Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 277 of 318
Found at i:87718119 original size:47 final size:46
Alignment explanation
Indices: 87718065--87718187 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 46
87718055 TATGTGCTTC
* * *
87718065 CGTATAAGACCATATCTGGGATATAGCATCAGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
87718111 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
87718158 CGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
87718188 GATATGTGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:87718222 original size:49 final size:48
Alignment explanation
Indices: 87717995--87718239 Score: 149
Period size: 47 Copynumber: 5.0 Consensus size: 48
87717985 CCATGGCAAC
* * * *
87717995 ATGTGATATGTGATTTCCGTATAAGACTATAGCTGGGCTATAGCATCAGAGAG
1 ATGTGATATGAGA-TT-CGTGTAAGACCATAGCTGGGCTATAGCATC---GAT
* * * * *
87718048 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATAGCATC-A-
1 ATGTGA-TATGAGATT-CGTGTAAGACCATAGCTGGGCTATAGCATCGAT
* * * * * * * *
87718096 GTGTGATAT-ATGCTACTGTATAAGACCATATCTAGGATATGGCATC-A-
1 ATGTGATATGA-GATTC-GTGTAAGACCATAGCTGGGCTATAGCATCGAT
* * * *
87718143 GTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGAGATTCGTGTAAGACCATAGCTGGGCTATAGCATCGAT
* * *
87718191 ATGTGATATGAGATTACGTGTAAGGCTATAGCTGGGCTATAGTATCGAT
1 ATGTGATATGAGATT-CGTGTAAGACCATAGCTGGGCTATAGCATCGAT
87718240 GTATGAATAT
Statistics
Matches: 161, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
46 26 0.16
47 46 0.29
48 17 0.11
49 30 0.19
53 36 0.22
54 6 0.04
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTGATATGAGATTCGTGTAAGACCATAGCTGGGCTATAGCATCGAT
Found at i:87723558 original size:25 final size:25
Alignment explanation
Indices: 87723530--87723590 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
87723520 CAGACATTAC
* * *
87723530 GCCACATAGGCTTTACAGGTAAATT
1 GCCACAAAGGCTTCACAAGTAAATT
* *
87723555 GCCACAAAGGATTCCCAAGTAAATT
1 GCCACAAAGGCTTCACAAGTAAATT
87723580 GCCACAAAGGC
1 GCCACAAAGGC
87723591 ACCTATAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (25 bp):
GCCACAAAGGCTTCACAAGTAAATT
Found at i:87726889 original size:24 final size:23
Alignment explanation
Indices: 87726830--87726890 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
87726820 ACTATTGTAC
* **
87726830 TCATCTTCATCTCCACCCTTTTT
1 TCATCTTCATCTCCACCATTGCT
* *
87726853 TACATATTTATCTCCACCATTGGCT
1 T-CATCTTCATCTCCACCATT-GCT
87726878 TCATCTTCATCTC
1 TCATCTTCATCTC
87726891 TACCGTCTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.44
Consensus pattern (23 bp):
TCATCTTCATCTCCACCATTGCT
Found at i:87737279 original size:12 final size:11
Alignment explanation
Indices: 87737262--87737305 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
87737252 TTTTCATACT
87737262 TTAAAATAGTTA
1 TTAAAATA-TTA
87737274 TTAAAATATTA
1 TTAAAATATTA
87737285 TATAAAATATTTA
1 T-TAAAATA-TTA
*
87737298 TTACAATA
1 TTAAAATA
87737306 AAATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 21 0.72
13 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAAAATATTA
Found at i:87738110 original size:3 final size:3
Alignment explanation
Indices: 87738102--87738130 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87738092 TTAAACTTGA
87738102 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
87738131 ATATATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:87746279 original size:29 final size:26
Alignment explanation
Indices: 87746223--87746279 Score: 60
Period size: 29 Copynumber: 2.1 Consensus size: 26
87746213 ATAAAACTTT
* **
87746223 AATAAATAAATAATTTATTAAATTAA
1 AATAAATAAATAATATATTAAAAAAA
87746249 AATAATATAAATATATATATTTAAAAAAA
1 AATAA-ATAAATA-ATATA-TTAAAAAAA
87746278 AA
1 AA
87746280 ATATGGACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 5 0.20
27 7 0.28
28 4 0.16
29 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATAAATAAATAATATATTAAAAAAA
Found at i:87747880 original size:13 final size:12
Alignment explanation
Indices: 87747850--87747892 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
87747840 TAAAAATCAT
87747850 AAAA-TTATAAA
1 AAAATTTATAAA
87747861 AAAATTTATAAA
1 AAAATTTATAAA
87747873 AAAGATTTAT-AA
1 AAA-ATTTATAAA
87747885 AAAATTTA
1 AAAATTTA
87747893 AAATTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.30
12 15 0.50
13 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:87747891 original size:11 final size:11
Alignment explanation
Indices: 87747831--87747892 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
87747821 TAATATATTT
87747831 AAAAATTTAT-
1 AAAAATTTATA
*
87747841 AAAAA-TCAT-
1 AAAAATTTATA
87747850 -AAAA-TTATAA
1 AAAAATTTAT-A
87747860 AAAAATTTATAA
1 AAAAATTTAT-A
87747872 AAAAGATTTATA
1 AAAA-ATTTATA
87747884 AAAAATTTA
1 AAAAATTTA
87747893 AAATTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.16
9 3 0.07
10 5 0.11
11 9 0.20
12 15 0.33
13 6 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
AAAAATTTATA
Found at i:87748038 original size:13 final size:13
Alignment explanation
Indices: 87748020--87748044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87748010 AGACAAAATT
87748020 TTTATAATTTTTG
1 TTTATAATTTTTG
87748033 TTTATAATTTTT
1 TTTATAATTTTT
87748045 TATGATTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:87748508 original size:19 final size:21
Alignment explanation
Indices: 87748475--87748513 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
87748465 ATAAATTTAA
*
87748475 TATTTGTTAATATTT-TATTT
1 TATTTGTTAACATTTATATTT
87748495 TATTT-TTAACATTTATATT
1 TATTTGTTAACATTTATATT
87748514 CATTACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTGTTAACATTTATATTT
Found at i:87753571 original size:92 final size:91
Alignment explanation
Indices: 87753403--87753570 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 91
87753393 GTTGAAGTTA
87753403 TTTTCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTACCAAA
1 TTTTCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTACCAAA
87753468 TCATCGTAAAAATTTTTTTTAATTAT
66 TCATCGTAAAAATTTTTTTTAATTAT
*
87753494 TTTTGCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGT-TCAA
1 TTTT-CAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTACCAA
87753558 ATCATCGTAAAAA
65 ATCATCGTAAAAA
87753571 AAAACCTATT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
91 20 0.27
92 55 0.73
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (91 bp):
TTTTCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTACCAAA
TCATCGTAAAAATTTTTTTTAATTAT
Found at i:87753819 original size:72 final size:72
Alignment explanation
Indices: 87753735--87753879 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
87753725 TTTTGATTTC
87753735 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
87753800 TTAGTTT
66 TTAGTTT
87753807 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
87753872 TTAGTTT
66 TTAGTTT
87753879 A
1 A
87753880 AAAAAGGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (72 bp):
ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
TTAGTTT
Found at i:87757244 original size:2 final size:2
Alignment explanation
Indices: 87757237--87757266 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87757227 TACATGTAGG
87757237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87757267 TATGTGTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87758376 original size:15 final size:16
Alignment explanation
Indices: 87758358--87758390 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
87758348 ACTATTTATA
*
87758358 AAATTTTAATT-TGAT
1 AAATATTAATTATGAT
87758373 AAATATTAATTATGAT
1 AAATATTAATTATGAT
87758389 AA
1 AA
87758391 TAAGTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
AAATATTAATTATGAT
Found at i:87760527 original size:65 final size:65
Alignment explanation
Indices: 87760446--87760577 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
87760436 GTCTCTTTCC
* * *
87760446 AATCAATTAATAACATGTCAGTTAATTTTTACATGTTATTTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
* * *
87760511 AATCATTTAATGACATGTTAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
87760576 AA
1 AA
87760578 CCATAAATCC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (65 bp):
AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
Found at i:87760765 original size:59 final size:60
Alignment explanation
Indices: 87760649--87760817 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
87760639 TCTCTGCCCT
* * *
87760649 GCTGCTATTATTTTTTTCGGCAATTGCTTTGTTGCCTCTTCGCGTCTCTTTGCAACCCCC
1 GCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTAGCGTCTCTCTGCAACCCCC
* *
87760709 GCTGCTATTATTTTTTTCGACAATTGCTTTGCTGCCTCTTAGC-TCTCTCTGCAACCCCT
1 GCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTAGCGTCTCTCTGCAACCCCC
* *
87760768 ACTGCTATTA-TTTTTTCGGCAATTGCTTTGCTGCCTTTTCA-CGTCTCTCT
1 GCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTT-AGCGTCTCTCT
87760818 AAAACCCTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
58 28 0.28
59 31 0.31
60 40 0.40
ACGTcount: A:0.12, C:0.29, G:0.15, T:0.44
Consensus pattern (60 bp):
GCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTAGCGTCTCTCTGCAACCCCC
Found at i:87760824 original size:59 final size:60
Alignment explanation
Indices: 87760645--87760881 Score: 275
Period size: 59 Copynumber: 4.0 Consensus size: 60
87760635 CACGTCTCTG
* * *
87760645 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGTTGCCTCTTCGCGTCTCTTTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* *
