Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 185 of 333
Found at i:60694461 original size:47 final size:47
Alignment explanation
Indices: 60694407--60694513 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
60694397 CGGATATTGT
* *
60694407 TACTGTTACTGTTTCGAATTTGTTTCGATGAAGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
* * *
60694454 TACTGTTACTATTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
* *
60694501 TATTGCTACTGTT
1 TACTGTTACTGTT
60694514 ACTGTTACTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
Found at i:60694707 original size:18 final size:18
Alignment explanation
Indices: 60694641--60694726 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
60694631 AAAGATCGAC
* *
60694641 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
60694660 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * * *
60694678 TATTATTAAATAATTGAT
1 TGTTACTGAATAACTGAT
*
60694696 TGTTACTGAATAACTGAC
1 TGTTACTGAATAACTGAT
60694714 TGTTACTGAATAA
1 TGTTACTGAATAA
60694727 ATAATCGTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 43 0.77
19 13 0.23
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:60694726 original size:36 final size:37
Alignment explanation
Indices: 60694638--60694726 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
60694628 TGGAAAGATC
60694638 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
* * * * *
60694675 GATTATTATTAAATAA-TTGATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
60694711 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
60694727 ATAATCGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
Found at i:60698641 original size:20 final size:18
Alignment explanation
Indices: 60698616--60698652 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
60698606 ATTGCTAAGT
60698616 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
60698636 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
60698653 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:60699262 original size:46 final size:46
Alignment explanation
Indices: 60699210--60699385 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
60699200 TGGTTGAGCA
*
60699210 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
60699256 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
60699301 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
60699349 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60699386 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60699366 original size:93 final size:93
Alignment explanation
Indices: 60699207--60699377 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
60699197 GGATGGTTGA
* **
60699207 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60699272 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
60699300 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60699365 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60699378 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60702966 original size:43 final size:43
Alignment explanation
Indices: 60702919--60703085 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
60702909 GATTAACGAG
* *
60702919 ATGTGATTATATGTAAGACCATGTCTGGGAAATTGGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCATT
* *
60702962 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCATT
* * * * *
60703005 ATTTGATTTCGTGTAAGACCATAG-CTGGGCTATCGGCATCGA-T
1 ATGTGATTACATGTAAGACCAT-GTCTGGGATATTGGCATC-ATT
* * *
60703048 ACGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCAT
60703086 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
42 5 0.05
43 98 0.93
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCATT
Found at i:60706266 original size:26 final size:26
Alignment explanation
Indices: 60706228--60706280 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
60706218 CCAATTTCTG
60706228 TAAAAGTGAGCCTTTGTGGCTATCTC
1 TAAAAGTGAGCCTTTGTGGCTATCTC
60706254 TAAAAG-GACGCCTTTGTGGCTATCTC
1 TAAAAGTGA-GCCTTTGTGGCTATCTC
60706280 T
1 T
60706281 GTTAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (26 bp):
TAAAAGTGAGCCTTTGTGGCTATCTC
Found at i:60710618 original size:93 final size:93
Alignment explanation
Indices: 60710459--60710650 Score: 294
Period size: 93 Copynumber: 2.1 Consensus size: 93
60710449 AAAAATTTCA
* * * * **
60710459 ATTTCATCCCTATGCTCAGAAAATGAAATTCATGAAATTTAACCCTCTTTTCAAGCCTAGTCGAA
1 ATTTCATCCCTAGGCTCAGAAAATGAAATTCATGAAATATAACCCTATTTCCAAGCCTAGAAGAA
*
60710524 ATTTATATACTACATTTACAGTACATAC
66 ATTTATATACTACATTTACAGCACATAC
* * *
60710552 ATTTCGTCCCTAGGCTCTGAAAATGAAATTCATGAAATATAACCCTATTTCCATGCCTAGAAGAA
1 ATTTCATCCCTAGGCTCAGAAAATGAAATTCATGAAATATAACCCTATTTCCAAGCCTAGAAGAA
60710617 ATTTATATACTACATTTACAGCACATAC
66 ATTTATATACTACATTTACAGCACATAC
60710645 ATTTCA
1 ATTTCA
60710651 CAAATTTTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (93 bp):
ATTTCATCCCTAGGCTCAGAAAATGAAATTCATGAAATATAACCCTATTTCCAAGCCTAGAAGAA
ATTTATATACTACATTTACAGCACATAC
Found at i:60711300 original size:5 final size:5
Alignment explanation
Indices: 60711290--60711316 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
60711280 GATGCCAACC
60711290 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
60711317 TTTATTTTTG
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:60716263 original size:26 final size:25
Alignment explanation
Indices: 60716234--60716293 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
60716224 GAGTCATGGT
*
60716234 CAGTAAGCTCCTACTGAGCTGATAAA
1 CAGTAAGCTCCTACTGAGCT-AAAAA
*
60716260 CAGTAAGCT-CTATTGAGCTAAAAA
1 CAGTAAGCTCCTACTGAGCTAAAAA
*
60716284 CGGTAAGCTC
1 CAGTAAGCTC
60716294 TATTTAGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.40
25 9 0.30
26 9 0.30
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (25 bp):
CAGTAAGCTCCTACTGAGCTAAAAA
Found at i:60716358 original size:45 final size:45
Alignment explanation
Indices: 60716236--60716361 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 45
60716226 GTCATGGTCA
*
60716236 GTAAGCTCCTACTGAGCTGATAAACAGTAAGCTCTATTGAGCTAAAAACG
1 GTAAGCTCC-AATGAGCTGA-AAA-AGTAAGCTCT-TTGAGCT-AAAACG
* * * *
60716286 GTAAGCTCTATTTAGCTG-AACAG-AAGCTCTTTCGAGCT-AAACG
1 GTAAGCTCCAATGAGCTGAAAAAGTAAGCTCTTT-GAGCTAAAACG
60716329 GTAAGCTCCAATGAGCTGAAAAAGTAAGCTCTT
1 GTAAGCTCCAATGAGCTGAAAAAGTAAGCTCTT
60716362 ACAATCTGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
43 20 0.31
44 6 0.09
45 20 0.31
46 2 0.03
47 2 0.03
49 7 0.11
50 8 0.12
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (45 bp):
GTAAGCTCCAATGAGCTGAAAAAGTAAGCTCTTTGAGCTAAAACG
Found at i:60725852 original size:27 final size:27
Alignment explanation
Indices: 60725822--60726000 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
60725812 ATATTGAGCC
* * *
60725822 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCATAT
* *
60725849 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCATAT
* *
60725876 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCATA-T
** **
60725904 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAATCATA-T
* *
60725931 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCATAT
* *
60725958 CGCACACTTAGTGCAACATACTCATAT
1 CGCACACTTAGTGCTACATAATCATAT
60725985 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
60726001 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCATAT
Found at i:60725961 original size:82 final size:81
Alignment explanation
Indices: 60725848--60725998 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
60725838 TATAATCATC
* * *
60725848 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATACTCAAA-TCGCACACTT
60725913 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
60725930 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATACTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATACTCAAATCGCACACTT
60725994 AGTGC
65 AGTGC
60725999 TATACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 16 0.26
82 45 0.74
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATACTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:60726564 original size:13 final size:13
Alignment explanation
Indices: 60726546--60726570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60726536 TACTAAATTT
60726546 TCATGGATTCAAG
1 TCATGGATTCAAG
60726559 TCATGGATTCAA
1 TCATGGATTCAA
60726571 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:60733749 original size:27 final size:27
Alignment explanation
Indices: 60733719--60733897 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
60733709 ATATTGAGCC
* * * *
60733719 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
60733746 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
60733773 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
60733801 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
60733828 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
60733855 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
60733882 CGCACGCTTAGTGCTA
1 CGCACACTTAGTGCTA
60733898 TACAATTTAA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:60733858 original size:82 final size:81
Alignment explanation
