Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 246 of 318
Found at i:78192596 original size:44 final size:44
Alignment explanation
Indices: 78192533--78192616 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
78192523 ACAGTAGCAG
**
78192533 TACGACACATATGGTGCCTCATCGACTCGAA-GTTGAAGTAACAA
1 TACGACACATATAATGCCTCATCGACTC-AAGGTTGAAGTAACAA
*
78192577 TACGACACTTATAATGCCTCATCGACTCAAGGTTGAAGTA
1 TACGACACATATAATGCCTCATCGACTCAAGGTTGAAGTA
78192617 TCCCTGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
TACGACACATATAATGCCTCATCGACTCAAGGTTGAAGTAACAA
Found at i:78199292 original size:40 final size:40
Alignment explanation
Indices: 78199205--78199301 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
78199195 ACCATCTCCG
* * * *
78199205 TCCAACCCAACACACC-A-TATGGGGATAAGATCGACTCA
1 TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCCA
* * *
78199243 CCCAGCCCTACAAACCAAGTATGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCCA
78199283 TCCAACCCTACACACCAAG
1 TCCAACCCTACACACCAAG
78199302 AGGTACCGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 12 0.26
39 1 0.02
40 34 0.72
ACGTcount: A:0.38, C:0.35, G:0.13, T:0.13
Consensus pattern (40 bp):
TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCCA
Found at i:78209418 original size:40 final size:40
Alignment explanation
Indices: 78209331--78209427 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
78209321 ACCATCTCTG
* * *
78209331 TCCAACCCAACACACC-A-TATGGGGATAAGATCGACCAA
1 TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCAA
* * * * *
78209369 CCCAGCCCTACAAACCAAGTATGGGGATAAAATTAACCCA
1 TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCAA
78209409 TCCAACCCTACACACCAAG
1 TCCAACCCTACACACCAAG
78209428 AGGTACCGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 12 0.26
39 1 0.02
40 33 0.72
ACGTcount: A:0.39, C:0.34, G:0.13, T:0.13
Consensus pattern (40 bp):
TCCAACCCTACACACCAAGTATGGGGATAAAATCAACCAA
Found at i:78219613 original size:46 final size:46
Alignment explanation
Indices: 78219563--78219735 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
78219553 TGGTTGAGCA
*
78219563 TCCGAACTCGTTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
78219609 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
78219654 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
78219702 CCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
78219736 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:78231640 original size:6 final size:6
Alignment explanation
Indices: 78231629--78231662 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78231619 AGGTTTCCAA
* *
78231629 AAATGG AAATGG AAATGG AAATGA AAATGT AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
78231663 AAGTCATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (6 bp):
AAATGG
Found at i:78231854 original size:26 final size:26
Alignment explanation
Indices: 78231825--78231881 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
78231815 TACCTGAACC
*
78231825 AAAATCGTCAAAATTTTACTAAGGAT
1 AAAATCATCAAAATTTTACTAAGGAT
* *
78231851 AAAATCATCAAAATTTTACTAGGGGT
1 AAAATCATCAAAATTTTACTAAGGAT
78231877 AAAAT
1 AAAAT
78231882 AGGAATGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (26 bp):
AAAATCATCAAAATTTTACTAAGGAT
Found at i:78233940 original size:12 final size:12
Alignment explanation
Indices: 78233923--78233947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78233913 ATGTAAGTGA
78233923 TCTTGATGATTT
1 TCTTGATGATTT
78233935 TCTTGATGATTT
1 TCTTGATGATTT
78233947 T
1 T
78233948 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:78234749 original size:47 final size:46
Alignment explanation
Indices: 78234639--78234905 Score: 219
Period size: 47 Copynumber: 5.7 Consensus size: 46
78234629 ACTTATGTGT
* * * *
78234639 GCTAGTGTAAGA-CATGTCTTGGACATGCATCGGCCACATTA-TGGAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GACAC-TGAGAGGAA
* *
78234685 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACACTGAGAGGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACACTGAGAGGA-A
*
78234733 GCTAGTGTAAGA-CATGTCTGGGACATGCATC-AGC-CTCGAGATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGA-CACT-GAGA-GGAA
* * * *
78234779 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTAC-GAGATGAT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGAC-ACTGAGAGGAA
* * *
78234824 GGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGA-TATGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGACACTGAGAGGA--A
*
78234872 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
78234906 GTACCTTACC
Statistics
Matches: 184, Mismatches: 21, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
45 5 0.03
46 69 0.38
47 84 0.46
48 26 0.14
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACACTGAGAGGAA
Found at i:78234855 original size:140 final size:141
Alignment explanation
Indices: 78234642--78234904 Score: 365
Period size: 140 Copynumber: 1.9 Consensus size: 141
78234632 TATGTGTGCT
* *
78234642 AGTGTAAGACATGTCTTGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGG
* *
78234707 GACATGGCATCAACACTGAGAGGA-GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCT
66 GACATGGCATCAAC-CTGAGA-GATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
78234769 CGAGATGTAAGCC
129 CGAGATGTAAGCC
* * *
78234782 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GATGGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGGAAGCT-AGTGTAAGACCATGTCT
* * *
78234845 GGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
64 GGGACATGGCATCAACCTGAGAGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
78234905 GGTACCTTAC
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 21 0.19
140 80 0.74
141 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCAACCTGAGAGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCG
AGATGTAAGCC
Found at i:78240023 original size:40 final size:40
Alignment explanation
Indices: 78239844--78240022 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
78239834 GCTCCTCGTT
* * *
78239844 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
78239884 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
78239924 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
78239964 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
78240005 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
78240023 GCCTGGACAT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:78248300 original size:47 final size:44
Alignment explanation
Indices: 78248230--78248497 Score: 172
Period size: 47 Copynumber: 5.8 Consensus size: 44
78248220 TGTGTGTGCT
*
78248230 AGTGTAAGACATGT-TCGGGACATGCATCGGCCACATTATGGAAGCT
1 AGTGTAAGACATGTCT-GGGACATGCATCGG-CACA-TATGGAAGCC
* * *
78248276 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TAAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATATG--GA-AGCC
* * * *
78248324 AGTGTAAGACATGTCTGGGACATGCATCAGTCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCAC-ATATGGAAGCC
* *
78248370 AGTGTAAGACATGTCTAGGACATGCATC-G-A-TTATGAGATGATGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACATATG-GA--A--GCC
* *
78248416 AGTGTAAGACCATGTCTGGGACATGACATCGACTTGAGATAT-G-AGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC---ACATATGGAAGCC
*
78248463 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC
78248498 CTTACCCATA
Statistics
Matches: 178, Mismatches: 21, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
44 2 0.01
45 3 0.02
46 55 0.31
47 81 0.46
48 25 0.14
49 3 0.02
52 1 0.01
53 1 0.01
54 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATATGGAAGCC
Found at i:78248374 original size:46 final size:46
Alignment explanation
Indices: 78248270--78248494 Score: 210
Period size: 47 Copynumber: 4.8 Consensus size: 46
78248260 CCACATTATG
* * * *
78248270 GAAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACTAAGAT
1 GAAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGTCTC-GAGAT
* *
78248317 GAGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGTCTCGAGAT
1 GA-AGCCAGTGTAAGACCATGTCTGGGACATGCATCAGTCTCGAGAT
* * *
78248363 GTAAGCCAGTGTAAGA-CATGTCTAGGACATGCATCGATTAT-GAGAT
1 G-AAGCCAGTGTAAGACCATGTCTGGGACATGCATC-AGTCTCGAGAT
* * *
78248409 GATGGCCAGTGTAAGACCATGTCTGGGACATGACATC-GACTTGAGAT
1 GA-AGCCAGTGTAAGACCATGTCTGGGACATG-CATCAGTCTCGAGAT
78248456 -ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 GA--AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAG
78248495 CACCTTACCC
Statistics
Matches: 151, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 59 0.39
