Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 17 of 349
Found at i:4915439 original size:27 final size:28
Alignment explanation
Indices: 4915402--4915541 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
4915392 AGCATGGCTG
* *
4915402 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4915428 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
4915456 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4915483 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4915510 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4915537 CCAGA
1 CCAGA
4915542 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4917292 original size:78 final size:78
Alignment explanation
Indices: 4917159--4917320 Score: 279
Period size: 78 Copynumber: 2.1 Consensus size: 78
4917149 CATGAAATTC
*
4917159 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
4917224 TTTACCTAACCTA
66 TTTACCTAACCTA
* * * *
4917237 TTATCATTAAACATTTACCTAACCCATTATTATGGAACATTTACCTAACCTATTATCAAGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
4917302 TTTACCTAACCTA
66 TTTACCTAACCTA
4917315 TTATCA
1 TTATCA
4917321 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
TTTACCTAACCTA
Found at i:4917321 original size:26 final size:26
Alignment explanation
Indices: 4917159--4917320 Score: 243
Period size: 26 Copynumber: 6.2 Consensus size: 26
4917149 CATGAAATTC
4917159 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4917185 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4917211 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4917237 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
4917263 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
4917289 TTATCAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4917315 TTATCA
1 TTATCA
4917321 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4918453 original size:32 final size:33
Alignment explanation
Indices: 4918401--4918477 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 33
4918391 AAATCTAATA
*
4918401 AATTCAATTAATCAATGAGTTA-TCAAATTAAATT
1 AATT-AATTAATCAATGAGTTACT-AAATTAAAGT
* *
4918435 AATTAATTTATC-ATGAGTTACTAAATTCAAGT
1 AATTAATTAATCAATGAGTTACTAAATTAAAGT
4918467 AATTAATTAAT
1 AATTAATTAAT
4918478 ATGTTTATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 26 0.68
33 8 0.21
34 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (33 bp):
AATTAATTAATCAATGAGTTACTAAATTAAAGT
Found at i:4919271 original size:11 final size:10
Alignment explanation
Indices: 4919251--4919317 Score: 66
Period size: 11 Copynumber: 6.4 Consensus size: 10
4919241 TAACCCTTTT
4919251 AAATT-TTAA
1 AAATTATTAA
4919260 AAATTATTTAA
1 AAATTA-TTAA
4919271 AAATTA-TAA
1 AAATTATTAA
*
4919280 AAATTATAAA
1 AAATTATTAA
4919290 CAAGATTTATTTAA
1 -AA-A-TTA-TTAA
4919304 AAATTATTAA
1 AAATTATTAA
4919314 AAAT
1 AAAT
4919318 AAAAATACCA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 14 0.29
10 10 0.20
11 15 0.31
12 2 0.04
13 5 0.10
14 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
AAATTATTAA
Found at i:4919280 original size:9 final size:9
Alignment explanation
Indices: 4919251--4919289 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
4919241 TAACCCTTTT
*
4919251 AAATTTTAA
1 AAATTATAA
4919260 AAATTATTTAA
1 AAATTA--TAA
4919271 AAATTATAA
1 AAATTATAA
4919280 AAATTATAA
1 AAATTATAA
4919289 A
1 A
4919290 CAAGATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTATAA
Found at i:4920251 original size:14 final size:14
Alignment explanation
Indices: 4920232--4920268 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4920222 TAAAATTGTG
4920232 AAAAAATAACAACA
1 AAAAAATAACAACA
*
4920246 AAAAAATAATAACA
1 AAAAAATAACAACA
*
4920260 AAACAATAA
1 AAAAAATAA
4920269 ATAAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAATAACAACA
Found at i:4923766 original size:21 final size:21
Alignment explanation
Indices: 4923742--4923784 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4923732 TTTTTAATCT
4923742 ATTTATAC-TCGTAATTATTTG
1 ATTT-TACTTCGTAATTATTTG
*
4923763 ATTTTACTTTGTAATTATTTG
1 ATTTTACTTCGTAATTATTTG
4923784 A
1 A
4923785 AAAAATTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (21 bp):
ATTTTACTTCGTAATTATTTG
Found at i:4934641 original size:14 final size:15
Alignment explanation
Indices: 4934622--4934650 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4934612 AAAAATAGTA
4934622 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
4934636 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
4934651 GAGATACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:4935907 original size:16 final size:16
Alignment explanation
Indices: 4935856--4935913 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
4935846 AGTTTAGTGG
* *
4935856 AATGGAATAGGACTTT
1 AATGAAATAGGACTGT
4935872 AAT-AGAATAGGACTGT
1 AATGA-AATAGGACTGT
* *
4935888 AATGCAATAGGGCTGT
1 AATGAAATAGGACTGT
4935904 AATGAAATAG
1 AATGAAATAG
4935914 AGTTGTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
AATGAAATAGGACTGT
Found at i:4935920 original size:16 final size:16
Alignment explanation
Indices: 4935884--4935922 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4935874 TAGAATAGGA
* *
4935884 CTGTAATGCAATAGGG
1 CTGTAATGAAATAGAG
4935900 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAG
*
4935916 TTGTAAT
1 CTGTAAT
4935923 TAGTAATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:4936915 original size:16 final size:16
Alignment explanation
Indices: 4936882--4936915 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4936872 GCCTAGTGTT
* *
4936882 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
4936898 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
4936914 AA
1 AA
4936916 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:4939737 original size:21 final size:21
Alignment explanation
Indices: 4939711--4939751 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4939701 AGACGAGCAA
* *
4939711 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4939732 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4939752 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4941687 original size:16 final size:16
Alignment explanation
Indices: 4941654--4941687 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4941644 GGAGATTGTT
* *
4941654 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
4941670 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
4941686 AA
1 AA
4941688 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:4947008 original size:30 final size:31
Alignment explanation
Indices: 4946948--4947011 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
4946938 TCTTCATTGT
*
4946948 TAATTATATTACTAAATTAACATTAGAATAA
1 TAATTATATTACTAAATTAACATGAGAATAA
* *
4946979 TAATT-TATTACTATTATT-ACATGATAATAA
1 TAATTATATTACTA-AATTAACATGAGAATAA
4947009 TAA
1 TAA
4947012 AAGAACGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (31 bp):
TAATTATATTACTAAATTAACATGAGAATAA
Found at i:4957651 original size:25 final size:24
Alignment explanation
Indices: 4957617--4957664 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4957607 TTATGTATTT
*
4957617 TAAATTATAT-AATGTATATATAAAA
1 TAAATAATATGAA-GTA-ATATAAAA
4957642 TAAATAATATGAAGTAATATAAA
1 TAAATAATATGAAGTAATATAAA
4957665 CTTAAAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
TAAATAATATGAAGTAATATAAAA
Found at i:4957670 original size:25 final size:25
Alignment explanation
Indices: 4957616--4957670 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
4957606 TTTATGTATT
*
4957616 TTAAATTATATAATGTATATATAAA
1 TTAAATAATATAATGTATATATAAA
*
4957641 ATAAATAATATGAA-GTA-ATATAAA
1 TTAAATAATAT-AATGTATATATAAA
4957665 CTTAAA
1 -TTAAA
4957671 ACGGGTGGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 7 0.28
25 16 0.64
26 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (25 bp):
TTAAATAATATAATGTATATATAAA
Found at i:4958458 original size:16 final size:18
Alignment explanation
Indices: 4958419--4958463 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
4958409 TAATCTTTTT
4958419 ATTTTTATAAAAATTGAA
1 ATTTTTATAAAAATTGAA
*
4958437 ATTTTTATAAATATTG-A
1 ATTTTTATAAAAATTGAA
4958454 ATTTTATATA
1 ATTTT-TATA
4958464 TTTTTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
ATTTTTATAAAAATTGAA
Found at i:4962968 original size:20 final size:21
Alignment explanation
Indices: 4962933--4962987 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
4962923 AATCCTTCAT
* *
4962933 ATTAAATCCCAAAACCCAACAC
1 ATTAAA-CTCAAAACCCAACAA
4962955 ATTAAACT-AAAACCCAACAA
1 ATTAAACTCAAAACCCAACAA
4962975 ATTAAACTCAAAA
1 ATTAAACTCAAAA