Indices: 60733745--60733895 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
60733735 TATAATCATC
* *
60733745 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
60733810 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** * *
60733827 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACGCTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
60733891 AGTGC
65 AGTGC
60733896 TATACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 46 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:60734462 original size:13 final size:13
Alignment explanation
Indices: 60734444--60734468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60734434 TACTAAATTT
60734444 TCATGGATTCAAG
1 TCATGGATTCAAG
60734457 TCATGGATTCAA
1 TCATGGATTCAA
60734469 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:60755155 original size:27 final size:27
Alignment explanation
Indices: 60755115--60755293 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
60755105 CTCAATAGTG
* * *
60755115 TCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACATAGTCAAC
* *
60755142 TCGCACACTTAGTGCTACATAATCAAA
1 TCGCACACTTAGTGCTACATAGTCAAC
*
60755169 TCGCACACTTAGTGCCACATAGTCAAAC
1 TCGCACACTTAGTGCTACATAGTC-AAC
** * *
60755197 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCTACATAGTCAAC
* **
60755224 TCGCACACTTAGTGC-ATCATATTCATT
1 TCGCACACTTAGTGCTA-CATAGTCAAC
*
60755251 TCGCACACTTAGTGCAACATAGTCGAA-
1 TCGCACACTTAGTGCTACATAGTC-AAC
60755278 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
60755294 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 106 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAC
Found at i:60755255 original size:82 final size:81
Alignment explanation
Indices: 60755137--60755292 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60755127 TGCTATATAA
*
60755137 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60755202 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
60755219 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60755283 CACTTAGTGC
65 CACTTAGTGC
60755293 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60758967 original size:21 final size:22
Alignment explanation
Indices: 60758913--60758968 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
60758903 CAATTTGAAC
* *
60758913 AATGTGATGATTAAAAAAGTTA
1 AATGTGGTTATTAAAAAAGTTA
*
60758935 AATGTGGTTATTAAAAAATTTA
1 AATGTGGTTATTAAAAAAGTTA
*
60758957 AATTTGG-TATTA
1 AATGTGGTTATTA
60758969 TAGATCAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (22 bp):
AATGTGGTTATTAAAAAAGTTA
Found at i:60759374 original size:42 final size:41
Alignment explanation
Indices: 60759312--60759470 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 41
60759302 TAAGTGATTT
* *
60759312 CGTATAAGACCCTGTTTGGGACATGGCATCGATATGAGGTCC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATGA-GTCC
* * * *
60759354 CGTATAAGACCATGTCTGGGACATGGCGTCGGCACCGATTCGAGACTT
1 CGTATAAGACCATGTCTGGGACATGGCATC-G-A--TA-T-GAGTC-C
* * * *
60759402 CGTATAAGACCATATCTGGGATATGGCATCGATGTGTAGTTC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATG-AGTCC
* *
60759444 CATGTAAGACCATGTCTGGGACATGGC
1 CGTATAAGACCATGTCTGGGACATGGC
60759471 TTTGGTACCC
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
42 51 0.56
43 4 0.04
44 1 0.01
46 2 0.02
47 4 0.04
48 29 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
CGTATAAGACCATGTCTGGGACATGGCATCGATATGAGTCC
Found at i:60763940 original size:38 final size:37
Alignment explanation
Indices: 60763896--60764015 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 37
60763886 TTTAAACTTA
*
60763896 GATATAATACCAGCACTAGTCCTGCGGGATTTAACCCG
1 GATATAATACAAGCACTAG-CCTGCGGGATTTAACCCG
* * *
60763934 GATATAATACAAGCACGAAGCCTACGGGATTTAACTCG
1 GATATAATACAAGCAC-TAGCCTGCGGGATTTAACCCG
* * * *
60763972 GATATAATTCTAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACAAGCA-CTAGCCTGCGGG-ATTTAA-CCCG
60764012 GATA
1 GATA
60764016 CACATCAAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 53 0.79
39 7 0.10
40 7 0.10
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (37 bp):
GATATAATACAAGCACTAGCCTGCGGGATTTAACCCG
Found at i:60763999 original size:76 final size:80
Alignment explanation
Indices: 60763867--60764015 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 80
60763857 ACATAACACC
* * *
60763867 AGCATGAAGCCTACGAGACTTTAAACTTAGATATAATACCAGCACTAGTCCTGCGGG-ATTTAA-
1 AGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCAATAGTCCTGCGGGTATTTAAG
60763930 CCCGGATATAATACA
66 CCCGGATATAATACA
* * * * *
60763945 AGCACGAAGCCTACGGGA-TTT-AACTCGGATATAATTCTAGCATATAG-CCTGCGGGTCTTTAA
1 AGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCA-ATAGTCCTGCGGGTATTTAA
60764007 GCCCGGATA
65 GCCCGGATA
60764016 CACATCAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
76 25 0.42
77 11 0.18
78 24 0.40
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (80 bp):
AGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCAATAGTCCTGCGGGTATTTAAG
CCCGGATATAATACA
Found at i:60767204 original size:33 final size:33
Alignment explanation
Indices: 60767160--60767242 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
60767150 GTTTGCATTT
* * *
60767160 AATTATATCTTGCATTATATGTTTTCATCTTTA
1 AATTATGTCTTGCATTATATGTCTGCATCTTTA
60767193 AATTATGTCTTGCATTATATGTCTGCATCTTTA
1 AATTATGTCTTGCATTATATGTCTGCATCTTTA
60767226 AATTATGTCTTGCATTA
1 AATTATGTCTTGCATTA
60767243 AGAGTTTGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (33 bp):
AATTATGTCTTGCATTATATGTCTGCATCTTTA
Found at i:60767239 original size:20 final size:20
Alignment explanation
Indices: 60767185--60767240 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
60767175 TATATGTTTT
60767185 CATCTTTAAATTATGTCTTG
1 CATCTTTAAATTATGTCTTG
60767205 CA---TT--A-TATGTC-TG
1 CATCTTTAAATTATGTCTTG
60767218 CATCTTTAAATTATGTCTTG
1 CATCTTTAAATTATGTCTTG
60767238 CAT
1 CAT
60767241 TAAGAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 6 0.21
20 7 0.24
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (20 bp):
CATCTTTAAATTATGTCTTG
Found at i:60767253 original size:33 final size:33
Alignment explanation
Indices: 60767146--60767274 Score: 137
Period size: 33 Copynumber: 4.1 Consensus size: 33
60767136 TTTCAGTTCA
*
60767146 ATAAGTTTGCA--TTT-AATTATATCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
60767176 ATATGTTTTCATCTTTAAATTATGTCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
60767209 ATATGTCTGCATCTTTAAATTATGTCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
60767242 A-AGAGTTTGCA--TTT-AATTAAGTCATGCATT
1 ATA-AGTTTGCATCTTTAAATTATGTCTTGCATT
60767272 ATA
1 ATA
60767275 TTTATGTGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
30 24 0.28
31 4 0.05
32 4 0.05
33 53 0.62
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (33 bp):
ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
Found at i:60773424 original size:14 final size:14
Alignment explanation
Indices: 60773388--60773426 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
60773378 TTGTTTCACT
*
60773388 GAAAATGACTTCCG
1 GAAAATGATTTCCG
* *
60773402 AAAAATGATTTCTG
1 GAAAATGATTTCCG
60773416 GAAAATGATTT
1 GAAAATGATTT
60773427 ACTTTTCTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:60774003 original size:16 final size:16
Alignment explanation
Indices: 60773972--60774008 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60773962 ATGTGAATAA
60773972 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
60773988 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
60774004 TATTA
1 TATTA
60774009 AAATGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:60774067 original size:22 final size:21
Alignment explanation
Indices: 60774020--60774074 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
60774010 AATGAAATTG
*
60774020 AAATATTAAA-TA-ATTTATT
1 AAATAATAAATTATATTTATT
60774039 AAATAATAAATTATATTTATT
1 AAATAATAAATTATATTTATT
* *
60774060 ATATTAATAATTTAT
1 A-AATAATAAATTAT
60774075 TATGTGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 8 0.27
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAATAAATTATATTTATT
Found at i:60775761 original size:17 final size:17
Alignment explanation
Indices: 60775739--60775777 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
60775729 GAATGATGAA
*
60775739 AGGAGATGCAAGAACCG
1 AGGAGAAGCAAGAACCG
60775756 AGGAGAAGCAAGAACCG
1 AGGAGAAGCAAGAACCG
60775773 AGGAG
1 AGGAG
60775778 CTTTAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.38, T:0.03
Consensus pattern (17 bp):
AGGAGAAGCAAGAACCG
Found at i:60784515 original size:30 final size:28
Alignment explanation
Indices: 60784479--60784548 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
60784469 ATATTTTGGA
60784479 AAAATTACATTTTTGCCCCTAAGCTTTAT
1 AAAATTACATTTTTGCCCCTAAGC-TTAT
* *
60784508 CAAAATTACACTTTTGCCCCTATGCTTAT
1 -AAAATTACATTTTTGCCCCTAAGCTTAT
60784537 AAAA-TA-ATTTTT
1 AAAATTACATTTTT
60784549 ATTCAATTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 5 0.14
27 2 0.05
28 4 0.11
29 4 0.11
30 22 0.59
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (28 bp):
AAAATTACATTTTTGCCCCTAAGCTTAT
Found at i:60786916 original size:17 final size:19
