 TGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * * * * *
534627 TGTAGGCTTTCAAAGGATGCCACTGACTTATGGGCTTTGAGAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * * *
534684 TGTGGGCTTTAAAAGGATGCCACTAACCTATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* * * *
534741 TGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCATTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
* *
534796 ATGTGGGCTTTAAAAGGATGCCACTAACATGTGGGCTTTGA
1 -TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGA
534837 AAAAGGTCGT
Statistics
Matches: 480, Mismatches: 59, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
55 3 0.01
56 120 0.25
57 189 0.39
58 131 0.27
59 28 0.06
60 9 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (57 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
Found at i:534880 original size:12 final size:13
Alignment explanation
Indices: 534858--534921 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
534848 TTGAAGAAAA
534858 TTTCTTGACAAAG
1 TTTCTTGACAAAG
*
534871 TTTC-TGACAAAC
1 TTTCTTGACAAAG
* *
534883 ATTCTCGACAGAAG
1 TTTCTTGACA-AAG
534897 -TTCTTGACGATAA-
1 TTTCTTGAC-A-AAG
534910 TTTCTTGACAAA
1 TTTCTTGACAAA
534922 TGGCAAAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 12 0.29
13 16 0.39
14 13 0.32
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (13 bp):
TTTCTTGACAAAG
Found at i:549296 original size:13 final size:13
Alignment explanation
Indices: 549278--549304 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
549268 TACAATTAAC
549278 ATGTATTGATACA
1 ATGTATTGATACA
549291 ATGTATTGATACA
1 ATGTATTGATACA
549304 A
1 A
549305 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:549322 original size:33 final size:33
Alignment explanation
Indices: 549259--549356 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
549249 CAATTTGTCC
** * *
549259 ATGTATTGATAC-AATTAACATGTATTGATACA
1 ATGTATTGATACAAAGCAGCATGTATCGATACA
549291 ATGTATTGATACAAAGCAGCATGTATCGATACA
1 ATGTATTGATACAAAGCAGCATGTATCGATACA
*
549324 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATTGATACAAAGCAGCATGTATCGATACA
549357 TCTGGGTGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 12 0.20
33 48 0.80
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATTGATACAAAGCAGCATGTATCGATACA
Found at i:549329 original size:13 final size:13
Alignment explanation
Indices: 549311--549337 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
549301 ACAAAGCAGC
549311 ATGTATCGATACA
1 ATGTATCGATACA
549324 ATGTATCGATACA
1 ATGTATCGATACA
549337 A
1 A
549338 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:549349 original size:20 final size:20
Alignment explanation
Indices: 549291--549356 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
549281 TATTGATACA
*
549291 ATGTATTGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
549311 ATGTATCGAT----A-CA--
1 ATGTATCGATACAAAGCAGC
549324 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
549344 ATGTATCGATACA
1 ATGTATCGATACA
549357 TCTGGGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 22 0.58
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAGC
Found at i:549937 original size:22 final size:18
Alignment explanation
Indices: 549889--549941 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
549879 CTTTAAAAAA
549889 TTCTCCCCCTTAAACGAT
1 TTCTCCCCCTTAAACGAT
549907 TATCTCCCCCTTAAACAGTTAT
1 T-TCTCCCCCTTAAAC-G--AT
549929 CTTCTCCCCCTTA
1 -TTCTCCCCCTTA
549942 TGTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 1 0.03
22 13 0.43
23 1 0.03
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.36
Consensus pattern (18 bp):
TTCTCCCCCTTAAACGAT
Found at i:551776 original size:13 final size:13
Alignment explanation
Indices: 551755--551796 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
551745 AAATAGTACC
551755 CAATGTATCGATA
1 CAATGTATCGATA
*
551768 CATTGTATCGATA
1 CAATGTATCGATA
*
551781 CAATGTATCGAGA
1 CAATGTATCGATA
551794 CAA
1 CAA
551797 GGAATGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:557978 original size:13 final size:13
Alignment explanation
Indices: 557960--558023 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
557950 ACATTTCTTC
557960 ATGTATCGATACA
1 ATGTATCGATACA
557973 ATGTATCGATAC-
1 ATGTATCGATACA
*
557985 A--T-T--ATACC
1 ATGTATCGATACA
557993 ATGTATCGATACA
1 ATGTATCGATACA
558006 ATGTATCGATACA
1 ATGTATCGATACA
*
558019 TTGTA
1 ATGTA
558024 CAAATAGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 1 0.02
10 2 0.05
11 1 0.02
12 1 0.02
13 33 0.77
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:557978 original size:33 final size:33
Alignment explanation
Indices: 557940--558020 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
557930 GTTACAAGCT
557940 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTATAC--CATGTATCGATACA
557973 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
558006 ATGTATCGATACATT
1 ATGTATCGATACATT
558021 GTACAAATAG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
33 44 0.96
34 1 0.02
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:557991 original size:20 final size:20
Alignment explanation
Indices: 557968--558005 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
557958 TCATGTATCG
557968 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
557988 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
558006 ATGTATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:558641 original size:20 final size:20
Alignment explanation
Indices: 558616--558692 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
558606 GTGAAAAGAT
558616 AGAATATATCGATACATTGA
1 AGAATATATCGATACATTGA
*
558636 AGAATATATCGATACATTCA
1 AGAATATATCGATACATTGA
* *
558656 TA-CATGTATCGATACATTGA
1 -AGAATATATCGATACATTGA
* *
558676 AAAATGTATCGATACAT
1 AGAATATATCGATACAT
558693 CTAGGTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
AGAATATATCGATACATTGA
Found at i:558737 original size:90 final size:91
Alignment explanation
Indices: 558568--558742 Score: 264