4962988 TTTTACCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 19 0.63
21 5 0.17
22 6 0.20
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.16
Consensus pattern (21 bp):
ATTAAACTCAAAACCCAACAA
Found at i:4964323 original size:22 final size:22
Alignment explanation
Indices: 4964281--4964362 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 22
4964271 AATACTAGTG
*
4964281 TATATTTTATTATGTATGTATA
1 TATATTTTATTATATATGTATA
*
4964303 TATATTCTTTTTATATA-GTAT-
1 TATATT-TTATTATATATGTATA
* *
4964324 TATCGTTTCTATTATTATATCTATA
1 TAT-ATTT-TATTA-TATATGTATA
*
4964349 TTTATGTTTATTAT
1 TATAT-TTTATTAT
4964363 TTTCACTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
21 4 0.09
22 16 0.35
23 13 0.28
24 9 0.20
25 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (22 bp):
TATATTTTATTATATATGTATA
Found at i:4964586 original size:22 final size:21
Alignment explanation
Indices: 4964533--4964592 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
4964523 TTTTAAATAT
*
4964533 TATATTTTCTATATATTATGTA
1 TATATTTT-TATATATTACGTA
*
4964555 TACATTTTTTATATATTACGTA
1 TATA-TTTTTATATATTACGTA
4964577 TATATCTTTTA-ATATT
1 TATAT-TTTTATATATT
4964593 GTACTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 6 0.18
22 23 0.70
23 4 0.12
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTACGTA
Found at i:4964614 original size:60 final size:63
Alignment explanation
Indices: 4964503--4964622 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 63
4964493 TAAATACTCT
* * *
4964503 TATATTATGTATATTATTCTTTTTAAATATTATATTTTCTATATATTATGTATACATTTTTTA
1 TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
* *
4964566 TATATTACGTATA-TA-TC-TTTT-AATATTGTACTTTTATATATATCATGTATATATTTT
1 TATATTACGTATATTATTCTTTTTAAATATTATA-TTTTATATATATCATGTATACATTTT
4964623 GAATACTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 8 0.16
60 27 0.53
61 2 0.04
62 2 0.04
63 12 0.24
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (63 bp):
TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
Found at i:4964691 original size:16 final size:16
Alignment explanation
Indices: 4964670--4964700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4964660 TATATTATGC
*
4964670 TTTTTAATACTATATT
1 TTTTTAATACCATATT
4964686 TTTTTAATACCATAT
1 TTTTTAATACCATAT
4964701 ATATTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATACCATATT
Found at i:4965035 original size:27 final size:28
Alignment explanation
Indices: 4964996--4965070 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
4964986 TTTCTAATAC
*
4964996 TATATTATGTTTTCATATATATAT-TATG
1 TATATAAT-TTTTCATATATATATATATG
4965024 TATATACATTTTTCA-ATAT-TATATATG
1 TATATA-ATTTTTCATATATATATATATG
4965051 TATAT-ATTTTTCATATATAT
1 TATATAATTTTTCATATATAT
4965071 GCGTATATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 8 0.19
26 7 0.17
27 14 0.33
28 11 0.26
29 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (28 bp):
TATATAATTTTTCATATATATATATATG
Found at i:4965076 original size:23 final size:25
Alignment explanation
Indices: 4965026--4965082 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
4965016 ATATTATGTA
* *
4965026 TATACATTTTTCAATATTATATATG
1 TATATATTTTTCAATATTATATACG
*
4965051 TATATATTTTTC-ATA-TATATGCG
1 TATATATTTTTCAATATTATATACG
4965074 TATATATTT
1 TATATATTT
4965083 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
24 3 0.10
25 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATTTTTCAATATTATATACG
Found at i:4965394 original size:11 final size:9
Alignment explanation
Indices: 4965366--4965391 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4965356 TCTAATATAG
4965366 GTATATATT
1 GTATATATT
4965375 GTATATATT
1 GTATATATT
4965384 GTATATAT
1 GTATATAT
4965392 ATTATGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (9 bp):
GTATATATT
Found at i:4971864 original size:52 final size:47
Alignment explanation
Indices: 4971785--4971991 Score: 173
Period size: 47 Copynumber: 4.3 Consensus size: 47
4971775 CCATGACAGC
* * * * *
4971785 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCAT----C-A
*
4971838 ATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCA
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
* * *
4971885 GTGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCA
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
* * * * ** * * *
4971932 GTGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGGT
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC--A
4971980 ATGTGATATGTG
1 ATGTGATATGTG
4971992 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
46 25 0.19
47 55 0.42
48 11 0.08
52 28 0.22
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
Found at i:4971908 original size:47 final size:47
Alignment explanation
Indices: 4971839--4971959 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
4971829 TTCGGACAAA
*
4971839 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
4971886 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* * *
4971933 TGTGATACGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
4971960 GGCTGGGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 12 0.18
47 55 0.82
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
Found at i:4981409 original size:73 final size:73
Alignment explanation
Indices: 4981290--4981427 Score: 242
Period size: 73 Copynumber: 1.9 Consensus size: 73
4981280 TTGGTTTCAA
*
4981290 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT-CAATTT
1 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGT-ATTTCCAATTT
4981354 CTGCTTGCC
65 CTGCTTGCC
*
4981363 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
1 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
4981428 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 4 0.06
73 58 0.94
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (73 bp):
AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
TGCTTGCC
Found at i:4981492 original size:87 final size:87
Alignment explanation
Indices: 4981345--4981524 Score: 297
Period size: 87 Copynumber: 2.1 Consensus size: 87
4981335 GCTGAGGTAA
*
4981345 TTTCAATTTCTGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
1 TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
4981410 TGAGGTATTTCCAATTTCCGTT
66 TGAGGTATTTCCAATTTCCGTT
** * *
4981432 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGC
1 TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
* *
4981497 TGAGGTATTTTCAATTTCTGTT
66 TGAGGTATTTCCAATTTCCGTT
4981519 TTTCAA
1 TTTCAA
4981525 AAATCAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (87 bp):
TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
TGAGGTATTTCCAATTTCCGTT
Found at i:4981591 original size:54 final size:55
Alignment explanation
Indices: 4981504--4981611 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 55
4981494 CGCTGAGGTA
**
4981504 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
*
4981559 TTTT-AATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
4981612 TCAGGATCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
54 46 0.92
55 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (55 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
Found at i:4982065 original size:22 final size:22
Alignment explanation
Indices: 4982030--4982076 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4982020 CAATTTTGGC
* * *
4982030 CCCTTTATATTAAACTCCAAAA
1 CCCTTCATACTAAACCCCAAAA
4982052 CCCTTCATACTAAACCCCAAAA
1 CCCTTCATACTAAACCCCAAAA
4982074 CCC
1 CCC
4982077 AACACATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (22 bp):
CCCTTCATACTAAACCCCAAAA
Found at i:4982087 original size:22 final size:21
Alignment explanation
Indices: 4982038--4982100 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
4982028 GCCCCTTTAT
** *
4982038 ATTAAACTCCAAAACCCTTCAT
1 ATTAAAC-CCAAAACCCAACAC
*
4982060 ACTAAACCCCAAAACCCAACAC
1 ATTAAA-CCCAAAACCCAACAC
*
4982082 ATTAAA-CTAAAACCCAACA
1 ATTAAACCCAAAACCCAACA
4982101 AATAGATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.35
22 21 0.62
23 1 0.03
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (21 bp):
ATTAAACCCAAAACCCAACAC
Found at i:4982340 original size:22 final size:21
Alignment explanation
Indices: 4982287--4982378 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 21
4982277 TTTTAAATAT
*
4982287 TATATTTTCTATATATTATGTA
1 TATATTTT-TATATATTACGTA
*
4982309 TACATTTTTTATATATTACGTA
1 TATA-TTTTTATATATTACGTA
4982331 TATATCTTTTA-ATATT--GTA
1 TATAT-TTTTATATATTACGTA
* * * *
4982350 -CT-TTTATATATATCATGTA
1 TATATTTTTATATATTACGTA
4982369 TATATTTTTA
1 TATATTTTTA