Alignment explanation
Indices: 60786894--60786930 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
60786884 TTTTAGGGAC
60786894 TAAATTGAAG-GC-AAAAG
1 TAAATTGAAGAGCGAAAAG
*
60786911 TAAATTTAAGAGCGAAAAG
1 TAAATTGAAGAGCGAAAAG
60786930 T
1 T
60786931 GTGAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (19 bp):
TAAATTGAAGAGCGAAAAG
Found at i:60787027 original size:29 final size:29
Alignment explanation
Indices: 60786986--60787048 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
60786976 TGTGGTGCCG
60786986 AAAATACAAATATGGAAGACCTAAGGACA
1 AAAATACAAATATGGAAGACCTAAGGACA
60787015 AAAATACAAATATGGAAGACCTAAGGACA
1 AAAATACAAATATGGAAGACCTAAGGACA
60787044 AAAAT
1 AAAAT
60787049 TTATAGCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.57, C:0.13, G:0.16, T:0.14
Consensus pattern (29 bp):
AAAATACAAATATGGAAGACCTAAGGACA
Found at i:60787924 original size:17 final size:18
Alignment explanation
Indices: 60787892--60787926 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60787882 TATTCTTCAT
*
60787892 TTTAATTTTCGTAATTTA
1 TTTAATTTTCGCAATTTA
60787910 TTTAA-TTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
60787927 GATTCAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:60803044 original size:46 final size:44
Alignment explanation
Indices: 60802958--60803118 Score: 171
Period size: 46 Copynumber: 3.5 Consensus size: 44
60802948 GCATATCTAT
* *
60802958 GTCGATGCCATGTCCCAGGCATGGTCTTACACTGACACGTCTCGTA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGACACGTCTCGAA
* *
60803004 GTCGATGCATGTCCCATACATGTCTTACACTGGCTTACGTCTCGAA
1 GTCGATGCATGTCCCAGACATGTCTTACACTGAC--ACGTCTCGAA
* * *
60803050 GCCGATGCATGTCTCAGACATGTCTTACACTAGCACTCGTCTC-AA
1 GTCGATGCATGTCCCAGACATGTCTTACACT-G-ACACGTCTCGAA
*
60803095 TGCCGATGCCATGTCCCAGACATG
1 -GTCGATG-CATGTCCCAGACATG
60803119 GTTTTACATT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 57 0.58
47 15 0.15
48 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (44 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACACGTCTCGAA
Found at i:60810624 original size:46 final size:45
Alignment explanation
Indices: 60810531--60810744 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 45
60810521 GTCAGGTGCT
* *
60810531 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCC
* * *
60810577 GATGCATGTCCCATACATGTCTTACATTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * * * *
60810623 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCC
* * *
60810669 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
*
60810717 GATGCATGTCCCAGACACGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
60810745 AGCTCACACA
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 65 0.47
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:60810717 original size:94 final size:92
Alignment explanation
Indices: 60810531--60810752 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 92
60810521 GTCAGGTGCT
* *
60810531 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCCATACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACA
* * *
60810594 TGTCTTACATTGGCTTACGTCTCGAGGCC
64 TGTCTTACACTGGCTTACATATCGAGGCC
* * *
60810623 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCTAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATGTCCCAGACA
*
60810687 TGGTCTTACACTGGCTCT-CATAAT-GTGGCC
64 T-GTCTTACACTGGCT-TACAT-ATCGAGGCC
* *
60810717 GATGCATGTCCCAGACACGTCTTACACTAGCTCACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACA
60810753 CAAGTGACCC
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
90 10 0.09
91 16 0.15
92 18 0.16
93 12 0.11
94 52 0.47
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATG
TCTTACACTGGCTTACATATCGAGGCC
Found at i:60817428 original size:5 final size:5
Alignment explanation
Indices: 60817418--60817443 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60817408 CCCAATTGAC
60817418 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
60817444 GCTATCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:60826339 original size:57 final size:50
Alignment explanation
Indices: 60826282--60826382 Score: 114
Period size: 53 Copynumber: 2.0 Consensus size: 50
60826272 TAGTTTTTAT
* * *
60826282 TTATTAGTA-TTTCATTATTATTATTACTTAATACTTATATATATTATATATCA
1 TTATTAATAGTTTTATTAATATTATT-CTTAATA-TTATAT-TA-TATATATCA
* *
60826335 TTATTAATAGTTTTTTTAATATTCTTCTTAATATTATATTATATATAT
1 TTATTAATAGTTTTATTAATATTATTCTTAATATTATATTATATATAT
60826383 TCTTTCTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 7 0.17
51 2 0.05
52 6 0.14
53 15 0.36
54 12 0.29
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (50 bp):
TTATTAATAGTTTTATTAATATTATTCTTAATATTATATTATATATATCA
Found at i:60826489 original size:23 final size:22
Alignment explanation
Indices: 60826449--60826494 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
60826439 TTTATAACTA
60826449 TGTTATGTATACAATTTACATAT
1 TGTTATGTATACAATTTA-ATAT
* *
60826472 TGTTATGTATATATTTTAATAT
1 TGTTATGTATACAATTTAATAT
60826494 T
1 T
60826495 ATTAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TGTTATGTATACAATTTAATAT
Found at i:60826547 original size:19 final size:19
Alignment explanation
Indices: 60826523--60826561 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60826513 ATACTTTTTA
*
60826523 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
60826542 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
60826561 T
1 T
60826562 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:60826652 original size:18 final size:18
Alignment explanation
Indices: 60826607--60826657 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
60826597 TATGAATAGT
*
60826607 TTTTTTATATTATTATCA
1 TTTTATATATTATTATCA
60826625 TTTCTAATATATATATTAT-A
1 TTT-T-ATATAT-TATTATCA
60826645 TTTTATATATTAT
1 TTTTATATATTAT
60826658 GTATGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 2 0.07
20 9 0.31
21 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATATTATTATCA
Found at i:60826666 original size:20 final size:20
Alignment explanation
Indices: 60826566--60826669 Score: 60
Period size: 20 Copynumber: 5.2 Consensus size: 20
60826556 ATCATTATTA
60826566 TTTATATATATATGTATGTA-
1 TTTATATAT-TATGTATGTAT
* *
60826586 TTTATATAGCGTATGAATAGT-T
1 TTTATATA--TTATGTAT-GTAT
* *
60826608 TTTTTATATTAT-TAT-CAT
1 TTTATATATTATGTATGTAT
60826626 TTCTAATATATATAT-TA--TAT
1 TT-T-ATATAT-TATGTATGTAT
60826646 TTTATATATTATGTATGTAT
1 TTTATATATTATGTATGTAT
60826666 TTTA
1 TTTA
60826670 ATGTTATTAG
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
17 3 0.05
18 11 0.17
19 4 0.06
20 27 0.42
21 11 0.17
22 9 0.14
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTATATATTATGTATGTAT
Found at i:60827085 original size:22 final size:23
Alignment explanation
Indices: 60827033--60827087 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
60827023 TTTATATATA
60827033 TTATGTATATATTTTAACATTAC
1 TTATGTATATATTTTAACATTAC
* *
60827056 TAAT-TATATATTTTTAC--TATC
1 TTATGTATATATTTTAACATTA-C
60827077 TTATGTATATA
1 TTATGTATATA
60827088 CTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 18 0.67
23 3 0.11
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (23 bp):
TTATGTATATATTTTAACATTAC
Found at i:60836277 original size:73 final size:73
Alignment explanation
Indices: 60836078--60836382 Score: 400
Period size: 73 Copynumber: 4.2 Consensus size: 73
60836068 TGATGTTTTT
* * * ** *
60836078 ATTTCTGTTTTC-AAAATTCAACTCATGTTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
*
60836142 TATTTTCA
66 TAATTTCA
* * *
60836150 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCCGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
60836215 GGTAATTTCA
64 GGTAATTTCA
* * *
60836225 ATTTCTGTTTGTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
60836289 G-AATTTTCA
65 GTAA-TTTCA
60836298 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
1 ATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
* *
60836363 GTATTTTTA
65 GTAATTTCA
*
60836372 ATTTCTATTTT
1 ATTTCTGTTTT
60836383 TTCAATTTAT
Statistics
Matches: 205, Mismatches: 20, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
72 10 0.05
73 70 0.34
74 64 0.31
75 61 0.30
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCA
Found at i:60836375 original size:147 final size:147
Alignment explanation
Indices: 60836073--60836382 Score: 455
Period size: 147 Copynumber: 2.1 Consensus size: 147
60836063 TATTTTGATG
* * *
60836073 TTTTT-ATTTCTGTTTTCAAAATTCAACTCATGTTGTGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGC
* *
60836137 TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT
66 TGAGGAATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
60836202 CAGGACACGCCGAGGTA
131 CAAGACACGCCGAGGTA
* * ** * *
60836219 ATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTTAATTTCTGTTT-TCAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACG
60836284 CTGAGGAATTTTCAATTTCTG-CTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 CTGAGGAATTTTCAATTTCTGTC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
60836347 CTCAAGACACGCTGAGGTA
129 CTCAAGACACGCCGAGGTA
*
60836366 TTTTTAATTTCTATTTT