47 73 0.48
48 18 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGTCTCGAGAT
Found at i:78252390 original size:43 final size:42
Alignment explanation
Indices: 78252234--78252392 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
78252224 TGTTACCGAG
* *
78252234 ATGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* * *
78252276 ATTGTGATTACGTGTAAGACCATGTTTGGGACATTGGAATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * *
78252320 AAT-TAATTTCATGTAAGGCCCTGTCTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
78252363 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
78252393 TATGGCTTTG
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.03
43 87 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:78261352 original size:13 final size:13
Alignment explanation
Indices: 78261334--78261365 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
78261324 TATAAAACTC
*
78261334 TGTTTTCAAGTTA
1 TGTTTTCAAGATA
78261347 TGTTTTCAAGATA
1 TGTTTTCAAGATA
78261360 TGTTTT
1 TGTTTT
78261366 ATGCGTGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (13 bp):
TGTTTTCAAGATA
Found at i:78262269 original size:18 final size:18
Alignment explanation
Indices: 78262248--78262316 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 18
78262238 ATTTTTGTTC
78262248 CGTTTTTGATAATTTCTA
1 CGTTTTTGATAATTTCTA
* *
78262266 CGTTTTTGTGATATGATTTTTGTTC
1 CG-TTTT-TGATA--A--TTT-CTA
78262291 CGTTTTTGATAATTTCTA
1 CGTTTTTGATAATTTCTA
78262309 CGTTTTTG
1 CGTTTTTG
78262317 TGATTGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
18 11 0.28
19 7 0.17
20 5 0.12
21 1 0.03
22 1 0.03
23 5 0.12
24 7 0.17
25 3 0.08
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.58
Consensus pattern (18 bp):
CGTTTTTGATAATTTCTA
Found at i:78262295 original size:43 final size:43
Alignment explanation
Indices: 78262234--78262320 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
78262224 TTGATTAAGG
78262234 TATGATTTTTGTTCCGTTTTTGATAATTTCTACGTTTTTGTGA
1 TATGATTTTTGTTCCGTTTTTGATAATTTCTACGTTTTTGTGA
78262277 TATGATTTTTGTTCCGTTTTTGATAATTTCTACGTTTTTGTGA
1 TATGATTTTTGTTCCGTTTTTGATAATTTCTACGTTTTTGTGA
78262320 T
1 T
78262321 TGTTGCTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (43 bp):
TATGATTTTTGTTCCGTTTTTGATAATTTCTACGTTTTTGTGA
Found at i:78262867 original size:16 final size:16
Alignment explanation
Indices: 78262846--78262916 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
78262836 GTTTGGTTCA
78262846 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
* *
78262862 CTGTAATTGAATAGAA
1 CTGTAATGGAATAGAG
* *
78262878 CTGCAATGGAATAAAG
1 CTGTAATGGAATAGAG
*
78262894 CTGTAATAGAATAGAG
1 CTGTAATGGAATAGAG
78262910 CTGTAAT
1 CTGTAAT
78262917 AAGTAATTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 44 0.98
17 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:78262886 original size:32 final size:32
Alignment explanation
Indices: 78262845--78262908 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
78262835 CGTTTGGTTC
* * *
78262845 ACTGTAATGGAATAAGGCTGTAATTGAATAGA
1 ACTGCAATGGAATAAAGCTGTAATAGAATAGA
78262877 ACTGCAATGGAATAAAGCTGTAATAGAATAGA
1 ACTGCAATGGAATAAAGCTGTAATAGAATAGA
78262909 GCTGTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (32 bp):
ACTGCAATGGAATAAAGCTGTAATAGAATAGA
Found at i:78262983 original size:44 final size:46
Alignment explanation
Indices: 78262902--78262990 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
78262892 AGCTGTAATA
78262902 GAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGGAATG
*
78262948 GAATAGAGCTGTAAT-AG-AATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATAAGTAATTCAAT-TGTTTGGTTGAATGGAAT
78262991 AGCTGTTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 23 0.56
45 2 0.05
46 15 0.37
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGGAATG
Found at i:78266911 original size:48 final size:48
Alignment explanation
Indices: 78266853--78267100 Score: 451
Period size: 48 Copynumber: 5.2 Consensus size: 48
78266843 ATATACACAC
* *
78266853 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78266901 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78266949 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
78266997 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78267045 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
78267093 ATCTCATA
1 ATCTCATA
78267101 GCCATTCGGC
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
48 195 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:78266967 original size:96 final size:96
Alignment explanation
Indices: 78266853--78267233 Score: 601
Period size: 96 Copynumber: 4.1 Consensus size: 96
78266843 ATATACACAC
* *
78266853 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
78266918 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
78266949 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
78267014 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
78267045 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC--A--T-AT-C-----T--
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
78267097 CA-TAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* *
78267127 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
78267192 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
78267223 ATCTCATATAT
1 ATCTCATATAT
78267234 CAATTTCAGC
Statistics
Matches: 263, Mismatches: 8, Indels: 28
0.88 0.03 0.09
Matches are distributed among these distances:
82 72 0.27
83 2 0.01
84 1 0.00
85 1 0.00
86 1 0.00
87 2 0.01
90 1 0.00
91 2 0.01
92 1 0.00
93 1 0.00
94 1 0.00
95 2 0.01
96 176 0.67
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:78267104 original size:34 final size:34
Alignment explanation
Indices: 78267065--78267134 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
78267055 TATTTCACAT
78267065 TAGCCATTCGGCTTTACCACATATACATATCTCA
1 TAGCCATTCGGCTTTACCACATATACATATCTCA
78267099 TAGCCATTCGGCTTTACCACATATACATATCTCA
1 TAGCCATTCGGCTTTACCACATATACATATCTCA
78267133 TA
1 TA
78267135 CATATTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (34 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78267106 original size:82 final size:82
Alignment explanation
Indices: 78267017--78267182 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 82
78267007 TATTTCACAT
* *
78267017 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78267082 CACATATACATATCTCA
66 CACATATACATATCTCA
78267099 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78267164 CACATATACATATCTCA
66 CACATATACATATCTCA
78267181 TA
1 TA
78267183 TATATTTCAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (82 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
CACATATACATATCTCA
Found at i:78267113 original size:130 final size:130
Alignment explanation
Indices: 78266969--78267230 Score: 515
Period size: 130 Copynumber: 2.0 Consensus size: 130
78266959 TATTTCACAT
*
78266969 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78267034 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78267099 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78267164 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78267229 TA
1 TA
78267231 TATCAATTTC
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (130 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78267231 original size:48 final size:48
Alignment explanation
Indices: 78267099--78267233 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
78267089 ACATATCTCA
*
78267099 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
*
78267147 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
78267195 TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
78267234 CAATTTCAGC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
Found at i:78270779 original size:29 final size:29
Alignment explanation
Indices: 78270720--78270909 Score: 172
Period size: 29 Copynumber: 6.7 Consensus size: 29
78270710 CTGACTGATT
* * *
78270720 TCGCACACATAGCG-CTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
78270748 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
**
78270777 TCGCACACATAGTGCCTCAA-TAACCAATC
1 TCGCACACATAGTGCCTCAATTAAAGAA-C
* *
78270806 TCGCACACATAGTG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* * * ** *
78270834 TTGCACACACAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* ** *
78270863 TGGCACACATAGTG-CTCGGTTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
78270891 TTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCCTCA
78270910 TAATTCCAGC
Statistics
Matches: 128, Mismatches: 29, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
28 54 0.42
29 74 0.58
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:78270787 original size:57 final size:57
Alignment explanation
Indices: 78270747--78270909 Score: 166
Period size: 57 Copynumber: 2.8 Consensus size: 57
78270737 GATTATAGAA
*
78270747 CTCGCACACATAGTGCCTCAATTAAAGAACTCGCACACATAGTGCCTCAATAACCAAT
1 CTCGCACACATAGTG-CTCAATTAAAGAACTCGCACACATAGCGCCTCAATAACCAAT
* * * * * **
78270805 CTCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACT-ACTGAT
1 CTCGCACACATAGTGCTCAATTAAAGAACTCGCACACATAGCGCCTCAA-TAACCAAT
* ** * * * *
78270862 CTGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 CTCGCACACATAGTGCTCAATTAAAGAACTCGCACACATAGCGCCTCA
78270910 TAATTCCAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
57 80 0.83
58 16 0.17
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
CTCGCACACATAGTGCTCAATTAAAGAACTCGCACACATAGCGCCTCAATAACCAAT
Found at i:78270823 original size:86 final size:86
Alignment explanation
Indices: 78270720--78270877 Score: 228
Period size: 86 Copynumber: 1.8 Consensus size: 86
78270710 CTGACTGATT
* *
78270720 TCGCACACATAGCGCTCGATT-ATAGAACTCGCACACATAGTGCCTCAATTAAAGAACTCGCACA
1 TCGCACACATAGCGCTCGATTGA-AGAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACA
78270784 CATAGTGCCTCAATAACCAATC
65 CATAGTGCCTCAATAACCAATC
* * ** * *
78270806 TCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACTGATCTGGCACAC
1 TCGCACACATAGCGCTCGATTGAAGAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACAC
78270871 ATAGTGC
66 ATAGTGC
78270878 TCGGTTGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 62 0.98
87 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (86 bp):
TCGCACACATAGCGCTCGATTGAAGAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACAC
ATAGTGCCTCAATAACCAATC
Found at i:78270981 original size:40 final size:40
Alignment explanation
Indices: 78270917--78271191 Score: 428
Period size: 40 Copynumber: 6.9 Consensus size: 40
78270907 TCATAATTCC
*
78270917 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
*
78270956 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
78270996 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
78271036 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* * *
78271076 AGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* * * *
78271116 AGCACGAATGCTCTTCGGGACTTAGCCCAGACATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* *
78271156 AGCACGAATGCTCTTCAGGACTTAGCCCGGCTATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
78271192 AACTCTCAAT
Statistics
Matches: 222, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.05
40 210 0.95
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:78272740 original size:48 final size:48
Alignment explanation
Indices: 78272682--78272929 Score: 442
Period size: 48 Copynumber: 5.2 Consensus size: 48
78272672 ATATACACAC
* *
78272682 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78272730 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78272778 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78272826 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
78272874 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
78272922 ATCTCATA
1 ATCTCATA
78272930 GCCATTCGGC
Statistics
Matches: 193, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 193 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:78272796 original size:96 final size:96
Alignment explanation
Indices: 78272682--78273062 Score: 583
Period size: 96 Copynumber: 4.1 Consensus size: 96
78272672 ATATACACAC
* *
78272682 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
78272747 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGACTTTACCACATATACAT
*
78272778 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
78272843 CATTAGCCATTCGACTTTACCACATATACAT
66 CATTAGCCATTCGACTTTACCACATATACAT
*
78272874 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC--A--T-AT-C-----T--
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
78272926 CA-TAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGACTTTACCACATATACAT
* *
78272956 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
78273021 CATTAGCCATTCGACTTTACCACATATACAT
66 CATTAGCCATTCGACTTTACCACATATACAT
78273052 ATCTCATATAT
1 ATCTCATATAT
78273063 CAATTTCAGC
Statistics
Matches: 260, Mismatches: 11, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
82 71 0.27
83 2 0.01
84 1 0.00
85 1 0.00
86 1 0.00
87 2 0.01
90 1 0.00
91 2 0.01
92 1 0.00
93 1 0.00
94 1 0.00
95 2 0.01
96 174 0.67
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGACTTTACCACATATACAT
Found at i:78272933 original size:34 final size:34
Alignment explanation
Indices: 78272894--78272963 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
78272884 TATTTCACAT
78272894 TAGCCATTCGGCTTTACCACATATACATATCTCA
1 TAGCCATTCGGCTTTACCACATATACATATCTCA
78272928 TAGCCATTCGGCTTTACCACATATACATATCTCA
1 TAGCCATTCGGCTTTACCACATATACATATCTCA
78272962 TA
1 TA
78272964 CATATTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (34 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78272935 original size:82 final size:82
Alignment explanation
Indices: 78272846--78273011 Score: 305
Period size: 82 Copynumber: 2.0 Consensus size: 82
78272836 TATTTCACAT
* *
78272846 TAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTAC
1 TAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78272911 CACATATACATATCTCA
66 CACATATACATATCTCA
*
78272928 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
1 TAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
78272993 CACATATACATATCTCA
66 CACATATACATATCTCA
78273010 TA
1 TA
78273012 TATATTTCAC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (82 bp):
TAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
CACATATACATATCTCA
Found at i:78272942 original size:130 final size:130
Alignment explanation
Indices: 78272798--78273059 Score: 497
Period size: 130 Copynumber: 2.0 Consensus size: 130
78272788 TATTTCACAT
*
78272798 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTAC
*
78272863 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66 CACATATACATATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
*
78272928 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTAC
78272993 CACATATACATATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
66 CACATATACATATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
78273058 TA
1 TA
78273060 TATCAATTTC
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (130 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGACTTTAC
CACATATACATATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
Found at i:78273060 original size:48 final size:48
Alignment explanation
Indices: 78272928--78273062 Score: 243
Period size: 48 Copynumber: 2.8 Consensus size: 48
78272918 ACATATCTCA
*
78272928 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
*
78272976 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
*
78273024 TAGCCATTCGACTTTACCACATATACATATCTCATATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
78273063 CAATTTCAGC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACAC
Found at i:78277677 original size:35 final size:35
Alignment explanation
Indices: 78277638--78277707 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
78277628 ATCAAGAGAG
78277638 AAAGATAACAAGGAGATGATGGGGAGCAAGAATAT
1 AAAGATAACAAGGAGATGATGGGGAGCAAGAATAT
*
78277673 AAAGATAGCAAGGAGATGATGGGGAGCAAGAATAT
1 AAAGATAACAAGGAGATGATGGGGAGCAAGAATAT
78277708 CAAGTTGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.33, T:0.14
Consensus pattern (35 bp):
AAAGATAACAAGGAGATGATGGGGAGCAAGAATAT
Found at i:78277702 original size:18 final size:18
Alignment explanation
Indices: 78277646--78277702 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
78277636 AGAAAGATAA
78277646 CAAGGAGATGATGGGGAG
1 CAAGGAGATGATGGGGAG
* * ** **
78277664 CAAGAATAT-AAAGATAG
1 CAAGGAGATGATGGGGAG
78277681 CAAGGAGATGATGGGGAG
1 CAAGGAGATGATGGGGAG
78277699 CAAG
1 CAAG
78277703 AATATCAAGT
Statistics
Matches: 26, Mismatches: 12, Indels: 2
0.65 0.30 0.05
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.42, C:0.07, G:0.39, T:0.12
Consensus pattern (18 bp):
CAAGGAGATGATGGGGAG
Found at i:78279371 original size:46 final size:46
Alignment explanation
Indices: 78279320--78279643 Score: 443
Period size: 46 Copynumber: 7.0 Consensus size: 46