87760705 CCCCGCTGCTATTATTTTTTTCGACAATTGCTTTGCTGCCTCTT-A-GCTCTCTCTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACG-TCTCTCTGCAAC
* * **
87760764 CCCTACTGCTATTA-TTTTTTCGGCAATTGCTTTGCTGCCTTTTCACGTCTCTCTAAAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * * * * * * * *
87760823 CCTTGTTGCTATT-TATTTTCCGTCAACTACTTTTCTGCCTCTTCACGTCTCTTTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
87760882 ACCTATTGAT
Statistics
Matches: 149, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
58 28 0.19
59 79 0.53
60 42 0.28
ACGTcount: A:0.14, C:0.30, G:0.13, T:0.43
Consensus pattern (60 bp):
CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
Found at i:87765816 original size:36 final size:35
Alignment explanation
Indices: 87765778--87765882 Score: 96
Period size: 34 Copynumber: 3.1 Consensus size: 35
87765768 TTTATGATTA
87765778 AAAAAATCTAATTAAATGAGATGTAAATGACATGT
1 AAAAAATCTAATTAAATGAGATGTAAATGACATGT
* * **
87765813 -AAAAATC-AACTGACATGTCAT-TAAATG--AT-T
1 AAAAAATCTAA-TTAAATGAGATGTAAATGACATGT
* *
87765843 AAAAAATCTAATTAAATGAGGTGTAATTGACATGT
1 AAAAAATCTAATTAAATGAGATGTAAATGACATGT
*
87765878 TAAAA
1 AAAAA
87765883 TTAGCTGACA
Statistics
Matches: 52, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
30 1 0.02
31 15 0.29
32 7 0.13
33 8 0.15
34 16 0.31
35 5 0.10
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.30
Consensus pattern (35 bp):
AAAAAATCTAATTAAATGAGATGTAAATGACATGT
Found at i:87765876 original size:65 final size:66
Alignment explanation
Indices: 87765771--87765907 Score: 213
Period size: 65 Copynumber: 2.1 Consensus size: 66
87765761 TTAGGGATTT
87765771 ATGATTAAAAAAATCTAATTAAATGAGATGTAAATGACATGTAAAAATCAACTGACATGTCATTA
1 ATGATTAAAAAAATCTAATTAAATGAGATGTAAATGACATGTAAAAATCAACTGACATGTCATTA
87765836 A
66 A
* * * * *
87765837 ATGATT-AAAAAATCTAATTAAATGAGGTGTAATTGACATGTTAAAATTAGCTGACATGTCATTA
1 ATGATTAAAAAAATCTAATTAAATGAGATGTAAATGACATGTAAAAATCAACTGACATGTCATTA
87765901 A
66 A
*
87765902 TTGATT
1 ATGATT
87765908 GGGAAAGGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
65 59 0.91
66 6 0.09
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (66 bp):
ATGATTAAAAAAATCTAATTAAATGAGATGTAAATGACATGTAAAAATCAACTGACATGTCATTA
A
Found at i:87766995 original size:21 final size:19
Alignment explanation
Indices: 87766951--87766996 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
87766941 ATATAATATG
87766951 AAAATATAATATGATATTA
1 AAAATATAATATGATATTA
* *
87766970 GAAATATATATGTGATATGTA
1 AAAATATA-ATATGATAT-TA
87766991 AAAATA
1 AAAATA
87766997 CGACATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (19 bp):
AAAATATAATATGATATTA
Found at i:87768142 original size:16 final size:16
Alignment explanation
Indices: 87768121--87768151 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87768111 AAAAAAAGAG
87768121 AAGGAGAGAGGGGAGA
1 AAGGAGAGAGGGGAGA
87768137 AAGGAGAGAGGGGAG
1 AAGGAGAGAGGGGAG
87768152 GGGAGAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AAGGAGAGAGGGGAGA
Found at i:87768321 original size:29 final size:30
Alignment explanation
Indices: 87768253--87768329 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 30
87768243 AATTTTTTTT
*
87768253 TTTTTGTATTTTATTTTATGCTTTAAAATATTA
1 TTTTT-TA-TTTA-TTTATACTTTAAAATATTA
*
87768286 TTATTTATTTATTTATACTTT-AAATA-TA
1 TTTTTTATTTATTTATACTTTAAAATATTA
87768314 GTTTTTTATTTATTTA
1 -TTTTTTATTTATTTA
87768330 GATATTTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 19 0.47
30 9 0.22
31 4 0.10
32 2 0.05
33 4 0.10
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTTTTATTTATTTATACTTTAAAATATTA
Found at i:87769148 original size:109 final size:108
Alignment explanation
Indices: 87768956--87769169 Score: 313
Period size: 109 Copynumber: 2.0 Consensus size: 108
87768946 TCCACTATAC
* * *
87768956 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCCGACATATGCCTTGCAACTTCGATCTTCTCTAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCCGACATATGCCTTGCAACTTCAATCTACTCCAA
**
87769021 TGTAACTTCACTTGTATGAGATTTTGGGGCTTCGATCTGCTTCA
66 TGTAACTTCACAGGTATGAGA-TTTGGGGCTTCGATCTGCTTCA
* * *
87769065 CTTGTAGCTTTGGTTCAATCCACTGTATCTTCTGACATATGCCTTGTAACTTCAATCTACTCCAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCCGACATATGCCTTGCAACTTCAATCTACTCCAA
* *
87769130 TGTAACTTC-CAGGATATGAGATTTGTGTCTTCGATCTGCT
66 TGTAACTTCACAGG-TATGAGATTTGGGGCTTCGATCTGCT
87769170 CTTTTATCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 19 0.20
109 75 0.80
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.39
Consensus pattern (108 bp):
CTTGTAGCTTTGGTTCAATCCACTGTACCTTCCGACATATGCCTTGCAACTTCAATCTACTCCAA
TGTAACTTCACAGGTATGAGATTTGGGGCTTCGATCTGCTTCA
Found at i:87774450 original size:42 final size:42
Alignment explanation
Indices: 87774362--87774507 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 42
87774352 AGGCCACACA
* * * * * * * *
87774362 GAAGCACATAAGTGCTAAATGAAAATCCGTAAGGGTTGATCA
1 GAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACT
* *
87774404 GAAGCTCATAGGAGCTGAACGAAAACCCATAAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACT
* * * * *
87774446 GAAGCTCAAAAGAGCTAAACGGAAACCTATTAGGGTTAAATT
1 GAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACT
* * *
87774488 GAAACTCATATGAGTTAAAC
1 GAAGCTCATAAGAGCTAAAC
87774508 AGAAGCTCGT
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.21
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACT
Found at i:87776753 original size:21 final size:21
Alignment explanation
Indices: 87776727--87776779 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
87776717 TCTTGAGCAA
**
87776727 CCATTTGCTTTATTATGAATC
1 CCATTTGCTCCATTATGAATC
87776748 CCATTTGCTCCATTATGAATC
1 CCATTTGCTCCATTATGAATC
* *
87776769 TCATTTACTCC
1 CCATTTGCTCC
87776780 TAGAGGGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (21 bp):
CCATTTGCTCCATTATGAATC
Found at i:87777777 original size:29 final size:30
Alignment explanation
Indices: 87777744--87777823 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
87777734 TTTTCGGGCA
* *
87777744 TAGGGGTAAAATAGTCATTTTGCC-AAGTC
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
87777773 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
*
87777803 TTGGGGCAAAATGGTCATTTT
1 TAGGGGCAAAATGGTCATTTT
87777824 ACTGAAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTC
Found at i:87779865 original size:10 final size:10
Alignment explanation
Indices: 87779843--87779892 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
87779833 TTATTATTGG
87779843 TTATATTTA-
1 TTATATTTAT
87779852 TTATATTTAT
1 TTATATTTAT
87779862 TTAT-TTTAT
1 TTATATTTAT
87779871 TT-TATTTTAT
1 TTATA-TTTAT
87779881 TT-TATTTCAT
1 TTATATTT-AT
87779891 TT
1 TT
87779893 TGGGTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.51
10 17 0.46
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATATTTAT
Found at i:87779892 original size:15 final size:14
Alignment explanation
Indices: 87779828--87779893 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 14
87779818 AAGTGAATAA
**
87779828 TTATTTTATTATTGG
1 TTATTTTATT-TTAT
*
87779843 TTATATTTATTATAT
1 TTAT-TTTATTTTAT
87779858 TTA-TTTATTTTATT
1 TTATTTTATTTTA-T
87779872 TTATTTTATTTTAT
1 TTATTTTATTTTAT
87779886 TTCATTTT
1 TT-ATTTT
87779894 GGGTTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 8 0.19
14 7 0.16
15 22 0.51
16 6 0.14
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:87779905 original size:5 final size:5
Alignment explanation
Indices: 87779843--87779893 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
87779833 TTATTATTGG
* *
87779843 TTATAT TTATT ATA-T TTA-T TTATT TTATT TTATT TTATT TTATT TCATT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
87779892 TT
1 TT
87779894 GGGTTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
4 7 0.17
5 29 0.73
6 4 0.10
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:87784664 original size:13 final size:13
Alignment explanation
Indices: 87784648--87784682 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
87784638 TTTTCAAGAG
87784648 AATTCTTTAATCA
1 AATTCTTTAATCA
87784661 AATTCTTTAATCA
1 AATTCTTTAATCA
87784674 AATTCTTTA
1 AATTCTTTA
87784683 GTTGAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTCTTTAATCA
Found at i:87789722 original size:2 final size:2
Alignment explanation
Indices: 87789715--87789746 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
87789705 AGAGCACAGA
87789715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87789747 TTACCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87792257 original size:21 final size:20
Alignment explanation
Indices: 87792226--87792280 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
87792216 GAAGAAGGAA
*
87792226 TGAGCTGAAACGAGCTAAAT
1 TGAGCTCAAACGAGCTAAAT
*
87792246 TCGAGCTCAAACGAGCTGAAT
1 T-GAGCTCAAACGAGCTAAAT
* *
87792267 TGAACTCAAGCGAG
1 TGAGCTCAAACGAG
87792281 TTGATGGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTAAAT
Found at i:87795153 original size:20 final size:20
Alignment explanation
Indices: 87795130--87795186 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
87795120 TTTTCTCACT
87795130 TGTTTTTTCTTTTCTTTTGC
1 TGTTTTTTCTTTTCTTTTGC
** * *
87795150 TGTTTTCGC-ATTCTTTTTC
1 TGTTTTTTCTTTTCTTTTGC
**
87795169 TCATTTTTCTTTTCTTTT
1 TGTTTTTTCTTTTCTTTT
87795187 TTTACATTCA
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.04, C:0.18, G:0.07, T:0.72
Consensus pattern (20 bp):
TGTTTTTTCTTTTCTTTTGC
Found at i:87795209 original size:33 final size:31
Alignment explanation
Indices: 87795149--87795217 Score: 66
Period size: 33 Copynumber: 2.1 Consensus size: 31