Period size: 90 Copynumber: 1.9 Consensus size: 91
558558 TTTTAACTAG
* * *
558568 ATGTATAGATACATTAGAAAATGTATCGATATATCTAGGTGAAAAGATAGAATATATCGATACAT
1 ATGTATAGATACATTAGAAAATGTATCGATACATCTAGGTGAAAAGACAGAATATACCGATACAT
*
558633 TGAAGAATATATCGATACATTCATAC
66 TGAAAAATATATCGATACATTCATAC
* *
558659 ATGTATCGATACATT-GAAAAATGTATCGATACATCTAGGT-AAAAGACAGAATGTACCGATACA
1 ATGTATAGATACATTAG-AAAATGTATCGATACATCTAGGTGAAAAGACAGAATATACCGATACA
*
558722 TTGAAAAATGTATCGATACAT
65 TTGAAAAATATATCGATACAT
558743 CTGGGTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
90 40 0.53
91 36 0.47
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.29
Consensus pattern (91 bp):
ATGTATAGATACATTAGAAAATGTATCGATACATCTAGGTGAAAAGACAGAATATACCGATACAT
TGAAAAATATATCGATACATTCATAC
Found at i:568586 original size:23 final size:22
Alignment explanation
Indices: 568543--568591 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
568533 AAAAACAAAG
* **
568543 AAAATAACAGACAAATTTACAC
1 AAAATAACACACAAAAATACAC
*
568565 AAAATAAACACACAAAAATACAT
1 AAAAT-AACACACAAAAATACAC
568588 AAAA
1 AAAA
568592 AAGAGGGATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.67, C:0.16, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAATAACACACAAAAATACAC
Found at i:568914 original size:79 final size:78
Alignment explanation
Indices: 568814--569772 Score: 674
Period size: 79 Copynumber: 12.2 Consensus size: 78
568804 AAATTTAATA
* ** *
568814 TTTTAGAGATAAAA-ATGGGGTTGGAGTATCCTTTCAGAAATAACAAGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAACA--GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGAT
568878 GGTGGAAAATCGATG
64 GGTGGAAAATCGATG
* *
568893 TTTTAGAATTAAAATCAGGGTTGGAGTATCCCCTC-GAAAATAAC-AGGGTTGGAGTATCCTCGA
1 TTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCAG-AAATAACGA-GGTTGGAGTATCCCCGA
*
568956 TGGTGGAAAATCGGTG
63 TGGTGGAAAATCGATG
* * * * * *
568972 TTCT-GAAAATAAAACTGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTT-GAATTTCCTCGAT
1 TTTTAG-AAATAAAAC-AGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGAT
*
569035 --TAAGAAAATCGATG
64 GGT-GGAAAATCGATG
* * ** * ** * *
569049 TTTTAGAAATAAAACTGAGATCAGAGTAACTTCTTAGAAATAAC-AGGGTTGGAATATCCCCGAT
1 TTTTAGAAATAAAACAG-GGTTGGAGTATCCCCTCAGAAATAACGA-GGTTGGAGTATCCCCGAT
* * * *
569113 AGTGAAAAATTGGTG
64 GGTGGAAAATCGATG
* * * ** * * *
569128 TTTCAGAAGTAAAACCAAGGTTAAAGTATCCCCTAAAAAATAACGAGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
569193 GTGGAAAATC-AGTG
65 GTGGAAAATCGA-TG
* * * * * *
569207 TTTTAAAAATAAAATCGGGGTTGAAGTATCCCCTCAGAAATAACAAGGTTAGAGTATCCCCGATT
1 TTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
** * *
569272 GTATAAAATTGTTG
65 GTGGAAAATCGATG
* * * * *
569286 TTTTAAAAATAAAACTAGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCTCGATG
1 TTTTAGAAATAAAAC-AGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
* *
569351 GT-GAAAATTTG-TA
65 GTGGAAAA-TCGATG
* * * * * * * **
569364 TTTTAGAAATAAAATCAAGTTTGAAGTAT-CCCTTAAAAAGTAATG-GGATTGAAGTATCCCTAA
1 TTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCAGAAA-TAACGAGG-TTGGAGTATCCCCGA
** *
569427 AAGTGAAAAAATCGATG
63 TGGTG-GAAAATCGATG
* * * * * * *
569444 TTTTAGGAATAAAACTA-GATTAGAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCTCGATG
1 TTTTAGAAATAAAAC-AGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
** * * *
569508 GTAAAAAATTGGTA
65 GTGGAAAATCGATG
* * * **
569522 CTTTAAAAATAAAACTAGGGTTGGAGTGTCCCCTC-GAAAATAAC-AGGTTAAAGTATCCCCGAT
1 TTTTAGAAATAAAAC-AGGGTTGGAGTATCCCCTCAG-AAATAACGAGGTTGGAGTATCCCCGAT
*
569585 GGTGGAAAAATCGGTG
64 GGTGG-AAAATCGATG
* * * * * * *
569601 TTTTAGGAATAAAACTTGGGTTGGAGTGTCCCTTCTA-AAATAACGGGGTTGGAGTATCGCCAAT
1 TTTTAGAAATAAAAC-AGGGTTGGAGTATCCCCTC-AGAAATAACGAGGTTGGAGTATCCCCGAT
* * *
569665 GGTGAAAAATTGGTG
64 GGTGGAAAATCGATG
* * * * *
569680 TTTTAGAAATAAAATCAGGGTTAGAGTGTCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATA
1 TTTTAGAAATAAAA-CAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
* *
569745 GTAGAAAATCGATA
65 GTGGAAAATCGATG
569759 TTTTAGAAATAAAA
1 TTTTAGAAATAAAA
569773 ACTTCAATGA
Statistics
Matches: 701, Mismatches: 141, Indels: 76
0.76 0.15 0.08
Matches are distributed among these distances:
76 3 0.00
77 56 0.08
78 119 0.17
79 470 0.67
80 52 0.07
81 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
TTTTAGAAATAAAACAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGG
TGGAAAATCGATG
Found at i:569013 original size:158 final size:158
Alignment explanation
Indices: 568814--569772 Score: 805
Period size: 158 Copynumber: 6.1 Consensus size: 158
568804 AAATTTAATA
* * * * ** *
568814 TTTTAGAGATAAAAATGGGGTTGGAGTATCCTTTCAGAAATAACAAGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
* *
568879 GTGGAAAATCGATGTTTTAGAATTAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
66 GTGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTG
* *
568944 GAGTATCCTCGATGGTGGAAAATCGGTG
131 GAGTATCCCCGATAGTGGAAAATCGGTG
* * * * *
568972 TTCT-GAAAATAAAACTGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTT-GAATTTCCTCGAT
1 TTTTAG-AAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGAT
* * * ** * ** * *
569035 --TAAGAAAATCGATGTTTTAGAAATAAAA-CTGAGATCAGAGTAACTTCTTAGAAATAACAGGG
65 GGT-GGAAAATCGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTCAAAAATAACAGGG
* * *
569097 TTGGAATATCCCCGATAGTGAAAAATTGGTG
128 TTGGAGTATCCCCGATAGTGGAAAATCGGTG
* * * * * * * *
569128 TTTCAGAAGTAAAACCAAGGTTAAAGTATCCCCTAAAAAATAACGAGGTTAGAGTATCCCCGATG
1 TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
* * * * *
569193 GTGGAAAATC-AGTGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCTCAGAAATAACAAGGTT
66 GTGGAAAATCGA-TGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTT
* * ** * *
569257 AGAGTATCCCCGATTGTATAAAATTGTTG
130 GGAGTATCCCCGATAGTGGAAAATCGGTG
* * * *
569286 TTTTAAAAATAAAACTAGGGTT-GAAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCTCGAT
1 TTTTAGAAATAAAACTAGGGTTAG-AGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGAT
* * * * * * *
569350 GGT-GAAAATTTG-TATTTTAGAAATAAAATCAAGTTTGAAGTAT-CCCTTAAAAAGTAA-TGGG
65 GGTGGAAAA-TCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAA-TAACAGGG
* ** * * *
569411 ATTGAAGTATCCCTAAAAGTGAAAAAATCGATG
128 -TTGGAGTATCCCCGATAGTG-GAAAATCGGTG
* * * * * *
569444 TTTTAGGAATAAAACTA-GATTAGAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCTCGATG
1 TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
** * * ** * * *
569508 GTAAAAAATTGGTACTTTAAAAATAAAA-CTAGGGTTGGAGTGTCCCCTCGAAAATAACA-GGTT
66 GTGGAAAATCGATGTTTTAGAAATAAAATC-AGGGTTGGAGTATCCCCTCAAAAATAACAGGGTT
** *
569571 AAAGTATCCCCGATGGTGGAAAAATCGGTG
130 GGAGTATCCCCGATAGTGG-AAAATCGGTG
* * * * * * * *
569601 TTTTAGGAATAAAACTTGGGTTGGAGTGTCCCTTCTA-AAATAACGGGGTTGGAGTATCGCCAAT
1 TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTC-AGAAATAACGAGGTTGGAGTATCCCCGAT
* * * * * *
569665 GGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTAGAGTGTCCCCTCAAAAATAACGGGGTT
65 GGTGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTT
* * *
569730 GGAGTATCCCCGATAGTAGAAAATCGATA
130 GGAGTATCCCCGATAGTGGAAAATCGGTG
569759 TTTTAGAAATAAAA
1 TTTTAGAAATAAAA
569773 ACTTCAATGA
Statistics
Matches: 637, Mismatches: 138, Indels: 52
0.77 0.17 0.06
Matches are distributed among these distances:
155 3 0.00
156 120 0.19
157 155 0.24
158 327 0.51
159 32 0.05
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (158 bp):
TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATG
GTGGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTG
GAGTATCCCCGATAGTGGAAAATCGGTG
Found at i:569535 original size:315 final size:314
Alignment explanation
Indices: 568837--569772 Score: 880
Period size: 315 Copynumber: 3.0 Consensus size: 314
568827 AATGGGGTTG
* * * *
568837 GAGTA-TCCTTTCAGAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAA
1 GAGTATTCC-TTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAA
* * * * * *
568901 TTAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCTCGATGGTGGAAAA
65 ATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATTGT-AAAAA
* * * * *
568966 TCGGTGTTCTGAAAATAAAACTGGGGTT-AGAGTATCCCCTCAGAAATAACGAGGTTGAA-TTTC
129 TCGGTGTTTTAAAAATAAAACTAGGGTTGA-AGTATCCCCTCAGAAATAACGGGGTTGAAGTATC
*** * * *
569029 CTCGATTAAGAAAA-TCGATGTTTTAGAAATAAAA-CTGAGATCAGAGTAACTTCTTAGAAATAA
193 CTCGATGGTGAAAATTCG-TGTTTTAGAAATAAAATC-AAGATCAGAGTAACTCCTTAAAAATAA
* * * * *
569092 CAGGGTTGGAATATCCCCGATAGTGAAAAATTGGTGTTTCAGAAGTAAAACCAAGGTTA
256 CAGGGTTGGAATATCCCCAAAAGTGAAAAATCGATGTTTCAGAAGTAAAACCAAGATTA
* * * * * *
569151 AAGTATCCCCTAAAAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAAAAA
1 GAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAAA
* *
569216 TAAAATCGGGGTTGAAGTATCCCCTC-AGAAATAACAAGGTTAGAGTATCCCCGATTGTATAAAA
66 TAAAATCAGGGTTGGAGTATCCCCTCGA-AAATAACAAGGTTAGAGTATCCCCGATTGTA-AAAA
* *
569280 TTGTTGTTTTAAAAATAAAACTAGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCC
129 TCGGTGTTTTAAAAATAAAACTAGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCC
* * ** *
569345 TCGATGGTGAAAATTTGTATTTTAGAAATAAAATCAAG-TTTGAAGTATC-CCTTAAAAAGTAA-
194 TCGATGGTGAAAATTCGTGTTTTAGAAATAAAATCAAGATCAG-AGTAACTCCTTAAAAA-TAAC
* * * *
569407 TGGGATT-GAAGTATCCCTAAAAGTGAAAAAATCGATGTTTTAGGAA-TAAAA-CTAGATTA
257 AGGG-TTGGAA-TATCCCCAAAAGTG-AAAAATCGATGTTTCA-GAAGTAAAACCAAGATTA
* ** * **
569466 GAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCTCGATGGTAAAAAATTGGTACTTTAAAAA
1 GAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAAA
* * *
569531 TAAAA-CTAGGGTTGGAGTGTCCCCTCGAAAATAAC-AGGTTAAAGTATCCCCGATGGTGGAAAA
66 TAAAATC-AGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGAT--TGTAAAA
** * * * * *
569594 ATCGGTGTTTTAGGAATAAAACTTGGGTTGGAGTGTCCCTTCTA-AAATAACGGGGTTGGAGTAT
128 ATCGGTGTTTTAAAAATAAAACTAGGGTTGAAGTATCCCCTC-AGAAATAACGGGGTTGAAGTAT
* * * * * ** * *
569658 CGC-CAATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTAGAGTGTCCCCTCAAAAATA
192 C-CTCGATGGTG-AAAATTCGTGTTTTAGAAATAAAATCAAGATCAGAGTAACTCCTTAAAAATA
* * * * * * *
569722 ACGGGGTTGGAGTATCCCCGATAGT-AGAAAATCGATATTTTAGAAATAAAA
255 ACAGGGTTGGAATATCCCCAAAAGTGA-AAAATCGATGTTTCAGAAGTAAAA
569773 ACTTCAATGA
Statistics
Matches: 512, Mismatches: 84, Indels: 51
0.79 0.13 0.08
Matches are distributed among these distances:
313 1 0.00
314 194 0.38
315 225 0.44
316 73 0.14
317 19 0.04
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (314 bp):
GAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAAA
TAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTAGAGTATCCCCGATTGTAAAAATC
GGTGTTTTAAAAATAAAACTAGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGAAGTATCCTC
GATGGTGAAAATTCGTGTTTTAGAAATAAAATCAAGATCAGAGTAACTCCTTAAAAATAACAGGG
TTGGAATATCCCCAAAAGTGAAAAATCGATGTTTCAGAAGTAAAACCAAGATTA
Found at i:572283 original size:34 final size:34
Alignment explanation
Indices: 572240--572307 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
572230 TAGGGTGGTT
*
572240 TTGTATCGATACATTTTAGGCATGTATCGATACA
1 TTGTATCGATACATTTTAAGCATGTATCGATACA
*
572274 TTGTGTCGATACATTTTAAGCATGTATCGATACA
1 TTGTATCGATACATTTTAAGCATGTATCGATACA
572308 ATTTGTAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (34 bp):
TTGTATCGATACATTTTAAGCATGTATCGATACA
Found at i:572813 original size:61 final size:61
Alignment explanation
Indices: 572671--573068 Score: 397
Period size: 61 Copynumber: 6.5 Consensus size: 61
572661 TTTCACGTCT
* * * * *
572671 TTTGAGGACTAGAAGGTGCCACCAGCTTTTGTGGGCTCTAAAAGAAAAAAAGGCGTGTCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG-GAAAAA-GC--GTCTTGCTC
* ** * *
572736 TTTGAGGATTGGAAGGTACCACCAACTTATGTGGGCGTTGAAAA-GAAAAAGCGTCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGC-TTTAAAAGGAAAAAGCGTCTTGCTC
* * * * * *
572797 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGAAGGTGTCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCGTCTTGCTC
* * * * *
572858 TTTGAGGACTAGAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAGAAGGCATCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCGTCTTGCTC
* * * * * * *
572919 TTTGAGGA-TCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGTTT
1 TTTGAGGACT-AAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCGTCTTGCTC
** *
572980 TTTGAGGACCGAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGG-AAAAGACGTCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAG-CGTCTTGCTC
** * *
573041 TTTGAGGACCGAAAGATGCCACTAACTT
1 TTTGAGGACTAAAAGGTGCCACCAACTT
573069 GTATGGGTTT
Statistics
Matches: 284, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
60 11 0.04
61 230 0.81
63 2 0.01
64 5 0.02
65 31 0.11
66 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCGTCTTGCTC
Found at i:572892 original size:122 final size:121
Alignment explanation
Indices: 572671--573075 Score: 454
Period size: 122 Copynumber: 3.3 Consensus size: 121
572661 TTTCACGTCT
* * * * * *
572671 TTTGAGGACTAGAAGGTGCCACCAGCTTTTGTGGGCTCTAAAAGAAAAAAAGGCGTGTCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG--GAAAA-G-GTGTCCTGCTC
* * * *
572736 TTTGAGGATTGGAAGGTACCACCAACTTATGTGGGCGTTGAAAAGAAAAAGCGTCTTGCTC
62 TTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGC-TTTAAAAGAAAAAGCGTCTTGCTC
* *
572797 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTG
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTG
* * * *
572862 AGGACTAGAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGAGAAGGCATCTTGCTC
66 AGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAA-GAAAAAGCGTCTTGCTC
* ** * *
572919 TTTGAGGA-TCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGTTTTTT
1 TTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * *
572983 GAGGAC-CGAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAGACGTCTTGCTC
65 GAGGACTAG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAG-CGTCTTGCTC
** * * *
573041 TTTGAGGACCGAAAGATGCCACTAACTTGTATGGG
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG
573076 TTTTCCTGCT
Statistics
Matches: 240, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
121 12 0.05
122 185 0.77
123 1 0.00
124 3 0.01
126 39 0.16
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (121 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTG
AGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGCGTCTTGCTC
Found at i:572986 original size:183 final size:185
Alignment explanation
Indices: 572671--573068 Score: 498
Period size: 183 Copynumber: 2.2 Consensus size: 185
572661 TTTCACGTCT
* * * *
572671 TTTGAGGACTAGAAGGTGCCACCAGCTTTTGTGGGCTCTAAAAGAAAAAAAGGCGTGTCTTGCTC
1 TTTGAGGACTAGAAGGTGCCACTAACTTATGTGGGCTCTAAAAG-AAAAAAGGCG-ATCTTGCTC
* * * *
572736 TTTGAGGATTGGAAGGTACCACCAACTTATGTGGGCGTTGAAAAGAAAAAGCGTCTTGCTCTTTG
64 TTTGAGGATCGAAAGGTACCACCAACTTATGTGGGCGTTGAAAAGAAAAAGCATCCTGCTCTTTG
* * * **
572801 AGGACTAAAAGGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGAAGGTGTCCTGCTC
129 AGGACCAAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAGACGTCCTGCTC
* * *
572858 TTTGAGGACTAGAAGGTGCCACTAACTTATGTGGGCTTTAAAAG-GAGAAGGC-ATCTTGCTCTT
1 TTTGAGGACTAGAAGGTGCCACTAACTTATGTGGGCTCTAAAAGAAAAAAGGCGATCTTGCTCTT
* * * * * *
572921 TGAGGATCGAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAGGCATCCTGTTTTTTGA
66 TGAGGATCGAAAGGTACCACCAACTTATGTGGGCGTTGAAAA-GAAAAAGCATCCTGCTCTTTGA
* *
572985 GGACCGAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAGACGTCTTGCTC
130 GGACCAAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAGACGTCCTGCTC
* *
573041 TTTGAGGAC-CGAAAGATGCCACTAACTT
1 TTTGAGGACTAG-AAGGTGCCACTAACTT
573069 GTATGGGTTT
Statistics
Matches: 183, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
182 7 0.04
183 130 0.71
185 6 0.03
187 40 0.22
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (185 bp):
TTTGAGGACTAGAAGGTGCCACTAACTTATGTGGGCTCTAAAAGAAAAAAGGCGATCTTGCTCTT
TGAGGATCGAAAGGTACCACCAACTTATGTGGGCGTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
GACCAAAAGGTGCCACCAACTTATGTGTGCTTTAAAAGGAAAAGACGTCCTGCTC
Found at i:574096 original size:1 final size:1
Alignment explanation
Indices: 574085--574136 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
574075 AAGTAGGTTC
* * * * * *
574085 TTTTCTTTTTTTTCTTTTTTTTGTTTTTGTTGTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
574137 CAAAAAAAGG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:574099 original size:9 final size:9
Alignment explanation
Indices: 574085--574135 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
574075 AAGTAGGTTC
574085 TTTTCTTTT
1 TTTTCTTTT
574094 TTTTCTTTT
1 TTTTCTTTT
*
574103 TTTTGTTTT
1 TTTTCTTTT
*
574112 TGTTGTTTTTT
1 T-TT-TCTTTT
*
574123 TTTTGTTTT
1 TTTTCTTTT
574132 TTTT
1 TTTT
574136 TCAAAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 27 0.73
10 4 0.11
11 6 0.16
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:574101 original size:14 final size:13
Alignment explanation
Indices: 574082--574136 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
574072 CTTAAGTAGG
574082 TTCTTTTCTTTTTT
1 TTCTTTT-TTTTTT
574096 TTCTTTTTTTTGTTT
1 TTC-TTTTTTT-TTT
*
574111 TTGTTGTTTTTTTT
1 TTCTT-TTTTTTTT
*
574125 TTGTTTTTTTTT
1 TTCTTTTTTTTT
574137 CAAAAAAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 7 0.19
14 16 0.43
15 14 0.38
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.87
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:583859 original size:4 final size:4
Alignment explanation
Indices: 583845--583892 Score: 78
Period size: 4 Copynumber: 11.8 Consensus size: 4
583835 TACACAAAAC
*
583845 AAAT AAAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
583893 CACCTCAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
4 37 0.90
5 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:586018 original size:79 final size:80
Alignment explanation
Indices: 585932--586253 Score: 397
Period size: 79 Copynumber: 4.1 Consensus size: 80
585922 ACAAGATTGA
* * * *
585932 AGTATCCCCTCAGAAATAACGAGGTTGGAGTATTCCCAATGGTGGAAAATCGGTGTTTTGA-AAA
1 AGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAGAAA
*