78279310 GTGTGCTCTC
* *
78279320 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
78279366 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
78279412 TGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
78279458 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
78279504 TGACT-GGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGA-TATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
78279550 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* ** * * * *
78279596 TGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
78279642 TG
1 TG
78279644 TCAAAGATAA
Statistics
Matches: 255, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 254 1.00
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:78279944 original size:16 final size:17
Alignment explanation
Indices: 78279923--78279955 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78279913 ATTATGGAAC
78279923 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
78279939 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
78279956 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:78281388 original size:26 final size:26
Alignment explanation
Indices: 78281359--78281436 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
78281349 TGATACAAAT
*
78281359 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78281385 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78281411 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78281437 CGATGGGAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78285721 original size:21 final size:20
Alignment explanation
Indices: 78285697--78285736 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78285687 CAAGAGGTCG
*
78285697 TGGCCAAGGTCGTGGTGGCAA
1 TGGCCAAGGACGTGG-GGCAA
*
78285718 TGGCCATGGACGTGGGGCA
1 TGGCCAAGGACGTGGGGCA
78285737 CCTAGCAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.17
Consensus pattern (20 bp):
TGGCCAAGGACGTGGGGCAA
Found at i:78289575 original size:26 final size:26
Alignment explanation
Indices: 78289546--78289653 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
78289536 TGATACAAAT
78289546 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
78289572 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78289598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78289624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78289650 TGAT
1 TGAT
78289654 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78294862 original size:18 final size:18
Alignment explanation
Indices: 78294836--78294880 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
78294826 ATTGAGGGAT
78294836 GAAATTGAAATCTATTTC
1 GAAATTGAAATCTATTTC
*
78294854 GACATTGAAATCTATTTC
1 GAAATTGAAATCTATTTC
78294872 GAAATTGAA
1 GAAATTGAA
78294881 GCTCAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (18 bp):
GAAATTGAAATCTATTTC
Found at i:78297206 original size:28 final size:28
Alignment explanation
Indices: 78297151--78297209 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
78297141 CTCACGTCCT
*
78297151 GATGGACTTACCCCGTATTTACTGTCCC
1 GATGGACTTACCCCGTATTTACTATCCC
** * *
78297179 GATGGACTTACCTTGTGTTTATTATCCC
1 GATGGACTTACCCCGTATTTACTATCCC
78297207 GAT
1 GAT
78297210 AAACTTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (28 bp):
GATGGACTTACCCCGTATTTACTATCCC
Found at i:78297540 original size:51 final size:51
Alignment explanation
Indices: 78297432--78297540 Score: 112
Period size: 51 Copynumber: 2.1 Consensus size: 51
78297422 ATTCCATGCC
* * * *
78297432 ACCATAGAATCTTTCATCCATGGTCTTACGGCATATATCTTATACAAGATT
1 ACCATAGAATCTTTAATCCATGGTCTTACGACATATACCTTATACAAGACT
** ** * *
78297483 TTCATAGCCTCTTTAATCTATGGTCTTAC-ACAATATACCTTGTACAAGACT
1 ACCATAGAATCTTTAATCCATGGTCTTACGAC-ATATACCTTATACAAGACT
78297534 ACCATAG
1 ACCATAG
78297541 TGTGTTTCAT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
50 1 0.02
51 44 0.98
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (51 bp):
ACCATAGAATCTTTAATCCATGGTCTTACGACATATACCTTATACAAGACT
Found at i:78303127 original size:26 final size:26
Alignment explanation
Indices: 78303098--78303179 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
78303088 TGTGATCACG
78303098 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
78303124 TGTGTATTA-GATGGTG-AGG-TCAC-G
1 TGTGTAGTACTA-AGTGCAGGCT-ACTA
78303148 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
78303174 CGTGTA
1 TGTGTA
78303180 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 17 0.41
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:78311485 original size:43 final size:43
Alignment explanation
Indices: 78311424--78311533 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
78311414 GGGCTTTGAC
78311424 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTCGAG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTCGAG
* * * *
78311467 CCTAGCAAGCTATAATGCCGATGAAATAATATCGGGCTTCGAG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTCGAG
*
78311510 CCTAGCAGGCGA-AATGCCGGTGAA
1 CCTAGCAGGCTATAATGCCGGTGAA
78311534 TGAATTCAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 11 0.18
43 49 0.82
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (43 bp):
CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCCTCGAG
Found at i:78313521 original size:36 final size:36
Alignment explanation
Indices: 78313481--78313561 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
78313471 AATAATAATT
* * *
78313481 AATTATTCAATAATAATCGGT-TATTCAGTAACGGTC
1 AATTATTCAATAACAATCAGTCT-TTCAGTAACAGTC
* * *
78313517 AATTATTCAGTAACAGTCAGTCTTTCAGTAATAGTC
1 AATTATTCAATAACAATCAGTCTTTCAGTAACAGTC
78313553 AATTATTCA
1 AATTATTCA
78313562 GTACATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
AATTATTCAATAACAATCAGTCTTTCAGTAACAGTC
Found at i:78313562 original size:18 final size:18
Alignment explanation
Indices: 78313467--78313564 Score: 81
Period size: 18 Copynumber: 5.4 Consensus size: 18
78313457 TATCATTATC
* * *
78313467 ATTCAATAATAATTAATT
1 ATTCAGTAATAGTCAATT
* * **
78313485 ATTCAATAATAATCGGTT
1 ATTCAGTAATAGTCAATT
**
78313503 ATTCAGTAACGGTCAATT
1 ATTCAGTAATAGTCAATT
* *
78313521 ATTCAGTAACAGTCAGTCT
1 ATTCAGTAATAGTCAAT-T
78313540 -TTCAGTAATAGTCAATT
1 ATTCAGTAATAGTCAATT
78313557 ATTCAGTA
1 ATTCAGTA
78313565 CATTTATTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
17 1 0.02
18 63 0.97
19 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTCAGTAATAGTCAATT
Found at i:78313686 original size:6 final size:6
Alignment explanation
Indices: 78313675--78313703 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
78313665 TACACCGTAT
78313675 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
78313704 GCGGTACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:78313969 original size:20 final size:20
Alignment explanation
Indices: 78313944--78313986 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
78313934 TTCAGTACAT
78313944 TTTTCAGCT-AATCATATATA
1 TTTTCAGCTCAAT-ATATATA
*
78313964 TTTTCAGTTCAATATATATA
1 TTTTCAGCTCAATATATATA
78313984 TTT
1 TTT
78313987 CAATTCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTCAGCTCAATATATATA
Found at i:78313980 original size:18 final size:19
Alignment explanation
Indices: 78313957--78313993 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78313947 TCAGCTAATC
*
78313957 ATATATAT-TTTCAGTTCA
1 ATATATATATTTCAATTCA
78313975 ATATATATATTTCAATTCA
1 ATATATATATTTCAATTCA
78313994 CTTTACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATATATATTTCAATTCA
Found at i:78314848 original size:20 final size:18
Alignment explanation
Indices: 78314813--78314856 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
78314803 AACCTTAAAA
78314813 TTTCCCTTTCTTCTTTCT
1 TTTCCCTTTCTTCTTTCT
78314831 TTTCTCCTTTCTTTCTTTC-
1 TTTC-CCTTTC-TTCTTTCT
78314850 TTTCCCT
1 TTTCCCT
78314857 ACTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTCTTCTTTCT
Found at i:78317381 original size:16 final size:17
Alignment explanation
Indices: 78317360--78317393 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
78317350 AAATAAGAAT
78317360 TGAAAACA-AAATAAAC
1 TGAAAACAGAAATAAAC
78317376 TGAAAACAGGAAATAAAC
1 TGAAAACA-GAAATAAAC
78317394 ATGCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (17 bp):
TGAAAACAGAAATAAAC
Found at i:78319003 original size:17 final size:19
Alignment explanation
Indices: 78318983--78319018 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
78318973 TTTTTATTGA
78318983 AATTTAATT-TT-ATTTTT
1 AATTTAATTATTAATTTTT
78319000 AATTTAATTATTAATTTTT
