Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 159 of 255
Found at i:51977814 original size:29 final size:29
Alignment explanation
Indices: 51977721--51977815 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
51977711 ATGACCCACT
*
51977721 AGGCCCAATCTCAC-TT-ATATGGCCCATCC
1 AGGCCCAAT-TCACATTCAAATGGCCCAT-C
* * * *
51977750 A-ACCAAATTCACGTTCATATGGCCCATC
1 AGGCCCAATTCACATTCAAATGGCCCATC
*
51977778 AGGCCCAATTCACATTCAAATGGCCCATT
1 AGGCCCAATTCACATTCAAATGGCCCATC
*
51977807 AGGTCCAAT
1 AGGCCCAAT
51977816 CTCATTATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
27 4 0.07
28 9 0.16
29 42 0.76
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AGGCCCAATTCACATTCAAATGGCCCATC
Found at i:51986953 original size:46 final size:46
Alignment explanation
Indices: 51986900--51987063 Score: 199
Period size: 46 Copynumber: 3.5 Consensus size: 46
51986890 TACATCTCTC
*
51986900 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * ***
51986946 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT
*
51986992 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
51987039 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
51987064 TGGATGCCCA
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 55 0.57
47 31 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:51987010 original size:47 final size:47
Alignment explanation
Indices: 51986882--51987021 Score: 153
Period size: 47 Copynumber: 3.0 Consensus size: 47
51986872 ACTTGAGTGT
*
51986882 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACA
1 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGG--A
* * *** *
51986931 TTCGC-A--TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA
1 TGC-CTAGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGA
*
51986975 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGA
51987022 CATTCGCATC
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.06
46 31 0.43
47 32 0.44
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (47 bp):
TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGA
Found at i:51987041 original size:93 final size:93
Alignment explanation
Indices: 51986882--51987071 Score: 344
Period size: 93 Copynumber: 2.0 Consensus size: 93
51986872 ACTTGAGTGT
* *
51986882 TGCCTAGTTACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTG
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
51986947 AACTCGGACTCAACTCAACGAGCTCGGA
66 AACTCGGACTCAACTCAACGAGCTCGGA
51986975 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
* *
51987040 AACTCGGACTCAACTCAACGAGTTTGGA
66 AACTCGGACTCAACTCAACGAGCTCGGA
51987068 TGCC
1 TGCC
51987072 CAAATATCCT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (93 bp):
TGCCTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
AACTCGGACTCAACTCAACGAGCTCGGA
Found at i:51996433 original size:227 final size:228
Alignment explanation
Indices: 51996038--51996488 Score: 638
Period size: 227 Copynumber: 2.0 Consensus size: 228
51996028 ATTTCAAAGT
* *
51996038 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTGCAACTTATTCAATTTAGTCCCTAACTTTA
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTTA
* * * *
51996103 AATTAAACTCGTTATGCCCAAAATTTCTTCACGAAATCTTCACACAATTAAACATTCATATCATA
66 AATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCATA
* *
51996168 AACCTCAAAATAATTATAAAATAATTATTTCTATCTCGGA-TTTGTGGTCATGAAACCACTATTC
131 AACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTC
* * *
51996232 CGATTAGGCCCTAATTC-GGAATATTACAAAAAC
196 CGACTAGGCCCAAAATCAGG-ATATTACAAAAAC
* * * *
51996265 AATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTTTGTCCCTAA-TTTC
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTT-
* * * * * ** *
51996329 AATTTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAGTCATATCTT
65 AAATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCAT
* *
51996394 AGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCGCTATT
130 AAACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATT
51996459 CCGACTAGGCCCAAAATCAGGATATTACAA
195 CCGACTAGGCCCAAAATCAGGATATTACAA
51996489 CTCTCCCCCT
Statistics
Matches: 196, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
226 3 0.02
227 146 0.74
228 45 0.23
229 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (228 bp):
AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCAATTTAGTCCCTAACTTTA
AATTAAACACGTTATGCACAAAATTTCTTCACGAAATCTTCACACAATCAAACAGTCATATCATA
AACCTCAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTC
CGACTAGGCCCAAAATCAGGATATTACAAAAAC
Found at i:52000667 original size:93 final size:93
Alignment explanation
Indices: 52000550--52000814 Score: 478
Period size: 93 Copynumber: 2.8 Consensus size: 93
52000540 GCCCATAAGT
*
52000550 GAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52000614 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
52000643 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52000708 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
52000736 GAACTCGGACTCAATTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52000801 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52000815 CAAATATCCT
Statistics
Matches: 166, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
92 2 0.01
93 164 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52000671 original size:47 final size:47
Alignment explanation
Indices: 52000596--52000764 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 47
52000586 ATCCATAAGT
52000596 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * ***
52000643 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
52000689 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* *
52000736 GAACTCGGACTCAATTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
52000765 CATTCGCATC
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 31 0.31
47 58 0.59
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52000810 original size:46 final size:45
Alignment explanation
Indices: 52000542--52000809 Score: 274
Period size: 46 Copynumber: 5.8 Consensus size: 45
52000532 TGTAACCCGC
*
52000542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
52000588 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** *
52000634 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
* *
52000681 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** *
52000727 ACATCTCTCGAACTCGGACTCAATTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
52000774 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
52000810 ATGCCCAAAT
Statistics
Matches: 179, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 2 0.01
46 96 0.54
47 62 0.35
49 8 0.04
50 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:52013973 original size:56 final size:56
Alignment explanation
Indices: 52013887--52014006 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52013877 ACAAGGGATG
52013887 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
52013943 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
52013999 ATGGGCAA
1 ATGGGCAA
52014007 TAAACCAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:52015650 original size:47 final size:47
Alignment explanation
Indices: 52015599--52015772 Score: 233
Period size: 47 Copynumber: 3.7 Consensus size: 47
52015589 TTAGGATTCT
* * *
52015599 ATGTGATGGATGTGAACA-TGCATATATGAGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAGGGCCTAATGGCCG
*
52015646 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
* * * *
52015693 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
* * *
52015740 ACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATA
52015773 AGTCCCGAAG
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCG
Found at i:52015951 original size:37 final size:37
Alignment explanation
Indices: 52015893--52015971 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
52015883 CCGAGCTCTA
* * *
52015893 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
52015930 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
52015967 AAGAC
1 AAGAC
52015972 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:52018131 original size:40 final size:40
Alignment explanation
Indices: 52017821--52018199 Score: 360
Period size: 40 Copynumber: 9.5 Consensus size: 40
52017811 TCGAATGATG
* *
52017821 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
52017861 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
52017900 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
52017940 TCCGGGTTAAGTCTCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
52017980 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
52018020 TCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
52018060 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
52018100 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
52018140 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
52018180 TCCGGGCTAGGTCCCGAAGA
1 TCCGGGCTAAGTCCCGAAGA
52018200 ACAATCATGC
Statistics
Matches: 292, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.12
40 237 0.81
41 20 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:52019481 original size:56 final size:52
Alignment explanation
Indices: 52019390--52019504 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 52
52019380 ACAAGGGATG
52019390 ATGGGC-AAACATGTCATGAACATGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAACATGTGTTAATGGAAGAATAAAATAAGAAGC
52019441 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATG-AACA---TGTGTTAATGGAAGAATAAAATAAGAAGC
52019497 ATGGGCAA
1 ATGGGCAA
52019505 TAAACAAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
51 6 0.10
52 12 0.20
53 4 0.07
56 37 0.63
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (52 bp):
ATGGGCAAAACATGTCATGAACATGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:52021145 original size:47 final size:47
Alignment explanation
Indices: 52021094--52021316 Score: 313
Period size: 47 Copynumber: 4.7 Consensus size: 47
52021084 TTAGGATTCT
* * * *
52021094 ATGTGATGGATGTGAACA-TGCATATATGAGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