1 TTTTTAATTTCTGTTTT
60836383 TTCAATTTAT
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
146 4 0.03
147 76 0.52
148 65 0.45
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (147 bp):
TTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGC
TGAGGAATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACACGCCGAGGTA
Found at i:60836444 original size:88 final size:87
Alignment explanation
Indices: 60836292--60836613 Score: 363
Period size: 88 Copynumber: 3.7 Consensus size: 87
60836282 CGCTGAGGAA
* *
60836292 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCT-ATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
60836357 GCTGAGGTATTTTTAATTTCTATT
64 GCTGAGGTATTTTCAATTTCTATT
*
60836381 TTTTCAATTTATATTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTATT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
60836446 CTGAAGTATTCTCGAA-ATCTA-T
65 CTGAGGTATTTTC-AATTTCTATT
* * * * *
60836468 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACG
1 TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-
*
60836532 TGCTGAGCTATTTTCAATTT-T-TGT
64 -GCTGAGGTATTTTCAATTTCTAT-T
* * *
60836556 TTTT-AATGTCTATTTT-AAAGAGTCAACTCATATTGCGAGAAGTGAGTTGAG-CTCAGGA
1 TTTTCAATTTCTATTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
60836614 TCACATGCCG
Statistics
Matches: 198, Mismatches: 25, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
85 2 0.01
86 47 0.24
87 55 0.28
88 78 0.39
89 16 0.08
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTATT
Found at i:60838520 original size:23 final size:22
Alignment explanation
Indices: 60838480--60838525 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
60838470 TTTATAACTA
60838480 TGTTATGTATACAATTTACATAT
1 TGTTATGTATACAATTTA-ATAT
* *
60838503 TGTTATGTATATATTTTAATAT
1 TGTTATGTATACAATTTAATAT
60838525 T
1 T
60838526 ATTAATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TGTTATGTATACAATTTAATAT
Found at i:60838579 original size:19 final size:19
Alignment explanation
Indices: 60838555--60838593 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60838545 TACTATTTTA
*
60838555 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
60838574 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
60838593 T
1 T
60838594 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:60838704 original size:25 final size:25
Alignment explanation
Indices: 60838646--60838692 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
60838636 ATAGTTTTTT
60838646 TATAT-TATTATCATTTCTAATATA
1 TATATATATTATCATTTCTAATATA
60838670 TATATATATTAT-ATTT-T-ATATA
1 TATATATATTATCATTTCTAATATA
60838692 T
1 T
60838693 TATGTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 1 0.05
24 9 0.41
25 6 0.27
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATATATTATCATTTCTAATATA
Found at i:60839044 original size:24 final size:22
Alignment explanation
Indices: 60839012--60839070 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
60839002 TTTAATATTA
60839012 TTATGTATATATTTTTCATATAT
1 TTATGTATATATTTTTCA-ATAT
60839035 GTTATGTATATTCATTTTTCAATAT
1 -TTATGTATA-T-ATTTTTCAATAT
60839060 TTAT-TATATAT
1 TTATGTATATAT
60839071 ATATTATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 2 0.06
22 1 0.03
23 4 0.12
24 13 0.39
25 5 0.15
26 8 0.24
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
TTATGTATATATTTTTCAATAT
Found at i:60850374 original size:100 final size:100
Alignment explanation
Indices: 60850201--60850511 Score: 532
Period size: 100 Copynumber: 3.1 Consensus size: 100
60850191 TTTGACATGA
*
60850201 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAATCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
60850266 TTAATTGTCGAGAGTGTCACGACACTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
* * *
60850301 GTGTCGTGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAATAAGAAGTCAACCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
60850366 TTGATTGTCGAGAATGTCACGACACTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
* *
60850401 GTGTCACGACACTGAGCCTCCATGACCTCAAGGGTGCAAAAATTCAACAAGAAATCAACCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
60850466 TTGATTGTCGAGAGTGTCACGACACTTAGGGTGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
*
60850501 GTGTCACGACA
1 GTGTCGCGACA
60850512 ATGAACCCAA
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 198 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (100 bp):
GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
Found at i:60853336 original size:70 final size:72
Alignment explanation
Indices: 60853182--60853342 Score: 272
Period size: 70 Copynumber: 2.3 Consensus size: 72
60853172 TCAACTTTAC
*
60853182 CCTTCTCCCTCTTTTTCATTCTCATGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
60853247 CTTCCAA
66 CTTCCAA
* *
60853254 TCTTCTCTCTCTTTTTCATTCTCACGTCTGAAGCAT-TTC-TTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
*
60853317 CTTCCTA
66 CTTCCAA
60853324 CCTTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
60853343 GCTTTTATCT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
70 47 0.57
71 3 0.04
72 33 0.40
ACGTcount: A:0.11, C:0.34, G:0.04, T:0.52
Consensus pattern (72 bp):
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
CTTCCAA
Found at i:60856348 original size:33 final size:33
Alignment explanation
Indices: 60856309--60856375 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
60856299 AACTCTTGTT
60856309 TCCATCATGGATGTTTGAACTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
* *
60856342 TCCATCATGGATGTTTGGATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
60856375 T
1 T
60856376 TGGTTTAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAACTTGATCAAATTGG
Found at i:60856540 original size:13 final size:12
Alignment explanation
Indices: 60856510--60856543 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
60856500 TATTATTTTT
60856510 ATAATTT-TTTA
1 ATAATTTATTTA
60856521 ATAATTTATTTA
1 ATAATTTATTTA
60856533 ATTAATTTATT
1 A-TAATTTATT
60856544 GATAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 5 0.24
13 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATAATTTATTTA
Found at i:60856863 original size:17 final size:17
Alignment explanation
Indices: 60856843--60856875 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60856833 ATTAAGAATG
60856843 TTATTAAAATATATTTT
1 TTATTAAAATATATTTT
*
60856860 TTATTAAATTATATTT
1 TTATTAAAATATATTT
60856876 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAAATATATTTT
Found at i:60856881 original size:55 final size:57
Alignment explanation
Indices: 60856822--60856942 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 57
60856812 TTTAATTCAT
* *
60856822 ATAATAATTATATTAAGAATGTTATTAAA-ATAT-AT-TTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTAAATATATGATATTTTTATTAAATTATATTTA
* * * *
60856877 ATAATAATTATATTAAAATATGGTTAAATTATTTGTTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGATTAAA-TATATGATATTTTTATTAAATTATATTTA
60856935 ATAATAAT
1 ATAATAAT
60856943 CTTACTAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 9 0.16
55 16 0.29
56 3 0.05
57 1 0.02
58 27 0.48
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATATATGATATTTTTATTAAATTATATTTA
Found at i:60857720 original size:51 final size:50
Alignment explanation
Indices: 60857617--60857719 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
60857607 ATTTACTTAA
60857617 TTTCTTTAAAAAAAAATTGTGATCGGGGTATTCAATTTCTAAGATTATTT
1 TTTCTTTAAAAAAAAATTGTGATCGGGGTATTCAATTTCTAAGATTATTT
*
60857667 TTTCTTTTAAAAAAAATTGTGATCGGGGTATTCAATTTCTAAGATTATTT
1 TTTCTTTAAAAAAAAATTGTGATCGGGGTATTCAATTTCTAAGATTATTT
60857717 TTT
1 TTT
60857720 TTGATAACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (50 bp):
TTTCTTTAAAAAAAAATTGTGATCGGGGTATTCAATTTCTAAGATTATTT
Found at i:60858535 original size:16 final size:16
Alignment explanation
Indices: 60858514--60858547 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
60858504 CTTCAACCTC
*
60858514 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
60858530 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
60858546 TC
1 TC
60858548 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:60859442 original size:13 final size:11
Alignment explanation
Indices: 60859414--60859447 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
60859404 CATTTTTTCT
60859414 CATATATTGTA
1 CATATATTGTA
60859425 CATATATTGTA
1 CATATATTGTA
60859436 CATATATTGTA
1 CATATATTGTA
60859447 C
1 C
60859448 TAATTCCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
CATATATTGTA
Found at i:60860682 original size:20 final size:20
Alignment explanation
Indices: 60860657--60860696 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60860647 AATATTTTCC
* *
60860657 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
60860677 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
60860697 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:60865577 original size:12 final size:12
Alignment explanation
Indices: 60865562--60865587 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60865552 TTAATTGATA
60865562 ATTTTTTAAATT
1 ATTTTTTAAATT