1 AATTTAATTATTAATTTTT
78319019 CTTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTAATTATTAATTTTT
Found at i:78321841 original size:49 final size:50
Alignment explanation
Indices: 78321753--78321876 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 50
78321743 TGAGGTCATG
* ** * *
78321753 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACCACGCATACCGGATAACTTGATCACA
* * *
78321802 TGTGTAGTACTAAGTGCAGACTACCATGCATACTC-GATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACCACGCATAC-CGGATAAC-TTGATCACA
78321853 TGTGTAGTACTAAGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
78321877 TATGTGTATC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 33 0.52
50 1 0.02
51 29 0.46
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACCACGCATACCGGATAACTTGATCACA
Found at i:78325780 original size:17 final size:19
Alignment explanation
Indices: 78325738--78325781 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
78325728 ATGAAATTTT
*
78325738 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
78325757 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
78325775 AA-TATTA
1 AATTATTA
78325782 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:78328136 original size:20 final size:20
Alignment explanation
Indices: 78328107--78328151 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
78328097 ATTTTGATAA
*
78328107 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
78328127 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78328147 ACATG
1 ACATG
78328152 GTGTATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78328284 original size:24 final size:24
Alignment explanation
Indices: 78328200--78328303 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
78328190 GAGGAAGTGC
78328200 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78328224 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
78328247 -AAAGGGGTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
78328270 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
78328294 AAAAGAGGCT
1 AAAAG-GGCT
78328304 AGGCCTTCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:78328293 original size:47 final size:46
Alignment explanation
Indices: 78328201--78328296 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 46
78328191 AGGAAGTGCA
78328201 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
78328247 AAAGGGGTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
78328294 AAA
1 AAA
78328297 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.47
47 25 0.53
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:78328546 original size:31 final size:31
Alignment explanation
Indices: 78328511--78328574 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
78328501 CGTTTACAGT
*
78328511 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
78328542 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
78328573 AA
1 AA
78328575 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:78329736 original size:15 final size:15
Alignment explanation
Indices: 78329716--78329744 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78329706 AAATTAAATC
78329716 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
78329731 TCAATAAAAAGGGA
1 TCAATAAAAAGGGA
78329745 AAAATTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.24, T:0.14
Consensus pattern (15 bp):
TCAATAAAAAGGGAG
Found at i:78329845 original size:11 final size:11
Alignment explanation
Indices: 78329829--78329853 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78329819 GGCTCAAAGA
78329829 GGTTCACTAGG
1 GGTTCACTAGG
78329840 GGTTCACTAGG
1 GGTTCACTAGG
78329851 GGT
1 GGT
78329854 CAATTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (11 bp):
GGTTCACTAGG
Found at i:78343477 original size:19 final size:21
Alignment explanation
Indices: 78343437--78343478 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78343427 TTCTCTTTTA
*
78343437 TTTATTTTTGTAAACTTATGT
1 TTTAATTTTGTAAACTTATGT
78343458 TTTAATTTT-TAAAC-TATGT
1 TTTAATTTTGTAAACTTATGT
78343477 TT
1 TT
78343479 ATTTTTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTAATTTTGTAAACTTATGT
Found at i:78347905 original size:18 final size:18
Alignment explanation
Indices: 78347882--78347918 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78347872 CTAGCAATAC
* *
78347882 ATCATTGCTGCCTAAGTT
1 ATCATTGCTACCCAAGTT
78347900 ATCATTGCTACCCAAGTT
1 ATCATTGCTACCCAAGTT
78347918 A
1 A
78347919 GAAGAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (18 bp):
ATCATTGCTACCCAAGTT
Found at i:78350163 original size:29 final size:29
Alignment explanation
Indices: 78350119--78350175 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
78350109 ATACCATATA
* * *
78350119 TAACAAATTCTGCCACTAGGGCTCACATG
1 TAACAAAGTCTACCACTAAGGCTCACATG
*
78350148 TAACAAAGTCTACCACTAATGCTCACAT
1 TAACAAAGTCTACCACTAAGGCTCACAT
78350176 ATAATAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (29 bp):
TAACAAAGTCTACCACTAAGGCTCACATG
Found at i:78354053 original size:25 final size:25
Alignment explanation
Indices: 78354011--78354075 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
78354001 TGTAAATAGT
* * * **
78354011 AAGCTCTTCCGAGATGAATAACGGG
1 AAGCTCATGCGAGCTGAATAACAAG
* *
78354036 AAGCTTATGCTAGCTGAATAACAAG
1 AAGCTCATGCGAGCTGAATAACAAG
78354061 AAGCTCATGCGAGCT
1 AAGCTCATGCGAGCT
78354076 AAGTATTGGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACAAG
Found at i:78360420 original size:30 final size:30
Alignment explanation
Indices: 78360386--78360444 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
78360376 TGTCGAAAAT
78360386 TTTGAATTCAATACAAGAGGAATAGACTAA
1 TTTGAATTCAATACAAGAGGAATAGACTAA
78360416 TTTGAATTCAATACAAGAGGAATAGACTA
1 TTTGAATTCAATACAAGAGGAATAGACTA
78360445 TGTCTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (30 bp):
TTTGAATTCAATACAAGAGGAATAGACTAA
Found at i:78364748 original size:5 final size:5
Alignment explanation
Indices: 78364738--78364792 Score: 83
Period size: 5 Copynumber: 10.6 Consensus size: 5
78364728 CCAATTTGTA
*
78364738 AAAAT AAAAT AAAAT AAAAT ACAAT AAAAT AAAAT AAAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAAT
78364790 AAA
1 AAA
78364793 GAACACACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 39 0.85
6 4 0.09
7 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:78368211 original size:32 final size:32
Alignment explanation
Indices: 78368172--78368236 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
78368162 AATACAATAA
78368172 AAAGATTGGAATTATGCACAATAAACTTTGTT
1 AAAGATTGGAATTATGCACAATAAACTTTGTT
78368204 AAAGATTGGAATTATGCACAATAAACTTTGTT
1 AAAGATTGGAATTATGCACAATAAACTTTGTT
78368236 A
1 A
78368237 CCTTGTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (32 bp):
AAAGATTGGAATTATGCACAATAAACTTTGTT
Found at i:78391096 original size:39 final size:37
Alignment explanation
Indices: 78391029--78391121 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
78391019 ACCAGAATGG
* *
78391029 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
78391068 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
78391105 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
78391122 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:78391501 original size:14 final size:15
Alignment explanation
Indices: 78391482--78391511 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78391472 ACTCATAATA
78391482 ATAATAA-TAATACT
1 ATAATAATTAATACT
78391496 ATAATAATTAATACT
1 ATAATAATTAATACT
78391511 A
1 A
78391512 ACATTATACT
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:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATAATTAATACT
Found at i:78392246 original size:17 final size:16
Alignment explanation
Indices: 78392214--78392247 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
78392204 TTGGCTATTC
*
78392214 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
78392230 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
78392247 T
1 T
78392248 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:78392295 original size:14 final size:14
Alignment explanation
Indices: 78392236--78392286 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
78392226 CTTTTGTTTC
*
78392236 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
78392249 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
78392264 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
78392278 TTTTATTTC
1 TTTTATTTC
78392287 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:78392455 original size:14 final size:17