52021141 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52021188 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
52021235 ATGTGATGAATGTGAATGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
52021282 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52021317 TCCCGAACGG
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.01
47 158 0.99
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:52021169 original size:25 final size:25
Alignment explanation
Indices: 52021141--52021219 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
52021131 CTAATGGCCG
52021141 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
52021166 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
52021188 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
52021213 ATGTGAT
1 ATGTGAT
52021220 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:52021491 original size:37 final size:37
Alignment explanation
Indices: 52021435--52021513 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
52021425 CCGAGCTCTA
* * *
52021435 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
* * *
52021472 AAGACCCTATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
52021509 AAGAC
1 AAGAC
52021514 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:52027981 original size:40 final size:40
Alignment explanation
Indices: 52027833--52028044 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
52027823 CATTTGAATG
* * * *
52027833 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
52027873 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
52027913 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
52027953 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * ** *
52027993 ATA-CCTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
52028033 ATATCC-GGCTAA
1 ATATCCGGGCTAA
52028045 ATACCGAAGA
Statistics
Matches: 155, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 9 0.06
40 141 0.91
41 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:52036114 original size:40 final size:40
Alignment explanation
Indices: 52036059--52036269 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
52036049 ATTTGAATGA
*
52036059 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
52036099 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
52036139 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * *
52036179 TATCTGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
52036219 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
52036259 TATCC-GGCTAA
1 TATCCGGGCTAA
52036270 ATACCGAAGA
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 142 0.93
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:52040395 original size:30 final size:30
Alignment explanation
Indices: 52040361--52040421 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52040351 TCCTTAACTC
52040361 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52040391 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52040421 A
1 A
52040422 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52048407 original size:41 final size:41
Alignment explanation
Indices: 52048277--52048408 Score: 96
Period size: 41 Copynumber: 3.1 Consensus size: 41
52048267 GCCGGCCATG
52048277 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
* ** * *
52048318 AACATGTTGG-GGTAGTGCATTATG-TATGGATTAATAAA-A--T-AAA
1 AGCATG--GGTGG-A---CAAGATGTTATGG-CTAA-AAACATGTCATA
52048361 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 -AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
52048403 AGCATG
1 AGCATG
52048409 TTGGGGTAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 30
0.62 0.09 0.28
Matches are distributed among these distances:
38 3 0.05
39 9 0.14
40 5 0.08
41 12 0.18
42 7 0.11
43 7 0.11
44 6 0.09
45 5 0.08
46 9 0.14
47 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (41 bp):
AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
Found at i:52048419 original size:85 final size:85
Alignment explanation
Indices: 52048276--52048454 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
52048266 GGCCGGCCAT
52048276 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
52048341 GTATGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52048361 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAGCATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
52048426 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52048446 GGGCATGGG
1 GAGCATGGG
52048455 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:52050675 original size:25 final size:25
Alignment explanation
Indices: 52050645--52050769 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 25
52050635 TAGGATTTTA
52050645 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
52050670 TGTGAT-AAGGCCG-A-ATG-GCCA-C
1 TGTGATGAATG-TGAACATGCG-TATG
*
52050692 TGTGATGGATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
52050717 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
52050739 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
52050764 TGTGAT
1 TGTGAT
52050770 AAGGCCGAAT
Statistics
Matches: 68, Mismatches: 18, Indels: 28
0.60 0.16 0.25
Matches are distributed among these distances:
22 16 0.24
23 15 0.22
24 15 0.22
25 22 0.32
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:52050696 original size:47 final size:47
Alignment explanation
Indices: 52050644--52050881 Score: 386
Period size: 47 Copynumber: 5.1 Consensus size: 47
52050634 TTAGGATTTT
52050644 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
52050691 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
52050738 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
52050785 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
52050832 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
52050879 ATG
1 ATG
52050882 CGAAACGTGT
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:52050944 original size:46 final size:46
Alignment explanation
Indices: 52050855--52050945 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
52050845 GAACATGAAT
* * * *
52050855 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
52050901 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
52050946 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:52050952 original size:141 final size:140
Alignment explanation
Indices: 52050644--52050930 Score: 357
Period size: 141 Copynumber: 2.0 Consensus size: 140
52050634 TTAGGATTTT
* * * * *
52050644 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * * * *
52050709 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
66 TGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGATAAAG
*
52050774 CCGAATGGCCA
130 CCAAATGGCCA
52050785 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
52050850 TGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGAGATG-GATATGTG-G-TA
66 TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--ACATGCG-TATGTGTGATA
*
52050911 AAGCCAAATGGCTA
127 AAGCCAAATGGCCA
52050925 ATGTGA
1 ATGTGA
52050931 GATATGTACG
Statistics
Matches: 126, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
139 5 0.04
140 20 0.16
141 91 0.72
142 10 0.08
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGC
CAAATGGCCA
Found at i:52051156 original size:42 final size:42
Alignment explanation
Indices: 52051097--52051219 Score: 193
Period size: 42 Copynumber: 3.0 Consensus size: 42
52051087 TTCCGGGTAA
52051097 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCC
*
52051139 GACCCGATAACTACGTGTGGAGATTATGTCCGGGT-A-A---
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCC
*
52051176 GACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCC
52051218 GA
1 GA
52051220 TAACTTCATG
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
37 33 0.45
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 36 0.49
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (42 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCC
Found at i:52051238 original size:37 final size:37
Alignment explanation
Indices: 52051088--52051237 Score: 210
Period size: 37 Copynumber: 3.9 Consensus size: 37
52051078 GGAAATATAT
*
52051088 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
52051125 TCCGGGTAAGACCCGACCCGATAACTACGTGTGGAGATTATG
1 TCCGGGT-A-A---GACCCGATAACTACGTGTGGAGATTATG
* *
52051167 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
52051204 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
52051238 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
37 64 0.63
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 34 0.33
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:52053198 original size:27 final size:27
Alignment explanation
Indices: 52053164--52053319 Score: 179
Period size: 27 Copynumber: 5.7 Consensus size: 27
52053154 AAATTGTACA
*
52053164 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
52053191 GCATTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
52053218 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
52053245 GCACTACGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
*
52053273 GCACTAAGTGTGCGATTTGATTATGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
*
52053300 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGATTTGA
52053320 TTTTATAGCA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:52053281 original size:82 final size:81
Alignment explanation
Indices: 52053164--52053319 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
52053154 AAATTGTACA
* *
52053164 GCACTAAGTGTGCGATTTGACTATGTTGCATTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG-TGGCACTAAGTG
52053228 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
52053245 GCACTACGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTG
*
52053310 TGCGAGTTGA
65 TGCGAATTGA
52053320 TTTTATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52053320 original size:27 final size:27
Alignment explanation
Indices: 52053163--52053340 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
52053153 TAAATTGTAC
*