60865574 ATTTTTTAAATT
1 ATTTTTTAAATT
60865586 AT
1 AT
60865588 AATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTTTAAATT
Found at i:60866488 original size:5 final size:6
Alignment explanation
Indices: 60866471--60866504 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
60866461 CATCAAATAA
*
60866471 TCTTTT TCTTTT TCTTTT TCCTTTT CCTTTT TCT
1 TCTTTT TCTTTT TCTTTT T-CTTTT TCTTTT TCT
60866505 CTTAGAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:60866494 original size:13 final size:13
Alignment explanation
Indices: 60866471--60866503 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60866461 CATCAAATAA
60866471 TCTTTTT-CTTTT
1 TCTTTTTCCTTTT
60866483 TCTTTTTCCTTTT
1 TCTTTTTCCTTTT
*
60866496 CCTTTTTC
1 TCTTTTTC
60866504 TCTTAGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTCCTTTT
Found at i:60866957 original size:16 final size:16
Alignment explanation
Indices: 60866930--60866972 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
60866920 TATTTAATCC
60866930 TATAATAAATTATTA-
1 TATAATAAATTATTAT
60866945 -AT-ATAAATTATTAT
1 TATAATAAATTATTAT
*
60866959 TTTAATAAATTATT
1 TATAATAAATTATT
60866973 TACTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 11 0.46
14 2 0.08
15 1 0.04
16 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAATAAATTATTAT
Found at i:60874057 original size:19 final size:19
Alignment explanation
Indices: 60874011--60874058 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
60874001 GTATATATTT
60874011 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
60874029 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
60874048 TAAGTTTTATT
1 TAAATTTTATT
60874059 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:60881049 original size:12 final size:12
Alignment explanation
Indices: 60881034--60881066 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
60881024 CCTAAACTCC
60881034 TCCATAAAAAAT
1 TCCATAAAAAAT
60881046 TCCATAAAAAAT
1 TCCATAAAAAAT
60881058 TCCA-AAAAA
1 TCCATAAAAA
60881067 GCCATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (12 bp):
TCCATAAAAAAT
Found at i:60883052 original size:47 final size:45
Alignment explanation
Indices: 60882926--60883108 Score: 199
Period size: 47 Copynumber: 4.0 Consensus size: 45
60882916 CTATCATAAT
* * *
60882926 TTCACCCATAATGAACTCAGAACGCAACTCAACGAGCTCGGGTG-
1 TTCATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
*
60882970 TTCATATCCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGC
1 TTC--ATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
*
60883017 TTGCATCCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 TT-CATCCATAA-TGAACTCAGAACGCAACTCAACGAGTTCGGATGC
* * * * *
60883064 CTCAT-AATTCTCACGAACTCGGAACGCAACTCAACGAGTTCGGAT
1 TTCATCCA---TAATGAACTCAGAACGCAACTCAACGAGTTCGGAT
60883109 CTCAATTTCC
Statistics
Matches: 121, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 48 0.40
47 66 0.55
48 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (45 bp):
TTCATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
Found at i:60883102 original size:94 final size:92
Alignment explanation
Indices: 60882931--60883108 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 92
60882921 ATAATTTCAC
* * *
60882931 CCATAATGAACTCAGAACGCAACTCAACGAGCTCGGGTGTTCATATCCATAATGAACTCAGAACA
1 CCATAATGAACTCAGAACGCAACTCAACGAGCTCGGATGCTCATATCCATAACGAACTCAGAACA
60882996 CAACTCAACGAGTTCGGATGCTTGCAT
66 CAACTCAACGAGTTCGGATGCTTGCAT
* * * * *
60883023 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAATTC-TCACGAACTCGGA
1 CCATAA-TGAACTCAGAACGCAACTCAACGAGCTCGGATG-CTCAT-ATCCATAACGAACTCAGA
*
60883087 ACGCAACTCAACGAGTTCGGAT
63 ACACAACTCAACGAGTTCGGAT
60883109 CTCAATTTCC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 6 0.08
93 30 0.41
94 35 0.47
95 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (92 bp):
CCATAATGAACTCAGAACGCAACTCAACGAGCTCGGATGCTCATATCCATAACGAACTCAGAACA
CAACTCAACGAGTTCGGATGCTTGCAT
Found at i:60886127 original size:30 final size:30
Alignment explanation
Indices: 60886093--60886153 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
60886083 TTCTTAACTC
60886093 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
60886123 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
60886153 A
1 A
60886154 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:60891995 original size:52 final size:51
Alignment explanation
Indices: 60891876--60892054 Score: 231
Period size: 51 Copynumber: 3.5 Consensus size: 51
60891866 ATGGATGCCC
* * * * *
60891876 AGTGACCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAA
60891927 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAA
* * *
60891979 AGTGGCCTTCATATAGTACCACACTTATGACC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
60892028 AGTGG-CTTGCACATAGTACCACACTTG
1 AGTGGCCTT-CACATAGTACCACACTTG
60892055 AGTCACTAGT
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
48 3 0.03
49 29 0.25
51 42 0.37
52 41 0.36
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAA
Found at i:60896607 original size:40 final size:40
Alignment explanation
Indices: 60896507--60896771 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
60896497 TCCTCGTTCA
* * * * * *
60896507 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-G
* *
60896548 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60896588 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
60896628 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60896668 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
60896708 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60896748 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60896772 CAACATTCAA
Statistics
Matches: 198, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.02
40 153 0.77
41 42 0.21
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60896732 original size:80 final size:80
Alignment explanation
Indices: 60896507--60896718 Score: 334
Period size: 80 Copynumber: 2.6 Consensus size: 80
60896497 TCCTCGTTCA
* * * * *
60896507 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACACAATGCCTTCGGGACATAACCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA-AATGCCTTCGGGACTTAACCCGGA
60896572 TTTAACAACTCGCACG
65 TTTAACAACTCGCACG
* *
60896588 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
60896653 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* *
60896668 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
60896719 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 86 0.72
81 34 0.28
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:60896780 original size:41 final size:41
Alignment explanation
Indices: 60896703--60896780 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60896693 TTAGTATCTC
* * *
60896703 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
60896744 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGA-AACATTCA
60896781 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:60903120 original size:38 final size:39
Alignment explanation
Indices: 60903004--60903183 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 39
60902994 GCTACTCGTT
*
60903004 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCGGATT-TAGTAACTCGCA
*
60903044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCGGATTTAGTAACTCGCA
* *
60903084 CAAATGCCTTCGGG-CTTAGCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCGCA
* * * *
60903122 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCGGATTTAGTAAC-TCGCA
60903163 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
60903184 CGGACATCAT
Statistics
Matches: 122, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
37 2 0.02
38 29 0.24
39 10 0.08
40 67 0.55
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCGCA
Found at i:60903147 original size:78 final size:80
Alignment explanation
Indices: 60903004--60903183 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
60902994 GCTACTCGTT
* *
60903004 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
60903069 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* **
60903084 CAAATGCCTTCGGG-CTTAGCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
60903146 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
60903163 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
60903184 CGGACATCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
77 4 0.05
78 50 0.57
79 19 0.22
80 14 0.16
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:60916760 original size:40 final size:40
Alignment explanation
Indices: 60916669--60916840 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
60916659 GCTCCTCGTT
* * * *
60916669 CAAATGCCTTCGGGGCATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
60916709 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60916748 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60916788 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60916828 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60916841 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60916902 original size:41 final size:41
Alignment explanation