4982379 ATACTATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
16 4 0.07
17 5 0.09
18 1 0.02
19 6 0.11
20 1 0.02
21 11 0.20
22 23 0.42
23 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTACGTA
Found at i:4982368 original size:60 final size:63
Alignment explanation
Indices: 4982257--4982377 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 63
4982247 TAAATAGTCT
* * *
4982257 TATATTATGTATATTATTCTTTTTAAATATTATATTTTCTATATATTATGTATACATTTTTTA
1 TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
* *
4982320 TATATTACGTATA-TA-TC-TTTT-AATATTGTACTTTTATATATATCATGTATATATTTTT
1 TATATTACGTATATTATTCTTTTTAAATATTATA-TTTTATATATATCATGTATACATTTTT
4982378 AATACTATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 8 0.15
60 28 0.54
61 2 0.04
62 2 0.04
63 12 0.23
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (63 bp):
TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
Found at i:4982445 original size:16 final size:16
Alignment explanation
Indices: 4982424--4982454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4982414 TATATTATGC
*
4982424 TTTTTAATACTATATT
1 TTTTTAATACCATATT
4982440 TTTTTAATACCATAT
1 TTTTTAATACCATAT
4982455 ATATTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATACCATATT
Found at i:4982826 original size:23 final size:25
Alignment explanation
Indices: 4982776--4982832 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
4982766 ACATTATGTA
* *
4982776 TATACATTTTTCAATATTATATATG
1 TATATATTTTTCAATATTATATACG
*
4982801 TATATATTTTTC-ATA-TATATGCG
1 TATATATTTTTCAATATTATATACG
4982824 TATATATTT
1 TATATATTT
4982833 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
24 3 0.10
25 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATTTTTCAATATTATATACG
Found at i:4982936 original size:19 final size:18
Alignment explanation
Indices: 4982902--4982937 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4982892 ATTATGTATG
4982902 TATATATATATACATTTA
1 TATATATATATACATTTA
*
4982920 TATATATTATGTACATTT
1 TATATA-TATATACATTT
4982938 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TATATATATATACATTTA
Found at i:4994438 original size:3 final size:3
Alignment explanation
Indices: 4994427--4994461 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
4994417 CTTGTTTTTT
4994427 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4994462 GATATGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4994591 original size:12 final size:12
Alignment explanation
Indices: 4994574--4994603 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4994564 TTTCAATAAT
4994574 ATTATTATTATC
1 ATTATTATTATC
4994586 ATTATTATTATC
1 ATTATTATTATC
*
4994598 AATATT
1 ATTATT
4994604 TGTATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:5000852 original size:22 final size:22
Alignment explanation
Indices: 5000824--5000873 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
5000814 CCCTTGTTGG
5000824 CCACCCACATTGGCCACCTAAA
1 CCACCCACATTGGCCACCTAAA
*
5000846 CCACCCACCTTGGCCACCTAAA
1 CCACCCACATTGGCCACCTAAA
5000868 CCACCC
1 CCACCC
5000874 CAACCACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.52, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCCACATTGGCCACCTAAA
Found at i:5000976 original size:20 final size:21
Alignment explanation
Indices: 5000951--5000990 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5000941 GTTAGAGAGA
5000951 GAGG-TTTTTTTTGTTTTTTG
1 GAGGTTTTTTTTTGTTTTTTG
5000971 GAGGTTTTTTTTTGTTTTTT
1 GAGGTTTTTTTTTGTTTTTT
5000991 TGGAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.05, C:0.00, G:0.23, T:0.72
Consensus pattern (21 bp):
GAGGTTTTTTTTTGTTTTTTG
Found at i:5001339 original size:12 final size:13
Alignment explanation
Indices: 5001322--5001376 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
5001312 GAGAGCTTTG
5001322 TTTTATTTT-TTA
1 TTTTATTTTATTA
5001334 TTTTATTTTATTA
1 TTTTATTTTATTA
**
5001347 TTTT-TACTATTA
1 TTTTATTTTATTA
5001359 TTTATATTATTATTA
1 TTT-TATT-TTATTA
5001374 TTT
1 TTT
5001377 CTCATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 18 0.51
13 8 0.23
14 1 0.03
15 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:5001360 original size:3 final size:3
Alignment explanation
Indices: 5001331--5001415 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
5001321 GTTTTATTTT
* *
5001331 TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
5001374 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
5001416 ATATGCCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
2 9 0.14
3 48 0.73
4 7 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5001402 original size:12 final size:12
Alignment explanation
Indices: 5001335--5001415 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
5001325 TATTTTTTAT
*
5001335 TTTATTTTATTA
1 TTTATATTATTA
* *
5001347 TTTTTACTATTA
1 TTTATATTATTA
5001359 TTTATATTATTA
1 TTTATATTATTA
* *
5001371 -TTAT-TTCTCA
1 TTTATATTATTA
5001381 TGTATATATTATTA
1 T-T-TATATTATTA
5001395 TTTATATTATTA
1 TTTATATTATTA
5001407 -TTATATTAT
1 TTTATATTAT
5001416 ATATGCCCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.23
12 30 0.54
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:5004285 original size:19 final size:19
Alignment explanation
Indices: 5004261--5004307 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5004251 TCTTCTTTTT
*
5004261 TTTGCATT-CATTCCATACA
1 TTTGCATTACATT-CAAACA
*
5004280 TTTGCATTACATTGAAACA
1 TTTGCATTACATTCAAACA
5004299 TTTGCATTA
1 TTTGCATTA
5004308 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCAAACA
Found at i:5016831 original size:8 final size:8
Alignment explanation
Indices: 5016818--5016854 Score: 53
Period size: 7 Copynumber: 5.0 Consensus size: 8
5016808 ATCTTTTAAA
5016818 AAAAAGAG
1 AAAAAGAG
5016826 AAAAAGA-
1 AAAAAGAG
5016833 AAAAAGA-
1 AAAAAGAG
5016840 AAAAA-AG
1 AAAAAGAG
5016847 AAAAAGAG
1 AAAAAGAG
5016855 GGATCAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 17 0.63
8 9 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:5016835 original size:15 final size:15
Alignment explanation
Indices: 5016817--5016851 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5016807 CATCTTTTAA
*
5016817 AAAAAAGAGAAAAAG
1 AAAAAAGAAAAAAAG
5016832 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
5016847 AAAAA
1 AAAAA
5016852 GAGGGATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:5016836 original size:7 final size:7
Alignment explanation
Indices: 5016817--5016851 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 7
5016807 CATCTTTTAA
5016817 AAAAAAG
1 AAAAAAG
5016824 AGAAAAAG
1 A-AAAAAG
5016832 AAAAAAG
1 AAAAAAG
5016839 AAAAAAAG
1 -AAAAAAG
5016847 AAAAA
1 AAAAA
5016852 GAGGGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:5018124 original size:141 final size:142
Alignment explanation
Indices: 5017783--5018193 Score: 752
Period size: 142 Copynumber: 2.9 Consensus size: 142
5017773 TATACTTTCC
5017783 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
*
5017848 TGTTTTCAGTTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
5017913 TTCTGTTTTTTT
131 TTCTGTTTTTTT
* * *
5017925 TAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAACTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
5017990 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
5018055 TTCTG-TTTTTT
131 TTCTGTTTTTTT
5018066 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
* * *
5018131 TATTTTCAGTTTCTGTTTTTCATAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTTA
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTA
5018194 TGTAACGCCC
Statistics
Matches: 259, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
141 128 0.49
142 131 0.51
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (142 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
TTCTGTTTTTTT
Found at i:5018549 original size:26 final size:26
Alignment explanation
Indices: 5018520--5018627 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
5018510 TGGTACAAAT
5018520 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5018546 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5018572 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5018598 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5018624 TGAT
1 TGAT
5018628 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5020166 original size:26 final size:26
Alignment explanation
Indices: 5020114--5020166 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5020104 TTTACAGTTT
*
5020114 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
5020140 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
5020166 T
1 T