52053163 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
52053190 TGCATTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
52053216 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* * *
52053244 GGCACTACGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
52053272 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * * *
52053299 GGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
52053326 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52053341 GGCTCGATAT
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 102 0.82
28 22 0.18
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:52061201 original size:27 final size:27
Alignment explanation
Indices: 52061171--52061271 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
52061161 AAATTGTACA
* *
52061171 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
52061198 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
* **
52061225 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
52061252 GCACTACGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
52061272 TTTTATAGCA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:52061283 original size:54 final size:55
Alignment explanation
Indices: 52061170--52061292 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 55
52061160 TAAATTGTAC
* * **
52061170 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATGAT
* ** * *
52061225 -GCACTAAGTGTGCGAATTGACCATGCGGCACTACGTGTGCGAGTTG-ATTTTAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATGAT
*
52061278 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52061293 GGCTCGATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
53 5 0.09
54 52 0.91
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATGAT
Found at i:52072905 original size:45 final size:45
Alignment explanation
Indices: 52072814--52072984 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
52072804 ATTTTTCCAT
* * * *
52072814 CGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TAATTTTAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
* * ** *
52072856 CGGCATTATATCCTACTAGGCTTGAAGGCTCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
52072901 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* * *
52072946 CGGCATCATAGCCTGCTAGGTTCAAAGGCCAGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
52072985 CCGTACGATA
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
42 7 0.06
43 14 0.13
44 4 0.04
45 84 0.76
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:52075800 original size:30 final size:30
Alignment explanation
Indices: 52075766--52075827 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
52075756 GTAATTAAAA
52075766 GAAATAAAAAGGGAAAATAAAGCCAAAATT
1 GAAATAAAAAGGGAAAATAAAGCCAAAATT
52075796 GAAATAAAAAGGGAAAATAAAGCCAAAATT
1 GAAATAAAAAGGGAAAATAAAGCCAAAATT
52075826 GA
1 GA
52075828 CTCATCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.63, C:0.06, G:0.18, T:0.13
Consensus pattern (30 bp):
GAAATAAAAAGGGAAAATAAAGCCAAAATT
Found at i:52077244 original size:50 final size:49
Alignment explanation
Indices: 52077174--52077319 Score: 211
Period size: 50 Copynumber: 3.0 Consensus size: 49
52077164 ATAACTTCGA
*
52077174 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GG
* *
52077224 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGG
* * * * *
52077273 TCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
52077320 TGGCTACATA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 42 0.49
50 44 0.51
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGG
Found at i:52086170 original size:48 final size:47
Alignment explanation
Indices: 52086116--52086338 Score: 234
Period size: 48 Copynumber: 4.7 Consensus size: 47
52086106 CATCATGAGA
* * * *
52086116 GCTAGTGTAAGACCATGTTTGGGACATGGCATTGACGTTGATATGTAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG-AT
** *
52086164 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CAATATGCGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATG-AT
* * *
52086212 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA-T
* * *
52086260 GCTAGTGTACGACCATGTTTGGGACATGGCATCGGCTTTGACATATGAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--ATATGAT
* * *
52086309 -CCAATGTAAGACCATGTCTAGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
52086339 CTGGCAACTT
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 137 0.94
49 1 0.01
50 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAT
Found at i:52086235 original size:96 final size:96
Alignment explanation
Indices: 52086116--52086295 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
52086106 CATCATGAGA
* * * * *
52086116 GCTAGTGTAAGACCATGTTTGGGACATGGCATTGACGTTGATATGTA-TGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATG-AGAGCTAGTGTAAGACCAT
52086180 GTCTGGGACATGGCATCGGCCACAATATGCGT
65 GTCTGGGACATGGCATCGGCCACAATATGCGT
* * *
52086212 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGTTATGAGAGCTAGTGTACGACCATG
1 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATG
*
52086277 TTTGGGACATGGCATCGGC
66 TCTGGGACATGGCATCGGC
52086296 TTTGACATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (96 bp):
GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCGGCCACAATATGCGT
Found at i:52104164 original size:24 final size:24
Alignment explanation
Indices: 52104127--52104215 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
52104117 ATCGAAATTA
52104127 ATAATTAAAAATAAAATTATAAAAT
1 ATAA-TAAAAATAAAATTATAAAAT
*
52104152 ATAATAAAAATAAAAATA-AAAAGT
1 ATAATAAAAATAAAATTATAAAA-T
** *
52104176 AGTTTTAATAA-AAAATTATAAACAT
1 A-TAATAAAAATAAAATTATAAA-AT
*
52104201 AAAATAATAAATAAA
1 ATAATAA-AAATAAA
52104216 TGTTTTTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
23 4 0.08
24 24 0.49
25 17 0.35
26 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAATAAAAATAAAATTATAAAAT
Found at i:52104165 original size:6 final size:6
Alignment explanation
Indices: 52104132--52104173 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
52104122 AATTAATAAT
* *
52104132 TAAAAA TAAAAT TATAAAA T-ATAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA TAAAAA
52104174 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:52116869 original size:27 final size:27
Alignment explanation
Indices: 52116839--52116892 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52116829 TGTCATGTGA
* *
52116839 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
52116866 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
52116893 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:52117217 original size:49 final size:49
Alignment explanation
Indices: 52117145--52117332 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
52117135 GTAGGTCACG
*
52117145 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * * * * *
52117194 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAATTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TT-GGTCGCA
* * *
52117245 TGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
*
52117294 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
52117333 GCCTTGTCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 4 0.03
51 38 0.32
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
Found at i:52117315 original size:100 final size:100
Alignment explanation
Indices: 52117140--52117332 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
52117130 CTATTGTAGG
*
52117140 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
* *
52117205 AAGTGTAGGCTACTATGCATACCCGATAATTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
*
52117240 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
52117305 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCATACCAGATA
52117333 GCCTTGTCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
Found at i:52118080 original size:385 final size:385
Alignment explanation
Indices: 52117370--52118142 Score: 1546
Period size: 385 Copynumber: 2.0 Consensus size: 385
52117360 GCAGACAACT
52117370 GAGTATCAGTTATTATTCTGAAGAGTTTAAATGGAAAATCGATTAAGTAAAAATACATGTGAACA
1 GAGTATCAGTTATTATTCTGAAGAGTTTAAATGGAAAATCGATTAAGTAAAAATACATGTGAACA
52117435 TGATTATATGATGAATAAGTGCAGGTATATGTTTATTAAAATTATGAGCAATGTAATCGATATTT
66 TGATTATATGATGAATAAGTGCAGGTATATGTTTATTAAAATTATGAGCAATGTAATCGATATTT
52117500 GAGTGAACTTCGATAAGACAAAATGGATTAAGTGAAATTATGTAAGAGTGAATTTTTGTAGTAAA
131 GAGTGAACTTCGATAAGACAAAATGGATTAAGTGAAATTATGTAAGAGTGAATTTTTGTAGTAAA
52117565 ACAGTGTTGGACAGTAGCAATTGCGTGACTTTGAAAATTCACCAAAAATTTTTTAAGTTGAATTA
196 ACAGTGTTGGACAGTAGCAATTGCGTGACTTTGAAAATTCACCAAAAATTTTTTAAGTTGAATTA
52117630 AATTTCAATAAAATTATGGAATTAAATATTAATGAGCCTATTTTCAATAAAAGAAATAGGGGGAG
261 AATTTCAATAAAATTATGGAATTAAATATTAATGAGCCTATTTTCAATAAAAGAAATAGGGGGAG
52117695 AAAAAGAGTTCTATATTATGTGATATTCTAATTTTTGTGAGACAGTGTCAGAATGAATTC
326 AAAAAGAGTTCTATATTATGTGATATTCTAATTTTTGTGAGACAGTGTCAGAATGAATTC
52117755 GAGTATCAGTTATTATTCTGAAGAGTTTAAATGGAAAATCGATTAAGTAAAAATACATGTGAACA
1 GAGTATCAGTTATTATTCTGAAGAGTTTAAATGGAAAATCGATTAAGTAAAAATACATGTGAACA
52117820 TGATTATATGATGAATAAGTGCAGGTATATGTTTATTAAAATTATGAGCAATGTAATCGATATTT
66 TGATTATATGATGAATAAGTGCAGGTATATGTTTATTAAAATTATGAGCAATGTAATCGATATTT
52117885 GAGTGAACTTCGATAAGACAAAATGGATTAAGTGAAATTATGTAAGAGTGAATTTTTGTAGTAAA
131 GAGTGAACTTCGATAAGACAAAATGGATTAAGTGAAATTATGTAAGAGTGAATTTTTGTAGTAAA
52117950 ACAGTGTTGGACAGTAGCAATTGCGTGACTTTGAAAATTCACCAAAAATTTTTTAAGTTGAATTA
196 ACAGTGTTGGACAGTAGCAATTGCGTGACTTTGAAAATTCACCAAAAATTTTTTAAGTTGAATTA
52118015 AATTTCAATAAAATTATGGAATTAAATATTAATGAGCCTATTTTCAATAAAAGAAATAGGGGGAG
261 AATTTCAATAAAATTATGGAATTAAATATTAATGAGCCTATTTTCAATAAAAGAAATAGGGGGAG
52118080 AAAAAGAGTTCTATATTATGTGATATTCTAATTTTTGTGAGACAGTGTCAGAATGAATTC
326 AAAAAGAGTTCTATATTATGTGATATTCTAATTTTTGTGAGACAGTGTCAGAATGAATTC
52118140 GAG
1 GAG
52118143 ATCCCCTATT
Statistics
Matches: 388, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
385 388 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (385 bp):
GAGTATCAGTTATTATTCTGAAGAGTTTAAATGGAAAATCGATTAAGTAAAAATACATGTGAACA
TGATTATATGATGAATAAGTGCAGGTATATGTTTATTAAAATTATGAGCAATGTAATCGATATTT