Indices: 60916825--60916902 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60916815 TTTGTATCTC
* * *
60916825 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60916866 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60916903 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60918363 original size:79 final size:81
Alignment explanation
Indices: 60918195--60918379 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
60918185 GCTACTCGTT
*
60918195 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
60918259 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* * **
60918275 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
60918337 GGATATGGTCACTTAGCA
65 AGATATAGTAAC-TAGCA
60918355 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
60918380 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
GATATAGTAACTAGCA
Found at i:60918379 original size:40 final size:40
Alignment explanation
Indices: 60918176--60918379 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
60918166 CGGAATTTAA
** *
60918176 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60918216 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60918256 CCAGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60918295 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
60918335 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACATAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60918375 CCGGA
1 CCGGA
60918380 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60920267 original size:40 final size:40
Alignment explanation
Indices: 60920076--60920260 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
60920066 TTGAATGATG
* * * *
60920076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
60920116 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60920156 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60920195 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60920236 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60920261 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60920282 original size:79 final size:79
Alignment explanation
Indices: 60920129--60920293 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
60920119 GAACTAAGAT
* ** **
60920129 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60920194 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60920208 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60920271 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60920287 CCGAAGG
1 CCGAAGG
60920294 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60924461 original size:24 final size:23
Alignment explanation
Indices: 60924418--60924464 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
60924408 TTTATGGTCT
60924418 AAAATTTCACGGAATGATTTTGAG
1 AAAATTTCACGGAA-GATTTTGAG
60924442 AAAATTTCATTCGGAA-ATTTTGA
1 AAAATTTCA--CGGAAGATTTTGA
60924465 CGTTTGGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 16 0.76
26 5 0.24
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (23 bp):
AAAATTTCACGGAAGATTTTGAG
Found at i:60926265 original size:13 final size:13
Alignment explanation
Indices: 60926247--60926285 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
60926237 TCTTCACTAA
60926247 AGAATTCGGATAC
1 AGAATTCGGATAC
**
60926260 AGAATTCATTATAC
1 AGAATTC-GGATAC
60926274 AGAATTCGGATA
1 AGAATTCGGATA
60926286 ACCTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (13 bp):
AGAATTCGGATAC
Found at i:60927146 original size:53 final size:53
Alignment explanation
Indices: 60927077--60927271 Score: 142
Period size: 53 Copynumber: 3.6 Consensus size: 53
60927067 TTCCTTTTTA
* * * *
60927077 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAG-ATCCTTGCCTTATG
* *
60927130 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGAGATCTTTGCCTTATCG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTAT-G
** * * * * * ** * *
60927184 TAGTTTATCAATGCCATGTCTCGACAT-GTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTAT-G
* * * * *
60927238 AACTTACCAATACCATGCCTTGGCATGATCTTAC
1 AACTCACCATTGCCATGCCTTGACATGGTCTTAC
60927272 TTGGTATGCT
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 63 0.57
54 29 0.26
55 18 0.16
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATG
Found at i:60930008 original size:19 final size:19
Alignment explanation
Indices: 60929984--60930021 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60929974 GCTAAGATAG
60929984 AACCATCATCCAATAAGGT
1 AACCATCATCCAATAAGGT
60930003 AACCATCATCCAATAAGGT
1 AACCATCATCCAATAAGGT
60930022 TAAACTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (19 bp):
AACCATCATCCAATAAGGT
Found at i:60933300 original size:61 final size:61
Alignment explanation
Indices: 60933181--60933300 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 61
60933171 TTATTCAGAA
* *
60933181 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
* *
60933242 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACA
60933301 AGTTGAGATC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 33 0.62
61 20 0.38
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
Found at i:60933326 original size:60 final size:60
Alignment explanation
Indices: 60933181--60933329 Score: 169
Period size: 60 Copynumber: 2.5 Consensus size: 60
60933171 TTATTCAGAA
* *
60933181 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
* * *
60933242 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGT
* * *
60933304 -TGAGA-TCTATTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTTGCCCATAT
60933330 TAACACAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
60 47 0.62
61 25 0.33
62 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
Found at i:60933347 original size:20 final size:20
Alignment explanation
Indices: 60933322--60933367 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
60933312 ATTGGGCCTT
60933322 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
60933342 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
60933361 GCCCATA
1 GCCCATA
60933368 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:60934050 original size:24 final size:24
Alignment explanation
Indices: 60934006--60934052 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
60933996 CTGTCAGGAG
** *
60934006 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGACAAGGGAT
60934030 AGGATTTAGGAGCAGACAAGGGA
1 AGGATTTAGGAGCAGACAAGGGA
60934053 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGATTTAGGAGCAGACAAGGGAT
Found at i:60935509 original size:27 final size:26
Alignment explanation
Indices: 60935469--60935580 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
60935459 AGGAAGCGTC
*
60935469 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
60935496 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
60935523 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
60935551 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
60935577 CTGG
1 CTGG
60935581 CAGCCAGGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:60935573 original size:54 final size:54
Alignment explanation
Indices: 60935469--60935580 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
60935459 AGGAAGCGTC
*
60935469 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
60935523 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
60935577 CTGG
1 CTGG
60935581 CAGCCAGGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:60942487 original size:50 final size:50
Alignment explanation
Indices: 60942368--60942656 Score: 226
Period size: 50 Copynumber: 5.7 Consensus size: 50
60942358 ATTGTAAGAA
* * * ** *
60942368 CACATGTCTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGT-TTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACTA-GGTAGTTAGGT
*
60942420 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
** * ** ** ** * * *
60942470 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG-GTAGTTAGGT
* * *
60942521 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGGTAGTTAGGT
* * * * * *
60942571 CACGTGTGTAGTACTTAGTGCAGGCTACTACATGTAC-CGG-ATTTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTA-GTTAGGT
* *
60942620 CACATGTGTAGTAGTAAGTGCAGGCTACTATGTGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
60942657 CAGATAGCTT
Statistics
Matches: 186, Mismatches: 46, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
49 41 0.22
50 79 0.42
51 36 0.19
52 30 0.16
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
Found at i:60942661 original size:99 final size:100
Alignment explanation
Indices: 60942412--60942663 Score: 303
Period size: 101 Copynumber: 2.5 Consensus size: 100
60942402 TTTAAGATGG
* * **
60942412 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGTTGCATGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
60942477 GTAGTACTAAGTGCAGGCTACTATGCATACCCGACA
66 GTAGTACTAAGTGCAGGCTACTATG-ATACCCGACA
** * * * * *
60942513 ACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
* *
60942578 GTAGTACTTAGTGCAGGCTACTACATG-TA-CCG-GA
66 GTAGTACTAAGTGCAGGCTACT--ATGATACCCGACA
* * * *
60942612 TTTTTGGTCACATGTGTAGTAGTAAGTGCAGGCTACTATGTGTACCAGATAG