5020167 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:5021542 original size:56 final size:56
Alignment explanation
Indices: 5021473--5021586 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
5021463 TCATGTTTTC
*
5021473 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
5021529 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
5021585 AA
1 AA
5021587 TCTACTTTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (56 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
Found at i:5021992 original size:44 final size:44
Alignment explanation
Indices: 5021943--5022048 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
5021933 GTGATAGAAG
** * *
5021943 AGCAGATTGAAGCTGTAAATCTTATCTT-TATGAAGTTACAATGA
1 AGCAGATTGAAGCTACAAATCTCATATTCT-TGAAGTTACAATGA
** * *
5021987 AGCAGATCAAAGCCACAAATCTCATATTCTTGAAGTTACATTGA
1 AGCAGATTGAAGCTACAAATCTCATATTCTTGAAGTTACAATGA
*
5022031 AGTAGATTGAAGCTACAA
1 AGCAGATTGAAGCTACAA
5022049 GGCATATATC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (44 bp):
AGCAGATTGAAGCTACAAATCTCATATTCTTGAAGTTACAATGA
Found at i:5023620 original size:12 final size:12
Alignment explanation
Indices: 5023603--5023632 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5023593 TTTCAATATT
5023603 ATTATTATTATC
1 ATTATTATTATC
5023615 ATTATTATTATC
1 ATTATTATTATC
*
5023627 AATATT
1 ATTATT
5023633 TGTATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:5025915 original size:16 final size:18
Alignment explanation
Indices: 5025883--5025918 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5025873 TATAATACTT
5025883 TATATTATGTTATATTTA
1 TATATTATGTTATATTTA
5025901 TATATTATG-TA-ATTTA
1 TATATTATGTTATATTTA
5025917 TA
1 TA
5025919 ACACATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTTATATTTA
Found at i:5026109 original size:200 final size:200
Alignment explanation
Indices: 5025766--5026159 Score: 752
Period size: 200 Copynumber: 2.0 Consensus size: 200
5025756 AAGGCCCGCC
5025766 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
1 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
5025831 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
66 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
* *
5025896 ATTTATATATTATGTAATTTATAACACATTAAAAAAATAAAACTATACTACATATATAATGCTAT
131 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTAT
5025961 ATTTA
196 ATTTA
5025966 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
1 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
* *
5026031 GAACATTCAAGGCCCGATTCTGGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
66 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
5026096 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTA
131 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTA
5026160 CTCCAATGCA
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 190 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (200 bp):
TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTAT
ATTTA
Found at i:5031521 original size:21 final size:20
Alignment explanation
Indices: 5031487--5031526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5031477 ATTTTTTTAT
*
5031487 CATTTTAATAATTATTAATA
1 CATTTTAATAATTAATAATA
*
5031507 CATTTATAATTATTAATAAT
1 CATTT-TAATAATTAATAAT
5031527 GTTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
CATTTTAATAATTAATAATA
Found at i:5036498 original size:18 final size:17
Alignment explanation
Indices: 5036439--5036500 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
5036429 AACTTTCAAC
*
5036439 ATTTAAAAATATGTAAAA
1 ATTTAAAAA-ATTTAAAA
* *
5036457 ATTCATTAAAATGTATAAAA
1 ATTTA-AAAAAT-T-TAAAA
5036477 ATTTAAAAAATTTAAAA
1 ATTTAAAAAATTTAAAA
5036494 CATTTAA
1 -ATTTAA
5036501 CATTTATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.14
18 13 0.37
19 8 0.23
20 9 0.26
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTTAAAAAATTTAAAA
Found at i:5036827 original size:20 final size:19
Alignment explanation
Indices: 5036803--5036851 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
5036793 TTTATTTTTA
5036803 TAAAATTTCAAATAGTT-TT
1 TAAAATTTCAAATA-TTATT
*
5036822 TCAAAATTTAAAATATTATT
1 T-AAAATTTCAAATATTATT
5036842 TAAAATTTCA
1 TAAAATTTCA
5036852 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAAATTTCAAATATTATT
Found at i:5040931 original size:14 final size:14
Alignment explanation
Indices: 5040912--5040940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5040902 TCCTTTGCAG
5040912 ATATATATATATAA
1 ATATATATATATAA
5040926 ATATATATATATAA
1 ATATATATATATAA
5040940 A
1 A
5040941 CCTTAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:5045786 original size:31 final size:31
Alignment explanation
Indices: 5045726--5045786 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
5045716 CTCTTGTATT
* * * **
5045726 TGGCAATTTTTCTCATATTGGGGTTTAAACC
1 TGGCAATTATTCTCACATTGAGGCCTAAACC
5045757 TGGCAATTATTCTCACATTGAGGCCTAAAC
1 TGGCAATTATTCTCACATTGAGGCCTAAAC
5045787 TTTATAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (31 bp):
TGGCAATTATTCTCACATTGAGGCCTAAACC
Found at i:5045939 original size:61 final size:60
Alignment explanation
Indices: 5045825--5045952 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 60
5045815 CTAACTTGGG
** * *
5045825 AAAAAAAAGTTCAAGCCCCAATATGGGAACAATTTCCAAGTTTAGGACTTAACTTGGATAA
1 AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTTAAGGACCTAACTTGGA-AA
* * * * *
5045886 AAAAAAAAGTTCATGCCCCATTATAAGAACAATTTTCAAGTTCAATG-CCTAACTTGGAAC
1 AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTT-AAGGACCTAACTTGGAAA
5045946 AAAAAAA
1 AAAAAAA
5045953 GTTTAAACCC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 8 0.14
61 47 0.82
62 2 0.04
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.24
Consensus pattern (60 bp):
AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTTAAGGACCTAACTTGGAAA
Found at i:5046243 original size:16 final size:18
Alignment explanation
Indices: 5046211--5046246 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5046201 TATAATACTT
5046211 TATATTATGTTATATTTA
1 TATATTATGTTATATTTA
5046229 TATATTATG-TA-ATTTA
1 TATATTATGTTATATTTA
5046245 TA
1 TA
5046247 ACATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTTATATTTA
Found at i:5052689 original size:46 final size:46
Alignment explanation
Indices: 5052546--5052689 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
5052536 CCCGCCTATA
*
5052546 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
5052595 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
5052638 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
5052685 AGTGA
1 AGTGA
5052690 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 29 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:5055834 original size:17 final size:18
Alignment explanation
Indices: 5055787--5055834 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
5055777 GTTTACTTAA
*
5055787 TTTTTTTTAT-TATTTCG
1 TTTTTTTTATATAATTCG
*
5055804 TTTTCTTTATTATAATT-G
1 TTTTTTTTA-TATAATTCG
5055822 TTTTTTTTATATA
1 TTTTTTTTATATA
5055835 TTTTCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 10 0.38
19 4 0.15
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTTTTATATAATTCG
Found at i:5058749 original size:59 final size:59
Alignment explanation
Indices: 5058677--5058794 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
5058667 CTCTCAGGTC
5058677 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
1 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
*
5058736 AATGGACAACATGAATGAAAATAGTAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
1 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
5058795 TATAATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.27
Consensus pattern (59 bp):
AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
Found at i:5066520 original size:17 final size:16
Alignment explanation
Indices: 5066493--5066539 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
5066483 AAATTTTAAT
*
5066493 AAATAAAAAATATATA
1 AAATAATAAATATATA
*
5066509 AATTTAATAAATAT-TA
1 AA-ATAATAAATATATA
5066525 AAATAATATAATATA
1 AAATAATA-AATATA
5066540 AATATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAATAAATATATA
Found at i:5066522 original size:15 final size:16
Alignment explanation
Indices: 5066491--5066545 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
5066481 AAAAATTTTA
* *
5066491 ATAAATAAAAAAT-AT
1 ATAAATATAATATAAT
*
5066506 ATAAATTTAATA-AAT
1 ATAAATATAATATAAT
5066521 ATTAAA-ATAATATAAT
1 A-TAAATATAATATAAT
5066537 ATAAATATA
1 ATAAATATA
5066546 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 21 0.66