GAGTGAACTTCGATAAGACAAAATGGATTAAGTGAAATTATGTAAGAGTGAATTTTTGTAGTAAA
ACAGTGTTGGACAGTAGCAATTGCGTGACTTTGAAAATTCACCAAAAATTTTTTAAGTTGAATTA
AATTTCAATAAAATTATGGAATTAAATATTAATGAGCCTATTTTCAATAAAAGAAATAGGGGGAG
AAAAAGAGTTCTATATTATGTGATATTCTAATTTTTGTGAGACAGTGTCAGAATGAATTC
Found at i:52123442 original size:49 final size:50
Alignment explanation
Indices: 52123360--52123584 Score: 199
Period size: 49 Copynumber: 4.5 Consensus size: 50
52123350 TGAGGTCACG
* * * * *
52123360 TGTGTAGTACTAAGTTCATGCTACTACGTGTACCGGATGATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
* * * * * *
52123409 TGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAA-TT-AGATCGCA
* * ** * *
52123460 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATC-AGATGGTTAGGTC-AA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTAGATCGCA
* *
52123509 GTGTGTAGTACTAAGTGCAGGCAACTACGTATACCGAATAATT-GATCGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
*
52123559 TGTGTAGTACTAATTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52123585 TGCGTACCAG
Statistics
Matches: 137, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
49 60 0.44
50 42 0.31
51 35 0.26
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
Found at i:52131141 original size:12 final size:12
Alignment explanation
Indices: 52131107--52131135 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
52131097 CCTTGATCCA
52131107 CTCCTTAAATCT
1 CTCCTTAAATCT
52131119 CTCCTTAAATCT
1 CTCCTTAAATCT
52131131 CTCCT
1 CTCCT
52131136 CTAATCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCCTTAAATCT
Found at i:52134672 original size:13 final size:13
Alignment explanation
Indices: 52134656--52134680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52134646 TTAAATCAGT
52134656 TAATTAGTTTAAA
1 TAATTAGTTTAAA
52134669 TAATTAGTTTAA
1 TAATTAGTTTAA
52134681 TAAATAAAGC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:52139934 original size:5 final size:5
Alignment explanation
Indices: 52139908--52139995 Score: 65
Period size: 5 Copynumber: 16.8 Consensus size: 5
52139898 TCCTCCTATT
*
52139908 TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTTA TTTTTC TTTTGA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A
* *
52139956 TTTTTA TTTTCA TTTCA ATTT- TTTTA TTTTA TTTTA TTTT
1 -TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
52139996 GAAAGACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
4 11 0.16
5 31 0.46
6 20 0.29
7 6 0.09
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:52139960 original size:7 final size:6
Alignment explanation
Indices: 52139904--52139995 Score: 68
Period size: 6 Copynumber: 16.0 Consensus size: 6
52139894 TGACTCCTCC
* *
52139904 TATTTT T-TATT TATTCT TATTTT TA-TTT TA--TT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * * * *
52139948 TCTTTT GATTTT TATTTT CATTTC AATTTT TTTATTT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT
52139996 GAAAGACATA
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
4 4 0.06
5 14 0.21
6 44 0.67
7 4 0.06
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:52139978 original size:18 final size:16
Alignment explanation
Indices: 52139920--52139970 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
52139910 TTATTTATTC
52139920 TTATTTTTATTTT-AT
1 TTATTTTTATTTTCAT
*
52139935 TTATTTTTATTTTTCTT
1 TTATTTTTA-TTTTCAT
52139952 TTGATTTTTATTTTCAT
1 TT-ATTTTTATTTTCAT
52139969 TT
1 TT
52139971 CAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 11 0.35
18 7 0.23
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTTTATTTTCAT
Found at i:52139980 original size:38 final size:38
Alignment explanation
Indices: 52139904--52139993 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
52139894 TGACTCCTCC
* * *
52139904 TATTTTTTATTTATTCTTATTTTTATTTTATTTATTTT
1 TATTTTTTATTTATTCTTATTTTCATTTCAATTATTTT
*
52139942 TATTTTTCT-TTTGATTTTTATTTTCATTTCAATT-TTTT
1 TATTTTT-TATTT-ATTCTTATTTTCATTTCAATTATTTT
*
52139980 TATTTTAT-TTTATT
1 TATTTTTTATTTATT
52139994 TTGAAAGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.07
37 4 0.09
38 20 0.44
39 18 0.40
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (38 bp):
TATTTTTTATTTATTCTTATTTTCATTTCAATTATTTT
Found at i:52143531 original size:27 final size:27
Alignment explanation
Indices: 52143501--52143678 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
52143491 ATATTGAGTC
* * * *
52143501 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52143528 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52143555 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
52143583 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52143610 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52143637 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52143664 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52143679 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 106 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52143640 original size:82 final size:81
Alignment explanation
Indices: 52143522--52143677 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52143512 TGCTATATAA
* *
52143522 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52143587 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * **
52143604 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52143668 CACTTAGTGC
65 CACTTAGTGC
52143678 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:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCACATGG
Found at i:52155854 original size:48 final size:48
Alignment explanation
Indices: 52155746--52155977 Score: 175
Period size: 48 Copynumber: 4.9 Consensus size: 48
52155736 CATTTGGTTA
* * * ***
52155746 ATATCTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGAAAC
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
*** * *
52155793 ATCATGAAAGCTAGTGTACGACCATATCTGGGACATGGCATCAGCGTTG
1 AT-ATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
* * * * **
52155842 ATATGTGTGCTAGTGTTAGACCA-AGTCTGGGATATGGCGTTAGCCA-CA
1 ATATGTGTGCTAGTGTAAGACCATA-TCTGGGACATGGCATCAG-CATTG
* * *
52155890 ATATGTATGCTAGT-TAAGACCATGTCTGGGACATGGCATCGGCATTG
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
* * * * * *
52155937 TTTTGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATC
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATC
52155978 GGCAACTTAA
Statistics
Matches: 141, Mismatches: 37, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
46 2 0.01
47 32 0.23
48 103 0.73
49 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
Found at i:52155958 original size:95 final size:96
Alignment explanation
Indices: 52155756--52155974 Score: 235
Period size: 95 Copynumber: 2.3 Consensus size: 96
52155746 ATATCTGTGC
* * ** ** * * *
52155756 TAGTGTAAGACCATGTCTGGGACATGGCATCGGAAAC-ATCATGAAAGCTAGTGTACGACCATAT
1 TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAAT-ATGTATGCTAGTGTAAGACCATAT
* * * *
52155820 CTGGGACATGGCATCAGCGTTGATATGTGTGC
65 CTGGGACATGGCATCAGCATTGATATGAGAGA
* * *
52155852 TAGTGTTAGACCAAGTCTGGGATATGGCGTTAGCCACAATATGTATGCTAGT-TAAGACCATGTC
1 TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAATATGTATGCTAGTGTAAGACCATATC
* * *
52155916 TGGGACATGGCATCGGCATTGTTTTGAGAGA
66 TGGGACATGGCATCAGCATTGATATGAGAGA
*
52155947 TAGTGTAAGACCATGTCTGGGACATGGC
1 TAGTGTAAGACCAAGTCTGGGACATGGC
52155975 ATCGGCAACT
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
95 59 0.59
96 39 0.39
97 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAATATGTATGCTAGTGTAAGACCATATC
TGGGACATGGCATCAGCATTGATATGAGAGA
Found at i:52158079 original size:22 final size:23
Alignment explanation
Indices: 52157997--52158110 Score: 81
Period size: 23 Copynumber: 5.0 Consensus size: 23
52157987 AGACTCACCA
* *
52157997 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTCGAAAGAGCTTACTGTTT
* ** *
52158020 CAGC-CCATTGGAGCTTACCGTTT
1 CAGCTCGA-AAGAGCTTACTGTTT
* **
52158043 CAGCTCGTATTAGCTTACTG-TT
1 CAGCTCGAAAGAGCTTACTGTTT
*
52158065 CAGCTCGAAAGAGCTTATTGTTT
1 CAGCTCGAAAGAGCTTACTGTTT
* *
52158088 CAACTC-AACAGAGCTTATTGTTT
1 CAGCTCGAA-AGAGCTTACTGTTT
52158111 ATCATCTCAG
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
22 21 0.30
23 48 0.69
24 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (23 bp):
CAGCTCGAAAGAGCTTACTGTTT
Found at i:52158302 original size:20 final size:20
Alignment explanation
Indices: 52158277--52158322 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52158267 GAATAAGCTA
* * *
52158277 TGTTGAAATGGATGAGTTAT
1 TGTTGAAATGAATGAATTAC
52158297 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGAATGAATTAC
52158317 TGTTGA
1 TGTTGA
52158323 TACAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (20 bp):
TGTTGAAATGAATGAATTAC
Found at i:52158369 original size:20 final size:20
Alignment explanation
Indices: 52158308--52158405 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
52158298 GTTGAAATGA
*
52158308 ATGAATTACT-GTTGATACAG
1 ATGAATTACTGGTT-ATACGG
* * * *
52158328 ATAAATTA-TTGATATACCG
1 ATGAATTACTGGTTATACGG
52158347 ATGAATTACTGGTTATACGG
1 ATGAATTACTGGTTATACGG
* ** * *
52158367 ATGAACTACTAATTATATGA
1 ATGAATTACTGGTTATACGG
* *
52158387 ATGAATTACAGTTTATACG
1 ATGAATTACTGGTTATACG
52158406 AATAAAAATG
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 13 0.22
20 46 0.78
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGAATTACTGGTTATACGG
Found at i:52160002 original size:50 final size:53
Alignment explanation
Indices: 52159757--52160012 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
52159747 ATTAGGGTTT
* * * *
52159757 AAGGATAACATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTA-AGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAA-G-TTCTATAAGA
* * * * * *
52159812 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAACTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-CTATAA-G-A
* * * * *
52159868 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAA-GA
*
52159920 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-TAA-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