Alignment explanation
Indices: 78392436--78392472 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
78392426 ATTTTTTTCT
78392436 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
78392450 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
78392467 TAATAT
1 TAATAT
78392473 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:78393127 original size:16 final size:16
Alignment explanation
Indices: 78393106--78393138 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
78393096 CATGGCCAAG
*
78393106 CCACACGCTCGTGTGC
1 CCACACGCTAGTGTGC
78393122 CCACACGCTAGTGTGC
1 CCACACGCTAGTGTGC
78393138 C
1 C
78393139 AGGCCGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.42, G:0.24, T:0.18
Consensus pattern (16 bp):
CCACACGCTAGTGTGC
Found at i:78396737 original size:20 final size:20
Alignment explanation
Indices: 78396712--78396777 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
78396702 AATTGTTGAA
*
78396712 TGTTTGCACATATGTGCCCC
1 TGTTTGCACATACGTGCCCC
* * *
78396732 TGTTTGTAC-TTCGGTACCCC
1 TGTTTGCACATAC-GTGCCCC
* *
78396752 TATTTGCACATACGTGCCCA
1 TGTTTGCACATACGTGCCCC
78396772 TGTTTG
1 TGTTTG
78396778 TACTTTAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (20 bp):
TGTTTGCACATACGTGCCCC
Found at i:78396769 original size:40 final size:40
Alignment explanation
Indices: 78396714--78396792 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
78396704 TTGTTGAATG
* * *
78396714 TTTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 TTTGCACATACGTGCCCATGTTTGTACTTCAGTACCCCTA
*
78396754 TTTGCACATACGTGCCCATGTTTGTACTTTAGTACCCCT
1 TTTGCACATACGTGCCCATGTTTGTACTTCAGTACCCCT
78396793 GAACCCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.38
Consensus pattern (40 bp):
TTTGCACATACGTGCCCATGTTTGTACTTCAGTACCCCTA
Found at i:78397935 original size:21 final size:20
Alignment explanation
Indices: 78397906--78397944 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78397896 GTGACCCCTG
78397906 TTTCCTAGAATTTTGTGAACT
1 TTTCCTAGAATTTT-TGAACT
* *
78397927 TTTCTTAGACTTTTTGAA
1 TTTCCTAGAATTTTTGAA
78397945 TGTTTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTCCTAGAATTTTTGAACT
Found at i:78398201 original size:73 final size:73
Alignment explanation
Indices: 78398066--78398202 Score: 168
Period size: 73 Copynumber: 1.9 Consensus size: 73
78398056 AATGATATTG
* * * *
78398066 TGTTTAGATGTTCTGATTGCACGATAATGCTCTGTTACCCTAATCTAGCAGCGAGTATAGGTTAG
1 TGTTTAGATGTTCCGATTGCACGATAATGCTCTGTAACCCTAATCTAGCAACGAGTACAGGTTAG
78398131 ATGCTCTA
66 ATGCTCTA
* * * * * *
78398139 TGTTTAGATGTTCCGATTGCACGGA-AATGTTTTGTAACCCTAATCTGGTAATGGGTACAGGTTA
1 TGTTTAGATGTTCCGATTGCAC-GATAATGCTCTGTAACCCTAATCTAGCAACGAGTACAGGTTA
78398203 AGGGTGTTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 51 0.96
74 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (73 bp):
TGTTTAGATGTTCCGATTGCACGATAATGCTCTGTAACCCTAATCTAGCAACGAGTACAGGTTAG
ATGCTCTA
Found at i:78403853 original size:29 final size:29
Alignment explanation
Indices: 78403808--78403866 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
78403798 TTCAAAATTT
* * *
78403808 AAAAATTCTATATATTT-AAATTCTCAAAA
1 AAAAATTCTACAAATTTCAAAAT-TCAAAA
78403837 AAAAATTCTACAAATTTCAAAATTCAAAA
1 AAAAATTCTACAAATTTCAAAATTCAAAA
78403866 A
1 A
78403867 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATTCTACAAATTTCAAAATTCAAAA
Found at i:78404518 original size:20 final size:19
Alignment explanation
Indices: 78404474--78404518 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
78404464 ATTAACCCAA
* *
78404474 TTTAAAATTATTTTGCATT
1 TTTAAAAATATGTTGCATT
*
78404493 TCTAAAAATATGTTGCAATT
1 TTTAAAAATATGTTGC-ATT
78404513 TTTAAA
1 TTTAAA
78404519 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTAAAAATATGTTGCATT
Found at i:78407183 original size:2 final size:2
Alignment explanation
Indices: 78407178--78407202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78407168 GCGCGCGCGC
78407178 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 A
78407203 ATCAAAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78417665 original size:27 final size:26
Alignment explanation
Indices: 78417625--78417736 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
78417615 AGCATGGCTG
* * **
78417625 CCAGAACATATAATGTGACAGAGTTA
1 CCAGAACAGATAATGTGGCAGAGCCA
78417651 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
78417679 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
78417706 CCAGATCAGATAATTGTGGAATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
78417733 CCAG
1 CCAG
78417737 GACGTTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:78419174 original size:24 final size:24
Alignment explanation
Indices: 78419147--78419217 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
78419137 CTAGATTTCC
** *
78419147 TCCCTTATCTGCTCTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
78419171 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
78419195 TCCCTTATCAACTTCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
78419218 CTCCTGGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.01, T:0.38
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:78440452 original size:30 final size:30
Alignment explanation
Indices: 78440418--78440480 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
78440408 ACTTAACAAG
*
78440418 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAACAAAAAAATTAA
*
78440448 CAAATGCCTTTAAAATAACAAGAAAATTAA
1 CAAATGCCTTTAAAATAACAAAAAAATTAA
78440478 CAA
1 CAA
78440481 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAACAAAAAAATTAA
Found at i:78441669 original size:3 final size:3
Alignment explanation
Indices: 78441661--78441685 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
78441651 TTTTAGTTAA
78441661 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
78441686 TAGACCACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:78442724 original size:33 final size:32
Alignment explanation
Indices: 78442651--78442724 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
78442641 ATTGTATAAC
* * *
78442651 TATTGTTTTCTTGTTAATTTACAACTATTTTA
1 TATTATTTTCTTGTTAAGTTACAAATATTTTA
* *
78442683 AAGGTATTTTCTTGTTAAGTTACAAATATTTTA
1 TA-TTATTTTCTTGTTAAGTTACAAATATTTTA
78442716 GTATTATTT
1 -TATTATTT
78442725 AAATATAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 31 0.94
34 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.55
Consensus pattern (32 bp):
TATTATTTTCTTGTTAAGTTACAAATATTTTA
Found at i:78444968 original size:29 final size:29
Alignment explanation
Indices: 78444931--78445025 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
78444921 TATTAATTAT
*
78444931 TTAATATTTATGAGGTCATTAGTGTCATG
1 TTAAAATTTATGAGGTCATTAGTGTCATG
* ** *
78444960 TTAAAATTTGACTATAAAT-ATTAAT-T-AT-
1 TTAAAATTT-A-T-GAGGTCATTAGTGTCATG
*
78444988 TTAATATTTATGAGGTCATTAGTGTCATG
1 TTAAAATTTATGAGGTCATTAGTGTCATG
78445017 TTAAAATTT
1 TTAAAATTT
78445026 GGTCTAGAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 2 0.04
28 10 0.21
29 18 0.38
30 2 0.04
31 6 0.12
32 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (29 bp):
TTAAAATTTATGAGGTCATTAGTGTCATG
Found at i:78445002 original size:57 final size:57
Alignment explanation
Indices: 78444914--78445026 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
78444904 ATGTGTGAGT
78444914 CTATAAATATTAATTATTTAATATTTATGAGGTCATTAGTGTCATGTTAAAATTTGA
1 CTATAAATATTAATTATTTAATATTTATGAGGTCATTAGTGTCATGTTAAAATTTGA
78444971 CTATAAATATTAATTATTTAATATTTATGAGGTCATTAGTGTCATGTTAAAATTTG
1 CTATAAATATTAATTATTTAATATTTATGAGGTCATTAGTGTCATGTTAAAATTTG
78445027 GTCTAGAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (57 bp):
CTATAAATATTAATTATTTAATATTTATGAGGTCATTAGTGTCATGTTAAAATTTGA
Found at i:78453175 original size:13 final size:13
Alignment explanation
Indices: 78453157--78453190 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
78453147 GCATGAGTGA
78453157 CCACACGGCCTGC
1 CCACACGGCCTGC
78453170 CCACACGGCCTGC
1 CCACACGGCCTGC
78453183 CCACACGG
1 CCACACGG
78453191 GCGTGTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.53, G:0.24, T:0.06
Consensus pattern (13 bp):
CCACACGGCCTGC
Found at i:78456653 original size:20 final size:20
Alignment explanation
Indices: 78456628--78456667 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
78456618 CTTACCATCC
* *
78456628 TGGAAAAACTAATGTGGTGG
1 TGGAAAAAATAATGTAGTGG
78456648 TGGAAAAAATAATGTAGTGG
1 TGGAAAAAATAATGTAGTGG
78456668 CAGATGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.33, T:0.25