16 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATAATATAAT
Found at i:5066527 original size:25 final size:25
Alignment explanation
Indices: 5066477--5066535 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
5066467 TCAAATTATT
*
5066477 ATATAAAAATTTTAATAAATAAAAA
1 ATATATAAATTTTAATAAATAAAAA
*
5066502 ATATATAAA-TTTAATAAATATTAAA
1 ATATATAAATTTTAATAAATA-AAAA
5066527 ATAATATAA
1 AT-ATATAA
5066536 TATAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 11 0.37
25 13 0.43
26 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATAAATTTTAATAAATAAAAA
Found at i:5066532 original size:39 final size:39
Alignment explanation
Indices: 5066489--5066572 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
5066479 ATAAAAATTT
5066489 TAATA-AATAAAAAATATATAAATTTAATAAATATT-AAAA
1 TAATATAAT-AAAAATATATAAATTTAA-AAATATTAAAAA
* ** *
5066528 TAATATAATATAAATATATATTTTTAAAAATTTTAAAAA
1 TAATATAATAAAAATATATAAATTTAAAAATATTAAAAA
5066567 TAATAT
1 TAATAT
5066573 TAACGGGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 6 0.15
39 30 0.77
40 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (39 bp):
TAATATAATAAAAATATATAAATTTAAAAATATTAAAAA
Found at i:5066543 original size:26 final size:25
Alignment explanation
Indices: 5066490--5066549 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
5066480 TAAAAATTTT
* *
5066490 AATAAATA-AAAAATATATAAATTT
1 AATAAATATTAAAATATATAAATTA
5066514 AATAAATATTAAAATA-ATATAATATA
1 AATAAATATTAAAATATATA-AAT-TA
*
5066540 AATATATATT
1 AATAAATATT
5066550 TTTAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 9 0.30
26 10 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAAATATTAAAATATATAAATTA
Found at i:5077610 original size:42 final size:43
Alignment explanation
Indices: 5077498--5077610 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
5077488 AAGCGCCGCA
* * *
5077498 AAAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTC
1 AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
* * * * *
5077541 AAAAATGCCACTAAAAACTATAACCTTTAGCGGCACTTTT-TT
1 AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
* *
5077583 ATAAACGCCGCTAAAAATTATGACCTTT
1 AAAAACGCCGCTAAAAACTATGACCTTT
5077611 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
Found at i:5080698 original size:18 final size:21
Alignment explanation
Indices: 5080675--5080713 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5080665 CTGACCTGGT
5080675 TCTTCC-C-TTTTCTT-TTTG
1 TCTTCCTCATTTTCTTCTTTG
5080693 TCTTCCTCATTTTCTTCTTTG
1 TCTTCCTCATTTTCTTCTTTG
5080714 CCTTTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 1 0.06
20 7 0.39
21 4 0.22
ACGTcount: A:0.03, C:0.28, G:0.05, T:0.64
Consensus pattern (21 bp):
TCTTCCTCATTTTCTTCTTTG
Found at i:5080757 original size:14 final size:15
Alignment explanation
Indices: 5080732--5080760 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5080722 ATCCAATCTC
5080732 TTCTTCTTTCTTCTT
1 TTCTTCTTTCTTCTT
5080747 TTCTT-TTTCTTCTT
1 TTCTTCTTTCTTCTT
5080761 CGCGCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTCTTTCTTCTT
Found at i:5083707 original size:17 final size:18
Alignment explanation
Indices: 5083673--5083709 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5083663 TTCTCTCTTA
5083673 AATAATTTAAACTATATT
1 AATAATTTAAACTATATT
*
5083691 AATAATTTTAA-TATATT
1 AATAATTTAAACTATATT
5083708 AA
1 AA
5083710 AACAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAATTTAAACTATATT
Found at i:5084593 original size:22 final size:21
Alignment explanation
Indices: 5084519--5084597 Score: 52
Period size: 22 Copynumber: 3.7 Consensus size: 21
5084509 CTAGACCCCT
* *
5084519 AACCCTTAAACCATAATCCCTA
1 AACCCTT-AACCATAAACCTTA
* *
5084541 AACCCATAATTCATAAA-CTTA
1 AACCCTTAA-CCATAAACCTTA
****
5084562 AAATAGTAACTCATAAACCTTA
1 AACCCTTAAC-CATAAACCTTA
5084584 AACCCTTAACCATA
1 AACCCTTAACCATA
5084598 TGCCCTAAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 7
0.67 0.21 0.11
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTTAACCATAAACCTTA
Found at i:5084815 original size:22 final size:22
Alignment explanation
Indices: 5084770--5084817 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
5084760 GGTTTAAGAT
*
5084770 TTTTAAGGTTTAAGAGTTTAGTG
1 TTTTAAGGATTAAGAG-TTAGTG
5084793 TTTTAAGGATTATAGA-TTAGTG
1 TTTTAAGGATTA-AGAGTTAGTG
5084815 TTT
1 TTT
5084818 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAAGAGTTAGTG
Found at i:5084915 original size:41 final size:41
Alignment explanation
Indices: 5084858--5085181 Score: 438
Period size: 41 Copynumber: 7.9 Consensus size: 41
5084848 GTTATATGAC
* * * * *
5084858 TTTTAACGGCATTTTACCGAAAGCGCCGCTAATGCTTTGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5084899 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5084940 TTTTAG-GTGCGTTTTACCAAAAGCGCCGCGAATGCTCTGGT
1 TTTTAGCG-GCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5084981 TTTTAGCGGCGTTTTACCAAAAGCGCCGCGAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
5085022 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
**
5085063 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * *
5085103 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
5085144 TTTTTGTGGCGTTTTACCAAAAACGCCACTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
5085182 ATGTTTTACA
Statistics
Matches: 262, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
40 40 0.15
41 221 0.84
42 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:5085227 original size:12 final size:12
Alignment explanation
Indices: 5085212--5085237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5085202 CGTTTTTGAT
5085212 AAAACGCCGCTA
1 AAAACGCCGCTA
5085224 AAAACGCCGCTA
1 AAAACGCCGCTA
5085236 AA
1 AA
5085238 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:5086077 original size:90 final size:86
Alignment explanation
Indices: 5085983--5086271 Score: 253
Period size: 84 Copynumber: 3.3 Consensus size: 86
5085973 GTCCTCAATT
* ** * *
5085983 TTTTTTTAAAGAAAGTAATTAAGTTCCTGTTTTATTTTAAAACTCAATTGGATATTTGAACTGTC
1 TTTTTTTAAA-AAA-CAATTAAGCCCCTG-TTT-TTTT-AAACTCAATTGGATACTTGAACTATC
* *
5086048 AAAATGTATCAAAAAGACCCTCAAAT
61 AAAATGCATCAAAAAGACCCTCAAAC
** * *
5086074 TTTTTATTAAAAAACAATTAAGCCCCTGTTTTTTTCCACTCAATTGGGTACTTGAATTATCAAAA
1 TTTTT-TTAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAAA
5086139 TGCATCAAAAAGACCCTCAAAC
65 TGCATCAAAAAGACCCTCAAAC
* * ** * * * *
5086161 TTTTTATAAAAAAAACAACTAAG---CT-TTTTTTTTCACTCAACTGGGTACTTGAATTGTCAAA
1 TTTTT-T-TAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAA
* * *
5086222 ATGCATAAAAAAGATCCTCAAAA
64 ATGCATCAAAAAGACCCTCAAAC
**
5086245 TTTTTCAAAAAAACCAATTAAGCCCCT
1 TTTTTTTAAAAAA-CAATTAAGCCCCT
5086272 ACTTTTTCTT
Statistics
Matches: 171, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
82 7 0.04
83 7 0.04
84 58 0.34
85 2 0.01
86 2 0.01
87 51 0.30
88 17 0.10
89 3 0.02
90 11 0.06
91 8 0.05
92 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (86 bp):
TTTTTTTAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAAAT
GCATCAAAAAGACCCTCAAAC
Found at i:5086146 original size:87 final size:85
Alignment explanation
Indices: 5086024--5086291 Score: 319
Period size: 84 Copynumber: 3.1 Consensus size: 85
5086014 TTATTTTAAA
* * * *
5086024 ACTCAATTGGATATTTGAACTGTCAAAATGTATCAAAAAGACCCTCAAATTTTTTATTAAAAAAC
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAATTTTTTA-TAAAAAAC
*
5086089 AATTAAGCCCCTGTTTTTTTCC
65 AATTAAGCCCCT-TTTTTTTTC
* *
5086111 ACTCAATTGGGTACTTGAATTATCAAAATGCATCAAAAAGACCCTCAAACTTTTTATAAAAAAAA
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAA-TTTTT-TATAAAAAA
*
5086176 CAACTAAG---CTTTTTTTTTC
64 CAATTAAGCCCCTTTTTTTTTC
* * * *
5086195 ACTCAACTGGGTACTTGAATTGTCAAAATGCATAAAAAAGATCCTCAAAATTTTTCA-AAAAAAC
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTC-AAATTTTTTATAAAAAA-
5086259 CAATTAAGCCCCTACTTTTTCTTTC
64 CAATTAAGCCCCT--TTTTT-TTTC
5086284 ACTCAATT
1 ACTCAATT
5086292 ACCAAAATAC
Statistics
Matches: 156, Mismatches: 15, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
82 6 0.04
83 8 0.05
84 55 0.35
85 5 0.03
86 2 0.01
87 44 0.28
88 23 0.15
89 13 0.08
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (85 bp):
ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAATTTTTTATAAAAAACA
ATTAAGCCCCTTTTTTTTTC
Found at i:5086620 original size:87 final size:87
Alignment explanation
Indices: 5086500--5086730 Score: 293
Period size: 87 Copynumber: 2.6 Consensus size: 87
5086490 TGCATTTTGG
* * **
5086500 CAATTGAGTGA-AAAAAAAAAAGAGAGCTTAATTGCTTTTTTTTTAAAGTTTGAAGGCATTTTTT
1 CAATTGAGT-ACAAAAAAAAAAG-GGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTT
*
5086564 ATACATTTTGATAGTTCAAGTACT
64 ATACATTTTGATAGTTCAAGTACC
* * *
5086588 CAATTGAGTACAAAAAAAACAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAGGGTATTTTTTAT
1 CAATTGAGTACAAAAAAAAAAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTTAT
*
5086653 GCATTTTGATAGTTCAAGTACC
66 ACATTTTGATAGTTCAAGTACC
* * **
5086675 CAATTAAGTGCAAAAAAAATGGGGGAGCTTAATTGCTTTTTCTGCAAAAGTTTGAA
1 CAATTGAGTACAAAAAAAA-AAGGG-GCTTAATTGCTTTTTCTG-AAAAGTTTGAA
5086731 AACTTTTTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 75 0.60
88 22 0.18
89 18 0.14
90 10 0.08
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (87 bp):
CAATTGAGTACAAAAAAAAAAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTTAT
ACATTTTGATAGTTCAAGTACC
Found at i:5086779 original size:89 final size:88
Alignment explanation
Indices: 5086523--5086782 Score: 258
Period size: 87 Copynumber: 2.9 Consensus size: 88
5086513 AAAAAAAAGA
* ** * * * *
5086523 GAGCTTAATTGCTTTTTTTTTAAAGTTTGAAGGC-ATTTTTTATACATTTTGATAGTTCAAGTAC
1 GAGCTTAATTGCTTTTTCTGAAAAGTTTGAA-ACTATTTTTTATGCATTTTAAAAGTTCAAGTAC
* * * **
5086587 TCAATTGAGTACAAAAAAAA-CAGG
65 CCAATTAAAT-CAAAAAAAATGGGG
*** * *
5086611 G-GCTTAATTGCTTTTTCTGAAAAGTTTGAGGGTATTTTTTATGCATTTTGATAGTTCAAGTACC
1 GAGCTTAATTGCTTTTTCTGAAAAGTTTGAAACTATTTTTTATGCATTTTAAAAGTTCAAGTACC
*
5086675 CAATTAAGTGCAAAAAAAATGGGG
66 CAATTAAAT-CAAAAAAAATGGGG
* *
5086699 GAGCTTAATTGCTTTTTCTGCAAAAGTTTGAAAACTTTTTTTTATGCATTTTAAAAGTTTAAGTA
1 GAGCTTAATTGCTTTTTCTG-AAAAGTTTG-AAACTATTTTTTATGCATTTTAAAAGTTCAAGTA
*
5086764 TCCAATTAAAT-AAAAAAAA
64 CCCAATTAAATCAAAAAAAA
5086783 CAGAAATTCA
Statistics
Matches: 147, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 71 0.48
88 4 0.03
89 26 0.18
90 9 0.06
91 36 0.24
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (88 bp):
GAGCTTAATTGCTTTTTCTGAAAAGTTTGAAACTATTTTTTATGCATTTTAAAAGTTCAAGTACC
CAATTAAATCAAAAAAAATGGGG
Found at i:5088591 original size:26 final size:28
Alignment explanation
Indices: 5088562--5088619 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
5088552 ATGAATATTG
* *
5088562 AAAACGTATGTACATAATAT-ATATG-A
1 AAAACATATATACATAATATAATATGTA
* *
5088588 AAAATATATATACATGATATAATATGTA
1 AAAACATATATACATAATATAATATGTA
5088616 AAAA
1 AAAA
5088620 TGTAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.62
27 5 0.19
28 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAACATATATACATAATATAATATGTA
Found at i:5089164 original size:12 final size:12
Alignment explanation
Indices: 5089144--5089173 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5089134 ACCATATACA
*
5089144 AATATTGATAAT
1 AATAATGATAAT
5089156 AATAATGATAAT
1 AATAATGATAAT
5089168 AATAAT
1 AATAAT
5089174 AACATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:5089293 original size:3 final size:3
Alignment explanation
Indices: 5089285--5089326 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5089275 CTAACATATC
5089285 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5089327 GTATATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5091293 original size:57 final size:57
Alignment explanation
Indices: 5091211--5091325 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
5091201 GAAAAGTAGA
5091211 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
1 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
*
5091268 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
5091325 T
1 T
5091326 GAAAACATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (57 bp):
TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
Found at i:5091625 original size:13 final size:13
Alignment explanation
Indices: 5091607--5091636 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5091597 GATTTTTTGA
5091607 AAAACAGAAACTG
1 AAAACAGAAACTG
*
5091620 AAAACAGAAATTG
1 AAAACAGAAACTG
5091633 AAAA
1 AAAA
5091637 TACCTCAGCG
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:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:5091743 original size:284 final size:285
Alignment explanation
Indices: 5091232--5092041 Score: 1143
Period size: 284 Copynumber: 2.8 Consensus size: 285
5091222 AGAAATTAAA
* * * *
5091232 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTAAAAGGCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTAAAAAACAGAAATTAAAAGGTTCAA
* * *
5091297 CTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACATG-AA-TTAAAACTGAAATTGGAAATA
63 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-GAAACTGAAAACAGAAATTGAAAATA
* * * * * ** *
5091358 CTTCAGCATG-GCCAAGACTCAACTCACCTCTCGCAATATGAATTGATTTT--TGAAAAACAGAA
127 CTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAA
*
5091420 ATTAAAAGGTTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAAC
192 ATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAAC
* * *
5091485 AGGAATTGAAAATACCTTAGCATG-GCCT
257 AGAAATTGAAAATACCTCAGCATGCGCCG
* * *
5091513 TGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAAACAGAAATTAAAATGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
* *
5091578 ACCTCTCGCAATATTAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
*
5091643 AGCGTGCCCCGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
131 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
* *
5091708 AAAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAACTGAAAATAGAA
196 AAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGAA
* *
5091772 ATTGAAAATACCTCAGCGTGCTCCG
261 ATTGAAAATACCTCAGCATGCGCCG
5091797 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
5091862 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
5091927 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAGTATAAATTAAA
131 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT----A--A-AAA--AAA
* *
5091992 AACAGAAATTAAAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
186 AA-AGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5092042 AAAAACATGA
Statistics
Matches: 472, Mismatches: 37, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
278 49 0.10
279 7 0.01
280 8 0.02
281 55 0.12
282 35 0.07
283 45 0.10
284 215 0.46
285 4 0.01
289 1 0.00
291 1 0.00
292 3 0.01
294 5 0.01
295 40 0.08
296 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (285 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
AAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGAA
ATTGAAAATACCTCAGCATGCGCCG
Found at i:5091745 original size:143 final size:141
Alignment explanation
Indices: 5091232--5091974 Score: 1102
Period size: 141 Copynumber: 5.3 Consensus size: 141
5091222 AGAAATTAAA
* * * *
5091232 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTAAAAGGCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTAAAAAACAGAAATTAAAAGGTTCAA
* * *
5091297 CTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACATG-AA-TTAAAACTGAAATTGGAAATA
63 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-GAAACTGAAAACAGAAATTGAAAATA
* * * *
5091358 CTTCAGCATG-GCCA
127 CCTCAGCGTGCCCCG
* * * *
5091372 AGACTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
* *
5091437 ACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGGAATTGAAAATACCT
66 ACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCT
* * * *
5091502 TAGCATG-GCCT
130 CAGCGTGCCCCG
* * *
5091513 TGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAAACAGAAATTAAAATGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
*
5091578 ACCTCTCGCAATATTAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
5091643 AGCGTGCCCCG
131 AGCGTGCCCCG
* * *
5091654 AGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TAAAAAACAGAAATTAAAAGGTTCAAC
*
5091719 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAATAGAAATTGAAAATACC
64 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACC
*
5091784 TCAGCGTGCTCCG
129 TCAGCGTGCCCCG
5091797 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
*
5091862 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
5091927 AGCGTGCCCCG
131 AGCGTGCCCCG
5091938 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5091975 GGAAAGTATA
Statistics
Matches: 553, Mismatches: 42, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
137 51 0.09
139 6 0.01
140 83 0.15
141 279 0.50
143 134 0.24
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (141 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
AGCGTGCCCCG
Found at i:5091909 original size:13 final size:13
Alignment explanation
Indices: 5091891--5091920 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5091881 GATTTTTTGA
5091891 AAAACAGAAACTG
1 AAAACAGAAACTG
*
5091904 AAAACAGAAATTG
1 AAAACAGAAACTG
5091917 AAAA