585996 TAAAATCGGGGTTAG
66 TAAAACCGGGGTTAG
* * *
586011 AGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCGATGGT-GAAAATTTGATGTTTTGA-AA
1 AGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAA-TCGATGTTTTGAGAA
* *
586074 ATAAAACCGAGGTTGG
65 ATAAAACCGGGGTTAG
* *
586090 AGTATCCCCTCAAAAATAACGAGGTTGAAGTATCCCCGATTG-GGAAAATCGATGTTTT-AGAAA
1 AGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAGAAA
586153 TAAAACCGGGGTTAG
66 TAAAACCGGGGTTAG
* * * * *
586168 AGTATCTCCTCAGAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAAT-TA-GTGTTTCAGAA
1 AGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGT-TTTGAGAA
* * *
586231 GTAAAATCAGGGTTAG
65 ATAAAACCGGGGTTAG
586247 AGTATCC
1 AGTATCC
586254 TCGATGGTGG
Statistics
Matches: 210, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.01
78 71 0.34
79 136 0.65
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (80 bp):
AGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAGAAA
TAAAACCGGGGTTAG
Found at i:586166 original size:157 final size:159
Alignment explanation
Indices: 585897--586218 Score: 436
Period size: 157 Copynumber: 2.0 Consensus size: 159
585887 CCCCCGATGA
* *
585897 AAAATTTAATATTTTAAAGATAAAAACAAGATTGAAGTATCCCCTCAGAAATAACGAGGTTGGAG
1 AAAATTTAATATTTTAAAGATAAAAACAAGATTGAAGTATCCCCTCAAAAATAACGAGGTTGAAG
* * *
585962 TATTCCCAATGGTGGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAA
66 TATCCCCAATGGTGGAAAATCGATGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAA
* *
586027 TAACGAGGTTAGAGTATCCTCGATGGT-G
131 TAACAAGGTTAGAGTATCCCCGATGGTGG
* * * * * *
586055 AAAATTTGATGTTTTGAAA-ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGAA
1 AAAATTTAATATTTT-AAAGATAAAAACAAGATTGAAGTATCCCCTCAAAAATAACGAGGTTGAA
* * * *
586119 GTATCCCCGATTG-GGAAAATCGATGTTTT-AGAAATAAAACCGGGGTTAGAGTATCTCCTCAGA
65 GTATCCCCAATGGTGGAAAATCGATGTTTTGA-AAATAAAACCGGGGTTAGAGTATCCCCTCAAA
*
586182 AATAACAAGGTTGGAGTATCCCCGATGGTGG
129 AATAACAAGGTTAGAGTATCCCCGATGGTGG
586213 AAAATT
1 AAAATT
586219 AGTGTTTCAG
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
156 1 0.01
157 70 0.49
158 69 0.48
159 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (159 bp):
AAAATTTAATATTTTAAAGATAAAAACAAGATTGAAGTATCCCCTCAAAAATAACGAGGTTGAAG
TATCCCCAATGGTGGAAAATCGATGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAA
TAACAAGGTTAGAGTATCCCCGATGGTGG
Found at i:586236 original size:157 final size:158
Alignment explanation
Indices: 585932--586253 Score: 420
Period size: 157 Copynumber: 2.0 Consensus size: 158
585922 ACAAGATTGA
* * * *
585932 AGTATCCCCTCAGAAATAACGAGGTTGGAGTATTCCCAATGGTGGAAAATCGGTGTTTTGAAAAT
1 AGTATCCCCTCAAAAATAACGAGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTGAAAAT
* * * *
585997 AAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAATTT
66 AAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAATTA
* *
586062 GATGTTTTGAAAATAAAACC-GAGGTTGG
131 GATGTTTAGAAAATAAAACCAG-GGTTAG
* *
586090 AGTATCCCCTCAAAAATAACGAGGTTGAAGTATCCCCGATTG-GGAAAATCGATGTTTT-AGAAA
1 AGTATCCCCTCAAAAATAACGAGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTGA-AAA
* * *
586153 TAAAACCGGGGTTAGAGTATCTCCTCAGAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAAT
65 TAAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGT-GAAAAT
* *
586218 TAG-TGTTTCAG-AAGTAAAATCAGGGTTAG
129 TAGATGTTT-AGAAAATAAAACCAGGGTTAG
586247 AGTATCC
1 AGTATCC
586254 TCGATGGTGG
Statistics
Matches: 143, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
156 1 0.01
157 95 0.66
158 47 0.33
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (158 bp):
AGTATCCCCTCAAAAATAACGAGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTGAAAAT
AAAACCGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTGAAAATTA
GATGTTTAGAAAATAAAACCAGGGTTAG
Found at i:586287 original size:51 final size:51
Alignment explanation
Indices: 586177--586305 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 51
586167 GAGTATCTCC
* *
586177 TCAGAAAT--AACA-AGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTT
1 TCAGAAATAAAACAGAGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTT
* *
586225 TCAGAAGTAAAATCAG-GGTTAGAGTATCCTCGATGGTGGAAAATCAGTGTT
1 TCAGAAATAAAA-CAGAGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTT
* *
586276 T-TGAAAATAAAACCGAGGTTGGAGTATCCT
1 TCAG-AAATAAAACAGAGGTTGGAGTATCCT
586306 TTCAAAAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
48 7 0.10
50 5 0.07
51 55 0.82
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (51 bp):
TCAGAAATAAAACAGAGGTTGGAGTATCCTCGATGGTGGAAAATCAGTGTT
Found at i:586326 original size:28 final size:28
Alignment explanation
Indices: 586292--586360 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
586282 ATAAAACCGA
586292 GGTTGGAGTATCCTTTCAAAAATAACGG
1 GGTTGGAGTATCCTTTCAAAAATAACGG
586320 GGTTGGAGTATCCTTTCAAAAATAACGG
1 GGTTGGAGTATCCTTTCAAAAATAACGG
586348 GGTTGGAGTATCC
1 GGTTGGAGTATCC
586361 CCAATTGTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GGTTGGAGTATCCTTTCAAAAATAACGG
Found at i:586382 original size:107 final size:107
Alignment explanation
Indices: 586240--586439 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 107
586230 AGTAAAATCA
* *
586240 GGGTTAGAGTATCCTCGATGGTGGAAAATCAGTGTTTT-GAAAATAAAACCGAGGTTGGAGTAT-
1 GGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAG-AAATAAAACCGAGGTTGGAGTATC
* * *
586303 CCTTTCAAAAATAACGGGGTTGGAGTATCCTTTCAAAAATAACG
65 CCCTT-AAAAATAACAGGGTTAGAGTATCCTTTCAAAAATAACG
* * ** * *
586347 GGGTTGGAGTATCCCCAATTGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
*
586412 CCTTAGAAATAACAGGGTTAGAGTATCC
66 CCTTAAAAATAACAGGGTTAGAGTATCC
586440 CCGGTGATGG
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 74 0.94
108 5 0.06
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (107 bp):
GGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
CCTTAAAAATAACAGGGTTAGAGTATCCTTTCAAAAATAACG
Found at i:586401 original size:79 final size:79
Alignment explanation
Indices: 586318--586504 Score: 216