* * *
52159970 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG
52160013 GTACCCGCGT
Statistics
Matches: 168, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
50 40 0.24
52 9 0.05
53 44 0.26
54 7 0.04
55 64 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
Found at i:52170278 original size:46 final size:46
Alignment explanation
Indices: 52170222--52170358 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
52170212 TATATATACA
* * * *
52170222 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
52170268 CATCTTATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
52170314 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
52170359 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:52170393 original size:47 final size:47
Alignment explanation
Indices: 52170332--52170761 Score: 635
Period size: 47 Copynumber: 9.1 Consensus size: 47
52170322 ACACATTTCG
* * *
52170332 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
52170379 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
52170426 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
52170473 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
52170520 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
52170567 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
52170614 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * *
52170665 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
52170712 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
52170759 CAT
1 CAT
52170762 AAAATCCTAA
Statistics
Matches: 350, Mismatches: 29, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
47 305 0.87
49 2 0.01
51 43 0.12
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:52170473 original size:25 final size:25
Alignment explanation
Indices: 52170444--52170521 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
52170434 ATTCGGCCTT
52170444 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** *
52170469 AT--CACATTGGCCA--TTCAGCCTT-
1 ATCACACATACG-CATGTTCA-CATTC
52170491 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
52170516 ATCACA
1 ATCACA
52170522 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:52173334 original size:39 final size:39
Alignment explanation
Indices: 52173279--52173422 Score: 207
Period size: 39 Copynumber: 3.7 Consensus size: 39
52173269 CCAACATAAT
52173279 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
*
52173318 TGCCTTCGGGATTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
* ** * *
52173357 TGCCATCGGGACTTAGCCTGGATATAACAACAGCACAAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
* * *
52173396 TGCCTTCGGGACTGAGCGCGGATATAA
1 TGCCTTCGGGACTTAGCCCAGATATAA
52173423 ATCTCACACA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
Found at i:52175482 original size:45 final size:44
Alignment explanation
Indices: 52175396--52175482 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
52175386 TTATTTAATT
* * *
52175396 TGAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATC
1 TGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGACATC
* *
52175440 TGAACCCATTGAGTTGTGGTCTGAGTGT-GTGATAGGTATGACA
1 TGAACCCATTGAGTTGT-GTCTGAGT-TCATGATAGATATGACA
52175483 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 16 0.44
45 19 0.53
46 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.36
Consensus pattern (44 bp):
TGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGACATC
Found at i:52178120 original size:12 final size:12
Alignment explanation
Indices: 52178103--52178127 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52178093 GGTGTTCATT
52178103 CGGTTAACCGAC
1 CGGTTAACCGAC
52178115 CGGTTAACCGAC
1 CGGTTAACCGAC
52178127 C
1 C
52178128 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:52178301 original size:9 final size:9
Alignment explanation
Indices: 52178287--52178365 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
52178277 TTTGGTTAAA
52178287 AATTACCCG
1 AATTACCCG
52178296 AATTACCCG
1 AATTACCCG
52178305 AATTACCCG
1 AATTACCCG
52178314 AATTACCCG
1 AATTACCCG
52178323 AATTACCCG
1 AATTACCCG
*
52178332 AATTAACCG
1 AATTACCCG
*
52178341 AATTAACCG
1 AATTACCCG
*
52178350 AATTAACCG
1 AATTACCCG
52178359 AATTACC
1 AATTACC
52178366 GAAAAATACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:52194653 original size:27 final size:27
Alignment explanation
Indices: 52194623--52194778 Score: 179
Period size: 27 Copynumber: 5.7 Consensus size: 27
52194613 AAATTGTACA
*
52194623 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
52194650 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
52194677 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
52194704 GCACTACGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
*
52194732 GCACTAAGTGTGCGATTTGATTATGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
*
52194759 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGATTTGA
52194779 TTTTATAGCA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:52194736 original size:82 final size:81
Alignment explanation
Indices: 52194623--52194778 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
52194613 AAATTGTACA
* *
52194623 GCACTAAGTGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG-TGGCACTAAGTG
52194687 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
52194704 GCACTACGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTG
*
52194769 TGCGAGTTGA
65 TGCGAATTGA
52194779 TTTTATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52194779 original size:27 final size:27
Alignment explanation
Indices: 52194622--52194799 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
52194612 TAAATTGTAC
*
52194622 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
52194649 TGCACTCAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
52194675 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* * *
52194703 GGCACTACGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
52194731 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * * *
52194758 GGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
52194785 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52194800 GGCTCGATAT
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 102 0.82
28 22 0.18
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:52200196 original size:27 final size:27
Alignment explanation
Indices: 52200166--52200321 Score: 188
Period size: 27 Copynumber: 5.7 Consensus size: 27
52200156 AAATTGTACA
*
52200166 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
52200193 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
52200220 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
52200247 GCACTACGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
*
52200275 GCACTAAGTGTGCGATTTGATTATGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
*
52200302 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGATTTGA
52200322 TTTTATAGCA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 87 0.79
28 23 0.21
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:52200279 original size:82 final size:81
Alignment explanation
Indices: 52200166--52200321 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52200156 AAATTGTACA
*
52200166 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG-TGGCACTAAGTG
52200230 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
52200247 GCACTACGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTG
*
52200312 TGCGAGTTGA
65 TGCGAATTGA
52200322 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52200322 original size:27 final size:27
Alignment explanation
Indices: 52200165--52200342 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
52200155 TAAATTGTAC
*
52200165 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
52200192 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
52200218 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* * *
52200246 GGCACTACGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
52200274 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * * *
52200301 GGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
52200328 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52200343 GGCTCGATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:52202544 original size:27 final size:28
Alignment explanation
Indices: 52202495--52202575 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
52202485 ACCCCTACAT
* *
52202495 ACATGCATATGGCCCA-CTTGGCCCA-TC
1 ACATTCATATGGCCCATC-AGGCCCATTC
*
52202522 TCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-ATTC
* * *
52202551 ACATTCATATCGCCTATTAGGCCCA
1 ACATTCATATGGCCCATCAGGCCCA
52202576 AATCACCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 19 0.43
28 3 0.07
29 22 0.50
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCATTC
Found at i:52202572 original size:29 final size:29
Alignment explanation
Indices: 52202523--52202610 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
52202513 TGGCCCATCT
* *
52202523 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
* *
52202552 CATTCATATCGCCTATTAGGCCCAAATCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
* * * * * *
52202581 CCTTTATGTGGCCCGTTAGGCCCAAATCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
52202610 C
1 C
52202611 CTTGTATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CATTCATATCGCCCATCAGGCCCAAATCA
Found at i:52209377 original size:15 final size:16
Alignment explanation
Indices: 52209332--52209365 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52209322 TGTAACTATA
* *
52209332 AAACCAAAGTGAACAT
1 AAACCAAACTTAACAT
52209348 AAACCAAACTTAACAT
1 AAACCAAACTTAACAT
52209364 AA
1 AA
52209366 CCGAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.15
Consensus pattern (16 bp):
AAACCAAACTTAACAT
Found at i:52215780 original size:43 final size:44
Alignment explanation
Indices: 52215700--52215785 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
52215690 AAACAACTTA
52215700 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATTAATAAC
1 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGA-TAATAAC
*
52215745 AAAT-AAGAA-TAAGAAAG-ATGATAAAATAAA-CATGATAATAA
1 AAATAAAGAAGTAAGAAAGAAT-ATAAAA-AAATAATGATAATAA
52215786 TAATAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
42 8 0.21
43 18 0.47
44 8 0.21
45 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (44 bp):
AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATAATAAC
Found at i:52224521 original size:55 final size:55
Alignment explanation
Indices: 52224426--52224541 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
52224416 TAGGCCCACG
** *
52224426 CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCTTGGCACGGGCGTGTCGTACA
1 CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCAAGGCACGGGCGTGTCGCACA
* * * * *
52224481 CCCGTGTTAATTTGACATGTTCAGCCACGGGTT-CAAGGCACGGGCGTGTCGCACG
1 CCCGTGTTAATTTAACAGGTTCACCCAC-AGTTGCAAGGCACGGGCGTGTCGCACA
52224536 CCCGTG
1 CCCGTG
52224542 CTGTTTTGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 49 0.94
56 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (55 bp):
CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCAAGGCACGGGCGTGTCGCACA
Found at i:52226658 original size:25 final size:25
Alignment explanation
Indices: 52226605--52226658 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
52226595 AATTGTATTT
* *
52226605 AATTATTTAATTTTTCATATTATTG
1 AATTATTTAATTTTTCATATAATTA
52226630 AATTA-TTAATATTTT-ATACTAATTA
1 AATTATTTAAT-TTTTCATA-TAATTA
52226655 AATT
1 AATT
52226659 TTTCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATTTAATTTTTCATATAATTA
Found at i:52231414 original size:24 final size:23
Alignment explanation
Indices: 52231387--52231432 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
52231377 ATCCACACTG
*
52231387 GAGTGTAGGTTTGGATGAGATACA
1 GAGTGTAGGGTTGGATG-GATACA
*
52231411 GAGTGTAGGGTTGGTTGGATAC
1 GAGTGTAGGGTTGGATGGATAC
52231433 TTGTGCATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.04, G:0.41, T:0.30
Consensus pattern (23 bp):
GAGTGTAGGGTTGGATGGATACA
Found at i:52233901 original size:28 final size:28
Alignment explanation
Indices: 52233861--52233916 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
52233851 GTTTGAGCCT
52233861 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
52233889 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
52233917 CCTTGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (28 bp):
TTCAAGTCAACCTTGATGAATTTTTATC
Found at i:52234132 original size:3 final size:3
Alignment explanation
Indices: 52234124--52234161 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
52234114 AAATGCTCAT
*
52234124 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
52234162 GCATATGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52239283 original size:43 final size:43
Alignment explanation
Indices: 52239220--52239301 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
52239210 ACATATCATT
* *
52239220 TCACCGGCACTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
52239263 TCACCGGCACAAAGCTTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATA
52239302 TAATACCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:52239350 original size:38 final size:38
Alignment explanation
Indices: 52239294--52239373 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
52239284 GGCATGAAGG
* * *
52239294 CCCGAATATAATACCAGCACCAGGGCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
* *
52239332 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
52239370 CCCG
1 CCCG
52239374 CACATAGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACCAAGCCTGCGGGATTTAA
Found at i:52241280 original size:40 final size:40
Alignment explanation
Indices: 52241186--52241370 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
52241176 TATTCGAATG
*
52241186 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
52241227 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
52241267 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
52241307 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
52241347 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
52241371 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 28 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:52241352 original size:80 final size:81
Alignment explanation
Indices: 52241186--52241370 Score: 243
Period size: 80 Copynumber: 2.3 Consensus size: 81
52241176 TATTCGAATG
* * *
52241186 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCTTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
52241251 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
52241267 ATATCCGGGCTAAGACCCGAAGGCATTTT-TGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGC-TTTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAG
* *
52241329 GCATTTATGCTAG-TGACT
64 GCATTCATGCGAGTTG-CT
52241347 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
52241371 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
79 3 0.03
80 58 0.62
81 28 0.30
82 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:52244712 original size:39 final size:40
Alignment explanation
Indices: 52244600--52244784 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
52244590 GCTACTCGTT
* *
52244600 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTATCTCGCA
* * * *
52244640 CAAATGTCTTCGGGACTTAACCCAGATTTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
52244680 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * *
52244719 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
*
52244760 CAAA-GCCCTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52244785 CATCATTCGA
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 72 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:52251976 original size:39 final size:40
Alignment explanation
Indices: 52251851--52252035 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
52251841 GCTACTCGTT
*
52251851 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
52251891 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
52251931 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
52251970 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
52252011 CAAA-GCCCTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52252036 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52263503 original size:40 final size:40
Alignment explanation
Indices: 52263409--52263593 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
52263399 TATTCGAATG
*
52263409 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
52263450 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
52263490 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
52263530 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
52263570 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
52263594 CTTGTGCAAG
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 92 0.75
41 28 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:52263579 original size:80 final size:81
Alignment explanation
Indices: 52263409--52263593 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
52263399 TATTCGAATG
* * * *
52263409 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
52263474 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
52263490 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
52263553 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
52263570 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
52263594 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 3 0.03
80 58 0.62
81 32 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:52275897 original size:40 final size:40
Alignment explanation
Indices: 52275803--52275987 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
52275793 TATTCGAATG
*
52275803 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
52275844 ATAACCGGACTAAGATCCGAAGGAATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
52275884 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
52275924 ATATCCGAGCTAAG-TCTCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
*
52275964 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
52275988 CTTGTGCAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.73
41 29 0.25
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:52275973 original size:80 final size:81
Alignment explanation
Indices: 52275803--52275987 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 81
52275793 TATTCGAATG
* * *
52275803 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGA
*
52275868 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
52275884 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-TGCGACTATATCC-GAGCTAAG-TCTCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGA-CTAAGATC-CGAAG
* * *
52275946 GCATTTATGCTAG-TGACT
64 GAATTCATGCGAGTTG-CT
52275964 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
52275988 CTTGTGCAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
79 6 0.07
80 55 0.60
81 31 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGA
ATTCATGCGAGTTGCT
Found at i:52285733 original size:93 final size:93
Alignment explanation
Indices: 52285569--52285740 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
52285559 CGCCCATAAG
** * *
52285569 CGAACTCGGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATGAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
52285634 ATGAGTTCGGATGCCTAGTTACATCTGA
66 ACGAGTTCGGATGCCTAGTTACATCTGA
*
52285662 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
52285726 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
52285741 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTGA
Found at i:52285756 original size:46 final size:46
Alignment explanation
Indices: 52285562--52285742 Score: 186
Period size: 46 Copynumber: 3.9 Consensus size: 46
52285552 TGTAACCCGC
* * *
52285562 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCGCAT
* * * * *
52285608 CCATGAGTGAACTCGGACTCAACTTAATGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCGCAT
* ** * ***