87795139 TTTTCTTTTG
*
87795149 CTGTTTTCGCATTCTTTTTCTCATTTTTCTTTT
1 CTGTTTTCACATTCTTTTT-TC-TTTTTCTTTT
* *
87795182 CTTTTTTTACATTCATTCTTTTCTTTTTCATTTT
1 CTGTTTTCACATTC-TT-TTTTCTTTTTC-TTTT
87795216 CT
1 CT
87795218 CTCGATTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
33 17 0.57
34 10 0.33
35 3 0.10
ACGTcount: A:0.09, C:0.20, G:0.03, T:0.68
Consensus pattern (31 bp):
CTGTTTTCACATTCTTTTTTCTTTTTCTTTT
Found at i:87802294 original size:2 final size:2
Alignment explanation
Indices: 87802287--87802325 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87802277 TAAAAAGGAA
87802287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87802326 CGGGACACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87803091 original size:13 final size:13
Alignment explanation
Indices: 87803073--87803097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87803063 GTAAGTCATG
87803073 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
87803086 TCTTTTTTTTTT
1 TCTTTTTTTTTT
87803098 GTAAGACTTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:87804827 original size:9 final size:9
Alignment explanation
Indices: 87804813--87804866 Score: 57
Period size: 8 Copynumber: 6.7 Consensus size: 9
87804803 TTTACTTTTA
87804813 ATTTTTAAT
1 ATTTTTAAT
87804822 ATTTTTAAT
1 ATTTTTAAT
87804831 -TTTTTAAT
1 ATTTTTAAT
*
87804839 -TTTTTTA-
1 ATTTTTAAT
87804846 ATTTTT-A-
1 ATTTTTAAT
87804853 ATTTTTAAT
1 ATTTTTAAT
87804862 -TTTTT
1 ATTTTT
87804867 TCTATGATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
7 7 0.17
8 25 0.61
9 9 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:87804829 original size:16 final size:16
Alignment explanation
Indices: 87804808--87804865 Score: 84
Period size: 17 Copynumber: 3.7 Consensus size: 16
87804798 TGGATTTTAC
87804808 TTTTAATTTTTAATAT
1 TTTTAATTTTTAATAT
*
87804824 TTTTAATTTTTTAATTT
1 TTTTAA-TTTTTAATAT
87804841 TTTTAATTTTT-A-AT
1 TTTTAATTTTTAATAT
87804855 TTTTAATTTTT
1 TTTTAATTTTT
87804866 TTCTATGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 11 0.28
17 15 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTAATTTTTAATAT
Found at i:87804867 original size:9 final size:8
Alignment explanation
Indices: 87804808--87804866 Score: 79
Period size: 7 Copynumber: 7.5 Consensus size: 8
87804798 TGGATTTTAC
87804808 TTTTAA-T
1 TTTTAATT
87804815 TTTTAATAT
1 TTTTAAT-T
87804824 TTTTAATT
1 TTTTAATT
87804832 TTTTAATTT
1 TTTTAA-TT
87804841 TTTTAA-T
1 TTTTAATT
87804848 TTTTAA-T
1 TTTTAATT
87804855 TTTTAATT
1 TTTTAATT
87804863 TTTT
1 TTTT
87804867 TCTATGATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.42
8 12 0.25
9 16 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTAATT
Found at i:87804867 original size:16 final size:16
Alignment explanation
Indices: 87804808--87804858 Score: 84
Period size: 16 Copynumber: 3.1 Consensus size: 16
87804798 TGGATTTTAC
*
87804808 TTTTAATTTTTAATAT
1 TTTTAATTTTTAATTT
87804824 TTTTAATTTTTTAATTT
1 TTTTAA-TTTTTAATTT
87804841 TTTTAATTTTTAATTT
1 TTTTAATTTTTAATTT
87804857 TT
1 TT
87804859 AATTTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
16 18 0.55
17 15 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTTAATTT
Found at i:87804867 original size:24 final size:23
Alignment explanation
Indices: 87804808--87804866 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
87804798 TGGATTTTAC
*
87804808 TTTTAATTTTTAATATTTTTAATT
1 TTTTAATTTTTTA-ATTTTTAATT
87804832 TTTTAATTTTTTTAATTTTTAA-T
1 TTTTAA-TTTTTTAATTTTTAATT
87804855 TTTTAATTTTTT
1 TTTTAATTTTTT
87804867 TCTATGATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 14 0.42
25 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTAATTTTTTAATTTTTAATT
Found at i:87807361 original size:6 final size:6
Alignment explanation
Indices: 87807350--87807375 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87807340 AAATTGTGTA
87807350 TGAAAT TGAAAT TGAAAT TGAAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TG
87807376 GATTAAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (6 bp):
TGAAAT
Found at i:87812379 original size:47 final size:47
Alignment explanation
Indices: 87812248--87812466 Score: 181
Period size: 47 Copynumber: 4.6 Consensus size: 47
87812238 ATAGTGAAAC
* * * * * * *
87812248 TATGGTCTTGCACA-TAGTCACATATCACACACTGAAGCCATAGCTCGGC
1 TATGGTCTTACACAGAAG-CACATATCACACA--GATGCCATATCCCAGA
* * * *
87812297 TATAGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGAAGCACATATCACACAGATGCCATATCCCAGA
*
87812343 TATGGTCTTACACAGAAGCACATATCATACAGATGCCATATCCCAGA
1 TATGGTCTTACACAGAAGCACATATCACACAGATGCCATATCCCAGA
* * * * * * * *
87812390 TATGGTCTTATACGGAAGCTCATATCACACCGACGTCATAGCCCAGC
1 TATGGTCTTACACAGAAGCACATATCACACAGATGCCATATCCCAGA
* * *
87812437 TATGGTCTTATACAAAAATCACATATCACA
1 TATGGTCTTACAC-AGAAGCACATATCACA
87812467 TGTTGCCATG
Statistics
Matches: 139, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
46 23 0.17
47 80 0.58
48 24 0.17
49 12 0.09
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGAAGCACATATCACACAGATGCCATATCCCAGA
Found at i:87816594 original size:29 final size:30
Alignment explanation
Indices: 87816535--87816595 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
87816525 ACTTATTTTC
*
87816535 TTGTTAATTTTGTTATTATTTTAAATACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
87816565 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
87816594 TT
1 TT
87816596 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:87825270 original size:16 final size:16
Alignment explanation
Indices: 87825249--87825282 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
87825239 TAGCAATTAT
87825249 TTATGC-TAGTTATTTA
1 TTATGCTTA-TTATTTA
87825265 TTATGCTTATTATTTA
1 TTATGCTTATTATTTA
87825281 TT
1 TT
87825283 CCATTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (16 bp):
TTATGCTTATTATTTA
Found at i:87830023 original size:5 final size:5
Alignment explanation
Indices: 87830013--87830037 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87830003 TCTTATATTG
87830013 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
87830038 TGAAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:87841381 original size:218 final size:215
Alignment explanation
Indices: 87840949--87841385 Score: 569
Period size: 218 Copynumber: 2.0 Consensus size: 215
87840939 TGTACTAAAC
* * *
87840949 TTTGTCTTGTTTTGGATCCAAAGCGACCGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * *
87841014 ACAACAAGTGCTAGTTTTGGAACTTTTATATTAATGTAAGACTATTATTAGTTAGTTATTCGTAC
66 ACAACAAGTGCCAGATTTGGAACTTTTATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
* * * *
87841079 ATTAAGATACTGAGAACAAAAGGATATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAG
131 ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
*
87841144 GGTTCTCGGCTTCTACCTGA
196 GGTTCTCGACTTCTACCTGA
* * *
87841164 TTTGTCTTGTTGTGGATCCAAAGCCAGAGGATGAAACTA-GTAAACAAGAAACTTGCAGATGGCT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * *
87841228 AGAACATGTTGTGCCAGATTTGGAAC-TTTAGTATTAATGTAAGAATGTTATTATTTAGTTATTA
66 ACAACA---AGTGCCAGATTTGGAACTTTTA-TATTAATGTAAGAATATTATTAGTTAGTTATTA
* *
87841292 GTTACATTAAGATACTGAAAAAAAAAGTAGATGTGGAACCAAC-ACAAAAAGAA-AAAAAAGTTG
127 G-TACATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAA---G
*
87841355 CATTGAAAGG-TCTCTACTTCTACCTGA
188 CATTGAAAGGTTCTCGACTTCTACCTGA
87841382 TTTG
1 TTTG
87841386 GTCAGTCACT
Statistics
Matches: 192, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
214 29 0.15
215 34 0.18
216 10 0.05
217 53 0.28
218 56 0.29
219 10 0.05
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (215 bp):
TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
ACAACAAGTGCCAGATTTGGAACTTTTATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
GGTTCTCGACTTCTACCTGA
Found at i:87851534 original size:9 final size:9
Alignment explanation
Indices: 87851520--87851662 Score: 62
Period size: 10 Copynumber: 15.6 Consensus size: 9
87851510 TATGTGGCAA
87851520 AAAAATTAT
1 AAAAATTAT
87851529 -AAAA--AT
1 AAAAATTAT
*
87851535 AAAAATCAAT
1 AAAAAT-TAT
*
87851545 AAAATTTAT
1 AAAAATTAT
87851554 AAAAATTATT
1 AAAAATTA-T
**
87851564 AAATTTTAAT
1 AAAAATT-AT
87851574 AAAAA-TAT
1 AAAAATTAT
87851582 -AAAATATATT
1 AAAAAT-TA-T
* *
87851592 AAAATTTAG
1 AAAAATTAT
87851601 AAAAATATAT
1 AAAAAT-TAT
**
87851611 AAAAATCGT
1 AAAAATTAT
*
87851620 AAAAATATAA
1 AAAAAT-TAT
*
87851630 AAAAACTAT
1 AAAAATTAT
**
87851639 AACATTTTAT
1 AA-AAATTAT
*
87851649 AAAAATCAT
1 AAAAATTAT
87851658 AAAAA
1 AAAAA
87851663 AATATAAAAT
Statistics
Matches: 97, Mismatches: 24, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
6 2 0.02
7 8 0.08
8 6 0.06
9 37 0.38
10 39 0.40
11 5 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:87851557 original size:19 final size:18
Alignment explanation
Indices: 87851533--87851680 Score: 77
Period size: 19 Copynumber: 7.8 Consensus size: 18
87851523 AATTATAAAA
*
87851533 ATAAAAATCAATAAAATTT
1 ATAAAAATC-ATAAAATAT
* * *
87851552 ATAAAAATTATTAAATTTT
1 ATAAAAATCA-TAAAATAT
87851571 AATAAAAAT-ATAAAATAT
1 -ATAAAAATCATAAAATAT
* * *
87851589 ATTAAAATTTAGAAAAATAT
1 A-TAAAAATCA-TAAAATAT
*
87851609 ATAAAAATCGTAAAA-AT
1 ATAAAAATCATAAAATAT
* * *
87851626 ATAAAAAAACTATAACATTTT
1 AT-AAAAATC-ATAA-AATAT
*
87851647 ATAAAAATCATAAAA-AA
1 ATAAAAATCATAAAATAT
87851664 ATATAAAATACATAAAA
1 ATA-AAAAT-CATAAAA
87851681 AAGGCCCTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
17 8 0.08
18 29 0.29
19 37 0.37
20 23 0.23
21 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
ATAAAAATCATAAAATAT