Period size: 79 Copynumber: 2.4 Consensus size: 79
586308 CAAAAATAAC
** * *
586318 GGGGTTGGAGTATCCTTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATTGGTGTT
1 GGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATGGTGGAAAATTGGTGTT
586383 TTAGAAATAAAACT
66 TTAGAAATAAAACT
* * * ** * *
586397 GGGGTTGGAGTATCCCCTTAGAAATAAC-AGGGTTAGAGTATCCCCGGTGATGGAAAATTAGTGT
1 GGGGTTGGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCCAATGGTGGAAAATTGGTGT
586461 TTTAGAAATAAAA-T
65 TTTAGAAATAAAACT
* **
586475 CGAGGTTGGAGTATCCCCTCGGAAATAACG
1 -GGGGTTGGAGTATCCCCTCAAAAATAACG
586505 GGACTAGAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 90 0.99
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATGGTGGAAAATTGGTGTT
TTAGAAATAAAACT
Found at i:586501 original size:158 final size:157
Alignment explanation
Indices: 585932--586552 Score: 432
Period size: 158 Copynumber: 3.9 Consensus size: 157
585922 ACAAGATTGA
* * * **
585932 AGTATCCCCTCAGAAATAACGAGGTTGGAGTATTCCCAATGGTGGAAAATCGGTGTTTT-GAAAA
1 AGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCCCGAT-GTGGAAAATTAGTGTTTTAG-AAA
* *
585996 TAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCGATGGT-GAAAAT
64 TAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAA-
* * *
586060 TTGATGTTTT-GAAAATAAAACCGAGGTTGG
128 TTGGTGTTTTAG-AAATAAAACTGGGGTTGG
* *
586090 AGTATCCCCTCAAAAATAACGAGGTT-GAAGTATCCCCGAT-TGGGAAAA-TCGATGTTTTAGAA
1 AGTATCCCCTCAGAAATAACGAGGTTAG-AGTATCCCCGATGT-GGAAAATTAG-TGTTTTAGAA
* * * *
586152 ATAAAACCGGGGTTAGAGTATCTCCTCAGAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAA
63 ATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAA
* * * * *
586217 TTAGTGTTTCAGAAGTAAAA-TCAGGGTTAG
128 TTGGTGTTTTAGAAATAAAACT-GGGGTTGG
* ** * * * *** * * *
586247 AGTATCCTCGATGGTGGAAA-ATC-AGTGTTTTGAAAATAAAACCGAGGTTGG---AGTA-TCCT
1 AGTATCC-C-CT--CAGAAATAACGAG-G--TT-AGAGTATCCCCGATG-TGGAAAATTAGT-GT
* * * ** * * *
586306 TTCA-AAA-ATAA-CGGGGTTGGAGTATCCTTTCAAAAATAACGGGGTTGGAGTATCCCCAATTG
56 TTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGG
586368 TGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGG
121 TGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGG
* *
586405 AGTATCCCCTTAGAAATAAC-AGGGTTAGAGTATCCCCGGTGATGGAAAATTAGTGTTTTAGAAA
1 AGTATCCCCTCAGAAATAACGA-GGTTAGAGTATCCCCGATG-TGGAAAATTAGTGTTTTAGAAA
* * ** * * * * *
586469 TAAAATCGAGGTTGGAGTATCCCCTCGGAAATAACG-GGACTAGAATATACCCGATGGTAGAAAA
64 TAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGG-TTGGAGTATCCCCGATGGTGGAAAA
* * *
586533 TCGGAGTTTTAGAATTAAAA
128 TTGGTGTTTTAGAAATAAAA
586553 ACATCAATGA
Statistics
Matches: 354, Mismatches: 78, Indels: 62
0.72 0.16 0.13
Matches are distributed among these distances:
152 11 0.03
153 2 0.01
154 5 0.01
155 11 0.03
156 8 0.02
157 100 0.28
158 182 0.51
159 7 0.02
160 7 0.02
161 8 0.02
162 3 0.01
163 7 0.02
164 2 0.01
165 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (157 bp):
AGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCCCGATGTGGAAAATTAGTGTTTTAGAAATA
AAATCGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTG
GTGTTTTAGAAATAAAACTGGGGTTGG
Found at i:586532 original size:79 final size:79
Alignment explanation
Indices: 586370--586552 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
586360 CCCAATTGTG
* * * *
586370 GAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAATAACAGGGTTAGAG
1 GAAAATTGGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACAGGGCTAGAA
* * *
586435 TATCCCCGGTGATG
66 TATACCCGATGATA
* *
586449 GAAAATTAGTGTTTTAGAAATAAAA-TCGAGGTTGGAGTATCCCCTCGGAAATAAC-GGGACTAG
1 GAAAATTGGTGTTTTAGAAATAAAACT-GAGGTTGGAGTATCCCCTCAGAAATAACAGGG-CTAG
*
586512 AATATACCCGATGGTA
64 AATATACCCGATGATA
* * *
586528 GAAAATCGGAGTTTTAGAATTAAAA
1 GAAAATTGGTGTTTTAGAAATAAAA
586553 ACATCAATGA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 4 0.05
79 84 0.95
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (79 bp):
GAAAATTGGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACAGGGCTAGAA
TATACCCGATGATA
Found at i:588942 original size:20 final size:20
Alignment explanation
Indices: 588917--588957 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
588907 CAAATAGTGA
*
588917 ATGTATCGATACATTTACTT
1 ATGTATCAATACATTTACTT
*
588937 ATGTATCAATACATTTCCTT
1 ATGTATCAATACATTTACTT
588957 A
1 A
588958 GCAATATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (20 bp):
ATGTATCAATACATTTACTT
Found at i:596004 original size:13 final size:13
Alignment explanation
Indices: 595986--596011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
595976 AATGTTCTAA
595986 GTATCGATACATT
1 GTATCGATACATT
595999 GTATCGATACATT
1 GTATCGATACATT
596012 ATGTCAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:596157 original size:21 final size:18
Alignment explanation
Indices: 596133--596184 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
596123 CAAATCCTTT
596133 TCAAAATTCATCATTTTCACA
1 TCAAAA-TCATCATTTT--CA
596154 TCAAAA-CTATCTATTTTCA
1 TCAAAATC-ATC-ATTTTCA
596173 TCAAAATCATCA
1 TCAAAATCATCA
596185 ACAAAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 4 0.14
21 11 0.39
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (18 bp):
TCAAAATCATCATTTTCA
Found at i:598348 original size:13 final size:13
Alignment explanation
Indices: 598330--598354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
598320 CATTATGCTT
598330 TGTATCGATACAA
1 TGTATCGATACAA
598343 TGTATCGATACA
1 TGTATCGATACA
598355 TACTCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:598439 original size:13 final size:13
Alignment explanation
Indices: 598421--598450 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
598411 GATACATGGG
598421 ACATTGTATCAAT
1 ACATTGTATCAAT
*
598434 ACATTGTATCGAT
1 ACATTGTATCAAT
598447 ACAT
1 ACAT
598451 GAAGATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:598461 original size:33 final size:33
Alignment explanation
Indices: 598405--598471 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
598395 CTATGTGAAA
*