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
60942664 CTTCGATTAC
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 44 0.35
100 3 0.02
101 77 0.61
103 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (100 bp):
TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
GTAGTACTAAGTGCAGGCTACTATGATACCCGACA
Found at i:60942692 original size:150 final size:152
Alignment explanation
Indices: 60942376--60942695 Score: 385
Period size: 150 Copynumber: 2.1 Consensus size: 152
60942366 AACACATGTC
* * *
60942376 TAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTGC
1 TAGTAATATGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTGC
* **
60942441 AGGCTACTACGTGTACTAGGTAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCATA
65 AGGCTACTACATGTACTAGGTAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATA
* ** *
60942506 CCCGACAACTTCGATCACGTGTG
130 CCAGACAACTTCGATCACAAGGG
* * * *
60942529 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTTAGTGCA
1 TAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCA
* * * * **
60942593 GGCTACTACATGTAC-CGG-ATTTTTGGTCACATGTGTAGTAGTAAGTGCAGGCTACTATGTGTA
66 GGCTACTACATGTACTAGGTA-GTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATA
* * *
60942656 CCAGATAGCTTCGATTACAAGGG
130 CCAGACAACTTCGATCACAAGGG
*
60942679 TGGTAATATGTGCAGGC
1 TAGTAATATGTGCAGGC
60942696 AACCGTGTAT
Statistics
Matches: 142, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
149 1 0.01
150 68 0.48
151 41 0.29
153 32 0.23
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (152 bp):
TAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCA
GGCTACTACATGTACTAGGTAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATAC
CAGACAACTTCGATCACAAGGG
Found at i:60948137 original size:21 final size:21
Alignment explanation
Indices: 60948111--60948151 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
60948101 CTTTATTCAG
*
60948111 CTGTCTATAGTTAATACACAA
1 CTGTCTACAGTTAATACACAA
60948132 CTGTCTACAGTTAATACACA
1 CTGTCTACAGTTAATACACA
60948152 TTCTCATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (21 bp):
CTGTCTACAGTTAATACACAA
Found at i:60954737 original size:49 final size:48
Alignment explanation
Indices: 60954458--60954737 Score: 162
Period size: 49 Copynumber: 5.8 Consensus size: 48
60954448 TGTGTGTGCT
* * *
60954458 AGTGTAAGACCTGTCTGGGACATGGTATCGGTAC-TGATAG-ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-G-ACTTGAT-GTATGAAAGTC
* * * * * * * *
60954507 AATGTAACACCTGTTTGGGACACGGCATCGACCTCAAGATATGCAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGATG-TATGAAAGTC
* * * * *
60954555 TAGTGTAAGACTTGTCTGGGACATGGCATCGGCTTGA-G-GTG--TGTT
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGATGTATGAAAGTC
* * * * * ** * * *
60954600 AGTGTAAGACCTATTTGGGACACGACATCAAC-ACATATAAGCAAGAGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGATGTATG-AA-AGTC
* *
60954649 AGTGTAAAACCTGTCTGGGACATGGCATCAGCCTTGATGTATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACTTGATGTATGAAAGTC
*
60954698 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGATGT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTT-GATGT
60954738 GAGAGCTAGT
Statistics
Matches: 167, Mismatches: 50, Indels: 28
0.68 0.20 0.11
Matches are distributed among these distances:
43 1 0.01
44 26 0.16
45 1 0.01
46 2 0.01
47 3 0.02
48 9 0.05
49 117 0.70
50 3 0.02
51 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTTGATGTATGAAAGTC
Found at i:60968553 original size:49 final size:50
Alignment explanation
Indices: 60968483--60968731 Score: 223
Period size: 49 Copynumber: 5.0 Consensus size: 50
60968473 TAATATGGTT
* *
60968483 TTAGGTCACATGTGTAGTACTAAATGCAGGCTACTA-GTGTACCAGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * ** * * *
60968532 TTAGGTTGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGACAAC
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * ** *
60968583 TTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
60968633 TTAGGTCACGTGTTTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * *
60968683 TT-GGTCGCATGTGTGGTACTTAGTGCAGGCTACTATGCGTACTAGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
60968732 CTTCGGTTGC
Statistics
Matches: 155, Mismatches: 43, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
49 68 0.44
50 51 0.33
51 36 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:60968636 original size:101 final size:100
Alignment explanation
Indices: 60968488--60968668 Score: 254
Period size: 101 Copynumber: 1.8 Consensus size: 100
60968478 TGGTTTTAGG
**
60968488 TCACATGTGTAGTACTAAATGCAGGCTACTAGTGTACCAGATAGTTAGGTTGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAATGCAGGCTACTAGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
* *
60968553 AAGTGTAGGCTACTATGCATACCCGACAACTTCGA
66 AAGTGCAAGCTACTATGCATACCCGACAACTTCGA
* * ** * * *
60968588 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTTTAGTAC
1 TCACATGTGTAGTACTAAATGCAGGCTACTA-GTGTACCAGATAGTTAGGTCACATGTGTAGTAC
60968653 TAAGTGCAAGCTACTA
65 TAAGTGCAAGCTACTA
60968669 CGTGTACCGG
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 29 0.42
101 40 0.58
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAATGCAGGCTACTAGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
AAGTGCAAGCTACTATGCATACCCGACAACTTCGA
Found at i:60968950 original size:16 final size:15
Alignment explanation
Indices: 60968929--60968958 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
60968919 GAATGGAGTA
60968929 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
60968945 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
60968959 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:60971480 original size:40 final size:40
Alignment explanation
Indices: 60971436--60971512 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
60971426 TTAGTGCCAC
* *
60971436 ATATAGCCGAAGCTAT-TCCAATTCGCACACTAAGTGCTAT
1 ATATAGCCAAAGCTATCTCCAA-ACGCACACTAAGTGCTAT
*
60971476 ATATAGCCAAAGCTATCTCGAAACGCACACTAAGTGC
1 ATATAGCCAAAGCTATCTCCAAACGCACACTAAGTGC
60971513 CAAACGTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ATATAGCCAAAGCTATCTCCAAACGCACACTAAGTGCTAT
Found at i:60977613 original size:46 final size:48
Alignment explanation
Indices: 60977381--60977743 Score: 172
Period size: 46 Copynumber: 7.7 Consensus size: 48
60977371 AGGGTGTAAT
* * *
60977381 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGC-T-CATC-CATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTTACATCTCAT-AG
** * * ** *
60977428 GTTGATGCCATGTCCCAAACATGGTTTTACACTGAC-TATCAAAATC-GAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTTA-C-ATCTCATAG
* ** * * * *
60977477 GCTGACACAATGTCCCAGACATCGTATTACACTGGTTCTCACATCTCCAT--
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACT-G-ACTTACATCT-CATAG
* * *
60977527 GCTGATGCCATGTCCTAGACATGGTCTTACACTAAC--ACATCTCATA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTTACATCTCATAG
60977573 GCCGATGCATGTCCCAGACAT-GTCTTACACTGACTTACATCTCA-AG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGACTTACATCTCATAG
* * * *
60977619 GCCGATGCATGTCCCAAACAT-GTTTTACACT-AGCTCT-CGTCTCA-AT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGA-CT-TACATCTCATAG
* * * * *
60977665 GTCGTTGCCATGTCCCAAACATGGTCTTACACTGGC-T-C-TCGTAATATG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTTACATC-TCATA-G
* *
60977713 GCTGATGCATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
60977744 AGCGCACAAA
Statistics
Matches: 247, Mismatches: 46, Indels: 47
0.73 0.14 0.14
Matches are distributed among these distances:
44 12 0.05
45 20 0.08
46 77 0.31
47 59 0.24
48 16 0.06
49 27 0.11
50 30 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGACTTACATCTCATAG
Found at i:60977703 original size:48 final size:46
Alignment explanation
Indices: 60977573--60977743 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
60977563 ACATCTCATA
* * *
60977573 GCCGATGCATGTCCCAGACATGTCTTACACTGACT-TACATCTCAAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CGTCTCAAG
* * *
60977619 GCCGATGCATGTCCCAAACATGTTTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCGTCTCAAG
* * * *
60977665 GTCGTTGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTAAT-ATG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCGT-CTCAAG
* * *
60977713 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
60977744 AGCGCACAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 53 0.51
47 27 0.26
48 22 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCGTCTCAAG
Found at i:60981995 original size:41 final size:40
Alignment explanation
Indices: 60981922--60982042 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 40
60981912 TAACGTTATT
* * *
60981922 GCACACTTAGTGCCATCACATTAAACCGAAGCTATCTCAGTACC
1 GCACACTTAGTGCCA-CATA-T-AGCCGAAGCTATCTCAAT-CC
*
60981966 GCACACTTAGTGCCACATATAGCCGAAGCTAT-TCCAATTC
1 GCACACTTAGTGCCACATATAGCCGAAGCTATCT-CAATCC
* * * * *
60982006 GCACACTAAGTGCTATATATAGCCAAAACTATCTCAA
1 GCACACTTAGTGCCACATATAGCCGAAGCTATCTCAA
60982043 AACACACTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
40 32 0.48
41 15 0.23
42 1 0.02
43 3 0.05
44 15 0.23
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (40 bp):