Found at i:87851567 original size:18 final size:18
Alignment explanation
Indices: 87851520--87851661 Score: 78
Period size: 19 Copynumber: 7.7 Consensus size: 18
87851510 TATGTGGCAA
87851520 AAAAATTATAAAA---AT
1 AAAAATTATAAAATTTAT
*
87851535 AAAAATCAATAAAATTTAT
1 AAAAAT-TATAAAATTTAT
*
87851554 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAAATTT-AT
*
87851574 AAAAA-TATAAAATATATT
1 AAAAATTATAAAATTTA-T
* * *
87851592 AAAATTTAGAAAAATATAT
1 AAAAATTA-TAAAATTTAT
* *
87851611 AAAAATCGTA-AAAATATAA
1 AAAAAT--TATAAAATTTAT
* *
87851630 AAAAACTATAACATTTTAT
1 AAAAATTATAA-AATTTAT
*
87851649 AAAAATCATAAAA
1 AAAAATTATAAAA
87851662 AAATATAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
15 6 0.06
16 6 0.06
17 3 0.03
18 15 0.15
19 51 0.52
20 15 0.15
21 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAATTTAT
Found at i:87851574 original size:29 final size:30
Alignment explanation
Indices: 87851542--87851616 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
87851532 AATAAAAATC
* *
87851542 AATAAAATTTATAAAAAT-TATTAAATTTT
1 AATAAAATATATAAAAATATATTAAAATTT
87851571 AATAAAA-ATAT-AAAATATATTAAAATTT
1 AATAAAATATATAAAAATATATTAAAATTT
87851599 AGA-AAAATATATAAAAAT
1 A-ATAAAATATATAAAAAT
87851617 CGTAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.12
28 18 0.45
29 12 0.30
30 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
AATAAAATATATAAAAATATATTAAAATTT
Found at i:87851681 original size:29 final size:28
Alignment explanation
Indices: 87851574--87851682 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
87851564 AAATTTTAAT
* * *
87851574 AAAAATATAAAATATAT-TAAAATTTAGA
1 AAAAATATAAAATACATAAAAAATATA-A
*
87851602 AAAATATATAAAA-ATCGT-AAAAATATAA
1 AAAA-ATATAAAATA-CATAAAAAATATAA
* **
87851630 AAAAACTATAACAT-TTTATAAAAATCATAA
1 AAAAA-TATAAAATACATA-AAAAAT-ATAA
87851660 AAAAATATAAAATACATAAAAAA
1 AAAAATATAAAATACATAAAAAA
87851683 GGCCCTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
27 2 0.03
28 16 0.25
29 34 0.54
30 11 0.17
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAATATAAAATACATAAAAAATATAA
Found at i:87851993 original size:56 final size:57
Alignment explanation
Indices: 87851887--87851994 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
87851877 ATTTCTTTAC
* *
87851887 ATTTTCTATAAATTTTTTACGATTTAATAAAATTTTATAATTTTTCTATATTCCTAT
1 ATTTTCTATAAATTTTTTACGATTTAATAAAATTTTACAATTCTTCTATATTCCTAT
* * * *
87851944 ATTTT-TATATATTTTTTATGATTTTTATAAAATTTTACACTTCTT-TATATT
1 ATTTTCTATAAATTTTTTACGA-TTTAATAAAATTTTACAATTCTTCTATATT
87851995 TTTTATGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 20 0.45
57 24 0.55
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (57 bp):
ATTTTCTATAAATTTTTTACGATTTAATAAAATTTTACAATTCTTCTATATTCCTAT
Found at i:87852021 original size:27 final size:27
Alignment explanation
Indices: 87851991--87852043 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87851981 CACTTCTTTA
*
87851991 TATTTTTTATGATTTTT-GTAAAATTTG
1 TATTTTTAAT-ATTTTTAGTAAAATTTG
*
87852018 TATTTTTAATATTTTTATTAAAATTT
1 TATTTTTAATATTTTTAGTAAAATTT
87852044 AATAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (27 bp):
TATTTTTAATATTTTTAGTAAAATTTG
Found at i:87852052 original size:27 final size:27
Alignment explanation
Indices: 87852022--87852087 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
87852012 AATTTGTATT
87852022 TTTAATATTTTTATTAAAATTTAATAA
1 TTTAATATTTTTATTAAAATTTAATAA
* * * *
87852049 TTTAATAATTTTA-TAAATTTTATTGA
1 TTTAATATTTTTATTAAAATTTAATAA
*
87852075 TTT-TTATTTTTAT
1 TTTAATATTTTTAT
87852088 AATTTTTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 7 0.22
26 13 0.41
27 12 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTAATATTTTTATTAAAATTTAATAA
Found at i:87852092 original size:9 final size:9
Alignment explanation
Indices: 87851919--87852094 Score: 53
Period size: 9 Copynumber: 19.4 Consensus size: 9
87851909 TTTAATAAAA
87851919 TTTTATAAT
1 TTTTATAAT
*
87851928 TTTTCTATAT
1 TTTTATA-AT
**
87851938 TCCTAT-AT
1 TTTTATAAT
87851946 TTTTATATATT
1 TTTTATA-A-T
*
87851957 TTTTATGAT
1 TTTTATAAT
*
87851966 TTTTATAAAA
1 TTTTAT-AAT
* *
87851976 TTTTACACT
1 TTTTATAAT
*
87851985 TCTTTATATT
1 T-TTTATAAT
*
87851995 TTTTATGAT
1 TTTTATAAT
* *
87852004 TTTTGTAAA
1 TTTTATAAT
* *
87852013 ATTTGT-AT
1 TTTTATAAT
87852021 TTTTA-ATAT
1 TTTTATA-AT
*
87852030 TTTTATTAAAA
1 TTTTA-T-AAT
*
87852041 TTTAATAA-
1 TTTTATAAT
*
87852049 TTTAATAA-
1 TTTTATAAT
*
87852057 TTTTATAAA
1 TTTTATAAT
*
87852066 TTTTATTGA-
1 TTTTA-TAAT
87852075 TTTT-T-AT
1 TTTTATAAT
87852082 TTTTATAAT
1 TTTTATAAT
87852091 TTTT
1 TTTT
87852095 TGCCACATGT
Statistics
Matches: 124, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
6 1 0.01
7 5 0.04
8 26 0.21
9 56 0.45
10 23 0.19
11 12 0.10
12 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:87852285 original size:89 final size:89
Alignment explanation
Indices: 87852182--87852364 Score: 219
Period size: 89 Copynumber: 2.1 Consensus size: 89
87852172 AACTATTAAG
* * *
87852182 GTACCCAATCGAGTGCAAAAAAAAGT-AGGGACTTAATTGCCATTT-TTGAAAAAA-ATTGAGGG
1 GTACCCAATCGAGTGCAAAAAAAAATAAAGG-CTTAATT--CATTTCTTGAAAAAAGATTGAAGG
* *
87852244 CCTTTTTGATGCATTTTGACAGTTCAA
63 CCTTTTTGATACATTTTGAAAGTTCAA
* * * * * *
87852271 GTACCCAATTGAGTGCAAAAAAAAATAAATGCTTAATTCTTTTCTTTAAAAAAGTTTGAAGGTCT
1 GTACCCAATCGAGTGCAAAAAAAAATAAAGGCTTAATTCATTTCTTGAAAAAAGATTGAAGGCCT
87852336 TTTTGATACATTTTGAAAGTTCAA
66 TTTTGATACATTTTGAAAGTTCAA
87852360 GTACC
1 GTACC
87852365 TAACTGTAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
87 4 0.05
88 8 0.10
89 66 0.82
90 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (89 bp):
GTACCCAATCGAGTGCAAAAAAAAATAAAGGCTTAATTCATTTCTTGAAAAAAGATTGAAGGCCT
TTTTGATACATTTTGAAAGTTCAA
Found at i:87853353 original size:22 final size:24
Alignment explanation
Indices: 87853328--87853374 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
87853318 ATACACAGAT
87853328 TCCA-CCCAAACACA-CCAGAATA
1 TCCAGCCCAAACACATCCAGAATA
*
87853350 TCCAGCCCAAACACATCCGGAATA
1 TCCAGCCCAAACACATCCAGAATA
87853374 T
1 T
87853375 TATAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.40, C:0.38, G:0.09, T:0.13
Consensus pattern (24 bp):
TCCAGCCCAAACACATCCAGAATA
Found at i:87854377 original size:9 final size:9
Alignment explanation
Indices: 87854340--87854385 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
87854330 TTTATTTCCT
*
87854340 TTTATTCTA
1 TTTATTTTA
87854349 TTTACTTTTA
1 TTTA-TTTTA
87854359 TTTA-TTTA
1 TTTATTTTA
87854367 TTTATTTTA
1 TTTATTTTA
*
87854376 TTTGTTTTA
1 TTTATTTTA
87854385 T
1 T
87854386 ATTAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 8 0.24
9 17 0.52
10 8 0.24
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:87854385 original size:18 final size:18
Alignment explanation
Indices: 87854340--87854378 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
87854330 TTTATTTCCT
87854340 TTTATTCTATTTACTTTTA
1 TTTATT-TATTTACTTTTA
87854359 TTTATTTATTTA-TTTTA
1 TTTATTTATTTACTTTTA
87854376 TTT
1 TTT
87854379 GTTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTACTTTTA
Found at i:87854396 original size:27 final size:27
Alignment explanation
Indices: 87854340--87854422 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
87854330 TTTATTTCCT
* *
87854340 TTTATTCTATTTACTTTTATTTATTTA
1 TTTATTCTATTTACTTTTATTTAATAA
* *
87854367 TTTATTTTATTT-GTTTTATATTAATAA
1 TTTATTCTATTTACTTTTAT-TTAATAA
* *
87854394 TTTAATTCTAATTATCTATTACTTTAATA
1 TTT-ATTCTATTTA-CTTTTA-TTTAATA
87854423 TTAAGTAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.14
27 19 0.44
28 7 0.16
30 10 0.23
31 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATTCTATTTACTTTTATTTAATAA
Found at i:87854866 original size:15 final size:14
Alignment explanation
Indices: 87854805--87854895 Score: 62
Period size: 14 Copynumber: 6.3 Consensus size: 14
87854795 CACAATTGGC
*
87854805 ATAAATT-TATTTT
1 ATAAATTATATTAT
* *
87854818 ATAATATAATATGATT
1 ATAA-ATTATATTA-T
*
87854834 ATAATTTA-ATTAT
1 ATAAATTATATTAT
87854847 CATAAATTCATATTAT
1 -ATAAATT-ATATTAT
87854863 ATAAATTATATTTAT
1 ATAAATTATA-TTAT
*
87854878 ATATCATTA-ATTAT
1 ATA-AATTATATTAT
87854892 ATAA
1 ATAA
87854896 TTTAAAACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.08
14 21 0.34
15 21 0.34
16 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (14 bp):
ATAAATTATATTAT
Found at i:87855032 original size:17 final size:18
Alignment explanation
Indices: 87854997--87855032 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
87854987 TATTGTTCTA
*
87854997 TAATTCAATTTTTATCCT
1 TAATTCAATTTTAATCCT
87855015 TAATTCAA-TTTAATCCT
1 TAATTCAATTTTAATCCT
87855032 T
1 T
87855033 TTTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTCAATTTTAATCCT
Found at i:87855709 original size:15 final size:15
Alignment explanation
Indices: 87855689--87855736 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
87855679 AGTTTAATTA
87855689 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
87855704 AATTT-AA--TAAA-
1 AATTTAAATTTAAAT
* *
87855715 AATATATATTTAAAT
1 AATTTAAATTTAAAT
87855730 AATTTAA
1 AATTTAA
87855737 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
14 6 0.24
15 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:87855751 original size:25 final size:25
Alignment explanation
Indices: 87855681--87855759 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
87855671 AACTAGCAAG
*
87855681 TTTAATTAAATTTAAATTTAAATAA
1 TTTAATTAAATTTATATTTAAATAA
* *
87855706 TTTAATAAAAATATATATTTAAATAA
1 TTTAAT-TAAATTTATATTTAAATAA