598405 TGTATCGATACATGGGACATTGTATCAATACAT
1 TGTATCGATACATGAGACATTGTATCAATACAT
* *
598438 TGTATCGATACATGAAGA-TTTGTATCGATACAT
1 TGTATCGATACATG-AGACATTGTATCAATACAT
598471 T
1 T
598472 ATGCCCAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATGAGACATTGTATCAATACAT
Found at i:600993 original size:38 final size:38
Alignment explanation
Indices: 600944--601017 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
600934 AAAAAACCAT
600944 TTTTCTCATTTTCAAGAGCTTACATTATGCAATCTACA
1 TTTTCTCATTTTCAAGAGCTTACATTATGCAATCTACA
*
600982 TTTTGTCATTTTCAAGAGCTTACATTATGCAATCTA
1 TTTTCTCATTTTCAAGAGCTTACATTATGCAATCTA
601018 AAAATGGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (38 bp):
TTTTCTCATTTTCAAGAGCTTACATTATGCAATCTACA
Found at i:604035 original size:27 final size:28
Alignment explanation
Indices: 603965--604037 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
603955 TATAATGTAA
* *
603965 ATAAAAATGTAATAAATTTTATTTATTAT
1 ATAATAATATAATAAATTTTA-TTATTAT
*
603994 ATAATGAATAT-ATAAATTTTA-TATTTT
1 ATAAT-AATATAATAAATTTTATTATTAT
*
604021 ATAATAATCTAATAAAT
1 ATAATAATATAATAAAT
604038 ACATAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 16 0.42
29 14 0.37
30 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
ATAATAATATAATAAATTTTATTATTAT
Found at i:605028 original size:49 final size:49
Alignment explanation
Indices: 604908--605485 Score: 584
Period size: 49 Copynumber: 11.5 Consensus size: 49
604898 ATGAGAAGAA
* * **
604908 TGCCAATATGCTGATTAAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGG
* * *
604961 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * * **
605010 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGGTGACGAACA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA---GATGAAGG
* * *
605062 CGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * *
605111 TGTCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGG
* *
605163 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * * *
605212 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCCTAAAGATAACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGG
* * *
605264 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
605313 TGCCGATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATA--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGG
* * * *
605361 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATGGTTGAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGG
* * * * * * * *
605413 TGCCGATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
605462 TGCCAATATGCTGATTCAAGGCCA
1 TGCCAATATGCTGATTCAAGGCCA
605486 ACGATACTGG
Statistics
Matches: 438, Mismatches: 72, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
48 38 0.09
49 195 0.45
50 2 0.00
52 175 0.40
53 28 0.06
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
Found at i:605078 original size:101 final size:101
Alignment explanation
Indices: 604908--605591 Score: 782
Period size: 101 Copynumber: 6.9 Consensus size: 101
604898 ATGAGAAGAA
* * **
604908 TGCCAATATGCTGATTAAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGATGACGAAGGCGCCAATATGCT
*
604973 GATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * ** *
605010 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGGTGACGAACACGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
605075 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
605111 TGTCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
605176 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * *
605212 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCCTAAAGATAACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
*
605277 ATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
605313 TGCCGATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA--TA--TGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* * *
605374 ATTCAAGGCCAGCAATATTGGGCTTAAAGATGGTTGAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * * * * *
605413 TGCCGATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGAT-A--AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* * *
605475 ATTCAAGGCCAACGATACTGGGC-T-----T----G
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
605501 TGCCAATGTGCTGATTCAAGGCCAA-GACATCGGTCTT--AGA-GAC-AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
** *
605561 ATTCATCGCCAGCGATATTGGGCTTAGAAGA
66 ATTCAAGGCCAGCGATATTGGACTTA-AAGA
605592 AGACGCCACC
Statistics
Matches: 515, Mismatches: 53, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
85 4 0.01
86 36 0.07
87 12 0.02
88 24 0.05
95 1 0.00
97 41 0.08
99 3 0.01
100 44 0.09
101 321 0.62
102 29 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:605563 original size:86 final size:88
Alignment explanation
Indices: 605412--605585 Score: 253
Period size: 86 Copynumber: 2.0 Consensus size: 88
605402 GATGGTTGAG
*
605412 GTGCCGATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
605477 TCAAGGCCAACGATACTGGGCTT
66 TCAACGCCAACGATACTGGGCTT
* * * *
605500 GTGCCAATGTGCTGATTCAAGGCCAA-GACATCGGTCTTAGAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * *
605563 TCATCGCCAGCGATATTGGGCTT
66 TCAACGCCAACGATACTGGGCTT
605586 AGAAGAAGAC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 38 0.49
87 15 0.19
88 24 0.31
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
GTGCCAATGTACTGATTCAAGGCCAACAACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAACGCCAACGATACTGGGCTT
Found at i:605695 original size:30 final size:29
Alignment explanation
Indices: 605608--605704 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 29
605598 CACCAACTTA
** **
605608 TGTGGGCTTTTGAAAGGGTTACACCAACT
1 TGTGGGCTTTTGAAAGGGTGCCACTGACT
* * *
605637 TGTTGTGCTTTTG-AAGGTTGCCATTGACT
1 TG-TGGGCTTTTGAAAGGGTGCCACTGACT
605666 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGGTGCCACTGACT
605696 TGTGGGCTT
1 TGTGGGCTT
605705 AAAAGGTGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 9 0.16
29 14 0.25
30 32 0.58
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACTGACT
Found at i:605754 original size:27 final size:27
Alignment explanation
Indices: 605718--605886 Score: 167
Period size: 27 Copynumber: 5.7 Consensus size: 27
605708 AGGTGAAAGA
*
605718 TGCCATGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
605745 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-----G
* *
605777 AATGCCATGGAGTTGTGGGCTTAAAAGGG
1 --TGCCACGGAGTTGTGGACTTAAAAGGG
605806 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-----G
* *
605838 AATGCCATGGAGTTGTGGGCTTAAAAGGG
1 --TGCCACGGAGTTGTGGACTTAAAAGGG
605867 TGCCACGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
605887 TGGAAAGAGA
Statistics
Matches: 119, Mismatches: 9, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
27 67 0.56
29 2 0.02
32 2 0.02
34 48 0.40
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:605783 original size:34 final size:34
Alignment explanation
Indices: 605745--605865 Score: 157
Period size: 34 Copynumber: 3.8 Consensus size: 34
605735 CTTAAAAGGG
605745 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* *
605779 TGCCATGGAGTTGTGGGCTTAAAAGG-----G--
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
605806 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* *
605840 TGCCATGGAGTTGTGGGCTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
605866 GTGCCACGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
27 24 0.32
29 1 0.01
32 1 0.01
34 48 0.65
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:605810 original size:61 final size:61
Alignment explanation
Indices: 605655--605886 Score: 358
Period size: 61 Copynumber: 3.8 Consensus size: 61
605645 TTTTGAAGGT
* * * * * **
605655 TGCCATTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGTGAAAG-A
1 TGCCATGGAGTTGTGGGC--TT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
605718 TGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
605779 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
605840 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT
605887 TGGAAAGAGA
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
60 34 0.21
61 110 0.69
63 15 0.09
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (61 bp):
TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:605939 original size:34 final size:32
Alignment explanation
Indices: 605867--606084 Score: 237
Period size: 34 Copynumber: 6.7 Consensus size: 32
605857 CTTAAAAGGG
* *
605867 TGCCACGGAGTTGTGGACTTTGGAAAGAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-G-AAG-GAAAAGA
* *
605902 TGCCATTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--GAAAAGA
* *
605936 TGCCACTGAGTCGTGGACTTTAAAGAAGAAAATA
1 TGCCACTGAGTCGTGGACTTTGAAG--GAAAAGA
* *
605970 TGCCACTAAGTCATGGACTTTGAA-GAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGGAAAAGA
* *
606001 TGCCAATGAGTCGTGGACTTTGAA-G-AGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGGAAAAGA
* *
606031 TGCCACTAAGTTGTGGACTTTG-AGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGGAAAAGA
606062 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
606085 GAAGAGAGAT
Statistics
Matches: 157, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
29 1 0.01
30 24 0.15
31 52 0.33
33 3 0.02
34 59 0.38
35 18 0.11
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGGAAAAGA
Found at i:605998 original size:31 final size:31
Alignment explanation
Indices: 605867--606084 Score: 240
Period size: 31 Copynumber: 6.7 Consensus size: 31
605857 CTTAAAAGGG
* *
605867 TGCCACGGAGTTGTGGACTTTGGAAAGAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-G--A-AGAAAAGA
*
605902 TGCCATTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG---AAAAGA
*
605936 TGCCACTGAGTCGTGGACTTTAAAGAAGAAAATA
1 TGCCACTGAGTCGTGGACTTT---GAAGAAAAGA
* *
605970 TGCCACTAAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
606001 TGCCAATGAGTCGTGGACTTTGAAG-AGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
606031 TGCCACTAAGTTGTGGACTTTGAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
606062 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
606085 GAAGAGAGAT
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
30 25 0.16
31 58 0.37
32 1 0.01
34 51 0.32
35 18 0.11
37 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:606059 original size:61 final size:62
Alignment explanation
Indices: 605867--606094 Score: 242
Period size: 61 Copynumber: 3.5 Consensus size: 62
605857 CTTAAAAGGG
* * * * * *
605867 TGCCACGGAGTTGTGGACTTTGGAAAGAGAAAAGATGCCATTGAGTCGTGGACTTTGAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTAG-AAGAG---AGATGCCACTAAGTCATGGACTTTGAAG---AA
605932 AAGA
59 AAGA
* *
605936 TGCCACTGAGTCGTGGACTTTAAAGAAGAAAATATGCCACTAAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT--AGAAG-AGAGATGCCACTAAGTCATGGACTTTGAAGAAAAGA
* ** *
606001 TGCCAATGAGTCGTGGACTTT-GAAGAGAGATGCCACTAAGTTGTGGACTTTGAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTAGAAGAGAGATGCCACTAAGTCATGGACTTTGAAGAAAAGA
606062 TGCCACTGAGTCGTGGACTTTGAGAAGAGAGAT
1 TGCCACTGAGTCGTGGACTTT-AGAAGAGAGAT
606095 TTGAAGAATT
Statistics
Matches: 139, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
61 51 0.37
62 4 0.03
63 10 0.07
65 26 0.19
68 24 0.17
69 19 0.14
70 3 0.02
71 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTAGAAGAGAGATGCCACTAAGTCATGGACTTTGAAGAAAAGA
Found at i:607249 original size:13 final size:13
Alignment explanation
Indices: 607231--607255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
607221 CATAAAATGT
607231 TGTATCGATACAA
1 TGTATCGATACAA
607244 TGTATCGATACA
1 TGTATCGATACA
607256 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:607253 original size:33 final size:33
Alignment explanation
Indices: 607211--607280 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
607201 TTCAACGATT
607211 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
607244 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
607277 TGTA
1 TGTA
607281 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Done.