Consensus pattern (20 bp):
TGGAAAAAATAATGTAGTGG
Found at i:78458136 original size:29 final size:27
Alignment explanation
Indices: 78458082--78458137 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
78458072 AAAGTGATTT
*
78458082 TTGACAAAATGTCAATTAGGGATTAAA
1 TTGACAAAATGTAAATTAGGGATTAAA
* *
78458109 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAA-TGTAAATT-AGGGATTAAA
78458138 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 7 0.29
29 9 0.38
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.29
Consensus pattern (27 bp):
TTGACAAAATGTAAATTAGGGATTAAA
Found at i:78458145 original size:29 final size:27
Alignment explanation
Indices: 78458087--78458145 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
78458077 GATTTTTGAC
* *
78458087 AAAATGTCAATTAGGGATTAAATTGAG
1 AAAATGTAAATTAGGGATTAAAATGAG
* *
78458114 AAAAGTGTAAATTGAGGGGTTAAAATGTG
1 AAAA-TGTAAATT-AGGGATTAAAATGAG
78458143 AAA
1 AAA
78458146 TAAATGAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 7 0.27
29 15 0.58
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (27 bp):
AAAATGTAAATTAGGGATTAAAATGAG
Found at i:78461106 original size:8 final size:8
Alignment explanation
Indices: 78461093--78461117 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
78461083 AATCCAAGCC
78461093 AAAAATTT
1 AAAAATTT
78461101 AAAAATTT
1 AAAAATTT
78461109 AAAAATTT
1 AAAAATTT
78461117 A
1 A
78461118 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:78462548 original size:40 final size:40
Alignment explanation
Indices: 78462503--78462694 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
78462493 TATAACCACA
** *
78462503 AGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * *
78462543 CGCACAAATGCCTTTGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
78462583 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
78462623 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
78462663 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
78462695 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:78462623 original size:80 final size:79
Alignment explanation
Indices: 78462475--78462695 Score: 309
Period size: 80 Copynumber: 2.8 Consensus size: 79
78462465 ACCCAAGTTT
* * * * * *
78462475 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
78462539 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
78462554 CTTTGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
78462619 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
78462634 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
78462696 CATTCAAATG
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 9 0.07
80 114 0.91
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:78470589 original size:40 final size:40
Alignment explanation
Indices: 78470544--78470734 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
78470534 TATAACCACA
** *
78470544 AGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
78470584 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
78470624 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
78470664 CGCACAAATGCCTTCGGGTCTTAGCCC-GATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
78470703 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
78470735 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
39 31 0.25
40 91 0.75
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:78470731 original size:79 final size:79
Alignment explanation
Indices: 78470516--78470735 Score: 316
Period size: 80 Copynumber: 2.8 Consensus size: 79
78470506 ACCCAAGTTT
* * * * * *
78470516 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
78470580 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
78470595 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
78470660 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
78470675 CTTCGGGTCTTAGCCCGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
78470736 CATTCAAATG
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 2 0.02
79 54 0.43
80 70 0.56
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:78478614 original size:18 final size:20
Alignment explanation
Indices: 78478570--78478617 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
78478560 CCACTCTTAA
78478570 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCTCTTTTTCAT
*
78478591 TCTCTTTTTCT-TTTTTGAT
1 TCTCTTTTTCTCTTTTTCAT
78478610 T-TCTTTTT
1 TCTCTTTTT
78478618 GTGTCTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 7 0.27
21 4 0.15
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (20 bp):
TCTCTTTTTCTCTTTTTCAT
Found at i:78479731 original size:23 final size:23
Alignment explanation
Indices: 78479705--78479748 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
78479695 TTAAAACTAC
78479705 TTCTAAGAAAACTC-AAGAGAAAA
1 TTCT-AGAAAACTCAAAGAGAAAA
* *
78479728 TTCTTGAAGACTCAAAGAGAA
1 TTCTAGAAAACTCAAAGAGAA
78479749 TTTTCACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (23 bp):
TTCTAGAAAACTCAAAGAGAAAA
Found at i:78496854 original size:48 final size:48
Alignment explanation
Indices: 78496798--78497012 Score: 376
Period size: 48 Copynumber: 4.5 Consensus size: 48
78496788 ATAAGCTATT
78496798 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
*
78496846 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAACGCCGAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
*
78496894 GCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
* *
78496942 GCTAATGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAAGG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
* *
78496990 GCTAGTGTGAAATATGTAGGAGA
1 GCTAATGTGAAATATGTATGAGA
78497013 CGTGTGTATA
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 160 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (48 bp):
GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
Found at i:78497299 original size:37 final size:37
Alignment explanation
Indices: 78497154--78497298 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
78497144 GGAAATATAT
* *
78497154 TCCGGGAAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
78497191 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
78497228 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
78497265 TCCGGGTAAGACCAGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
78497299 TCATCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:78498627 original size:40 final size:40
Alignment explanation
Indices: 78498581--78498813 Score: 349
Period size: 40 Copynumber: 5.8 Consensus size: 40
78498571 TATATAGCCA
78498581 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* * *
78498621 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCCA
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T-TATATCCG
* *
78498663 GGCTAAGTCCCGAAGAGCATTCTTGCTGGTGTTATATCCA
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* *
78498703 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
*
78498743 GGCTAATTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
* * *
78498783 GGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
78498814 ATGTGTATTC
Statistics
Matches: 174, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 137 0.79
41 2 0.01
42 35 0.20
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
Found at i:78498708 original size:82 final size:82
Alignment explanation
Indices: 78498571--78498815 Score: 404
Period size: 82 Copynumber: 3.0 Consensus size: 82
78498561 AATTGAGAGT
78498571 TATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 TATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
78498636 AGCATTCGTGCTAGTGA
66 AGCATTCGTGCTAGTGA
* *
78498653 TATATAGCCAGGCTAAGTCCCGAAGAGCATTCTTGCTGGTGTTATATCCAGGCTAAGTCCCGAAG
1 TATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
78498718 AGCATTCGTGCTAGTGA
66 AGCATTCGTGCTAGTGA
* * *
78498735 TATAT--CCGGGCTAATTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAG
1 TATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
* * *
78498798 AGCAATCATGCTGGTGA
66 AGCATTCGTGCTAGTGA
78498815 T
1 T
78498816 GTGTATTCGG
Statistics
Matches: 153, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 68 0.44
82 85 0.56
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (82 bp):
TATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
AGCATTCGTGCTAGTGA
Found at i:78499027 original size:25 final size:25
Alignment explanation
Indices: 78498977--78499027 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
78498967 TGTGTAACAA