GCACACTTAGTGCCACATATAGCCGAAGCTATCTCAATCC
Found at i:60989198 original size:17 final size:17
Alignment explanation
Indices: 60989176--60989209 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60989166 TTGTTGGTTC
60989176 GGTTTTGAAATTCAAAA
1 GGTTTTGAAATTCAAAA
60989193 GGTTTTGAAATTCAAAA
1 GGTTTTGAAATTCAAAA
60989210 CCGTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
GGTTTTGAAATTCAAAA
Found at i:60989359 original size:17 final size:18
Alignment explanation
Indices: 60989327--60989401 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 18
60989317 AATTAGAAAT
*
60989327 TAAAAGATAATAATATTAA
1 TAAAA-ATATTAATATTAA
* *
60989346 TTAAAAT-TTAATATTCA
1 TAAAAATATTAATATTAA
*
60989363 TAAAAATATTAAACATTAA
1 TAAAAATATT-AATATTAA
*
60989382 TAAAAAAATATTAAAATTAA
1 T--AAAAATATTAATATTAA
60989402 AACCTGACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
17 14 0.31
18 4 0.09
19 11 0.24
20 7 0.16
21 9 0.20
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAAAATATTAATATTAA
Found at i:60991199 original size:46 final size:45
Alignment explanation
Indices: 60991095--60991312 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 45
60991085 AGATTTGTGT
**
60991095 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GACGAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGATGA-G-A
* *
60991142 GGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAG-ATGAGA
* ** **
60991189 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACAGATGAGA
* * * * *
60991235 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGGGAT-A-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGATGAGA
* *
60991279 GCTAGTGTAAGACATGTCTGTGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
60991313 ATGGTTACAT
Statistics
Matches: 141, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 30 0.21
46 76 0.54
47 20 0.14
48 13 0.09
49 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGA
Found at i:60991248 original size:92 final size:90
Alignment explanation
Indices: 60991095--60991349 Score: 262
Period size: 90 Copynumber: 2.8 Consensus size: 90
60991085 AGATTTGTGT
*
60991095 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAAGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAAGGCCAGTGTAAGACATGT
*
60991160 CTGGGACATGCATCAGCCACAGTATGAGA
64 CTGGGACATGCATCAGCCACAGGAT-A-A
* * * * *
60991189 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTTA-GCCAGTGTCAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACG-AAGGCCAGTGTAAGACATGTC
* * * * *
60991253 TGGGACATGCGTCGGCTACGGGATAT
65 TGGGACATGCATCAGCCACAGGATAA
* * * ** * * *
60991279 GCTAGTGTAAGACATGTCTGTGACATGCATCGGCATGGTTAC-ATGTGTCAGTGTAAGACCTGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAG-GCCAGTGTAAGACATGTC
60991343 TGGGACA
65 TGGGACA
60991350 CGGCATCGAC
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
90 56 0.42
91 1 0.01
92 49 0.37
93 15 0.11
94 12 0.09
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAGGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACAGGATAA
Found at i:60993811 original size:9 final size:9
Alignment explanation
Indices: 60993799--60993855 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
60993789 TTTGATAAAC
60993799 ATGATATGT
1 ATGATATGT
*
60993808 ATGATATGCAC
1 ATGATATG--T
*
60993819 ATGACATGT
1 ATGATATGT
*
60993828 ATGATATGCAC
1 ATGATATG--T
60993839 ATGATATGT
1 ATGATATGT
60993848 ATGATATG
1 ATGATATG
60993856 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:60993822 original size:20 final size:20
Alignment explanation
Indices: 60993797--60993867 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
60993787 ATTTTGATAA
60993797 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
60993817 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
60993837 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
60993857 ACATGAGATGT
1 ACATGATATGT
60993868 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:60993844 original size:11 final size:11
Alignment explanation
Indices: 60993808--60993862 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
60993798 CATGATATGT
60993808 ATGATATGCAC
1 ATGATATGCAC
* *
60993819 ATGACATG--T
1 ATGATATGCAC
60993828 ATGATATGCAC
1 ATGATATGCAC
*
60993839 ATGATATG--T
1 ATGATATGCAC
60993848 ATGATATGCAC
1 ATGATATGCAC
60993859 ATGA
1 ATGA
60993863 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60993944 original size:24 final size:24
Alignment explanation
Indices: 60993912--60994036 Score: 182
Period size: 24 Copynumber: 5.2 Consensus size: 24
60993902 GGAGGAAGTG
60993912 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
60993936 CAAAAGGGCTTATGCCCCAGTTAC
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
60993960 CAAAAGGGCTTATACCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
60993984 C-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
60994007 TAAAAGGGCCTT-TGCCCCAGTTAT
1 CAAAAGGG-CTTATGCCCCAGTTAT
*
60994031 TAAAAG
1 CAAAAG
60994037 AGACTAGGCC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.22
24 69 0.75
25 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:60994025 original size:47 final size:48
Alignment explanation
Indices: 60993912--60994036 Score: 182
Period size: 47 Copynumber: 2.6 Consensus size: 48
60993902 GGAGGAAGTG
60993912 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAC
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAC
* * *
60993960 CAAAAGGGCTTATACCCCAATTATC-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAC
* *
60994007 TAAAAGGGCCTT-TGCCCCAGTTATTAAAAG
1 CAAAAGGG-CTTATGCCCCAGTTATCAAAAG
60994037 AGACTAGGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 38 0.56
48 30 0.44
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAC
Found at i:60994283 original size:31 final size:31
Alignment explanation
Indices: 60994248--60994311 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60994238 CGTTTACAGT
60994248 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
60994279 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
60994310 AA
1 AA
60994312 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:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61001483 original size:40 final size:40
Alignment explanation
Indices: 61001446--61001710 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
61001436 GCTACTCGTT
* *
61001446 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
61001486 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
61001526 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
61001566 AAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
61001606 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
61001645 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACATAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61001686 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61001711 CATCATTCAA
Statistics
Matches: 205, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 157 0.77
41 13 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61001698 original size:119 final size:121
Alignment explanation
Indices: 61001446--61001710 Score: 369
Period size: 119 Copynumber: 2.2 Consensus size: 121
61001436 GCTACTCGTT
*
61001446 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
61001510 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* * *
61001566 AAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* ** * *
61001629 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACATAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
61001686 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61001711 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.02
119 68 0.53
120 55 0.43
121 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:61003458 original size:9 final size:9
Alignment explanation
Indices: 61003446--61003502 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61003436 TTTGATAAAC
61003446 ATGATATGT
1 ATGATATGT
*
61003455 ATGATATGCAC
1 ATGATATG--T
*
61003466 ATGACATGT
1 ATGATATGT
*
61003475 ATGATATGCAC
1 ATGATATG--T
61003486 ATGATATGT
1 ATGATATGT
61003495 ATGATATG
1 ATGATATG
61003503 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:61003469 original size:20 final size:20
Alignment explanation
Indices: 61003444--61003514 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61003434 ATTTTGATAA
61003444 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61003464 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61003484 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61003504 ACATGAGATGT
1 ACATGATATGT
61003515 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61003491 original size:11 final size:11
Alignment explanation
Indices: 61003455--61003509 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61003445 CATGATATGT
61003455 ATGATATGCAC
1 ATGATATGCAC
* *
61003466 ATGACATG--T
1 ATGATATGCAC
61003475 ATGATATGCAC
1 ATGATATGCAC
*
61003486 ATGATATG--T
1 ATGATATGCAC
61003495 ATGATATGCAC
1 ATGATATGCAC
61003506 ATGA
1 ATGA
61003510 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Done.