52285654 ACATCTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
52285701 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
52285743 AATCATCCTA
Statistics
Matches: 105, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 34 0.32
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:52294769 original size:26 final size:26
Alignment explanation
Indices: 52294734--52294809 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
52294724 GCCAACACAC
*
52294734 CAATAACGCAACAAAGCTGCCAGTAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* * *
52294760 TAATATCGCAACAAAGCTGTCAATAA
1 CAATATCGCAACAAAGCTGCCAGTAA
* *
52294786 CAGTAAT-GCAGCAAAGCTGCCAGT
1 CAAT-ATCGCAACAAAGCTGCCAGT
52294810 CTCAGTATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (26 bp):
CAATATCGCAACAAAGCTGCCAGTAA
Found at i:52296277 original size:16 final size:17
Alignment explanation
Indices: 52296258--52296300 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
52296248 GTATTCGGCC
52296258 AAAGAGAAAAAT-ACCA
1 AAAGAGAAAAATGACCA
52296274 AAAGAGGAAAAATGACCA
1 AAAGA-GAAAAATGACCA
52296292 AAAGA-AAAA
1 AAAGAGAAAA
52296301 TCGAAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAGAGAAAAATGACCA
Found at i:52296300 original size:15 final size:15
Alignment explanation
Indices: 52296256--52296301 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
52296246 GTGTATTCGG
52296256 CCAAAGAGAAAAATA
1 CCAAAGAGAAAAATA
52296271 CCAAAAGAGGAAAAATGA
1 CC-AAAGA-GAAAAAT-A
52296289 CCAAA-AGAAAAAT
1 CCAAAGAGAAAAAT
52296302 CGAAACAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 10 0.36
18 3 0.11
ACGTcount: A:0.65, C:0.13, G:0.15, T:0.07
Consensus pattern (15 bp):
CCAAAGAGAAAAATA
Found at i:52301508 original size:17 final size:16
Alignment explanation
Indices: 52301483--52301517 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
52301473 GATCGAGGTC
52301483 TTCCGACAGTTTTCAGT
1 TTCCGACAGTTTT-AGT
*
52301500 TTCCTACAGTTTTAGT
1 TTCCGACAGTTTTAGT
52301516 TT
1 TT
52301518 ACTCAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (16 bp):
TTCCGACAGTTTTAGT
Found at i:52302468 original size:26 final size:26
Alignment explanation
Indices: 52302404--52302470 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
52302394 AGAAACACAT
*
52302404 CAATAATGCAGCAAAGCTGCCAGTAA
1 CAATAATGCAGCAAAACTGCCAGTAA
*
52302430 TAAT-ATCGCAGCAAAACTGCCAGTAA
1 CAATAAT-GCAGCAAAACTGCCAGTAA
* *
52302456 CAGTAATGTAGCAAA
1 CAATAATGCAGCAAA
52302471 GCTACCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.06
26 30 0.88
27 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (26 bp):
CAATAATGCAGCAAAACTGCCAGTAA
Found at i:52303157 original size:155 final size:155
Alignment explanation
Indices: 52302874--52303181 Score: 490
Period size: 155 Copynumber: 2.0 Consensus size: 155
52302864 TACAGAGCCC
* *
52302874 AGTCCAGCAAATTATCATTTATTGCTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
1 AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
* *
52302939 CACGACCCAATTTGGCCCATCGTGGCCCAAAACGACCCAAACCTATGAGAATGCTCATAGGGCCT
66 CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
52303004 CTACCGTCTAACATCCATGTGTCAT
131 CTACCGTCTAACATCCATGTGTCAT
* * * *
52303029 AGTCCAGCCAATTACCATTTATTATTGAATTTATCCGTGTGGAGCCCACAAGCCCATTTGGCCCA
1 AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
* * * * * *
52303094 CACGACCTATTTTGGCCCATCATGGCCCAGAATGACCCAAACCCGTGAGAATGCTCATGGGGCCT
66 CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
52303159 CTACCGTCTAACATCCATGTGTC
131 CTACCGTCTAACATCCATGTGTC
52303182 GTGGCTCGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 139 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (155 bp):
AGTCCAGCAAATTACCATTTATTACTGAATTTATCCGCGTGGAGCCCACAAGCCCATTGGGCCCA
CACGACCCAATTTGGCCCATCATGGCCCAAAACGACCCAAACCCATGAGAATGCTCATAGGGCCT
CTACCGTCTAACATCCATGTGTCAT
Found at i:52304266 original size:24 final size:24
Alignment explanation
Indices: 52304216--52304266 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
52304206 ACCCTCAAAT
** *
52304216 TCCTTGATTTTCTCCCAATATCTC
1 TCCTTGATTCCCTCCCAATATCAC
52304240 TCCTTGATTCCCTCCACAA-ATCAC
1 TCCTTGATTCCCTCC-CAATATCAC
52304264 TCC
1 TCC
52304267 AACATCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (24 bp):
TCCTTGATTCCCTCCCAATATCAC
Found at i:52308676 original size:14 final size:14
Alignment explanation
Indices: 52308640--52308668 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
52308630 AGAACCAAAG
52308640 AATATAATTTAACC
1 AATATAATTTAACC
52308654 AATATAATTTAACC
1 AATATAATTTAACC
52308668 A
1 A
52308669 TTTTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AATATAATTTAACC
Found at i:52310466 original size:14 final size:14
Alignment explanation
Indices: 52310447--52310476 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52310437 ATTTAGTCAT
52310447 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
52310461 TTTGCCACCCAAAA
1 TTTGCCACCCAAAA
52310475 TT
1 TT
52310477 GGCATGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (14 bp):
TTTGCCACCCAAAA
Found at i:52329006 original size:22 final size:22
Alignment explanation
Indices: 52328978--52329030 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
52328968 CATAAAAGTG
52328978 TGATTTAGTGGAAATTAGGGGC
1 TGATTTAGTGGAAATTAGGGGC
52329000 TGATTTAGTGGAAATTAGGGGC
1 TGATTTAGTGGAAATTAGGGGC
*
52329022 TGATATAGT
1 TGATTTAGT
52329031 TATGAAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (22 bp):
TGATTTAGTGGAAATTAGGGGC
Found at i:52329621 original size:50 final size:50
Alignment explanation
Indices: 52329502--52329936 Score: 390
Period size: 50 Copynumber: 8.6 Consensus size: 50
52329492 ATTGTGAAAA
* *** *
52329502 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* *
52329554 CACGTGTGTAGTACTAAGTGCAGGCAACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * ** * * * *
52329604 CGCATGTGTAGTACTAAGTGTAGGCTACAATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * * * *
52329655 CACGTGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** *
52329705 CACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
52329755 CACATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * *
52329806 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* ** * * * *
52329856 CACGTGTGTAGTACTAAGTGCACACTACTACGTGTACCAGATTGCTA-TT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
52329905 CGCATGTGTAGTACTAAGTACAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
52329937 CTTACAAGAT
Statistics
Matches: 304, Mismatches: 73, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
49 29 0.10
50 164 0.54
51 72 0.24
52 39 0.13
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:52329782 original size:151 final size:151
Alignment explanation
Indices: 52329506--52329937 Score: 634
Period size: 151 Copynumber: 2.9 Consensus size: 151
52329496 TGAAAACACA
* * * *
52329506 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * * * * *
52329571 GTGCAGGCAACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTACAATG
64 GTGCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
52329636 CATACCCGACAACTTCAATCACG
129 CATACCCGACAACTTCAATCACG
* * *
52329659 TGTGTAGTACTAAATACAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * *
52329724 GCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTACGAAGTGCAGGCTACTATGCG
66 GCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
52329789 TACCCGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
52329810 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
52329875 GCACA-CTACTACGTGTACCAGATTGCTA-TTCGCATGTGTAGTACTAAGTACAGGCTACTATGC
66 GCA-AGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
52329938 TTACAAGATA
Statistics
Matches: 251, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
150 31 0.12
151 185 0.74
152 1 0.00
153 34 0.14
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAAGCTACTACGTGTACCAGATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCGACAACTTCAATCACG
Found at i:52329884 original size:101 final size:101
Alignment explanation
Indices: 52329704--52329885 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
52329694 GATGGTTAGG
52329704 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
**
52329769 GAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 GAAGTGCACACTACTATGCGTACCCGACAACTTCAA
* * * * *
52329805 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGG-TAGGTCACATGTGTAGTA
*
52329869 CTAAGTGCACACTACTA
65 CGAAGTGCACACTACTA
52329886 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 2 0.03
101 70 0.97
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACCTGTACCAGATAGGTAGGTCACATGTGTAGTAC
GAAGTGCACACTACTATGCGTACCCGACAACTTCAA
Found at i:52330167 original size:16 final size:15
Alignment explanation
Indices: 52330146--52330175 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52330136 GAATGGAGTA
52330146 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
52330162 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
52330176 TAAAATAGTT
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:52331071 original size:16 final size:16
Alignment explanation
Indices: 52331050--52331086 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52331040 CCATGAGATG
52331050 TGGCTCATATTGATTA
1 TGGCTCATATTGATTA
*
52331066 TGGCTCATGTTGATTA
1 TGGCTCATATTGATTA
52331082 TGGCT
1 TGGCT
52331087 TGTAAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (16 bp):
TGGCTCATATTGATTA
Found at i:52336637 original size:50 final size:50
Alignment explanation
Indices: 52336518--52336964 Score: 409
Period size: 50 Copynumber: 8.9 Consensus size: 50
52336508 ATTGTGAAAA
* * *** *
52336518 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
52336570 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * ** * * * *
52336620 CGCATGTGTAGTACTAAGTGCAGGATACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
52336671 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
52336721 CACGTGTGTAGTACTAAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACT-ACGTGTACCAGATAGTTAGGT
* * * * *