1 AAAA
5091921 TACTTCAGCG
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:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:5092917 original size:8 final size:8
Alignment explanation
Indices: 5092904--5092939 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
5092894 CTTGACCCCC
5092904 TTTTTCTT
1 TTTTTCTT
5092912 TTTTTC-T
1 TTTTTCTT
5092919 TTTTTCTT
1 TTTTTCTT
*
5092927 TTTCTCTT
1 TTTTTCTT
5092935 TTTTT
1 TTTTT
5092940 TAAAGATGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:5092921 original size:7 final size:7
Alignment explanation
Indices: 5092904--5092938 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
5092894 CTTGACCCCC
5092904 TTTTTCTT
1 TTTTTC-T
5092912 TTTTTCT
1 TTTTTCT
5092919 TTTTTCT
1 TTTTTCT
5092926 TTTTCTCT
1 TTTT-TCT
5092934 TTTTT
1 TTTTT
5092939 TTAAAGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:5092924 original size:15 final size:15
Alignment explanation
Indices: 5092904--5092938 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5092894 CTTGACCCCC
*
5092904 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTCTCT
5092919 TTTTTCTTTTTCTCT
1 TTTTTCTTTTTCTCT
5092934 TTTTT
1 TTTTT
5092939 TTAAAGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTCTCT
Found at i:5104276 original size:26 final size:28
Alignment explanation
Indices: 5104247--5104304 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
5104237 ATGAATATTG
* *
5104247 AAAACGTATGTACATAATAT-ATATG-A
1 AAAACATATATACATAATATAATATGTA
* *
5104273 AAAATATATATACATGATATAATATGTA
1 AAAACATATATACATAATATAATATGTA
5104301 AAAA
1 AAAA
5104305 TGTAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.62
27 5 0.19
28 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAACATATATACATAATATAATATGTA
Found at i:5104966 original size:3 final size:3
Alignment explanation
Indices: 5104958--5104984 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5104948 CTAACATATC
5104958 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
5104985 GTATATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5108066 original size:14 final size:15
Alignment explanation
Indices: 5108049--5108085 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
5108039 TATGTCCTTA
5108049 ATTTTATTTATAT-T
1 ATTTTATTTATATAT
*
5108063 ATTTTATATATATAT
1 ATTTTATTTATATAT
5108078 ATTTTATT
1 ATTTTATT
5108086 ACAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTATTTATATAT
Found at i:5114876 original size:50 final size:49
Alignment explanation
Indices: 5114801--5114977 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 49
5114791 CCATGGCAAT
5114801 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
*
5114851 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAA-TGA
*
5114901 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
* * *
5114951 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
5114978 CTGATCAGTG
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 3 0.03
50 89 0.75
51 26 0.22
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAATGA
Found at i:5115070 original size:31 final size:31
Alignment explanation
Indices: 5114953--5115062 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
5114943 ACAAATGACA
* *
5114953 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
5114984 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
5115015 AGCGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
5115046 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
5115063 TTGGCTACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:5115150 original size:47 final size:46
Alignment explanation
Indices: 5115095--5115218 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
5115085 AAGTGATTTC
* * *
5115095 CGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
* * *
5115141 CTGTATAAGACCATATATGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
* ** *
5115188 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATATGGGATATGGCATCG
5115219 ATATATGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
Found at i:5115296 original size:42 final size:42
Alignment explanation
Indices: 5115189--5115303 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
5115179 TATGTGATTC
* *
5115189 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
* *
5115231 GTGTAAGACCATAACT-AGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGA-TATATGAAGAT
* *
5115273 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
5115304 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 59 0.95
43 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
Found at i:5122661 original size:47 final size:46
Alignment explanation
Indices: 5122603--5122720 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 46
5122593 TGAAGAAGCC
*
5122603 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGTAGTA-GGAT
1 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTG-AATATGG-T
* * * * * *
5122650 ACAAATACTATATCCCTGAGCTACAGTGGGATGAATTGAATATGGT
1 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGAATATGGT
*
5122696 ACAAATCCTATACCCCTGAGTTGCA
1 ACAAATCCTATACCCCTGAGCTGCA
5122721 GTGGGATGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 25 0.42
47 34 0.58
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGAATATGGT
Found at i:5122713 original size:46 final size:46
Alignment explanation
Indices: 5122603--5122737 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 46
5122593 TGAAGAAGCC
* * * *
5122603 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGTAGTAGGAT
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTG-AATAGGAT
* * *
5122650 ACAAATACTATATCCCTGAGCTACAGTGGGATGAATTGAATATGG-T
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATA-GGAT
* * *
5122696 ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATGGAATA
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATA
5122738 AACCATAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
46 40 0.54
47 34 0.46
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATAGGAT
Found at i:5123168 original size:45 final size:44
Alignment explanation
Indices: 5123119--5123483 Score: 131
Period size: 44 Copynumber: 8.2 Consensus size: 44
5123109 GTAGTGGAGC
**
5123119 AGATTGAAGTTATAGATCTTATCTCCTTGAAGTTTGCAGTGGAAT
1 AGATTGAAGCCATAGATCTTATCTCCTTGAAG-TTGCAGTGGAAT
* * *
5123164 AGATTGAA--AATGGTGAATCTTATCTTCTTGAAGTTGCAGTGGAGA-
1 AGATTGAAGCCAT--AG-ATCTTATCTCCTTGAAGTTGCAGTGGA-AT
* * * * * **
5123209 AAATTGAAGCCACCAG-CCTTATCTCCCTGAAGTTGCAGCGGAGC
1 AGATTGAAGCCA-TAGATCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * *
5123253 AGATTGAAGACAGT-GATTCTTATCTCCTTGAAGTTTCAATGGAGT
1 AGATTGAAGCCA-TAGA-TCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * * * * *
5123298 AGATTGAAGCTACAAATC-TATTCTCCTTGAAATTACATTGGAGT
1 AGATTGAAGCCATAGATCTTA-TCTCCTTGAAGTTGCAGTGGAAT
* * * * * * * *
5123342 AGATCGAAG-CACCA-ACCTTATCT-TTCTGATGTTGTAGTGAAAC
1 AGATTGAAGCCA-TAGATCTTATCTCCT-TGAAGTTGCAGTGGAAT
* * ** * *
5123385 AGATTGAAGCCATCAG-CCTTATCTCCCTGAAGTTATAGCGGAGT
1 AGATTGAAGCCAT-AGATCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * * * *
5123429 AGACTGAAGACAGTA-ATTCTTATCTTCTTGAAGTTTCGGTGGAGT
1 AGATTGAAGCCA-TAGA-TCTTATCTCCTTGAAGTTGCAGTGGAAT
*
5123474 AGATCGAAGC
1 AGATTGAAGC
5123484 TACAAATTTC
Statistics
Matches: 235, Mismatches: 63, Indels: 44
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.00
43 28 0.12
44 99 0.42
45 88 0.37
46 18 0.08
47 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
AGATTGAAGCCATAGATCTTATCTCCTTGAAGTTGCAGTGGAAT
Found at i:5123244 original size:44 final size:44
Alignment explanation
Indices: 5123182--5123418 Score: 147
Period size: 44 Copynumber: 5.4 Consensus size: 44
5123172 AATGGTGAAT
* * * *
5123182 CTTATCTTCTTGAAGTTGCAGTGGAGAAAATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
* * * ** **
5123226 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCA-CCAAC
* * * * * * *
5123271 CTTATCTCCTTGAAGTTTCAATGGAGTAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
* * * * * *
5123315 C-TATTCTCCTTGAAATTACATTGGAGTAGATCGAAG-CACCAAC
1 CTTA-TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
** * * * * *
5123358 CTTATCTTTCTGATGTTGTAGT-GAAACAGATTGAAGCCATCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGA-AGATTGAAGCCACCAAC
5123402 CTTATCTCCCTGAAGTT
1 CTTATCTCCCTGAAGTT
5123419 ATAGCGGAGT
Statistics
Matches: 145, Mismatches: 43, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
42 2 0.01
43 25 0.17
44 85 0.59
45 33 0.23
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
Found at i:5123286 original size:89 final size:89
Alignment explanation