* *
78498977 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
78499002 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
78499027 C
1 C
78499028 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:78502445 original size:48 final size:48
Alignment explanation
Indices: 78502389--78502603 Score: 358
Period size: 48 Copynumber: 4.5 Consensus size: 48
78502379 ATAAGCTATT
*
78502389 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAATCCGAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
78502437 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
* * *
78502485 GCTATTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
* *
78502533 GCTAATGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCGAAGG
1 GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
* *
78502581 GCTAGTGTGAAATATGTAGGAGA
1 GCTAATGTGAAATATGTATGAGA
78502604 CGTGTGTATA
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 157 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
GCTAATGTGAAATATGTATGAGATAGGTATATGTGGTAAAGCCGAATG
Found at i:78502890 original size:37 final size:37
Alignment explanation
Indices: 78502745--78502889 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
78502735 GGAAATATAT
*
78502745 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
78502782 TCCAGGTAAGATCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78502819 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
78502856 TCCGGGTAAGACCAGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
78502890 TCATCTGAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:78507021 original size:49 final size:48
Alignment explanation
Indices: 78506812--78507126 Score: 195
Period size: 49 Copynumber: 6.6 Consensus size: 48
78506802 GTGGTATGTG
* * * *
78506812 AGCCAGTGTAAGACATGTCTGGGACAT-GCATC-AGCATTGAGA--TGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-C-TTCATATGTGAA
* * * * * ** *
78506858 AGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGGATAT-ACA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCATATGTGA-A
* * *
78506905 AGCTAGTGTAAGACCTGTGTCTGGGACATGGCGTC-AGCTT-GT-TGTG--
1 AGCCAGTGTAAGACC--TGTCTGGGACATGGCATCGA-CTTCATATGTGAA
* * ** * *
78506951 TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCTATAGGTGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTC-ATATGTGAA
* * *
78507000 AGCCAGTGTAAGACCTTTCTGGGACATGGCATCGGCTTCGATATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTC-ATATGTGAA
* * * **
78507049 AGTCAGTGTAAGACCTGTCTGGGACACGGCATCGATTTCA-ATGTGCT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCATATGTGAA
*
78507096 AGCCAGTGTAAGACCATATCTGGGACATGGC
1 AGCCAGTGTAAGACC-TGTCTGGGACATGGC
78507127 GTCAGCATTT
Statistics
Matches: 210, Mismatches: 43, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
44 18 0.09
45 4 0.02
46 45 0.21
47 36 0.17
48 16 0.08
49 86 0.41
50 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCATATGTGAA
Found at i:78507068 original size:142 final size:138
Alignment explanation
Indices: 78506815--78507074 Score: 323
Period size: 142 Copynumber: 1.8 Consensus size: 138
78506805 GTATGTGAGC
*
78506815 CAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATGAGAGCCAGTGTAAGACATGTCTGG
* *
78506880 GACATGCATTGGCCTCGGATATACAAGCTAGTGTAAGACCTGTGTCTGGGACATGGCGTCAGCTT
66 GACATGCATCGGCCTCGGATATAAAAGCTAGTGTAAGACC-GTGTCTGGGACATGGCGTCAGCTT
78506945 GTTGTGTGT
130 GTTGTGTGT
* * * *
78506954 CAGTGTAAGACCTGTCTGGGACATGGCATC-GACACCTAT-AGGTGAGAGCCAGTGTAAGACCTT
1 CAGTGTAAGACATGTCTGGGACAT-GCATCAG-CA--T-TGAGATGAGAGCCAGTGTAAGACATG
*
78507017 TCTGGGACATGGCATCGGCTTC-GATATATGAAAG-TCAGTGTAAGACC-TGTCTGGGACA
61 TCTGGGACAT-GCATCGGCCTCGGATATA--AAAGCT-AGTGTAAGACCGTGTCTGGGACA
78507075 CGGCATCGAT
Statistics
Matches: 104, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
139 24 0.23
140 7 0.07
142 48 0.46
143 11 0.11
144 14 0.13
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATGAGAGCCAGTGTAAGACATGTCTGG
GACATGCATCGGCCTCGGATATAAAAGCTAGTGTAAGACCGTGTCTGGGACATGGCGTCAGCTTG
TTGTGTGT
Found at i:78519310 original size:5 final size:5
Alignment explanation
Indices: 78519302--78519334 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
78519292 TTCTTTGATT
78519302 TTTAA TTTAA TTTAA TTTAA TTT-A TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
78519335 TTATCTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:78519330 original size:9 final size:9
Alignment explanation
Indices: 78519306--78519336 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
78519296 TTGATTTTTA
78519306 ATTTAATTT
1 ATTTAATTT
78519315 AATTTAATTT
1 -ATTTAATTT
78519325 ATTTAATTT
1 ATTTAATTT
78519334 ATT
1 ATT
78519337 ATCTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTAATTT
Found at i:78519343 original size:14 final size:14
Alignment explanation
Indices: 78519302--78519334 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
78519292 TTCTTTGATT
78519302 TTTAATTTAATTTAA
1 TTTAATTT-ATTTAA
78519317 TTTAATTTATTTAA
1 TTTAATTTATTTAA
78519331 TTTA
1 TTTA
78519335 TTATCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTTATTTAA
Found at i:78519536 original size:23 final size:22
Alignment explanation
Indices: 78519497--78519556 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
78519487 GGTTCTTTTC
*
78519497 TTTTTATC-TATTGATTATTATT
1 TTTTTCTCTTATT-ATTATTATT
*
78519519 ATTTTTCTCTTATTATTATTCTT
1 -TTTTTCTCTTATTATTATTATT
*
78519542 TTTATTCTATTATTA
1 TTT-TTCTCTTATTA
78519557 CTTTTTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 3 0.09
23 25 0.78
24 4 0.12
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTCTCTTATTATTATTATT
Found at i:78519552 original size:20 final size:20
Alignment explanation
Indices: 78519494--78519556 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
78519484 GTAGGTTCTT
78519494 TTCTTTTTA-TCTATTGATTA
1 TTCTTTTTATTCTATT-ATTA
* *
78519514 TTATTATTTTTCTCTTATTATTA
1 TTCTT-TTTAT-TC-TATTATTA
78519537 TTCTTTTTATTCTATTATTA
1 TTCTTTTTATTCTATTATTA
78519557 CTTTTTACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 12 0.34
21 5 0.14
22 4 0.11
23 10 0.29
24 4 0.11
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.68
Consensus pattern (20 bp):
TTCTTTTTATTCTATTATTA
Found at i:78522143 original size:18 final size:19
Alignment explanation
Indices: 78522107--78522145 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
78522097 TCTTAAATTC
* *
78522107 TTTTAATTGATGCACTTGT
1 TTTTAATTCATGCAATTGT
78522126 TTTTAATTCA-GCAATTGT
1 TTTTAATTCATGCAATTGT
78522144 TT
1 TT
78522146 GTTTTTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTAATTCATGCAATTGT
Found at i:78525460 original size:11 final size:11
Alignment explanation
Indices: 78525444--78525472 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
78525434 GGGATTTTTG
78525444 AATAATTGAAA
1 AATAATTGAAA
78525455 AATAATTGAAA
1 AATAATTGAAA
78525466 AATAATT
1 AATAATT
78525473 TTTGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (11 bp):
AATAATTGAAA
Found at i:78527642 original size:22 final size:22
Alignment explanation
Indices: 78527616--78527657 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
78527606 CGTGGATTGC
*
78527616 GATACCTAAAATTGGATATCGT
1 GATACCCAAAATTGGATATCGT
* *
78527638 GATACCCAGAGTTGGATATC
1 GATACCCAAAATTGGATATC
78527658 ACGATATCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (22 bp):
GATACCCAAAATTGGATATCGT
Found at i:78531992 original size:18 final size:18
Alignment explanation
Indices: 78531964--78532011 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
78531954 TATTATGGAA
* *
78531964 AACTGTGTTAATCTAGTG
1 AACTGTATTAATATAGTG
* *
78531982 ATCTGTATTAATATGGTG
1 AACTGTATTAATATAGTG
78532000 AACTGTATTAAT
1 AACTGTATTAAT
78532012 TTTCCAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (18 bp):
AACTGTATTAATATAGTG
Found at i:78549359 original size:46 final size:46
Alignment explanation
Indices: 78549244--78549363 Score: 152
Period size: 48 Copynumber: 2.6 Consensus size: 46
78549234 TATGTGTGCT
* * * *
78549244 AGTGTAAGACATGTCTAGGACATGCATCGGCCTTGCGATATTTAAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAGA--TAAGCC
*
78549292 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGA-GAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGA-GATAAGCC
*
78549338 AGTGTAAGACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTAGGACATGCA
78549364 CTGACCTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 28 0.43
48 36 0.55
49 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAGATAAGCC
Done.