* *
87855732 TTTAATTAAATTTATTTTTAATTAA
1 TTTAATTAAATTTATATTTAAATAA
87855757 TTT
1 TTT
87855760 TGTTTGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 24 0.52
26 22 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTAATTAAATTTATATTTAAATAA
Found at i:87858212 original size:14 final size:14
Alignment explanation
Indices: 87858170--87858226 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
87858160 CGACATATTA
* *
87858170 TTTTATTAATAAAT
1 TTTTATTATTATAT
*
87858184 TTTT-TTA-AATA-
1 TTTTATTATTATAT
*
87858195 TTTTATTATTTTAT
1 TTTTATTATTATAT
87858209 TTTTATTATTATAT
1 TTTTATTATTATAT
87858223 TTTT
1 TTTT
87858227 TAAAAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 5 0.14
14 21 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTATTATAT
Found at i:87858490 original size:13 final size:14
Alignment explanation
Indices: 87858469--87858497 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87858459 AGAAAAAAAA
87858469 AAGAGAAGAAGAAG
1 AAGAGAAGAAGAAG
87858483 AAGA-AAGAAGAAG
1 AAGAGAAGAAGAAG
87858496 AA
1 AA
87858498 ATAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAGAAGAAGAAG
Found at i:87858565 original size:17 final size:17
Alignment explanation
Indices: 87858522--87858576 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
87858512 TAGTTAAATT
87858522 TTTATAATTATTT-TAAA
1 TTTA-AATTATTTGTAAA
*
87858539 ATTAAATTATTTGT-AA
1 TTTAAATTATTTGTAAA
87858555 TTTAGAATTATTTGATAAA
1 TTTA-AATTATTTG-TAAA
87858574 TTT
1 TTT
87858577 TTGTGTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 1 0.03
19 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTATTTGTAAA
Found at i:87858634 original size:60 final size:60
Alignment explanation
Indices: 87858526--87858643 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
87858516 TAAATTTTTA
* *
87858526 TAATTATTTTAAAATTAAATTATTTGTAATTTAGAATTATTTGATAAATT-TTTGTGTTAG
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGAATTATTTGATAAATTATTT-TGTTAG
* *
87858586 TAATTAATTTAAAATTAATTTATTAGTAATTTA-AGATTATATT-TTAAATTATTTTGTT
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGA-ATTAT-TTGATAAATTATTTTGTT
87858644 TAGTTTAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
59 1 0.02
60 45 0.88
61 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (60 bp):
TAATTAATTTAAAATTAAATTATTAGTAATTTAGAATTATTTGATAAATTATTTTGTTAG
Found at i:87858939 original size:16 final size:17
Alignment explanation
Indices: 87858902--87858939 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
87858892 CTGTATTATG
*
87858902 ATTTTTTTAGAAATATA
1 ATTTTTTAAGAAATATA
*
87858919 TTTTTTTAAGAAA-ATA
1 ATTTTTTAAGAAATATA
87858935 ATTTT
1 ATTTT
87858940 ATAGTTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
ATTTTTTAAGAAATATA
Found at i:87861003 original size:6 final size:6
Alignment explanation
Indices: 87860992--87861037 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
87860982 GCCGGAAGTA
* * *
87860992 GAGCCG GAGCCG GAGCCG GAGCCA GAGCCG GAGCCA GATCCG GAGC
1 GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGC
87861038 TACACTCCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.43, T:0.02
Consensus pattern (6 bp):
GAGCCG
Found at i:87861007 original size:12 final size:12
Alignment explanation
Indices: 87860991--87861037 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
87860981 CGCCGGAAGT
87860991 AGAGCCGGAGCC
1 AGAGCCGGAGCC
*
87861003 GGAGCCGGAGCC
1 AGAGCCGGAGCC
87861015 AGAGCCGGAGCC
1 AGAGCCGGAGCC
*
87861027 AGATCCGGAGC
1 AGAGCCGGAGC
87861038 TACACTCCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.23, C:0.32, G:0.43, T:0.02
Consensus pattern (12 bp):
AGAGCCGGAGCC
Found at i:87861310 original size:33 final size:33
Alignment explanation
Indices: 87861174--87861296 Score: 174
Period size: 33 Copynumber: 3.7 Consensus size: 33
87861164 TTCTACCTCC
* *
87861174 TATCCACCACCGTACTCCGCTCCTTCCGGTTCC
1 TATCCACCACCGTACTCCGCTCCTTCCGGCTCA
87861207 TATCCACCACCGTACTCCGCTCCTTCCGGCTCA
1 TATCCACCACCGTACTCCGCTCCTTCCGGCTCA
** * *
87861240 TATCCACCACCGTACTCTACTCCTGCTGGCTCA
1 TATCCACCACCGTACTCCGCTCCTTCCGGCTCA
* *
87861273 TATCCACCATCGTACTCTGCTCCT
1 TATCCACCACCGTACTCCGCTCCT
87861297 CCAGAGTCGT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.15, C:0.46, G:0.11, T:0.28
Consensus pattern (33 bp):
TATCCACCACCGTACTCCGCTCCTTCCGGCTCA
Found at i:87861335 original size:66 final size:66
Alignment explanation
Indices: 87861240--87861398 Score: 160
Period size: 66 Copynumber: 2.4 Consensus size: 66
87861230 TTCCGGCTCA
* * * ** * * * *
87861240 TATCCACCACCGTACTCTACTCCTGCTGGCTCATATCCACCATCGTACTCTGCTCCTCCAGAG-T
1 TATCCAGCGCCGTTCTCTACTCCCCCTGGCCCATATCCACCATCGTACTCTACTCCCCCAG-GCC
87861304 CG
65 CG
* * * * *
87861306 TATCC-GTCGCCGTTCTCTTCTCCCCCTGGCCCATATCCAGCGTCGTTCTCTACTCCCCCCGGCC
1 TATCCAG-CGCCGTTCTCTACTCCCCCTGGCCCATATCCACCATCGTACTCTACTCCCCCAGGCC
87861370 CG
65 CG
87861372 TATCCAGCGCCGTTCTCTACTCCCCCT
1 TATCCAGCGCCGTTCTCTACTCCCCCT
87861399 ACTCGAGTTC
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
65 1 0.01
66 73 0.97
67 1 0.01
ACGTcount: A:0.13, C:0.45, G:0.14, T:0.28
Consensus pattern (66 bp):
TATCCAGCGCCGTTCTCTACTCCCCCTGGCCCATATCCACCATCGTACTCTACTCCCCCAGGCCC
G
Found at i:87861353 original size:33 final size:33
Alignment explanation
Indices: 87861313--87861398 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
87861303 TCGTATCCGT
*
87861313 CGCCGTTCTCTTCTCCCCCTGGCCCATATCCAG
1 CGCCGTTCTCTACTCCCCCTGGCCCATATCCAG
* * *
87861346 CGTCGTTCTCTACTCCCCCCGGCCCGTATCCAG
1 CGCCGTTCTCTACTCCCCCTGGCCCATATCCAG
87861379 CGCCGTTCTCTACTCCCCCT
1 CGCCGTTCTCTACTCCCCCT
87861399 ACTCGAGTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.08, C:0.50, G:0.15, T:0.27
Consensus pattern (33 bp):
CGCCGTTCTCTACTCCCCCTGGCCCATATCCAG
Found at i:87861600 original size:20 final size:21
Alignment explanation
Indices: 87861560--87861609 Score: 93
Period size: 20 Copynumber: 2.4 Consensus size: 21
87861550 GGTTTTGTAT
87861560 TGTAAATTACTTTATTTTTTA
1 TGTAAATTACTTTATTTTTTA
87861581 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
87861601 TGTAAATTA
1 TGTAAATTA
87861610 TTTTTTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:87864524 original size:14 final size:14
Alignment explanation
Indices: 87864491--87864525 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
87864481 TCTCACAATT
*
87864491 TTCAAAATTTTTGA
1 TTCAAAATTTTTCA
*
87864505 TGCAAAATTTTTCA
1 TTCAAAATTTTTCA
87864519 TTCAAAA
1 TTCAAAA
87864526 CCTAGCAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCAAAATTTTTCA
Found at i:87865703 original size:32 final size:30
Alignment explanation
Indices: 87865636--87865708 Score: 74
Period size: 32 Copynumber: 2.4 Consensus size: 30
87865626 ATCAGTTAAT
* *
87865636 ATTTTATTATTTTTATATGATTAAATTAGA
1 ATTTTATTATTTTTATAAGATTAAAGTAGA
* * *
87865666 TTTTTATTATTTTTTTAAAGAGTTAAAGTATA
1 ATTTTATTATTTTTAT-AAGA-TTAAAGTAGA
*
87865698 ATTTTACTATT
1 ATTTTATTATT
87865709 ATTAATTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 14 0.41
31 3 0.09
32 17 0.50
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (30 bp):
ATTTTATTATTTTTATAAGATTAAAGTAGA
Found at i:87866145 original size:16 final size:17
Alignment explanation
Indices: 87866118--87866149 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
87866108 TAATTAACCA
87866118 AAAACAAAACAAAGAAG
1 AAAACAAAACAAAGAAG
87866135 AAAAC-AAACAAAGAA
1 AAAACAAAACAAAGAA
87866150 AAGAGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.12, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAACAAAACAAAGAAG
Found at i:87866152 original size:21 final size:20
Alignment explanation
Indices: 87866119--87866157 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87866109 AATTAACCAA
87866119 AAACAAAACAAAGAAGAAAAC
1 AAACAAAACAAAG-AGAAAAC
87866140 AAACAAAGA-AAAGAGAAA
1 AAACAAA-ACAAAGAGAAA
87866158 GGACCAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 11 0.65
22 1 0.06
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (20 bp):
AAACAAAACAAAGAGAAAAC
Found at i:87866294 original size:15 final size:14
Alignment explanation
Indices: 87866270--87866328 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 14
87866260 TTTTTTTTAA
87866270 AAAAATATAATAAT
1 AAAAATATAATAAT
87866284 AAAAATAATAATAAT
1 AAAAAT-ATAATAAT
**
87866299 -AAAATATTTTAA-
1 AAAAATATAATAAT
* *
87866311 AAAAATTTATTAAT
1 AAAAATATAATAAT
87866325 AAAA
1 AAAA
87866329 TAATATGTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 15 0.39
14 15 0.39
15 8 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAATATAATAAT
Found at i:87869028 original size:29 final size:28
Alignment explanation
Indices: 87868962--87869031 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
87868952 TATTCATAAA
*
87868962 TTTAAAATTTAATTTTTGTATTATTACT
1 TTTAAAATTTAATTTTTGTATTATTAAT
* * *
87868990 TTTAGTAATTTAGTTTTT-TATTTTTAAGAT
1 TTTA-AAATTTAATTTTTGTATTATT-A-AT
87869020 TTTAAAATTTAA
1 TTTAAAATTTAA
87869032 GTTCAATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 10 0.30
29 18 0.55
30 5 0.15
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTAATTTTTGTATTATTAAT
Found at i:87870190 original size:17 final size:16
Alignment explanation
Indices: 87870153--87870191 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
87870143 AATAAATAAT
87870153 TAAA-TAAATTAGAAA
1 TAAATTAAATTAGAAA
87870168 TAAAATTAAATTAGGAAA
1 T-AAATTAAATTA-GAAA
87870186 TAAATT
1 TAAATT
87870192 CGAATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 12 0.57
18 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTAGAAA
Found at i:87878024 original size:16 final size:18
Alignment explanation
Indices: 87878003--87878035 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
87877993 CATACTAGCT
87878003 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
87878019 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
87878036 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:87878665 original size:45 final size:45
Alignment explanation
Indices: 87878565--87878736 Score: 226
Period size: 45 Copynumber: 3.9 Consensus size: 45
87878555 CCGAGTTCAT
* * *
87878565 TCACTGGCATT-TCGCCTGCTAGGCTC-AAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
* * *
87878607 TCACCAGTATTATAGCCTACTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
*
87878652 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* *
87878697 TCATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
87878737 ATACTGTGCG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 8 0.07
43 13 0.11
44 8 0.07
45 85 0.74
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:87882287 original size:2 final size:2
Alignment explanation
Indices: 87882280--87882307 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87882270 TGTACCTTAA
87882280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87882308 GTATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87882849 original size:39 final size:39
Alignment explanation
Indices: 87882769--87883024 Score: 345
Period size: 39 Copynumber: 6.6 Consensus size: 39
87882759 AGGATTTTAA
* * * *
87882769 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATAT
*
87882807 CCGGGCTAAGTCCCGAAGGTATTCGTGCTGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
87882846 CCGGGCTAAGTCCCGAAGGCATTCTTGCTGACATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* * *
87882885 CCAGGTTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
87882924 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* * *
87882963 CCGGGCGAAGTCCCGAAGGCATTCGTGCTAATGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
*
87883002 CCGGGCTAAGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
87883025 TGGGTTGGAA
Statistics
Matches: 191, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
38 19 0.10
39 168 0.88
40 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
Found at i:87889187 original size:16 final size:18
Alignment explanation
Indices: 87889166--87889198 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
87889156 CATACTAGCT
87889166 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
87889182 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
87889199 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:87889829 original size:45 final size:45
Alignment explanation
Indices: 87889724--87889854 Score: 164
Period size: 45 Copynumber: 3.0 Consensus size: 45
87889714 AAACTTGAGT
* *
87889724 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
* *
87889765 TCATTTTACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
* *
87889810 GT-ATCTCACCGGCATTATAGCCTACTAGGCTCAAAGGCGCGAATA
1 -TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
87889855 ATACTGTGCG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 16 0.21
44 5 0.06
45 42 0.54
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
Found at i:87892536 original size:25 final size:26
Alignment explanation
Indices: 87892491--87892542 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
87892481 TTAAAATATT
87892491 ATTATTTTAATCAAAAATTATT-TTA
1 ATTATTTTAATCAAAAATTATTCTTA
* *
87892516 ATTATTTTTAA-CAAGAGTTATTCTTA
1 ATTA-TTTTAATCAAAAATTATTCTTA
87892542 A
1 A
87892543 AAAATAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTTTAATCAAAAATTATTCTTA
Found at i:87898673 original size:6 final size:6
Alignment explanation
Indices: 87898662--87898693 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
87898652 ATCAAAAAGG
*
87898662 TCCCAC TCCCAC TCCCAC TCCCGC TCCCAC TC
1 TCCCAC TCCCAC TCCCAC TCCCAC TCCCAC TC
87898694 GGAAAGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.66, G:0.03, T:0.19
Consensus pattern (6 bp):
TCCCAC
Found at i:87899448 original size:13 final size:13
Alignment explanation
Indices: 87899430--87899469 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
87899420 ATGTGTGGAG
*
87899430 AAGAAAAGAGAGA
1 AAGAAAGGAGAGA
87899443 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
87899456 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
87899469 A
1 A
87899470 CAGAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAGAGA
Found at i:87900197 original size:105 final size:101
Alignment explanation
Indices: 87899804--87900239 Score: 513
Period size: 101 Copynumber: 4.3 Consensus size: 101
87899794 ATAAATTGTT
* * *
87899804 GTGTTTTGTGAGTTTTTAGTAATGTAATTTTTTTT-AAAAAA--TATAGTTATTTTGTTAGTAGT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATAAT
*
87899866 TTATGATTAGGTTATAAATTGTTAATG--T--TTT-
66 TTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
*
87899897 GTGTTTTGTGATTTTTTTAGTAATGTAATTTCTTTT-AAAAAATTTCATAGTTATTTATTTTGTT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTTTTAAAAAAATTT-ATAG----TTATTTTGTT
* *
87899961 AATAATTTATGGGATTAGGTTGTAACTTGTTAGTGTTTAGTTTA
60 AATAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTTTA
* ** *
87900005 GGGTTTTGTGATTTTTTAGTAATGTAA--TTTTAAAAAAAAAATTATAGTTATTTTGTTAATAAT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATAAT
87900068 TTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
66 TTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTTTA
*
87900106 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAATAATTGTATAGTTATTTTGTTAGTA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAA-AATT-TATAGTTATTTTGTTAATA
*
87900171 ATTTATGATTAAGTTATATAAATTGTTAGTGTTTAGTTTA
64 ATTTATGATT-AGGT-TATAAATTGTTAGTGTTTAGTTTA
* *
87900211 TTATTTTGTGA-TTTTT--TAATGTAATTTTT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTT
87900240 ATATAATTTG
Statistics
Matches: 298, Mismatches: 22, Indels: 37
0.83 0.06 0.10
Matches are distributed among these distances:
93 11 0.04
94 28 0.09
96 1 0.00
97 4 0.01
99 7 0.02
100 1 0.00
101 86 0.29
102 13 0.04
103 29 0.10
104 8 0.03
105 71 0.24
106 10 0.03
107 19 0.06
108 10 0.03
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.55
Consensus pattern (101 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTTAAAAAAATTTATAGTTATTTTGTTAATAAT
TTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
Found at i:87905326 original size:5 final size:5
Alignment explanation
Indices: 87905316--87905342 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
87905306 AACCTAAATT
87905316 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
87905343 CAACATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:87905350 original size:15 final size:15
Alignment explanation
Indices: 87905316--87905350 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
87905306 AACCTAAATT
*
87905316 AATAAAATAAAATAA
1 AATAAAATAAAACAA
87905331 AATAAAATAAAACAA
1 AATAAAATAAAACAA
*
87905346 CATAA
1 AATAA
87905351 TATCTTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAATAAAACAA
Found at i:87912628 original size:27 final size:27
Alignment explanation
Indices: 87912598--87912655 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
87912588 ATTAAGCACT
* *
87912598 AGTGCCGCCTAT-AAGGTAGGAGTCACC
1 AGTGCCGCCTATCAA-ATAGGAGTCACA
*
87912625 AGTGGCGCCTATCAAATAGGAGTCACA
1 AGTGCCGCCTATCAAATAGGAGTCACA
87912652 AGTG
1 AGTG
87912656 GTGCCTACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.19
Consensus pattern (27 bp):
AGTGCCGCCTATCAAATAGGAGTCACA
Found at i:87912796 original size:21 final size:22
Alignment explanation
Indices: 87912766--87912806 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
87912756 GCACCACTAA
*
87912766 TAAAATAATATT-TAAAAAAAT
1 TAAAAAAATATTATAAAAAAAT
87912787 TAAAAAAATATTATAAAAAA
1 TAAAAAAATATTATAAAAAA
87912807 GGTGGTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAAATATTATAAAAAAAT
Found at i:87912804 original size:12 final size:12
Alignment explanation
Indices: 87912765--87912806 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
87912755 GGCACCACTA
87912765 ATAAAATAATATT
1 ATAAAA-AATATT
87912778 -TAAAAAA-ATT
1 ATAAAAAATATT
87912788 A-AAAAAATATT
1 ATAAAAAATATT
87912799 ATAAAAAA
1 ATAAAAAA
87912807 GGTGGTGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAAAAAATATT
Found at i:87916580 original size:69 final size:69
Alignment explanation
Indices: 87916435--87916858 Score: 591
Period size: 69 Copynumber: 6.0 Consensus size: 69
87916425 CTTTTATGAG
* * * *
87916435 TTGTTTTATCTATTTATTTATTTTTTATTTTTTTTACTTTTTAAATATTTAAATTTAATATTGTT
1 TTGTTTTATCTATTTATTTATTTATTA-TTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
* *
87916500 TGTCT
65 TATAT
*
87916505 TGGTTTTATCTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAATTTGATATTATT
1 TTGTTTTATCTATTTATTTATTTATTATT-CTTTTACTTTTTAAATATTTAAATTTGATATTATT
*
87916569 TAAAT
65 TATAT
*
87916574 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAACATTTGATAT
1 TTG--TT-T-TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAA-ATTTGATAT
87916639 TATTTATAT
61 TATTTATAT
87916648 TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
1 TTGTTTTATCTATTTATTTATTTA----TTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
87916713 ATTTATAT
62 ATTTATAT
* *
87916721 TT-TTTTATCTATTTATTTATTTGTTATTCCTTTACTTTTTAAATATTTAAATTTGATATTATTT
1 TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