Indices: 5123136--5123472 Score: 265
Period size: 89 Copynumber: 3.8 Consensus size: 89
5123126 AGTTATAGAT
* * * * * **
5123136 CTTATCTCCTTGAAGTTTGCAGTGGAATAGATTGAAAATGGTGAATCTTATCTTCTTGAAGTTGC
1 CTTATCTCCCTGAAG-TTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGC
5123201 AGTGGAGAAAATTGAAGCCACCAGC
65 AGTGGAGAAAATTGAAGCCACCAGC
* * * * *
5123226 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATTCTTATCTCCTTGAAGTTTCA
1 CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGCA
* * * * * **
5123291 ATGGAGTAGATTGAAGCTACAAAT
66 GTGGAGAAAATTGAAGCCACCAGC
* * ** * ** * *
5123315 C-TATTCTCCTTGAAATTACATTGGAGTAGATCGAAG-CA-CCAACCTTATCTT-TCTGATGTTG
1 CTTA-TCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCT-TGAAGTTG
* *
5123376 TAGT-GA-AACAGATTGAAGCCATCAGC
64 CAGTGGAGAA-A-ATTGAAGCCACCAGC
* * *
5123402 CTTATCTCCCTGAAGTTATAGCGGAGTAGACTGAAGACAGT-AATTCTTATCTTCTTGAAGTTTC
1 CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAA-TCTTATCTTCTTGAAGTTGC
*
5123466 GGTGGAG
65 AGTGGAG
5123473 TAGATCGAAG
Statistics
Matches: 183, Mismatches: 53, Indels: 21
0.71 0.21 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 52 0.28
88 10 0.05
89 100 0.55
90 17 0.09
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGCA
GTGGAGAAAATTGAAGCCACCAGC
Found at i:5123416 original size:176 final size:176
Alignment explanation
Indices: 5123211--5123540 Score: 480
Period size: 176 Copynumber: 1.9 Consensus size: 176
5123201 AGTGGAGAAA
* * *
5123211 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATTCTTAT
1 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
* *
5123276 CTCCTTGAAGTTTCAATGGAGTAGATTGAAGCTACAAATCTATTCTCCTTGAAATTACATTGGAG
66 CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
* *
5123341 TAGATCGAAGCACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
131 CAGATCGAAACACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
* * *
5123387 ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTATAGCGGAGTAGACTGAAGACAGTAATTCTTAT
1 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
* ** * * * *
5123452 CTTCTTGAAGTTTCGGTGGAGTAGATCGAAGCTACAAATTTCTTCTCTTTAAAATTATATTGGAG
66 CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
* * *
5123517 CGGATCGAAACACTAGCCTTATCT
131 CAGATCGAAACACCAACCTTATCT
5123541 CCCTGAAGTT
Statistics
Matches: 134, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
176 134 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (176 bp):
ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
CAGATCGAAACACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
Found at i:5123803 original size:44 final size:44
Alignment explanation
Indices: 5123741--5123877 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 44
5123731 CCTGACGTCG
* * *
5123741 CAGTGGAACAAATCAAAGCTACAAGTCTAATCTCCCTGTAGTTA
1 CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
* * *
5123785 CAGTAGG-GCAAATTAAAGCTACGAA-TCTTATTTCCCTGAAGTTG
1 CAGT-GGAGCAAATTAAAGCTAC-AAGTCTAATCTCCCTGAAGTTA
* * * * *
5123829 CAATGGAGCAGATTAAAGCTATAAGTCTAGTCTCTCTGAAGTTA
1 CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
5123873 CAGTG
1 CAGTG
5123878 AAGTAGATTG
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
43 4 0.05
44 66 0.89
45 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
Found at i:5124115 original size:13 final size:12
Alignment explanation
Indices: 5124086--5124120 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
5124076 TCATTTTAAA
5124086 CAAAAATAAAAC
1 CAAAAATAAAAC
5124098 CAAAAATAAAAC
1 CAAAAATAAAAC
5124110 CAAAAAATAAA
1 C-AAAAATAAA
5124121 GTCCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (12 bp):
CAAAAATAAAAC
Found at i:5125597 original size:16 final size:15
Alignment explanation
Indices: 5125587--5125616 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5125577 CTATTATTAC
5125587 TATATAT-TATTTTA
1 TATATATATATTTTA
5125601 TATATATATATTTTA
1 TATATATATATTTTA
5125616 T
1 T
5125617 TACAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATATATATTTTA
Found at i:5126395 original size:42 final size:42
Alignment explanation
Indices: 5126346--5126430 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
5126336 AATCAACATT
5126346 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
1 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
5126388 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
1 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
5126430 A
1 A
5126431 CTTTCGACGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (42 bp):
AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
Found at i:5131578 original size:19 final size:19
Alignment explanation
Indices: 5131543--5131580 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5131533 TCAAATTAAG
*
5131543 ATATTTTATATTTATATTT
1 ATATTTTATATTCATATTT
5131562 ATATTTTAT-TTACATATTT
1 ATATTTTATATT-CATATTT
5131581 TCAGGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATTTTATATTCATATTT
Found at i:5133232 original size:8 final size:8
Alignment explanation
Indices: 5133219--5133253 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
5133209 TCCTTAGGGC
5133219 GGCGCGTG
1 GGCGCGTG
5133227 GGCGCGTG
1 GGCGCGTG
5133235 GGCGCGTG
1 GGCGCGTG
5133243 GGCGCGTG
1 GGCGCGTG
5133251 GGC
1 GGC
5133254 CAAAACCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.63, T:0.11
Consensus pattern (8 bp):
GGCGCGTG
Found at i:5133827 original size:15 final size:17
Alignment explanation
Indices: 5133782--5133835 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
5133772 TATATTATAC
5133782 ATTATAA-GATTA-TTTT
1 ATTATAATG-TTATTTTT
5133798 ATTATAAATGTTATTTTT
1 ATTAT-AATGTTATTTTT
*
5133816 ATTAT-ATG-TATTATT
1 ATTATAATGTTATTTTT
5133831 ATTAT
1 ATTAT
5133836 TTATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 11 0.32
16 8 0.24
17 5 0.15
18 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTATAATGTTATTTTT
Found at i:5133829 original size:18 final size:18
Alignment explanation
Indices: 5133790--5133836 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
5133780 ACATTATAAG
5133790 ATTA-TTTTATTATAAAT
1 ATTATTTTTATTATAAAT
* **
5133807 GTTATTTTTATTATATGT
1 ATTATTTTTATTATAAAT
*
5133825 ATTATTATTATT
1 ATTATTTTTATT
5133837 TATTATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTATTTTTATTATAAAT
Found at i:5133873 original size:17 final size:18
Alignment explanation
Indices: 5133834--5133885 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
5133824 TATTATTATT
*
5133834 ATTTATTATTTT-TCTCA
1 ATTTATTATTTTATATCA
*
5133851 AATTATTATTTTATATC-
1 ATTTATTATTTTATATCA
5133868 ATTTATATATTGTTATAT
1 ATTTAT-TATT-TTATAT
5133886 TTTCACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 16 0.55
18 7 0.24
19 6 0.21
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTATTATTTTATATCA
Found at i:5133883 original size:27 final size:26
Alignment explanation
Indices: 5133852--5133956 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 26
5133842 TTTTTCTCAA
5133852 ATTATTATTTTATATCAT-TTATATATT
1 ATTATTATTTTATAT-ATATTATAT-TT
* *
5133879 GTTA-TATTTTCACATATATTATATTT
1 ATTATTATTTT-ATATATATTATATTT
*
5133905 ATTATTA-TTTATATATATTATTTTAT
1 ATTATTATTTTATATATATTATATT-T
5133931 ATTTATTA-TTTATATATATTAT-TTT
1 A-TTATTATTTTATATATATTATATTT
5133956 A
1 A
5133957 CATATAAACT
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
25 14 0.21
26 20 0.29
27 34 0.50
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
ATTATTATTTTATATATATTATATTT
Found at i:5133931 original size:14 final size:14
Alignment explanation
Indices: 5133892--5133962 Score: 87
Period size: 14 Copynumber: 5.4 Consensus size: 14
5133882 ATATTTTCAC
*
5133892 ATATATTATATT-T
1 ATATATTATTTTAT
5133905 AT-TATTA-TTTAT
1 ATATATTATTTTAT
5133917 ATATATTATTTTAT
1 ATATATTATTTTAT
*
5133931 ATTTATTA-TTTAT
1 ATATATTATTTTAT
*
5133944 ATATATTATTTTAC
1 ATATATTATTTTAT
5133958 ATATA
1 ATATA
5133963 AACTTTCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.04
12 8 0.16
13 19 0.38
14 21 0.42
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATATTATTTTAT
Found at i:5133933 original size:30 final size:27
Alignment explanation
Indices: 5133892--5133956 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
5133882 ATATTTTCAC
*
5133892 ATATATTATATT-TA-TTATTATTTAT
1 ATATATTATTTTATATTTATTATTTAT
5133917 ATATATTATTTTATATTTATTATTTAT
1 ATATATTATTTTATATTTATTATTTAT
5133944 ATATATTATTTTA
1 ATATATTATTTTA
5133957 CATATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 11 0.30
26 2 0.05
27 24 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATATATTATTTTATATTTATTATTTAT
Done.