52336771 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-AGGT
* * * *
52336822 CACATGTGTAGTACTAAGTGCAGTCTACTACGTGTATCAGATGGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * ** * **
52336872 CATGTGTGTAGTACTAAGTGCATGCTACTACGTGTACTGGATTGTT-TTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
52336921 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCT-TACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG
52336965 CTTCGATTAC
Statistics
Matches: 316, Mismatches: 70, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
49 37 0.12
50 162 0.51
51 78 0.25
52 39 0.12
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:52336800 original size:151 final size:151
Alignment explanation
Indices: 52336518--52336958 Score: 643
Period size: 151 Copynumber: 2.9 Consensus size: 151
52336508 ATTGTGAAAA
* * * *
52336518 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTA
* * *
52336583 CTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGTCGCATGTGTAGTACTAAGTGCAGGATAC
64 CTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
52336648 TATGCATACCCGACAACTTCAAT
129 TATGCATACCCGACAACTTCAAT
* *
52336671 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
52336736 AAGTGCAAGCTACTAAC-TGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAAGCTACT-ACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
52336800 ATGCGTACCCGATAACTTCAAT
130 ATGCATACCCGACAACTTCAAT
* * *
52336822 CACATGTGTAGTACTAAGTGCAGTCTACTACGTGTATCAGATGGTTTGGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* ** * **
52336887 AAGTGCATGCTACTACGTGTACTGGATTGTT-TTTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
*
52336951 TGCTTACC
131 TGCATACC
52336959 AGATAGCTTC
Statistics
Matches: 261, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
150 39 0.15
151 182 0.70
152 2 0.01
153 38 0.15
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCATACCCGACAACTTCAAT
Found at i:52336830 original size:101 final size:98
Alignment explanation
Indices: 52336518--52336964 Score: 366
Period size: 101 Copynumber: 4.4 Consensus size: 98
52336508 ATTGTGAAAA
* * * *** *
52336518 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTA-CTGTACCAGATAG--TTAGGTCACGTGTGTAGTA
*
52336583 CTAAGTGCAGGCTACTACGTGTACCAGATAGTGAGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGATA-TTAGGT
* * * * * * *
52336620 CGCATGTGTAGTACTAAGTGCAGGATACTA-TGCATACCCGACAACTTCA-ATCACGTGTGTAGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACTG--TACCAGA-TAGTT-AGGTCACGTGTGTAGT
* * *
52336683 ACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGT
62 ACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTAGGT
* *
52336721 CACGTGTGTAGTACTAAGTGCAAGCTACTAACTGTACCAGATAGTTAGGTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAAGCTACT-ACTGTACCAGATAGTTAGGTCACGTGTGTAGTACT
* * * *
52336786 AAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
65 AAGTGCAGGCTACTACGTGTACCAGAT-A-TT-AGGT
* * * *
52336822 CACATGTGTAGTACTAAGTGC-AGTCTACTACGTGTATCAGATGGTTTGGTCATGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAAG-CTACTAC-TGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* ** ***
52336886 TAAGTGCATGCTACTACGTGTACTGGAT-TGTTTTT
64 TAAGTGCAGGCTACTACGTGTACCAGATAT-TAGGT
* *
52336921 CGCATGTGTAGTACTAAGTGCAGGCTACTA-TGCTTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAAGCTACTACTG--TACCAGATAG
52336965 CTTCGATTAC
Statistics
Matches: 279, Mismatches: 49, Indels: 37
0.76 0.13 0.10
Matches are distributed among these distances:
97 2 0.01
98 1 0.00
99 37 0.13
100 47 0.17
101 157 0.56
102 33 0.12
103 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (98 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACTGTACCAGATAGTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGATATTAGGT
Found at i:52341394 original size:27 final size:28
Alignment explanation
Indices: 52341334--52341410 Score: 138
Period size: 27 Copynumber: 2.8 Consensus size: 28
52341324 GCCTAACATA
*
52341334 CCATATGCATGTGATTGGGCCTGATGGG
1 CCATATGAATGTGATTGGGCCTGATGGG
52341362 CCATATGAATGTGATTGGGCC-GATGGG
1 CCATATGAATGTGATTGGGCCTGATGGG
52341389 CCATATGAATGTGATTGGGCCT
1 CCATATGAATGTGATTGGGCCT
52341411 AAAGGGGCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 27 0.57
28 20 0.43
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
CCATATGAATGTGATTGGGCCTGATGGG
Found at i:52342631 original size:17 final size:18
Alignment explanation
Indices: 52342600--52342633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52342590 TTTGAAGAAG
52342600 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
52342618 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
52342634 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:52343512 original size:54 final size:54
Alignment explanation
Indices: 52343444--52343547 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
52343434 TCCTTACCCA
*
52343444 TGTAGCTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
1 TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
* * ** **
52343498 TGTAACTCTCTGAGTTGCCACACGCGCTTGTGTGTCAGGCTGTGTGCTAG
1 TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAG
52343548 TGTAATATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (54 bp):
TGTAACTCACTGAGTTGCCACACGCACCCGTGTGTCAGGCCATGTGCTAGGTAG
Found at i:52344996 original size:93 final size:93
Alignment explanation
Indices: 52344837--52345007 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
52344827 GGATGGTTGA
* *
52344837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
52344902 TGAGTCTGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* *
52344930 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
52344995 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52345008 ACTTAGGGGC
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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:52345010 original size:46 final size:46
Alignment explanation
Indices: 52344841--52345012 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
52344831 GGTTGAGCAT
* * *
52344841 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
52344887 CCGAACTCGTTGAGTTGAGTCTGAGTT--CGTA-AGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
52344932 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
52344980 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52345013 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 58 0.55
47 26 0.25
48 2 0.02
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52352582 original size:93 final size:93
Alignment explanation
Indices: 52352421--52352591 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52352411 GGATGGTTGA
* * *
52352421 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGACT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
52352486 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
52352514 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
52352579 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52352592 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAACTCCTTGACT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52352594 original size:46 final size:46
Alignment explanation
Indices: 52352425--52352596 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
52352415 GGTTGAGCAT
* * * *
52352425 CCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
52352471 CCGAACTCGTTGACTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
52352516 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
52352564 CCGAGCTCCTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52352597 GGGGCACGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52358847 original size:81 final size:81
Alignment explanation
Indices: 52358709--52358900 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 81
52358699 AATTCTCGAT
* * * ***
52358709 ATCTCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
*
52358774 AGCAGAAGTTATCTCG
66 AGCAGAAGCTATCTCG
* ** * *
52358790 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAATCGCACATTGAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
* *
52358855 AGCCGAAGCTATGTCG
66 AGCAGAAGCTATCTCG
* *
52358871 A-ATCGCACACTAAGTGCCACATATAGTTGA
1 ATCTCGCACACTAAGTGCCATATATAGTTGA
52358901 TTTTTCGTCG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 27 0.28
81 68 0.72
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATATATAGTTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
AGCAGAAGCTATCTCG
Found at i:52358912 original size:40 final size:40
Alignment explanation
Indices: 52358712--52358896 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
52358702 TCTCGATATC
* * * * * * *
52358712 TCGCACACTAAGTGTCGTACATAACCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * * *
52358752 TCGCACACTAAGTGCCATATATAGCAGAAGTTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGA-A
* *
52358793 TCGCACACTAAGTGCCATATATAGTTGAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
* * *
52358833 TCGCACATTGAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
*
52358873 TCGCACACTAAGTGCCACATATAG
1 TCGCACACTAAGTGCCATATATAG
52358897 TTGATTTTTC
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 88 0.72
41 34 0.28
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA
Found at i:52362495 original size:99 final size:99
Alignment explanation
Indices: 52362322--52362519 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 99
52362312 ATGCATTGAG
* *
52362322 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATTGGGCAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
*
52362387 AGAAGATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
* ** * *
52362421 AACAAAGCTTGGTTGAGTCTTCCTTGTACAAAAATGGTGTTTTTGATAGGGAAATGTTTGAATGA
1 AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
52362486 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
66 AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
52362520 TTTAATTACC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (99 bp):
AACAAAGCTTGGTCGAACCTTCCTTGTACAAAAATGGTATTTTCGATAGGGAAATGTTTGAATGA
AGAAAATGGTAACTTGTTTTCTTTTGTTTTTGTT
Done.