*
87916785 ATAC
66 ATAT
* * * *
87916789 TTGTTTCATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAATTTGATATAATTT
1 TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
87916854 ATAT
66 ATAT
87916858 T
1 T
87916859 CTATTTTCAT
Statistics
Matches: 320, Mismatches: 22, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
68 45 0.14
69 93 0.29
70 46 0.14
71 3 0.01
72 28 0.09
73 58 0.18
74 47 0.15
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (69 bp):
TTGTTTTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
ATAT
Found at i:87916740 original size:215 final size:208
Alignment explanation
Indices: 87916435--87916858 Score: 643
Period size: 215 Copynumber: 2.0 Consensus size: 208
87916425 CTTTTATGAG
*
87916435 TTGTTTTATCTATTTATTTATTTTTTATTTTTTTTACTTTTTAAATATTTAAATTTAATATTGTT
1 TTGTTTTATCTATTTATTTATTTTTTATTTTTTTTACTTTTTAAATATTTAAATTTAATATTATT
* * *
87916500 TGTCTTGGTTTTATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATTTGATAT
66 TATATTGGTTTTATCTATTTATTTATTTATTATTCCTTTACTTTTTAAATATTTAAATTTGATAT
* * * *
87916565 TATTTAAATTTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAC
131 TATTTAAACTTG--TT-TC-ATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAA-
*
87916630 ATTTGATATTATTTATAT
191 ATTTGATATAATTTATAT
* *
87916648 TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
1 TTGTTTTATCTATTTATTTATTT-TTTATT-TT-TTTTACTTTTTAAATATTTAAATTTAATATT
* *
87916713 ATTTATATT-TTTTTATCTATTTATTTATTTGTTATTCCTTTACTTTTTAAATATTTAAATTTGA
63 ATTTATATTGGTTTTATCTATTTATTTATTTATTATTCCTTTACTTTTTAAATATTTAAATTTGA
*
87916777 TATTATTTATACTTGTTTCATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAAT
128 TATTATTTAAACTTGTTTCATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAAT
87916842 TTGATATAATTTATAT
193 TTGATATAATTTATAT
87916858 T
1 T
87916859 CTATTTTCAT
Statistics
Matches: 194, Mismatches: 14, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
210 18 0.09
211 41 0.21
212 2 0.01
213 25 0.13
214 5 0.03
215 67 0.35
216 36 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (208 bp):
TTGTTTTATCTATTTATTTATTTTTTATTTTTTTTACTTTTTAAATATTTAAATTTAATATTATT
TATATTGGTTTTATCTATTTATTTATTTATTATTCCTTTACTTTTTAAATATTTAAATTTGATAT
TATTTAAACTTGTTTCATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAATTTG
ATATAATTTATAT
Found at i:87917036 original size:21 final size:21
Alignment explanation
Indices: 87917011--87917053 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87917001 TACTCACAAG
87917011 TATGACATTTTTATTTTACCT
1 TATGACATTTTTATTTTACCT
87917032 TATGACATTTTTATTTTACCT
1 TATGACATTTTTATTTTACCT
87917053 T
1 T
87917054 TTATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (21 bp):
TATGACATTTTTATTTTACCT
Found at i:87917079 original size:21 final size:21
Alignment explanation
Indices: 87917054--87917105 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
87917044 ATTTTACCTT
*
87917054 TTATTTATTTTCTTTAT-TCA
1 TTATTTATTTTATTTATGTCA
87917074 TCTATTTA-TTTATTTATGTCA
1 T-TATTTATTTTATTTATGTCA
87917095 TTATTTCATTT
1 TTATTT-ATTT
87917106 CTTCACCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 14 0.52
21 11 0.41
22 2 0.07
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTATTTTATTTATGTCA
Found at i:87928776 original size:22 final size:22
Alignment explanation
Indices: 87928734--87928777 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87928724 AATTATTTAC
* *
87928734 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
87928756 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
87928778 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:87929078 original size:40 final size:40
Alignment explanation
Indices: 87929004--87929264 Score: 386
Period size: 40 Copynumber: 6.6 Consensus size: 40
87928994 AACCCAAGTA
* * *
87929004 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
* *
87929043 TCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
87929083 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
87929123 -CTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
87929162 CCTGT-GGGACTTAGCCTGGATATAGTCAATAGCACAAAAG
1 CCT-TCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
87929202 CCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAAAC
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
87929242 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
87929265 CATTCGAATA
Statistics
Matches: 201, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
39 49 0.24
40 148 0.74
41 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:87929135 original size:79 final size:80
Alignment explanation
Indices: 87929004--87929264 Score: 395
Period size: 79 Copynumber: 3.3 Consensus size: 80
87928994 AACCCAAGTA
* * * *
87929004 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGTCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
87929067 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
87929083 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG-CTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
87929147 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
* * * *
87929162 CCTGT-GGGACTTAGCCTGGATATAGTCAATAGCACAAAAGCCTTCGAGACTTAGCCCGGATATA
1 CCT-TCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
87929226 GTCAATAGCACAAAAC
65 GTCAATAGCACAAAAG
87929242 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
87929265 CATTCGAATA
Statistics
Matches: 168, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
79 87 0.52
80 80 0.48
81 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:87929229 original size:119 final size:120
Alignment explanation
Indices: 87929004--87929264 Score: 386
Period size: 119 Copynumber: 2.2 Consensus size: 120
87928994 AACCCAAGTA
* * * * *
87929004 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGTCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAG
* * *
87929068 TCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAAT
66 TCAATAGCACAAAAGCCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAAAC
* *
87929122 GCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAGCCTGT-GGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAAAGCCT-TCGGGACTTAGCCCGGATAT
87929185 AGTCAATAGCACAAAAGCCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAAAC
64 AGTCAATAGCACAAAAGCCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAAAC
87929242 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
87929265 CATTCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
118 12 0.09
119 87 0.68
120 29 0.23
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAGCCTTCGAGACTTAGCCCGGATATAGTCAATAGCACAAAAC
Found at i:87937110 original size:62 final size:62
Alignment explanation
Indices: 87937009--87937140 Score: 230
Period size: 62 Copynumber: 2.1 Consensus size: 62
87936999 AAGGGCAACT
87937009 GAAA-TTTAGATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAAAAAGGA
1 GAAACTTTAGATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAAAAAGGA
* **
87937070 GAAACTTTAGATTGAAGATTAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGA
1 GAAACTTTAGATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAAAAAGGA
87937132 GAAACTTTA
1 GAAACTTTA
87937141 CATCTTCGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
61 4 0.06
62 63 0.94
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (62 bp):
GAAACTTTAGATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAAAAAGGA
Found at i:87939735 original size:50 final size:50
Alignment explanation
Indices: 87939666--87939781 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
87939656 TATCTCCCTG
87939666 AAGTTGCAGTGGAGCAGATTGAAGTCACCAT-AGCAAATCTTATCTCTTTT
1 AAGTTGCAGTGGAGCAGATTGAAGTCACCATGA-CAAATCTTATCTCTTTT
* * * ** *
87939716 AAGTTGTAGTGGAGTAGATTGAAGTTACCATGACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGTCACCATGACAAATCTTATCTCTTTT
*
87939766 AAGTTACAGTGGAGCA
1 AAGTTGCAGTGGAGCA
87939782 AATTAAAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (50 bp):
AAGTTGCAGTGGAGCAGATTGAAGTCACCATGACAAATCTTATCTCTTTT
Found at i:87939811 original size:44 final size:44
Alignment explanation
Indices: 87939655--87939952 Score: 278
Period size: 44 Copynumber: 6.5 Consensus size: 44
87939645 ACCGCTCATT
*
87939655 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAG----C-TA-CAAATC
** * * * *
87939705 TTATCTCTTTTAAGTTGTAGTGGAGTAGATTGAAGTTACCATGACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAG----C-T-ACAAATC
* *
87939755 TTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* * *
87939799 TTATCTTCCTGAAGTTACAGTGGAGTAAATTGAAG-TACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* *
87939842 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT-
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* * * * *
87939885 TTGATTTCGCTGAAGTTGCTGTGGAGCAGATTGAAGCGACAAATC
1 TT-ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
87939930 TTAT-TCCTCTGAAGTTGCAGTGG
1 TTATCTCC-CTGAAGTTGCAGTGG
87939953 GTCAGATTAA
Statistics
Matches: 214, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
43 42 0.20
44 98 0.46
45 3 0.01
46 1 0.00
50 69 0.32
51 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
Found at i:87939898 original size:87 final size:88
Alignment explanation
Indices: 87939747--87939963 Score: 282
Period size: 87 Copynumber: 2.5 Consensus size: 88
87939737 AAGTTACCAT
* *
87939747 GACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCTACAAATCTTATCTTCCTGAA
1 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGAA
*
87939812 GTTACAGTGGAGTAAATTGAAG-
66 GTTACAGTGGAGCAAATTGAAGC
* * *
87939834 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT-TTGAT-TTCGCTG
1 GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTT-ATCTTC-CTG
* * *
87939897 AAGTTGCTGTGGAGCAGATTGAAGC
64 AAGTTACAGTGGAGCAAATTGAAGC
87939922 GACAAATCTTAT-TCCTCTGAAGTTGCAGTGG-GTCAGATTAAA
1 GACAAATCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTAAA
87939964 TCTGCCATAG
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
86 5 0.04
87 75 0.66
88 33 0.29
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (88 bp):
GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGAA
GTTACAGTGGAGCAAATTGAAGC
Found at i:87939942 original size:131 final size:134
Alignment explanation
Indices: 87939699--87939952 Score: 311
Period size: 131 Copynumber: 1.9 Consensus size: 134
87939689 GTCACCATAG
** * *
87939699 CAAATCTTATCTCTTTTAAGTTGTAGTGGAGTAGATTGAAGTTACCATGACAAATCTTATCTCCC
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-T--CATGACAAATCTTATCTCCC
* *
87939764 TGAAGTTACAGTGGAGCAAATTAAAGCTACAAATCTTATCTTCCTGAAGTTACAGTGGAGTAAAT
63 TGAAGTTACAGTGGAGCAAATTAAAGCGACAAATCTTATCCTCCTGAAGTTACAGTGGAGTAAAT
87939829 TGAAGTA
128 TGAAGTA
* *
87939836 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-C-T-ACAAAT-TTGATTTCGCTG
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTCATGACAAATCTT-ATCTCCCTG
* * * * *
87939897 AAGTTGCTGTGGAGCAGATTGAAGCGACAAATCTTATTCCT-CTGAAGTTGCAGTGG
65 AAGTTACAGTGGAGCAAATTAAAGCGACAAATCTTA-TCCTCCTGAAGTTACAGTGG
87939953 GTCAGATTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
130 2 0.02
131 58 0.57
132 4 0.04
133 1 0.01
137 37 0.36
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTCATGACAAATCTTATCTCCCTGA
AGTTACAGTGGAGCAAATTAAAGCGACAAATCTTATCCTCCTGAAGTTACAGTGGAGTAAATTGA
AGTA
Found at i:87952120 original size:73 final size:72
Alignment explanation
Indices: 87951954--87952348 Score: 523
Period size: 73 Copynumber: 5.6 Consensus size: 72
87951944 TCATTTTCTC
* *
87951954 TTATTCTTTTACTTTTTAAATATTTAAATTTGGTATTATTTAAAATTT-TTTATCTATTTATTTA
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT-ATATTTGTTTATCTATTTATTTA
87952018 TTTATTTG
65 TTTATTTG
* * *
87952026 TTATTCTTTTACTTTTTAAATATTTAAGTTTGGTATTATTTAAATTTGTTTCATCTATTTATTTA
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTT-ATCTATTTATTTA
87952091 TTTATTTG
65 TTTATTTG
* * *
87952099 TTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATA-TTATTTATC----TACTTAT
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTATCTATTTATTTAT
87952159 TT-TTT-
66 TTATTTG
* *
87952164 TTATTCTTTTACTTTTTAAATATTGAAAATTTGATATTATTTATATTTG-TT-T-TATCTATTTA
1 TTATTCTTTTACTTTTTAAATATT-TAAATTTGATATTATTTATATTTGTTTATCTATTTATTTA
87952226 TTTATTTG
65 TTTATTTG
* *
87952234 TTTTTCTTTTACTTTTTAAATATTTAAATTTTATATTATTTATATTTGTTTCATCTATTTATTTA
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTT-ATCTATTTATTTA
87952299 TTTA----
65 TTTATTTG
* *
87952303 TTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATT
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATT
87952349 CCCTTTTCAT
Statistics
Matches: 291, Mismatches: 18, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
65 25 0.09
66 23 0.08
67 10 0.03
68 8 0.03
69 68 0.23
70 25 0.09
71 9 0.03
72 49 0.17
73 74 0.25
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (72 bp):
TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTATCTATTTATTTAT
TTATTTG
Found at i:87952226 original size:23 final size:23
Alignment explanation
Indices: 87952200--87952299 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 23
87952190 AAATTTGATA
87952200 TTATTTATATTTGTTTTATCTAT
1 TTATTTATATTTGTTTTATCTAT
87952223 TTA-TT-TATTTGTTTT-TCT-T
1 TTATTTATATTTGTTTTATCTAT
* ** * * *
87952242 TTACTTTTTAAATATTTAAATTTTAT
1 TTA-TTTATATTTGTTT-TA-TCTAT
*
87952268 ATTATTTATATTTGTTTCATCTAT
1 -TTATTTATATTTGTTTTATCTAT
87952292 TTATTTAT
1 TTATTTAT
87952300 TTATTATTCT
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.07
20 3 0.05
21 12 0.21
22 8 0.14
23 11 0.19
24 4 0.07
25 3 0.05
26 10 0.17
27 3 0.05
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (23 bp):
TTATTTATATTTGTTTTATCTAT
Found at i:87952280 original size:69 final size:69
Alignment explanation
Indices: 87951954--87952348 Score: 528
Period size: 69 Copynumber: 5.7 Consensus size: 69
87951944 TCATTTTCTC
* * * *
87951954 TTATTCTTTTACTTTTTAAATATTTAAATTTGGTATTATTTAAAATTTTTTATCTATTTATTTAT
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT-ATATTTGTT-T-TATCTATTTAT
87952019 TTATTTG
63 TTATTTG
* * * *
87952026 TTATTCTTTTACTTTTTAAATATTTAAGTTTGGTATTATTTAAATTTGTTTCATCTATTTATTTA
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTG-TT--T-TATCTATTTA
87952091 TTTATTTG
62 TTTATTTG
* * *
87952099 TTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATA-TT-ATTTATCTACTTATTT-
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATTTATTTA
87952161 TTT-
66 TTTG
*
87952164 TTATTCTTTTACTTTTTAAATATTGAAAATTTGATATTATTTATATTTGTTTTATCTATTTATTT
1 TTATTCTTTTACTTTTTAAATATT-TAAATTTGATATTATTTATATTTGTTTTATCTATTTATTT
87952229 ATTTG
65 ATTTG
* * *
87952234 TTTTTCTTTTACTTTTTAAATATTTAAATTTTATATTATTTATATTTGTTTCATCTATTTATTTA
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATTTATTTA
*
87952299 TTTA
66 TTTG
* *
87952303 TTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATT
1 TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATT
87952349 CCCTTTTCAT
Statistics
Matches: 295, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
65 24 0.08
66 21 0.07
67 13 0.04
68 15 0.05
69 87 0.29
70 24 0.08
71 6 0.02
72 44 0.15
73 61 0.21
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (69 bp):
TTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATTTATTTA
TTTG
Found at i:87952381 original size:208 final size:207
Alignment explanation
Indices: 87951955--87952348 Score: 598
Period size: 208 Copynumber: 1.9 Consensus size: 207
87951945 CATTTTCTCT
* * * *
87951955 TATTCTTTTACTTTTTAAATATTTAAATTTGGTATTATTTAAAATTTTTTATCTATTTATTTATT
1 TATTCTTTTACTTTTTAAATATTAAAATTTGATATTATTTAAAATTTGTTATCTATCTATTTATT
* *
87952020 TATTTGTTATTCTTTTACTTTTTAAATATTTAAGTTTGGTATTATTTAAATTTGTTTCATCTATT
66 TATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTAAATTTGTTTCATCTATT
*
87952085 TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATTATTTATATTATTTA
131 TATTTATTTA--T-TTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATTATTTA
* * *
87952150 TCTACTTATTTTTTT
193 TCTACATATATTTTC
*
87952165 TATTCTTTTACTTTTTAAATATTGAAAATTTGATATTATTT-ATATTTGTT-T-TATCTATTTAT
1 TATTCTTTTACTTTTTAAATATT-AAAATTTGATATTATTTAAAATTTGTTATCTATCTATTTAT
* * *
87952227 TTATTTGTTTTTCTTTTACTTTTTAAATATTTAAATTTTATATTATTTATATTTGTTTCATCTAT
65 TTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTAAATTTGTTTCATCTAT
87952292 TTATTTATTTA-TTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATT
130 TTATTTATTTATTTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATT
87952349 CCCTTTTCAT
Statistics
Matches: 172, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
204 45 0.26
208 81 0.47
209 1 0.01
210 30 0.17
211 15 0.09
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (207 bp):
TATTCTTTTACTTTTTAAATATTAAAATTTGATATTATTTAAAATTTGTTATCTATCTATTTATT
TATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTAAATTTGTTTCATCTATT
TATTTATTTATTTATTCTTTTACTTTTTAAACATTTAAATTTAATATTATTTATATTATTTATCT
ACATATATTTTC
Found at i:87952548 original size:21 final size:20
Alignment explanation
Indices: 87952523--87952577 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
87952513 ATTTTACCTT
87952523 TTATTTATCTTCTTTAT-TCA
1 TTATTTAT-TTCTTTATGTCA
*
87952543 TCTATTTATTTGTTTATGTCA
1 T-TATTTATTTCTTTATGTCA
87952564 TTATTTCATTTCTT
1 TTATTT-ATTTCTT
87952578 CACCCTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.18, C:0.13, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTATTTCTTTATGTCA
Found at i:87957901 original size:15 final size:13
Alignment explanation
Indices: 87957876--87957925 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
87957866 TCTCACATTT
87957876 TTTTC-CTTTTTC
1 TTTTCTCTTTTTC
87957888 TTTATCATCTTTTTC
1 TTT-TC-TCTTTTTC
*
87957903 TTTTCTCATTTTC
1 TTTTCTCTTTTTC
*
87957916 TTTTCACTTT
1 TTTTCTCTTT
87957926 CTTTTGTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 3 0.09
13 17 0.53
14 2 0.06
15 10 0.31
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:87969374 original size:35 final size:35
Alignment explanation
Indices: 87969308--87969375 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
87969298 TTTATATGCC
* * ** **
87969308 ATGTTAAATGCAATATTGTATAGTATTGAGTTATA
1 ATGTTAAATACAATATTATATAACAAAGAGTTATA
87969343 ATGTTAAATACAATATTATATAACAAAGAGTTA
1 ATGTTAAATACAATATTATATAACAAAGAGTTA
87969376 AGAAATAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (35 bp):
ATGTTAAATACAATATTATATAACAAAGAGTTATA
Found at i:87974335 original size:37 final size:37
Alignment explanation
Indices: 87974294--87974392 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
87974284 TAATAATATT
*
87974294 TTAATAGTTTAATATTAAATTAA-ATTAAA-TACTTATC
1 TTAATAG--TAATATTAAATTAATATTAAAGTAATTATC
* *
87974331 TTAATAGTATTATTAATTTAATATTAAAGTAATTATC
1 TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
* *
87974368 TTAATATTAA-ATTTAATTTAATATT
1 TTAATAGTAATA-TTAAATTAATATT
87974393 TAGTTTAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
35 12 0.22
36 7 0.13
37 35 0.65
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (37 bp):
TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
Done.